#### 1700055N04Rik_ID225_3 --> 0 - 0 Original Alignment TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGAC-CTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG ttatgggtactagggtcagcctgtttatagtggttggctttctcttccagTCAGGCCTCAAATCAGAAATGAGTGAGATAATCTTATGTGAGAATGAAGTGGACCCTGGCCCTTTCAAACCTACTGACTTGGATGCAGGAGGAATCCTTGTCCACCAATCTGgtgagcgaacataccagaaatgtaatccaacaggtggtgattaatagata Alignment from CESAR TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGAC-CTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG ttatgggtactagggtcagcctgtttatagtggttggctttctcttccagTCAGGCCTCAAATCAGAAATGAGTGAGATAATCTTATGTGAGAATGAAGTGGACCCTGGCCCTTTCAAACCTACTGACTTGGATGCAGGAGGAATCCTTGTCCACCAATCTGgtgagcgaacataccagaaatgtaatccaacaggtggtgattaatagata Alignment from Spaln_aa2Genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGAC-CTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG ttatgggtactagggtcagcctgtttatagtggttggctttctcttccagTCAGGCCTCAAATCAGAAATGAGTGAGATAATCTTATGTGAGAATGAAGTGGACcCTGGCCCTTTCAAACCTACTGACTTGGATGCAGGAGGAATCCTTGTCCACCAATCTGgtgagcgaacataccagaaatgtaatccaacaggtggtgattaatagata Alignment from Spaln_nt2Genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGA-CCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG ttatgggtactagggtcagcctgtttatagtggttggctttctcttccagTCAGGCCTCAAATCAGAAATGAGTGAGATAATCTTATGTGAGAATGAAGTGGACCCTGGCCCTTTCAAACCTACTGACTTGGATGCAGGAGGAATCCTTGTCCACCAATCTGgtgagcgaacataccagaaatgtaatccaacaggtggtgattaatagata Alignment from Pairagon TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGA-CCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG ttatgggtactagggtcagcctgtttatagtggttggctttctcttccagTCAGGCCTCAAATCAGAAATGAGTGAGATAATCTTATGTGAGAATGAAGTGGACCCTGGCCCTTTCAAACCTACTGACTTGGATGCAGGAGGAATCCTTGTCCACCAATCTGgtgagcgaacataccagaaatgtaatccaacaggtggtgattaatagata Alignment from Exonerate_protein2genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGAC-CTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG ttatgggtactagggtcagcctgtttatagtggttggctttctcttccagTCAGGCCTCAAATCAGAAATGAGTGAGATAATCTTATGTGAGAATGAAGTGGACCCTGGCCCTTTCAAACCTACTGACTTGGATGCAGGAGGAATCCTTGTCCACCAATCTGgtgagcgaacataccagaaatgtaatccaacaggtggtgattaatagata Alignment from Exonerate_coding2genome ttatgggtactagggtcagcctgtttatagtggttggctttctcttccagtcaggcctcaaatcagaaatgagtgagataatcttatgtgagaatgaagtggaccctggccctttcaaacctactgacttggatgcaggaggaatccttgtccaccaatctggtgagcgaacataccagaaatgtaatccaacaggtggtgattaatagata Alignment from GeneWise TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGAC-CTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG ttatgggtactagggtcagcctgtttatagtggttggctttctcttccagTCAGGCCTCAAATCAGAAATGAGTGAGATAATCTTATGTGAGAATGAAGTGGACCCTGGCCCTTTCAAACCTACTGACTTGGATGCAGGAGGAATCCTTGTCCACCAATCTGgtgagcgaacataccagaaatgtaatccaacaggtggtgattaatagata #### 1700055N04Rik_ID226_4 --> 0 - 1 Original Alignment CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATC-ATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg caacctgtctcttgcaaaactttgtgattcctcatgctccttttctccagCTTACCAAGCTGAGCACAGCATTCATTTGGAAAGAATCCTTTGGCCTGGTGCTTATCCATCGCACCATGGAATTCTCATGTTAAGCTG---ATCATCCCCTCAGTGGGGGTCATTGCTATGggtgagtggtgcctcatgcagtaatccttatcgtccctactttaccatccg Alignment from CESAR CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATC-ATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg caacctgtctcttgcaaaactttgtgattcctcatgctccttttctccagCTTACCAAGCTGAGCACAGCATTCATTTGGAAAGAATCCTTTGGCCTGGTGCTTATCCATCGCACCATGGAATTCTCATGTTAAGCTG---ATCATCCCCTCAGTGGGGGTCATTGCTATGggtgagtggtgcctcatgcagtaatccttatcgtccctactttaccatccg Alignment from Spaln_aa2Genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATC-ATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG caacctgtctcttgcaaaactttgtgattcctcatgctccttttctccagCTTACCAAGCTGAGCACAGCATTCATTTGGAAAGAATCCTTTGGCCTGGTGCTTATCcATCGCACCATGGAATTCTCATGTTAAGCTG---ATCATCCCCTCAGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcagtaatccttatcgtccctactttaccatccg Alignment from Spaln_nt2Genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATC-ATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG caacctgtctcttgcaaaactttgtgattcctcatgctccttttctccagCTTACCAAGCTGAGCACAGCATTCATTTGGAAAGAATCCTTTGGCCTGGTGCTTATCCATCGCACCATGGAATTCTCATGTTAA---GCTGATCATCCCCTCAGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcagtaatccttatcgtccctactttaccatccg Alignment from Pairagon CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTAT-CATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG caacctgtctcttgcaaaactttgtgattcctcatgctccttttctccagCTTACCAAGCTGAGCACAGCATTCATTTGGAAAGAATCCTTTGGCCTGGTGCTTATCCATCGCACCATGGAATTCTCATGTTAA---GCTGATCATCCCCTCAGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcagtaatccttatcgtccctactttaccatccg Alignment from Exonerate_protein2genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATC-ATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG caacctgtctcttgcaaaactttgtgattcctcatgctccttttctccagCTTACCAAGCTGAGCACAGCATTCATTTGGAAAGAATCCTTTGGCCTGGTGCTTATCCATCGCACCATGGAATTCTCATGTTAAGCTG---ATCATCCCCTCAGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcagtaatccttatcgtccctactttaccatccg Alignment from Exonerate_coding2genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATC-ATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG caacctgtctcttgcaaaactttgtgattcctcatgctccttttctccagCTTACCAAGCTGAGCACAGCATTCATTTGGAAAGAATCCTTTGGCCTGGTGCTTATCCATCGCACCATGGAATTCTCATGTTAAGCTG---ATCATCCCCTCAGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcagtaatccttatcgtccctactttaccatccg Alignment from GeneWise CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATC-ATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG caacctgtctcttgcaaaactttgtgattcctcatgctccttttctccagCTTACCAAGCTGAGCACAGCATTCATTTGGAAAGAATCCTTTGGCCTGGTGCTTATCCATCGCACCATGGAATTCTCATGTTAAGCTG---ATCATCCCCTCAGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcagtaatccttatcgtccctactttaccatccg #### 1700123I01Rik_ID1493_5 --> 2 - 0 Original Alignment ggAAACCAGCAGATGATATT-CCTCTTGAGTTG aaaccagtcttcctaacttgctggagctttcttttcatctcatttcacaggtAAGCCTGCCGATGACATTCCCACTTGAGTTGgtaaaatctaacacctctctttatgttttcatagcaaataaaattgtatg Alignment from CESAR ggAAACCAGCAGATGATATT-CCTCTTGAGTTG aaaccagtcttcctaacttgctggagctttcttttcatctcatttcacaggtAAGCCTGCCGATGACATTCCCACTTGAGTTGgtaaaatctaacacctctctttatgttttcatagcaaataaaattgtatg Alignment from Spaln_aa2Genome GGAAACCAGCAGATGATATT-CCTCTTGAGTTG aaaccagtcttcctaacttgctggagctttcttttcatctcatttcacagGTAAGCCTGCCGATGACATTcCCACTTGAGTTGgtaaaatctaacacctctctttatgttttcatagcaaataaaattgtatg Alignment from Spaln_nt2Genome GGAAACCAGCAGATGATATTCCT-CTTGAGTTG aaaccagtcttcctaacttgctggagctttcttttcatctcatttcacagGTAAGCCTGCCGATGACATTCCCACTTGAGTTGgtaaaatctaacacctctctttatgttttcatagcaaataaaattgtatg Alignment from Pairagon GGAAACCAGCAGATGATATTCCT-CTTGAGTTG aaaccagtcttcctaacttgctggagctttcttttcatctcatttcacagGTAAGCCTGCCGATGACATTCCCACTTGAGTTGgtaaaatctaacacctctctttatgttttcatagcaaataaaattgtatg Alignment from Exonerate_protein2genome GGAAACCAGCAGATGATATT-CCTCTTGAGTTG aaaccagtcttcctaacttgctggagctttcttttcatctcatttcacagGTAAGCCTGCCGATGACATTCCCACTTGAGTTGgtaaaatctaacacctctctttatgttttcatagcaaataaaattgtatg Alignment from Exonerate_coding2genome aaaccagtcttcctaacttgctggagctttcttttcatctcatttcacaggtaagcctgccgatgacattcccacttgagttggtaaaatctaacacctctctttatgttttcatagcaaataaaattgtatg Alignment from GeneWise aaaccagtcttcctaacttgctggagctttcttttcatctcatttcacaggtaagcctgccgatgacattcccacttgagttggtaaaatctaacacctctctttatgttttcatagcaaataaaattgtatg #### 2010012O05Rik_ID10003_2 --> 0 - 0 Original Alignment CTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAA-GATGCCATCTTACACTCGGAAGAT ctgtactatgtagaggtgggatcataacacatctttgcctctctccatagCTGCTGGGTCAGGCTGCTCGTAACATGGTACTACAAGAACGATGCTATTTTGCGCTCTGAAGATgtaaaatagctattatttcatcatatgtgtcaagattttcagatgtgcct Alignment from CESAR CTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAA-GATGCCATCTTACACTCGGAAGAT ctgtactatgtagaggtgggatcataacacatctttgcctctctccatagCTGCTGGGTCAGGCTGCTCGTAACATGGTACTACAAGAACGATGCTATTTTGCGCTCTGAAGATgtaaaatagctattatttcatcatatgtgtcaagattttcagatgtgcct Alignment from Spaln_aa2Genome CTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAA-GATGCCATCTTACACTCGGAAGAT ctgtactatgtagaggtgggatcataacacatctttgcctctctccatagCTGCTGGGTCAGGCTGCTCGTAACATGGTACTACAAGAAcGATGCTATTTTGCGCTCTGAAGATgtaaaatagctattatttcatcatatgtgtcaagattttcagatgtgcct Alignment from Spaln_nt2Genome CTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAA-GATGCCATCTTACACTCGGAAGAT ctgtactatgtagaggtgggatcataacacatctttgcctctctccatagCTGCTGGGTCAGGCTGCTCGTAACATGGTACTACAAGAACGATGCTATTTTGCGCTCTGAAGATgtaaaatagctattatttcatcatatgtgtcaagattttcagatgtgcct Alignment from Pairagon GCTCCGAGCTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAA-GATGCCATCTTACACTCGGAAGAT ctgtactatgtagaggtgggatcataacacatctttgcctctctccatag--------CTGCTGGGTCAGGCTGCTCGTAACATGGTACTACAAGAACGATGCTATTTTGCGCTCTGAAGATgtaaaatagctattatttcatcatatgtgtcaagattttcagatgtgcct Alignment from Exonerate_protein2genome CTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAA-GATGCCATCTTACACTCGGAAGAT ctgtactatgtagaggtgggatcataacacatctttgcctctctccatagCTGCTGGGTCAGGCTGCTCGTAACATGGTACTACAAGAACGATGCTATTTTGCGCTCTGAAGATgtaaaatagctattatttcatcatatgtgtcaagattttcagatgtgcct Alignment from Exonerate_coding2genome CTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAA-GATGCCATCTTACACTCGGAAGAT ctgtactatgtagaggtgggatcataacacatctttgcctctctccatagCTGCTGGGTCAGGCTGCTCGTAACATGGTACTACAAGAACGATGCTATTTTGCGCTCTGAAGATgtaaaatagctattatttcatcatatgtgtcaagattttcagatgtgcct Alignment from GeneWise ctgtactatgtagaggtgggatcataacacatctttgcctctctccatagctgctgggtcaggctgctcgtaacatggtactacaagaacgatgctattttgcgctctgaagatgtaaaatagctattatttcatcatatgtgtcaagattttcagatgtgcct #### 9130011E15Rik_ID9675_6 --> 0 - 0 Original Alignment GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAAC-AGTATATTCGAAGCAATTTTACAG aacatgttgctttccattgtaaaagtagacttgtctgttttcctggacagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACCAGCATATTTGAAGCCATTTTACAGgtaagtggttcaactgtcattcaaaattttgcaatacccagaggcaaaag Alignment from CESAR GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAAC-AGTATATTCGAAGCAATTTTACAG aacatgttgctttccattgtaaaagtagacttgtctgttttcctggacagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACCAGCATATTTGAAGCCATTTTACAGgtaagtggttcaactgtcattcaaaattttgcaatacccagaggcaaaag Alignment from Spaln_aa2Genome GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAAC-AGTATATTCGAAGCAATTTTACAG aacatgttgctttccattgtaaaagtagacttgtctgttttcctggacagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACcAGCATATTTGAAGCCATTTTACAGgtaagtggttcaactgtcattcaaaattttgcaatacccagaggcaaaag Alignment from Spaln_nt2Genome GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAA-CAGTATATTCGAAGCAATTTTACAG aacatgttgctttccattgtaaaagtagacttgtctgttttcctggacagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACCAGCATATTTGAAGCCATTTTACAGgtaagtggttcaactgtcattcaaaattttgcaatacccagaggcaaaag Alignment from Pairagon GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAA-CAGTATATTCGAAGCAATTTTACAG aacatgttgctttccattgtaaaagtagacttgtctgttttcctggacagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACCAGCATATTTGAAGCCATTTTACAGgtaagtggttcaactgtcattcaaaattttgcaatacccagaggcaaaag Alignment from Exonerate_protein2genome GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAAC-AGTATATTCGAAGCAATTTTACAG aacatgttgctttccattgtaaaagtagacttgtctgttttcctggacagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACCAGCATATTTGAAGCCATTTTACAGgtaagtggttcaactgtcattcaaaattttgcaatacccagaggcaaaag Alignment from Exonerate_coding2genome GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAAC-AGTATATTCGAAGCAATTTTACAG aacatgttgctttccattgtaaaagtagacttgtctgttttcctggacagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACCAGCATATTTGAAGCCATTTTACAGgtaagtggttcaactgtcattcaaaattttgcaatacccagaggcaaaag Alignment from GeneWise GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAAC-AGTATATTCGAAGCAATTTTA----------------------------------------------------- aacatgttgctttccattgtaaaagtagacttgtctgttttcctggacagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACCAGCATATTTGAAGCCATTTTACAGGTAAGTGGTTCAACTGTCATTCAAAATTTTGCAATACCCAGAGGCAAAAG #### A630007B06Rik_ID12189_8 --> 0 - 0 Original Alignment ATGCATCATGCCAAAATAAAGGAGCTAGAAGAT-CTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACGAAG aggaccaaaccccatttatatccctggccttaccaccaacttcattacagATGCACCATGCCAAAATAAAGGAGCTGGAAGATCCTCAAGAGGACATTTAAGGAGGGCATGGATGAATTGCAAACATTGAGAACGAAGgtgagtaagaggaaccggtagattttataattaaaactagattactagaa Alignment from CESAR ATGCATCATGCCAAAATAAAGGAGCTAGAAGAT-CTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACGAAG aggaccaaaccccatttatatccctggccttaccaccaacttcattacagATGCACCATGCCAAAATAAAGGAGCTGGAAGATCCTCAAGAGGACATTTAAGGAGGGCATGGATGAATTGCAAACATTGAGAACGAAGgtgagtaagaggaaccggtagattttataattaaaactagattactagaa Alignment from Spaln_aa2Genome ATGCATCATGCCAAAATAAAGGAGCTAGAAGAT-CTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACGAAG aggaccaaaccccatttatatccctggccttaccaccaacttcattacagATGCACCATGCCAAAATAAAGGAGCTGGAAGATcCTCAAGAGGACATTTAAGGAGGGCATGGATGAATTGCAAACATTGAGAACGAAGgtgagtaagaggaaccggtagattttataattaaaactagattactagaa Alignment from Spaln_nt2Genome ATGCATCATGCCAAAATAAAGGAGCTAGAAGATC-TAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACGAAG aggaccaaaccccatttatatccctggccttaccaccaacttcattacagATGCACCATGCCAAAATAAAGGAGCTGGAAGATCCTCAAGAGGACATTTAAGGAGGGCATGGATGAATTGCAAACATTGAGAACGAAGgtgagtaagaggaaccggtagattttataattaaaactagattactagaa Alignment from Pairagon ATGCATCATGCCAAAATAAAGGAGCTAGAAGAT-CTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACGAAG aggaccaaaccccatttatatccctggccttaccaccaacttcattacagATGCACCATGCCAAAATAAAGGAGCTGGAAGATCCTCAAGAGGACATTTAAGGAGGGCATGGATGAATTGCAAACATTGAGAACGAAGgtgagtaagaggaaccggtagattttataattaaaactagattactagaa Alignment from Exonerate_protein2genome ATGCATCATGCCAAAATAAAGGAGCTAGAAGAT-CTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACGAAG aggaccaaaccccatttatatccctggccttaccaccaacttcattacagATGCACCATGCCAAAATAAAGGAGCTGGAAGATCCTCAAGAGGACATTTAAGGAGGGCATGGATGAATTGCAAACATTGAGAACGAAGgtgagtaagaggaaccggtagattttataattaaaactagattactagaa Alignment from Exonerate_coding2genome ATGCATCATGCCAAAATAAAGGAGCTAGAAGAT-CTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACGAAG aggaccaaaccccatttatatccctggccttaccaccaacttcattacagATGCACCATGCCAAAATAAAGGAGCTGGAAGATCCTCAAGAGGACATTTAAGGAGGGCATGGATGAATTGCAAACATTGAGAACGAAGgtgagtaagaggaaccggtagattttataattaaaactagattactagaa Alignment from GeneWise ATGCATCATGCCAAAATAAAGGAGCTAGAAGAT-CTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACGAAG aggaccaaaccccatttatatccctggccttaccaccaacttcattacagATGCACCATGCCAAAATAAAGGAGCTGGAAGATCCTCAAGAGGACATTTAAGGAGGGCATGGATGAATTGCAAACATTGAGAACGAAGgtgagtaagaggaaccggtagattttataattaaaactagattactagaa #### AI846148_ID2143_3 --> 2 - 1 Original Alignment agTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGAT-TCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCg atgggagtaggaagtgctaatgactaactcacttgtcttctgcccactagaaTCAGGCCAGGATGGACAGTTGGACCCTGTCTCCAACCCAGATCCAGTGAGGATGCCCGCAGAAATGATAGTGCTTTTAGATCTCCCAAGGCAATCCACTGCTCCCAACAAGGCTGCGGCCTAGAGGACTCCGACCT---GAGTTGCCAagtgagacatccagtattcttggtttcggtgagacatcataaagtaaggca Alignment from CESAR agTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGAT-TCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCg atgggagtaggaagtgctaatgactaactcacttgtcttctgcccactagaaTCAGGCCAGGATGGACAGTTGGACCCTGTCTCCAACCCAGATCCAGTGAGGATGCCCGCAGAAATGATAGTGCTTTTAGATCTCCCAAGGCAATCCACTGCTCCCAACAAGGCTGCGGCCTAGAGGACTCCGACCT---GAGTTGCCAagtgagacatccagtattcttggtttcggtgagacatcataaagtaaggca Alignment from Spaln_aa2Genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGAT-TCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG atgggagtaggaagtgctaatgactaactcacttgtcttctgcccactagAATCAGGCCAGGATGGACAGTTGGACCCTGTCTCCAACCCAGATCCAGTGAGGATGCCCGCAGAAATGATAGTGCTTTTAGATcTCCCAAGGCAATCCACTGCTCCCAACAAGGCTGCGGCCTAGAGGACTCCGACCT---GAGTTGCCAAgtgagacatccagtattcttggtttcggtgagacatcataaagtaaggca Alignment from Spaln_nt2Genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGAT-TCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG atgggagtaggaagtgctaatgactaactcacttgtcttctgcccactagAATCAGGCCAGGATGGACAGTTGGACCCTGTCTCCAACCCAGATCCAGTGAGGATGCCCGCAGAAATGATAGTGCTTTTAGATCTCCCAAGGCAATCCACTGCTCCCAACAAGGCTGCGGCCTAGAGGACTCCGACC---TGAGTTGCCAAgtgagacatccagtattcttggtttcggtgagacatcataaagtaaggca Alignment from Pairagon ----------------------------------------------CTAGAGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGAT-TCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG ATGGGAGTAGGAAGTGCTAATGACTAACTCACTTGTCTTCTGCCCACTAGAATCAGGCCAGGATGGACAGTTGGACCCTGTCTCCAACCCAGATCCAGTGAGGATGCCCGCAGAAATGATAGTGCTTTTAGATCTCCCAAGGCAATCCACTGCTCCCAACAAGGCTGCGGCCTAGAGGACTCCGACC---TGAGTTGCCAAgtgagacatccagtattcttggtttcggtgagacatcataaagtaaggca Alignment from Exonerate_protein2genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGAT-TCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG atgggagtaggaagtgctaatgactaactcacttgtcttctgcccactagAATCAGGCCAGGATGGACAGTTGGACCCTGTCTCCAACCCAGATCCAGTGAGGATGCCCGCAGAAATGATAGTGCTTTTAGATCTCCCAAGGCAATCCACTGCTCCCAACAAGGCTGCGGCCTAGAGGACTCCGACCT---GAGTTGCCAAgtgagacatccagtattcttggtttcggtgagacatcataaagtaaggca Alignment from Exonerate_coding2genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGAT-TCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG atgggagtaggaagtgctaatgactaactcacttgtcttctgcccactagAATCAGGCCAGGATGGACAGTTGGACCCTGTCTCCAACCCAGATCCAGTGAGGATGCCCGCAGAAATGATAGTGCTTTTAGATCTCCCAAGGCAATCCACTGCTCCCAACAAGGCTGCGGCCTAGAGGACTCCGACCT---GAGTTGCCAAgtgagacatccagtattcttggtttcggtgagacatcataaagtaaggca Alignment from GeneWise AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGAT-TCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG atgggagtaggaagtgctaatgactaactcacttgtcttctgcccactagAATCAGGCCAGGATGGACAGTTGGACCCTGTCTCCAACCCAGATCCAGTGAGGATGCCCGCAGAAATGATAGTGCTTTTAGATCTCCCAAGGCAATCCACTGCTCCCAACAAGGCTGCGGCCTAGAGGACTCCGACCT---GAGTTGCCAAgtgagacatccagtattcttggtttcggtgagacatcataaagtaaggca #### Abcc2_ID8844_28 --> 0 - 0 Original Alignment GCGCCGTGGGTGACCGACAAGAAGCCTCCGGCAGATTGGCCCAAAAAAGGTGAGATCCAGTTCAACAACTATCAAGTGCGGTATCGGCCGGAGCTGGAT-CTGGTCCTGAAAGGGATTACTTGTAACATCAAGAGCACCGAGAAG aatgcaagaaagaagaggtggtcactgtattttgctgttgttgttttcagGTTCCATGGGTAAATGATAAAGCTCCTCCAGGAGACTGGCCTGAAAAAGGTGAGATCCAGTTCAATAACTATCAAGTACAATACCGTCCCGAGCTAGATCCTGGTCCTGAAGGGAATCACCTGTAACATCAAAAGCACTGAAAAGgtaagaaatacaaaccatgagagtaaactaaaaggtgccaaatgatgcga Alignment from CESAR GCGCCGTGGGTGACCGACAAGAAGCCTCCGGCAGATTGGCCCAAAAAAGGTGAGATCCAGTTCAACAACTATCAAGTGCGGTATCGGCCGGAGCTGGAT-CTGGTCCTGAAAGGGATTACTTGTAACATCAAGAGCACCGAGAAG aatgcaagaaagaagaggtggtcactgtattttgctgttgttgttttcagGTTCCATGGGTAAATGATAAAGCTCCTCCAGGAGACTGGCCTGAAAAAGGTGAGATCCAGTTCAATAACTATCAAGTACAATACCGTCCCGAGCTAGATCCTGGTCCTGAAGGGAATCACCTGTAACATCAAAAGCACTGAAAAGgtaagaaatacaaaccatgagagtaaactaaaaggtgccaaatgatgcga Alignment from Spaln_aa2Genome GCGCCGTGGGTGACCGACAAGAAGCCTCCGGCAGATTGGCCCAAAAAAGGTGAGATCCAGTTCAACAACTATCAAGTGCGGTATCGGCCGGAGCTGGAT-CTGGTCCTGAAAGGGATTACTTGTAACATCAAGAGCACCGAGAAG aatgcaagaaagaagaggtggtcactgtattttgctgttgttgttttcagGTTCCATGGGTAAATGATAAAGCTCCTCCAGGAGACTGGCCTGAAAAAGGTGAGATCCAGTTCAATAACTATCAAGTACAATACCGTCCCGAGCTAGATcCTGGTCCTGAAGGGAATCACCTGTAACATCAAAAGCACTGAAAAGgtaagaaatacaaaccatgagagtaaactaaaaggtgccaaatgatgcga Alignment from Spaln_nt2Genome GCGCCGTGGGTGACCGACAAGAAGCCTCCGGCAGATTGGCCCAAAAAAGGTGAGATCCAGTTCAACAACTATCAAGTGCGGTATCGGCCGGAGCTGGAT-CTGGTCCTGAAAGGGATTACTTGTAACATCAAGAGCACCGAGAAG aatgcaagaaagaagaggtggtcactgtattttgctgttgttgttttcagGTTCCATGGGTAAATGATAAAGCTCCTCCAGGAGACTGGCCTGAAAAAGGTGAGATCCAGTTCAATAACTATCAAGTACAATACCGTCCCGAGCTAGATCCTGGTCCTGAAGGGAATCACCTGTAACATCAAAAGCACTGAAAAGgtaagaaatacaaaccatgagagtaaactaaaaggtgccaaatgatgcga Alignment from Pairagon GCGCCGTGGGTGACCGACAAGAAGCCTCCGGCAGATTGGCCCAAAAAAGGTGAGATCCAGTTCAACAACTATCAAGTGCGGTATCGGCCGGAGCTGGAT-CTGGTCCTGAAAGGGATTACTTGTAACATCAAGAGCACCGAGAAG aatgcaagaaagaagaggtggtcactgtattttgctgttgttgttttcagGTTCCATGGGTAAATGATAAAGCTCCTCCAGGAGACTGGCCTGAAAAAGGTGAGATCCAGTTCAATAACTATCAAGTACAATACCGTCCCGAGCTAGATCCTGGTCCTGAAGGGAATCACCTGTAACATCAAAAGCACTGAAAAGgtaagaaatacaaaccatgagagtaaactaaaaggtgccaaatgatgcga Alignment from Exonerate_protein2genome GCGCCGTGGGTGACCGACAAGAAGCCTCCGGCAGATTGGCCCAAAAAAGGTGAGATCCAGTTCAACAACTATCAAGTGCGGTATCGGCCGGAGCTGGAT-CTGGTCCTGAAAGGGATTACTTGTAACATCAAGAGCACCGAGAAG aatgcaagaaagaagaggtggtcactgtattttgctgttgttgttttcagGTTCCATGGGTAAATGATAAAGCTCCTCCAGGAGACTGGCCTGAAAAAGGTGAGATCCAGTTCAATAACTATCAAGTACAATACCGTCCCGAGCTAGATCCTGGTCCTGAAGGGAATCACCTGTAACATCAAAAGCACTGAAAAGgtaagaaatacaaaccatgagagtaaactaaaaggtgccaaatgatgcga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GCGCCGTGGGTGACCGACAAGAAGCCTCCGGCAGATTGGCCCAAAAAAGGTGAGATCCAGTTCAACAACTATCAAGTGCGGTATCGGCCGGAGCTGGAT-CTGGTCCTGAAAGGGATTACTTGTAACATCAAGAGCACCGAGAAG aatgcaagaaagaagaggtggtcactgtattttgctgttgttgttttcagGTTCCATGGGTAAATGATAAAGCTCCTCCAGGAGACTGGCCTGAAAAAGGTGAGATCCAGTTCAATAACTATCAAGTACAATACCGTCCCGAGCTAGATCCTGGTCCTGAAGGGAATCACCTGTAACATCAAAAGCACTGAAAAGgtaagaaatacaaaccatgagagtaaactaaaaggtgccaaatgatgcga #### Acsl5_ID11610_15 --> 2 - 0 Original Alignment gtCATGTTGGGACTCCAGTGGCTTGCAATTTTGTAAAGCTG-GAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG gatacaaatggggttactcagcagttatcaagcctaaccttctgttttaggcCATGTTGGCACTCCAGTCGCTTCAAATTTTGTAAAGCTTCGAAGATGTAGCAGAGATGAACTACTTTTCAGTGAACAATAAAGGTGAAgtacctgagatatactttatcaactcagggtggatggaagaactgtctaa Alignment from CESAR gtCATGTTGGGACTCCAGTGGCTTGCAATTTTGTAAAGCTG-GAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG gatacaaatggggttactcagcagttatcaagcctaaccttctgttttaggcCATGTTGGCACTCCAGTCGCTTCAAATTTTGTAAAGCTTCGAAGATGTAGCAGAGATGAACTACTTTTCAGTGAACAATAAAGGTGAAgtacctgagatatactttatcaactcagggtggatggaagaactgtctaa Alignment from Spaln_aa2Genome GTCATGTTGGGACTCCAGTGGCTTGCAATTTTGTAAAGCTG-GAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG gatacaaatggggttactcagcagttatcaagcctaaccttctgttttagGCCATGTTGGCACTCCAGTCGCTTCAAATTTTGTAAAGCTTcGAAGATGTAGCAGAGATGAACTACTTTTCAGTGAACAATAAAGGTGAAgtacctgagatatactttatcaactcagggtggatggaagaactgtctaa Alignment from Spaln_nt2Genome GTCATGTTGGGACTCCAGTGGCTTGCAATTTTGTAAAGCTG-GAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG gatacaaatggggttactcagcagttatcaagcctaaccttctgttttagGCCATGTTGGCACTCCAGTCGCTTCAAATTTTGTAAAGCTTCGAAGATGTAGCAGAGATGAACTACTTTTCAGTGAACAATAAAGGTGAAgtacctgagatatactttatcaactcagggtggatggaagaactgtctaa Alignment from Pairagon GTCATGTTGGGACTCCAGTGGCTTGCAATTTTGTAAAGC-TGGAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG gatacaaatggggttactcagcagttatcaagcctaaccttctgttttagGCCATGTTGGCACTCCAGTCGCTTCAAATTTTGTAAAGCTTCGAAGATGTAGCAGAGATGAACTACTTTTCAGTGAACAATAAAGGTGAAgtacctgagatatactttatcaactcagggtggatggaagaactgtctaa Alignment from Exonerate_protein2genome GTCATGTTGGGACTCCAGTGGCTTGCAATTTTGTAAAGCTG-GAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG gatacaaatggggttactcagcagttatcaagcctaaccttctgttttagGCCATGTTGGCACTCCAGTCGCTTCAAATTTTGTAAAGCTTCGAAGATGTAGCAGAGATGAACTACTTTTCAGTGAACAATAAAGGTGAAgtacctgagatatactttatcaactcagggtggatggaagaactgtctaa Alignment from Exonerate_coding2genome GTCATGTTGGGACTCCAGTGGCTTGCAATTTTGTAAAGCTG-GAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG gatacaaatggggttactcagcagttatcaagcctaaccttctgttttagGCCATGTTGGCACTCCAGTCGCTTCAAATTTTGTAAAGCTTCGAAGATGTAGCAGAGATGAACTACTTTTCAGTGAACAATAAAGGTGAAgtacctgagatatactttatcaactcagggtggatggaagaactgtctaa Alignment from GeneWise GTCATGTTGGGACTCCAGTGGCTTGCAATTTTGTAAAG-CTGGAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG gatacaaatggggttactcagcagttatcaagcctaaccttctgttttagGCCATGTTGGCACTCCAGTCGCTTCAAATTTTGTAAAGCTTCGAAGATGTAGCAGAGATGAACTACTTTTCAGTGAACAATAAAGGTGAAgtacctgagatatactttatcaactcagggtggatggaagaactgtctaa #### Acsl5_ID11611_16 --> 0 - 0 Original Alignment ATCTGCATCAAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGA-TGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA accaagtagatatatgatatgcaggagatgatgtctctttgccccagcagATCTGCATTAAAAGCAATAATGCATTCAAAGGTTACCTAAGGGGTGCGGAAAAAACACAAAAAGTAATTGACAAGGACGGGCTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCGCAgtaagtagctctcaacagtcagtggagcctacatacagtaatggaggagc Alignment from CESAR ATCTGCATCAAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGA-TGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA accaagtagatatatgatatgcaggagatgatgtctctttgccccagcagATCTGCATTAAAAGCAATAATGCATTCAAAGGTTACCTAAGGGGTGCGGAAAAAACACAAAAAGTAATTGACAAGGACGGGCTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCGCAgtaagtagctctcaacagtcagtggagcctacatacagtaatggaggagc Alignment from Spaln_aa2Genome ATCTGCATCAAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGA-TGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA accaagtagatatatgatatgcaggagatgatgtctctttgccccagcagATCTGCATTAAAAGCAATAATGCATTCAAAGGTTACCTAAGGGGTGCGGAAAAAACACAAAAAGTAATTGACAAGGACGGGcTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCGCAgtaagtagctctcaacagtcagtggagcctacatacagtaatggaggagc Alignment from Spaln_nt2Genome ATCTGCATCAAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGAT-GGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA accaagtagatatatgatatgcaggagatgatgtctctttgccccagcagATCTGCATTAAAAGCAATAATGCATTCAAAGGTTACCTAAGGGGTGCGGAAAAAACACAAAAAGTAATTGACAAGGACGGGCTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCGCAgtaagtagctctcaacagtcagtggagcctacatacagtaatggaggagc Alignment from Pairagon ATCTGCATCAAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGA-TGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA accaagtagatatatgatatgcaggagatgatgtctctttgccccagcagATCTGCATTAAAAGCAATAATGCATTCAAAGGTTACCTAAGGGGTGCGGAAAAAACACAAAAAGTAATTGACAAGGACGGGCTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCGCAgtaagtagctctcaacagtcagtggagcctacatacagtaatggaggagc Alignment from Exonerate_protein2genome ATCTGCATCAAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGAT-GGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA accaagtagatatatgatatgcaggagatgatgtctctttgccccagcagATCTGCATTAAAAGCAATAATGCATTCAAAGGTTACCTAAGGGGTGCGGAAAAAACACAAAAAGTAATTGACAAGGACGGGCTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCGCAgtaagtagctctcaacagtcagtggagcctacatacagtaatggaggagc Alignment from Exonerate_coding2genome ATCTGCATCAAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGAT-GGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA accaagtagatatatgatatgcaggagatgatgtctctttgccccagcagATCTGCATTAAAAGCAATAATGCATTCAAAGGTTACCTAAGGGGTGCGGAAAAAACACAAAAAGTAATTGACAAGGACGGGCTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCGCAgtaagtagctctcaacagtcagtggagcctacatacagtaatggaggagc Alignment from GeneWise ATCTGCATCAAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGAT-GGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA accaagtagatatatgatatgcaggagatgatgtctctttgccccagcagATCTGCATTAAAAGCAATAATGCATTCAAAGGTTACCTAAGGGGTGCGGAAAAAACACAAAAAGTAATTGACAAGGACGGGCTGGCTTCATGCTGGGGACATTGGTCGTTGGCTCGCAgtaagtagctctcaacagtcagtggagcctacatacagtaatggaggagc #### Actn3_ID692_18 --> 0 - 0 Original Alignment CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCC-ATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGG cacaaccattccacaatagatatgttttcttgtattcttgctgtctccagCAAATCCGTGTGGGCTGGGAGCAACTACTGACCACCCATTGCCCACACCATTAATGAAGTGGATAACCAAGTACTCACTAGAGATGCCAAGGGCCTAAGCCAGGAGCAACTCAACGAATTCCGTGCCTCATTCAATCACTTTGACCGGgtaagtggcttgacaggattatggttctacttatgtgtccctagAAGCGG Alignment from CESAR CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCC-ATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGG cacaaccattccacaatagatatgttttcttgtattcttgctgtctccagCAAATCCGTGTGGGCTGGGAGCAACTACTGACCACCCATTGCCCACACCATTAATGAAGTGGATAACCAAGTACTCACTAGAGATGCCAAGGGCCTAAGCCAGGAGCAACTCAACGAATTCCGTGCCTCATTCAATCACTTTGACCGGgtaagtggcttgacaggattatcatgcctggcttctgttcctagAAGCGG Alignment from Spaln_aa2Genome CACATTCGTGTGGGCTGGGAGCAGTTGCTCACC-TCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGG cacaaccattccacaatagatatgttttcttgtattcttgctgtctccagCAAATCCGTGTGGGCTGGGAGCAACTACTGACCaCCCATTGCCCACACCATTAATGAAGTGGATAACCAAGTACTCACTAGAGATGCCAAGGGCCTAAGCCAGGAGCAACTCAACGAATTCCGTGCCTCATTCAATCACTTTGACCGGgtaagtggcttgacaggattatggttctacttatgtgtccctagAAGCGG Alignment from Spaln_nt2Genome CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCC-ATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGG cacaaccattccacaatagatatgttttcttgtattcttgctgtctccagCAAATCCGTGTGGGCTGGGAGCAACTACTGACCACCCATTGCCCACACCATTAATGAAGTGGATAACCAAGTACTCACTAGAGATGCCAAGGGCCTAAGCCAGGAGCAACTCAACGAATTCCGTGCCTCATTCAATCACTTTGACCGGgtaagtggcttgacaggattatggttctacttatgtgtccctagAAGCGG Alignment from Pairagon CACATTCGTGTGGGCTGGGAGCAGTTGCTCACC-TCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGG cacaaccattccacaatagatatgttttcttgtattcttgctgtctccagCAAATCCGTGTGGGCTGGGAGCAACTACTGACCACCCATTGCCCACACCATTAATGAAGTGGATAACCAAGTACTCACTAGAGATGCCAAGGGCCTAAGCCAGGAGCAACTCAACGAATTCCGTGCCTCATTCAATCACTTTGACCGGgtaagtggcttgacaggattatggttctacttatgtgtccctagAAGCGG Alignment from Exonerate_protein2genome CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCC-ATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGG cacaaccattccacaatagatatgttttcttgtattcttgctgtctccagCAAATCCGTGTGGGCTGGGAGCAACTACTGACCACCCATTGCCCACACCATTAATGAAGTGGATAACCAAGTACTCACTAGAGATGCCAAGGGCCTAAGCCAGGAGCAACTCAACGAATTCCGTGCCTCATTCAATCACTTTGACCGGgtaagtggcttgacaggattatggttctacttatgtgtccctagAAGCGG Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CACATTCGTGTGGGCTGGGAGCAGTTGCTCACC-TCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGG cacaaccattccacaatagatatgttttcttgtattcttgctgtctccagCAAATCCGTGTGGGCTGGGAGCAACTACTGACCACCCATTGCCCACACCATTAATGAAGTGGATAACCAAGTACTCACTAGAGATGCCAAGGGCCTAAGCCAGGAGCAACTCAACGAATTCCGTGCCTCATTCAATCACTTTGACCGGgtaagtggcttgacaggattatggttctacttatgtgtccctagAAGCGG #### Actn3_ID700_10 --> 0 - 0 Original Alignment CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGA-GACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG ccgtcacctgttgcccattctgcccctagagttaatttatcttcttgcagCTGTTAGAATGGAATTGCCGCACCTTA------------AACCATGTAGCTGAATCTAGCATG------------CAG---CTGGAGCACTTCCAACGACTATCAACACTTACGAAAGCCACCCTGTTTCCAAGAAACATGCCAGCTAGAGATCAACTTTAACATGCTGCAAGCTAAATTGCGTCTGAGTCACCAACCTGCCTTCATGCCCTCTGGAGGCAAC------TCAgtaagcggggattcagtaagatgtgacacagcctacatgcctacacaatc Alignment from CESAR CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGA-GACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG ccgtcacctgttgcccattctgcccctagagttaatttatcttcttgcagCTGTTAGAATGGAATTGCCGCACCTTA------------AACCATGTAGCTGAATCTAGCATG---------------CAGCTGGAGCACTTCCAACGACTATCAACACTTACGAAAGCCACCCTGTTTCCAAGAAACATGCCAGCTAGAGATCAACTTTAACATGCTGCAAGCTAAATTGCGTCTGAGTCACCAACCTGCCTTCATGCCCTCTGGAGGCAAC------TCAgtaagcggggattcagtaagatgtgacacagcctacatgcctacacaatc Alignment from Spaln_aa2Genome CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGA-GACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG ccgtcacctgttgcccattctgcccctagagttaatttatcttcttgcagCTGTTAGAATGGAATTGCCGCACCTTA------------AACCATGTAGCTGAATCTAGCATG---------------CAGCTGGAGCACTTCCAAcGACTATCAACACTTACGAAAGCCACCCTGTTTCCAAGAAACATGCCAGCTAGAGATCAACTTTAACATGCTGCAAGCTAAATTGCGTCTGAGTCACCAACCTGCCTTCATGCCCTCTGGAGGCAAC------TCAgtaagcggggattcagtaagatgtgacacagcctacatgcctacacaatc Alignment from Spaln_nt2Genome CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGA-GACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTG ccgtcacctgttgcccattctgcccctagagttaatttatcttcttgcagCTGTTAGAATGGAATTGCCGCACCTT------------AAACCATGTAGCTGAATCTAGCATG---------------CAGCTGGAGCACTTCCAACGACTATCAACACTTACGAAAGCCACCCTGTTTCCAAGAAACATGCCAGCTAGAGATCAACTTTAACATGCTGCAAGCTAAATTGCGTCTGAGTCACCAACCTGCCTTCATGCCCTCTGGAGGCAACTCAgtaagcggggattcagtaagatgtgacacagcctacatgcctacacaatc Alignment from Pairagon CTGTTGGAGTGGATCCGCCGCAC--------------------------TGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGA-GACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG ccgtcacctgttgcccattctgcccctagagttaatttatcttcttgcagCTGTTAGAATGGAATTGCCGCACCTTAAACCATGTAGCTGAATCTAGCATGC-----------------------------------------------------AGCTGGAGCACTTCCAACGACTATCAACACTTACGAAAGCCACCCTGTTTCCAAGAAACATGCCAGCTAGAGATCAACTTTAACATGCTGCAAGCTAAATTGCGTCTGAGTCACCAACCTGCCTTCATGCCCTCTGGAGGCAA------CTCAgtaagcggggattcagtaagatgtgacacagcctacatgcctacacaatc Alignment from Exonerate_protein2genome CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGA-GACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG ccgtcacctgttgcccattctgcccctagAGTTAATTTATCTTCTTGCAGCTGTTAGAATGGAATTGCCGCACCTTAAACCATGTAGCTGAATCTAGCATGCAG------CTGGAGCACTTCCAACGACTATCAACACTTACGAAAGCCACCCTGTTTCCAAGAAACATGCCAGCTAGAGATCAACTTTAACATGCTGCAAGCTAAATTGCGTCTGAGTCACCAACCTGCCTTCATGCCCTCTGGAGGCAACTCAGTAAGCggggattcagtaagatgtgacacagcctacatgcctacacaatc Alignment from Exonerate_coding2genome ccgtcacctgttgcccattctgcccctagagttaatttatcttcttgcagctgttagaatggaattgccgcaccttaaaccatgtagctgaatctagcatgcagctggagcacttccaacgactatcaacacttacgaaagccaccctgtttccaagaaacatgccagctagagatcaactttaacatgctgcaagctaaattgcgtctgagtcaccaacctgccttcatgccctctggaggcaactcagtaagcggggattcagtaagatgtgacacagcctacatgcctacacaatc Alignment from GeneWise CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTC-CGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG--------- ccgtcacctgttgcccattctgcccctagagttaatttatcttcttgcagCTGTTAGAATGGAATTGCCGCACCTTA------------AACCATGTAGCTGAATCTAGCATG---------------CAGCTGGAGCACTTCCAACGACTATCAACACTTACGAAAGCCACCCTGTTTCCAAGAAACATGCCAGCTAGAGATCAACTTTAACATGCTGCAAGCTAAATTGCGTCTGAGTCACCAACCTGCCTTCATGCCCTCTGGAGGCAACTCAGTAAGCGGGGATTCAgtaagatgtgacacagcctacatgcctacacaatc #### Actn3_ID702_8 --> 2 - 0 Original Alignment atATCGTGAACACCCCCAAACCAGATGAGAAAGCCATCATG-ACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG tggaggtcaactatgctaggacactggccctttcccttgccttctcccagatATTGGCAACACACCCAGACCAGATGAGAAAGCCATCATACACTTACCTTTCCTGTTTTTACGATGCATTTGCTGGGGCTGAGCAGgtaagcgagctgttgtaaacatcacatcatacagtatgtcctggcagttg Alignment from CESAR atATCGTGAACACCCCCAAACCAGATGAGAAAGCCATCATG-ACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG tggaggtcaactatgctaggacactggccctttcccttgccttctcccagatATTGGCAACACACCCAGACCAGATGAGAAAGCCATCATACACTTACCTTTCCTGTTTTTACGATGCATTTGCTGGGGCTGAGCAGgtaagcgagctgttgtaaacatcacatcatacagtatgtcctggcagttg Alignment from Spaln_aa2Genome ATATCGTGAACACCCCCAAACCAGATGAGAAAGCCATCATG-ACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG tggaggtcaactatgctaggacactggccctttcccttgccttctcccagATATTGGCAACACACCCAGACCAGATGAGAAAGCCATCATAcACTTACCTTTCCTGTTTTTACGATGCATTTGCTGGGGCTGAGCAGgtaagcgagctgttgtaaacatcacatcatacagtatgtcctggcagttg Alignment from Spaln_nt2Genome ATATCGTGAACACCCCCAAACCAGATGAGAAAGCCATCATG-ACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG tggaggtcaactatgctaggacactggccctttcccttgccttctcccagATATTGGCAACACACCCAGACCAGATGAGAAAGCCATCATACACTTACCTTTCCTGTTTTTACGATGCATTTGCTGGGGCTGAGCAGgtaagcgagctgttgtaaacatcacatcatacagtatgtcctggcagttg Alignment from Pairagon ATATCGTGAACACCCCCAAACCAGATGAGAAAGCCATCATG-ACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG tggaggtcaactatgctaggacactggccctttcccttgccttctcccagATATTGGCAACACACCCAGACCAGATGAGAAAGCCATCATACACTTACCTTTCCTGTTTTTACGATGCATTTGCTGGGGCTGAGCAGgtaagcgagctgttgtaaacatcacatcatacagtatgtcctggcagttg Alignment from Exonerate_protein2genome ATATCGTGAACACCCCCAAACCAGATGAGAAAGCCATCATG-ACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG tggaggtcaactatgctaggacactggccctttcccttgccttctcccagATATTGGCAACACACCCAGACCAGATGAGAAAGCCATCATACACTTACCTTTCCTGTTTTTACGATGCATTTGCTGGGGCTGAGCAGgtaagcgagctgttgtaaacatcacatcatacagtatgtcctggcagttg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATATCGTGAACACCCCCAAACCAGATGAGAAAGCCATC-ATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG tggaggtcaactatgctaggacactggccctttcccttgccttctcccagATATTGGCAACACACCCAGACCAGATGAGAAAGCCATCATACACTTACCTTTCCTGTTTTTACGATGCATTTGCTGGGGCTGAGCAGgtaagcgagctgttgtaaacatcacatcatacagtatgtcctggcagttg #### Actn3_ID705_5 --> 2 - 2 Original Alignment agACCTCAGCCAAAGAAGGCTTGCTTCTC-TGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCag atgctggataccaagccaagccatgtcactgtggttctctcctctgtcagagGCTGCCTCCAAACAGGCCTTGTTCCTCCTGGTGCCAATGGAAAATAGCTCCATACCATAATGTTAATGTACAGAACTTCCATACTaggtaagaatgctgtatatcatagtcaggatctataaaagtgaagggtgtca Alignment from CESAR agACCTCAGCCAAAGAAGGCTTGCTTCTC-TGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCag atgctggataccaagccaagccatgtcactgtggttctctcctctgtcagagGCTGCCTCCAAACAGGCCTTGTTCCTCCTGGTGCCAATGGAAAATAGCTCCATACCATAATGTTAATGTACAGAACTTCCATACTaggtaagaatgctgtatatcatagtcaggatctataaaagtgaagggtgtca Alignment from Spaln_aa2Genome AGACCTCAGCCAAAGAAGGCTTGCTTCTC-TGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG atgctggataccaagccaagccatgtcactgtggttctctcctctgtcagAGGCTGCCTCCAAACAGGCCTTGTTCCTCcTGGTGCCAATGGAAAATAGCTCCATACCATAATGTTAATGTACAGAACTTCCATACTAGgtaagaatgctgtatatcatagtcaggatctataaaagtgaagggtgtca Alignment from Spaln_nt2Genome AGACCTCAGCCAAAGAAGGCTTGCTTCTC-TGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG atgctggataccaagccaagccatgtcactgtggttctctcctctgtcagAGGCTGCCTCCAAACAGGCCTTGTTCCTCCTGGTGCCAATGGAAAATAGCTCCATACCATAATGTTAATGTACAGAACTTCCATACTAGgtaagaatgctgtatatcatagtcaggatctataaaagtgaagggtgtca Alignment from Pairagon AGACCTCAGCCAAAGAAGGCTTGCTTCT-CTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG atgctggataccaagccaagccatgtcactgtggttctctcctctgtcagAGGCTGCCTCCAAACAGGCCTTGTTCCTCCTGGTGCCAATGGAAAATAGCTCCATACCATAATGTTAATGTACAGAACTTCCATACTAGgtaagaatgctgtatatcatagtcaggatctataaaagtgaagggtgtca Alignment from Exonerate_protein2genome atgctggataccaagccaagccatgtcactgtggttctctcctctgtcagaggctgcctccaaacaggccttgttcctcctggtgccaatggaaaatagctccataccataatgttaatgtacagaacttccatactaggtaagaatgctgtatatcatagtcaggatctataaaagtgaagggtgtca Alignment from Exonerate_coding2genome AGACCTCAGCCAAAGAAGGCTTGCTTCTC-TGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG atgctggataccaagccaagccatgtcactgtggttctctcctctgtcagAGGCTGCCTCCAAACAGGCCTTGTTCCTCCTGGTGCCAATGGAAAATAGCTCCATACCATAATGTTAATGTACAGAACTTCCATACTAGgtaagaatgctgtatatcatagtcaggatctataaaagtgaagggtgtca Alignment from GeneWise -ACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG atgctggataccaagccaagccatgtcactgtggttctctcctctgtcagagGCTGCCTCCAAACAGGCCTTGTTCCTCCTGGTGCCAATGGAAAATAGCTCCATACCATAATGTTAATGTACAGAACTTCCATACTAGgtaagaatgctgtatatcatagtcaggatctataaaagtgaagggtgtca #### Actn3_ID707_3 --> 2 - 1 Original Alignment gaGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATT-GCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAg cccttagcatgtgccatgggctttgttactgttttttgtcatttttgcaggtGCTAGGCTGCCCAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACACTAGACTTCATACGCTACTAAAGGAGTGAAGCTAGTCTCAATTAGTGCTGAAggtaagcgagggtaattgaagaataatagtagttagatgtttctgctaggc Alignment from CESAR gaGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATT-GCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAg cccttagcatgtgccatgggctttgttactgttttttgtcatttttgcaggtGCTAGGCTGCCCAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACACTAGACTTCATACGCTACTAAAGGAGTGAAGCTAGTCTCAATTAGTGCTGAAggtaagcgagggtaattgaagaataatagtagttagatgtttctgctaggc Alignment from Spaln_aa2Genome GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATT-GCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG cccttagcatgtgccatgggctttgttactgttttttgtcatttttgcagGTGCTAGGCTGCCCAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACACTAGACTTCATAcGCTACTAAAGGAGTGAAGCTAGTCTCAATTAGTGCTGAAGgtaagcgagggtaattgaagaataatagtagttagatgtttctgctaggc Alignment from Spaln_nt2Genome GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATT-GCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG cccttagcatgtgccatgggctttgttactgttttttgtcatttttgcagGTGCTAGGCTGCCCAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACACTAGACTTCATACGCTACTAAAGGAGTGAAGCTAGTCTCAATTAGTGCTGAAGgtaagcgagggtaattgaagaataatagtagttagatgtttctgctaggc Alignment from Pairagon GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCAT-TGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG cccttagcatgtgccatgggctttgttactgttttttgtcatttttgcagGTGCTAGGCTGCCCAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACACTAGACTTCATACGCTACTAAAGGAGTGAAGCTAGTCTCAATTAGTGCTGAAGgtaagcgagggtaattgaagaataatagtagttagatgtttctgctaggc Alignment from Exonerate_protein2genome GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATT-GCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG cccttagcatgtgccatgggctttgttactgttttttgtcatttttgcagGTGCTAGGCTGCCCAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACACTAGACTTCATACGCTACTAAAGGAGTGAAGCTAGTCTCAATTAGTGCTGAAGgtaagcgagggtaattgaagaataatagtagttagatgtttctgctaggc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise -----AGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATT-GCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG cccttagcatgtgccatgggctttgttactgttttttgtcatttttgcagGTGCTAGGCTGCCCAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACACTAGACTTCATACGCTACTAAAGGAGTGAAGCTAGTCTCAATTAGTGCTGAAGgtaagcgagggtaattgaagaataatagtagttagatgtttctgctaggc #### Actr1a_ID9877_3 --> 1 - 0 Original Alignment tGTGGGCAGACCCAAACATGTTCGTGTCATGGCAGGAGCCCTG-GAAGGTGACATCTTCATTGGCCCCAAAGCGGAG gtgtgttctcccacatgacatgaagaatcaactccttactctgctcctagtGTAGGAAGGCCCAAACATGTTCATGCTATGTCAGGGGCCCTGCGAAGGTGACCTCTTTATTGGCTCAAAAGCAGAGgtaagctttgtccaacgaaaaaaggttggtataaggagctccccccacat Alignment from CESAR tGTGGGCAGACCCAAACATGTTCGTGTCATGGCAGGAGCCCTG-GAAGGTGACATCTTCATTGGCCCCAAAGCGGAG gtgtgttctcccacatgacatgaagaatcaactccttactctgctcctagtGTAGGAAGGCCCAAACATGTTCATGCTATGTCAGGGGCCCTGCGAAGGTGACCTCTTTATTGGCTCAAAAGCAGAGgtaagctttgtccaacgaaaaaaggttggtataaggagctccccccacat Alignment from Spaln_aa2Genome TGTGGGCAGACCCAAACATGTTCGTGTCATGGCAGGAGCCCTG-GAAGGTGACATCTTCATTGGCCCCAAAGCGGAG gtgtgttctcccacatgacatgaagaatcaactccttactctgctcctagTGTAGGAAGGCCCAAACATGTTCATGCTATGTCAGGGGCCCTGcGAAGGTGACCTCTTTATTGGCTCAAAAGCAGAGgtaagctttgtccaacgaaaaaaggttggtataaggagctccccccacat Alignment from Spaln_nt2Genome TGTGGGCAGACCCAAACATGTTCGTGTCATGGCAGGAGCCCTG-GAAGGTGACATCTTCATTGGCCCCAAAGCGGAG gtgtgttctcccacatgacatgaagaatcaactccttactctgctcctagTGTAGGAAGGCCCAAACATGTTCATGCTATGTCAGGGGCCCTGCGAAGGTGACCTCTTTATTGGCTCAAAAGCAGAGgtaagctttgtccaacgaaaaaaggttggtataaggagctccccccacat Alignment from Pairagon TGTGGGCAGACCCAAACATGTTCGTGTCATGGCAGGAGCCCTG-GAAGGTGACATCTTCATTGGCCCCAAAGCGGAG gtgtgttctcccacatgacatgaagaatcaactccttactctgctcctagTGTAGGAAGGCCCAAACATGTTCATGCTATGTCAGGGGCCCTGCGAAGGTGACCTCTTTATTGGCTCAAAAGCAGAGgtaagctttgtccaacgaaaaaaggttggtataaggagctccccccacat Alignment from Exonerate_protein2genome TGTGGGCAGACCCAAACATGTTCGTGTCATGGCAGGAGCCCTG-GAAGGTGACATCTTCATTGGCCCCAAAGCGGAG gtgtgttctcccacatgacatgaagaatcaactccttactctgctcctagTGTAGGAAGGCCCAAACATGTTCATGCTATGTCAGGGGCCCTGCGAAGGTGACCTCTTTATTGGCTCAAAAGCAGAGgtaagctttgtccaacgaaaaaaggttggtataaggagctccccccacat Alignment from Exonerate_coding2genome TGTGGGCAGACCCAAACATGTTCGTGTCATGGCAGGAGCCCTG-GAAGGTGACATCTTCATTGGCCCCAAAGCGGAG gtgtgttctcccacatgacatgaagaatcaactccttactctgctcctagTGTAGGAAGGCCCAAACATGTTCATGCTATGTCAGGGGCCCTGCGAAGGTGACCTCTTTATTGGCTCAAAAGCAGAGgtaagctttgtccaacgaaaaaaggttggtataaggagctccccccacat Alignment from GeneWise TGTGGGCAGACCCAAACATGTTCGTGTCATGGCAGGAGCC-CTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG gtgtgttctcccacatgacatgaagaatcaactccttactctgctcctagTGTAGGAAGGCCCAAACATGTTCATGCTATGTCAGGGGCCCTGCGAAGGTGACCTCTTTATTGGCTCAAAAGCAGAGgtaagctttgtccaacgaaaaaaggttggtataaggagctccccccacat #### Acy3_ID251_5 --> 2 - 0 Original Alignment gcATG------GACTTACCCGCCTTTGAGATGGATATC-TACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG ccaggtcatgttgatgggagtgttatctcactttgtattttacatcacaggtATGGATTCAGACTCTGCAACATTTGAGATGGATATTCTACTGGAACTTGGGTAGTGTAGACTTCTCCTGCACTGCTGATGGTGATCTAGCCAGCATGGTGCATCCACAGATTCAGgtaagcatactactggtaatcaggtgtgtctcatgcagtaatgtcacaac Alignment from CESAR gcATGGACTTA------CCCGCCTTTGAGATGGATATC-TACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG ccaggtcatgttgatgggagtgttatctcactttgtattttacatcacaggtATGGATTCAGACTCTGCAACATTTGAGATGGATATTCTACTGGAACTTGGGTAGTGTAGACTTCTCCTGCACTGCTGATGGTGATCTAGCCAGCATGGTGCATCCACAGATTCAGgtaagcatactactggtaatcaggtgtgtctcatgcagtaatgtcacaac Alignment from Spaln_aa2Genome GCATG------GACTTACCCGCCTTTGAGATGGATATC-TACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG ccaggtcatgttgatgggagtgttatctcactttgtattttacatcacagGTATGGATTCAGACTCTGCAACATTTGAGATGGATATTcTACTGGAACTTGGGTAGTGTAGACTTCTCCTGCACTGCTGATGGTGATCTAGCCAGCATGGTGCATCCACAGATTCAGgtaagcatactactggtaatcaggtgtgtctcatgcagtaatgtcacaac Alignment from Spaln_nt2Genome GCATGGACTTACCCGCC------TTTGAGATGGATAT-CTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG ccaggtcatgttgatgggagtgttatctcactttgtattttacatcacagGTATGGATTCAGACTCTGCAACATTTGAGATGGATATTCTACTGGAACTTGGGTAGTGTAGACTTCTCCTGCACTGCTGATGGTGATCTAGCCAGCATGGTGCATCCACAGATTCAGgtaagcatactactggtaatcaggtgtgtctcatgcagtaatgtcacaac Alignment from Pairagon GCATGGACTTACCCGCC------TTTGAGATGGATA-TCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG ccaggtcatgttgatgggagtgttatctcactttgtattttacatcacagGTATGGATTCAGACTCTGCAACATTTGAGATGGATATTCTACTGGAACTTGGGTAGTGTAGACTTCTCCTGCACTGCTGATGGTGATCTAGCCAGCATGGTGCATCCACAGATTCAGgtaagcatactactggtaatcaggtgtgtctcatgcagtaatgtcacaac Alignment from Exonerate_protein2genome GCATGGACTTACCCGCC------TTTGAGATGGATATC-TACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG ccaggtcatgttgatgggagtgttatctcactttgtattttacatcacagGTATGGATTCAGACTCTGCAACATTTGAGATGGATATTCTACTGGAACTTGGGTAGTGTAGACTTCTCCTGCACTGCTGATGGTGATCTAGCCAGCATGGTGCATCCACAGATTCAGgtaagcatactactggtaatcaggtgtgtctcatgcagtaatgtcacaac Alignment from Exonerate_coding2genome GCATGGACTTACCCGCC------TTTGAGATGGATATC-TACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG ccaggtcatgttgatgggagtgttatctcactttgtattttacatcacagGTATGGATTCAGACTCTGCAACATTTGAGATGGATATTCTACTGGAACTTGGGTAGTGTAGACTTCTCCTGCACTGCTGATGGTGATCTAGCCAGCATGGTGCATCCACAGATTCAGgtaagcatactactggtaatcaggtgtgtctcatgcagtaatgtcacaac Alignment from GeneWise GACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG ccaggtcatgttgatgggagtgttatctcactttgtattttacatcacaggtatggattcagACTCTGCAACATTTGAGATGGATATTCTACTGGAACTTGGGTAGTGTAGACTTCTCCTGCACTGCTGATGGTGATCTAGCCAGCATGGTGCATCCACAGATTCAGgtaagcatactactggtaatcaggtgtgtctcatgcagtaatgtcacaac #### Adrbk1_ID482_13 --> 1 - 0 Original Alignment aCACAGCCCCTTCCGGCAGCAC-AAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG ttctgatacacctccttttagcccaccttatatctgaatgctgtctctagcCACAGCCACTTCCAGCAGCACCAAGACAAAAGATACACATGACATCGACCGCATGACACTTACTATGgtgcggctaatagaatcattgaaaactatgtcaagctgagtcatcgatcc Alignment from CESAR aCACAGCCCCTTCCGGCAGCAC-AAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG ttctgatacacctccttttagcccaccttatatctgaatgctgtctctagcCACAGCCACTTCCAGCAGCACCAAGACAAAAGATACACATGACATCGACCGCATGACACTTACTATGgtgcggctaatagaatcattgaaaactatgtcaagctgagtcatcgatcc Alignment from Spaln_aa2Genome ACACAGCCCCTTCCGGCAGCAC-AAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG ttctgatacacctccttttagcccaccttatatctgaatgctgtctctagCCACAGCCACTTCCAGCAGCACcAAGACAAAAGATACACATGACATCGACCGCATGACACTTACTATGgtgcggctaatagaatcattgaaaactatgtcaagctgagtcatcgatcc Alignment from Spaln_nt2Genome ACACAGCCCCTTCCGGCAGCAC-AAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG ttctgatacacctccttttagcccaccttatatctgaatgctgtctctagCCACAGCCACTTCCAGCAGCACCAAGACAAAAGATACACATGACATCGACCGCATGACACTTACTATGgtgcggctaatagaatcattgaaaactatgtcaagctgagtcatcgatcc Alignment from Pairagon ACACAGCCCCTTCCGGCAGCA-CAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG ttctgatacacctccttttagcccaccttatatctgaatgctgtctctagCCACAGCCACTTCCAGCAGCACCAAGACAAAAGATACACATGACATCGACCGCATGACACTTACTATGgtgcggctaatagaatcattgaaaactatgtcaagctgagtcatcgatcc Alignment from Exonerate_protein2genome ACACAGCCCCTTCCGGCAGCAC-AAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG ttctgatacacctccttttagcccaccttatatctgaatgctgtctctagCCACAGCCACTTCCAGCAGCACCAAGACAAAAGATACACATGACATCGACCGCATGACACTTACTATGgtgcggctaatagaatcattgaaaactatgtcaagctgagtcatcgatcc Alignment from Exonerate_coding2genome ttctgatacacctccttttagcccaccttatatctgaatgctgtctctagccacagccacttccagcagcaccaagacaaaagatacacatgacatcgaccgcatgacacttactatggtgcggctaatagaatcattgaaaactatgtcaagctgagtcatcgatcc Alignment from GeneWise GCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG ttctgatacacctccttttagcccaccttatatctgaatgctgtctctagccacagccacttccagcagCACCAAGACAAAAGATACACATGACATCGACCGCATGACACTTACTATGgtgcggctaatagaatcattgaaaactatgtcaagctgagtcatcgatcc #### Adrbk1_ID483_12 --> 1 - 2 Original Alignment GTgt gGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGT-GCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGgg GGgtgtatgtaccttcagattcacttcacaaatcttcttcttaatttcaggGGCACACATGGGTACATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATAGCAGCCGCTGACTGGTTTTCCCTGAGCTGCATGCTCTTTAAATTGTTGCGAgggtgagtccaggtgggcaccctctttaaattgtgttgcaagggtgagccta Alignment from CESAR GTgt gGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGT-GCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGgg GGgtgtaaggaccttcagattcacttcacaaatcttcttcttaatttcaggGGCACACATGGGTACATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATAGCAGCCGCTGACTGGTTTTCCCTGAGCTGCATGCTCTTTAAATTGTTGCGAgggtgagtccaggtgggcaccctctttaaattgtgttgcaagggtgagccta Alignment from Spaln_aa2Genome GTGT GGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGT-GCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTgtatgtaccttcagattcacttcacaaatcttcttcttaatttcagGGGCACACATGGGTACATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATAGCAGCcGCTGACTGGTTTTCCCTGAGCTGCATGCTCTTTAAATTGTTGCGAGGgtgagtccaggtgggcaccctctttaaattgtgttgcaagggtgagccta Alignment from Spaln_nt2Genome GTGT GGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGT-GCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTgtatgtaccttcagattcacttcacaaatcttcttcttaatttcagGGGCACACATGGGTACATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATAGCAGCCGCTGACTGGTTTTCCCTGAGCTGCATGCTCTTTAAATTGTTGCGAGGgtgagtccaggtgggcaccctctttaaattgtgttgcaagggtgagccta Alignment from Pairagon GTGT GGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAG-TGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTgtatgtaccttcagattcacttcacaaatcttcttcttaatttcagGGGCACACATGGGTACATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATAGCAGCCGCTGACTGGTTTTCCCTGAGCTGCATGCTCTTTAAATTGTTGCGAGGgtgagtccaggtgggcaccctctttaaattgtgttgcaagggtgagccta Alignment from Exonerate_protein2genome GTGT GGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGT-GCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTgtatgtaccttcagattcacttcacaaatcttcttcttaatttcagGGGCACACATGGGTACATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATAGCAGCCGCTGACTGGTTTTCCCTGAGCTGCATGCTCTTTAAATTGTTGCGAGGgtgagtccaggtgggcaccctctttaaattgtgttgcaagggtgagccta Alignment from Exonerate_coding2genome GGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGT-GCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG gggtgtatgtaccttcagattcacttcacaaatcttcttcttaatttcaggGGCACACATGGGTACATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATAGCAGCCGCTGACTGGTTTTCCCTGAGCTGCATGCTCTTTAAATTGTTGCGAGGgtgagtccaggtgggcaccctctttaaattgtgttgcaagggtgagccta Alignment from GeneWise GTGT GGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGC-AGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTgtatgtaccttcagattcacttcacaaatcttcttcttaatttcagGGGCACACATGGGTACATAGCTCCCAAGGTACTTCAAAAAGGTATAGCCTATGATAGCAGCCGCTGACTGGTTTTCCCTGAGCTGCATGCTCTTTAAATTGTTGCGAGGgtgagtccaggtgggcaccctctttaaattgtgttgcaagggtgagccta #### Adrbk1_ID484_11 --> 0 - 2 Original Alignment CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAG-AGGCCTCATGCCAGTgt gGGC gtgaagagttggggtgagtttatgacacccccccccttttttttaaacagCCAGCTAACATTCTTCTAGAA---CATGGACATGTGAGAATTTCTGAGTTTAGCCTAGTATGCGACTTTTCCAAAAAACAGACCCCCTGCTGGGgtgtaaggaccttcagattcacttcaactgtgcctctgttgtgtttaggGGC Alignment from CESAR CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAG-AGGCCTCATGCCAGTgt gGGC gtgaagagttggggtgagtttatgacacccccccccttttttttaaacagCCAGCTAACATTCTTCTA---GAACATGGACATGTGAGAATTTCTGAGTTTAGCCTAGTATGCGACTTTTCCAAAAAACAGACCCCCTGCTGGGgtgtaaggaccttcagattcacttcacaaatcttcttcttaatttcaggGGC Alignment from Spaln_aa2Genome CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAG-AGGCCTCATGCCAGTGT GGGC gtgaagagttggggtgagtttatgacacccccccccttttttttaaacagCCAGCTAACATTCTTCTA---GAACATGGACATGTGAGAATTTCTGAGTTTAGCCTAGTATGCGACTTTTCCAAAAAAcAGACCCCCTGCTGGGGTgtaaggaccttcagattcacttcaactgtgcctctgttgtgtttagGGGC Alignment from Spaln_nt2Genome CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAG-AGGCCTCATGCCAGTGT GGGC gtgaagagttggggtgagtttatgacacccccccccttttttttaaacagCCAGCTAACATTCTTCT---AGAACATGGACATGTGAGAATTTCTGAGTTTAGCCTAGTATGCGACTTTTCCAAAAAACAGACCCCCTGCTGGGGTgtaaggaccttcagattcacttcaactgtgcctctgttgtgtttagGGGC Alignment from Pairagon CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAG-AGGCCTCATGCCAGTGT GGGC gtgaagagttggggtgagtttatgacacccccccccttttttttaaacagCCAGCTAACATTCTTCTA---GAACATGGACATGTGAGAATTTCTGAGTTTAGCCTAGTATGCGACTTTTCCAAAAAACAGACCCCCTGCTGGGGTgtaaggaccttcagattcacttcaactgtgcctctgttgtgtttagGGGC Alignment from Exonerate_protein2genome CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAG-AGGCCTCATGCCAGTGT GGGC gtgaagagttggggtgagtttatgacacccccccccttttttttaaacagCCAGCTAACATTCTTCTA---GAACATGGACATGTGAGAATTTCTGAGTTTAGCCTAGTATGCGACTTTTCCAAAAAACAGACCCCCTGCTGGGGTgtaaggaccttcagattcacttcaactgtgcctctgttgtgtttagGGGC Alignment from Exonerate_coding2genome GGC gtgaagagttggggtgagtttatgacacccccccccttttttttaaacagccagctaacattcttctagaacatggacatgtgagaatttctgagtttagcctagtatgcgacttttccaaaaaacagaccccctgctggggtgtaaggaccttcagattcacttcaactgtgcctctgttgtgtttaggGGC Alignment from GeneWise CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAG--AGGCCT---------------------------CAT---------GCCAGTGTG---------GGC gtgaagagttggggtgagtttatgacacccccccccttttttttaaacagCCAGCTAACATTCTTCTA---GAACATGGACATGTGAGAATTTCTGAGTTTAGCCTAGTATGCGACTTTTCCAAAAAACAGACCCCCTGCTGGGGTGTAAGGACCTTCAGATTCACTTCAACTGTGCCTCTGTTGTGTTTAGGGGC #### Adrbk1_ID485_10 --> 2 - 0 Original Alignment CATGAACg gtGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAA-CACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATggtgagtgagtttcataactgtgatttgggaattgctttgcagggGTAGAGTTGCATTATCACCTCTCGCAGCATGGGGTCTTCTCAGAAGCTGATATGTGCCTCTATGCTGCTGATATCATT------------CCACATGCACAATCATTTTGTAGTTTTCAGGGATTTAAAGgtaagttcataatgccagttgcctcatggggataggccaaaaaggatctg Alignment from CESAR CATGAACg gtGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATggtaagtgagtttcataactgtgatttgggaattgctttgcagggGTAGAGTTGCATTATCACCTCTCGCAGCATGGGGTCTTCTCAGAAGCTGATATGTGCCTCTATGCTGCTGATATCATT-----------CCACATGCACAATCATTTTGTAGTTTTCAGGGATTTAAAGgtaagttcataatgccagttgcctcatggggataggccaaaaaggatctg Alignment from Spaln_aa2Genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtgagtgagtttcataactgtgatttgggaattgctttgcagGGGTAGAGTTGCATTATCACCTCTCGCAGCATGGGGTCTTCTCAGAAGCTGATATGTGCCTCTATGCTGCTGATATCATTC-----------CACATGCACAATCATTTTGTAGTTTTCAGGGATTTAAAGgtaagttcataatgccagttgcctcatggggataggccaaaaaggatctg Alignment from Spaln_nt2Genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtgagtgagtttcataactgtgatttgggaattgctttgcagGGGTAGAGTTGCATTATCACCTCTCGCAGCATGGGGTCTTCTCAGAAGCTGATATGTGCCTCTATGCTGCTGATATCATTC-----------CACATGCACAATCATTTTGTAGTTTTCAGGGATTTAAAGgtaagttcataatgccagttgcctcatggggataggccaaaaaggatctg Alignment from Pairagon CATGAACGGTGGG------------------------------------------GACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGGTGAGTGAGTTTCATAACTGTGATTTGGGAATTGCTTTGCAGGGGTAGAGTTGCATTATCACCTCTCGCAGCATGGGGTCTTCTCAGAAGCTGATATGTGCCTCTATGCTGCTGATATCATTC-----------CACATGCACAATCATTTTGTAGTTTTCAGGGATTTAAAGgtaagttcataatgccagttgcctcatggggataggccaaaaaggatctg Alignment from Exonerate_protein2genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATG------CACAATCGCTTTGTAG TATGAATGgtgagtgagtttcataactgtgatttgggaattgctttgcagGGGTAGAGTTGCATTATCACCTCTCGCAGCATGGGGTCTTCTCAGAAGCTGATATGTGCCTCTATGCTGCTGATATCATTCCACATGCACAATCATTTTGTAGTTTTCAGGGATTTAAAGgtaagttcataatgccagttgcctcatggggataggccaaaaaggatctg Alignment from Exonerate_coding2genome tatgaatggtgagtgagtttcataactgtgatttgggaattgctttgcaggggtagagttgcattatcacctctcgcagcatggggtcttctcagaagctgatatgtgcctctatgctgctgatatcattccacatgcacaatcattttgtagttttcagggatttaaaggtaagttcataatgccagttgcctcatggggataggccaaaaaggatctg Alignment from GeneWise CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtgagtgagtttcataactgtgatttgggaattgctttgcagGGGTAGAGTTGCATTATCACCTCTCGCAGCATGGGGTCTTCTCAGAAGCTGATATGTGCCTCTATGCTGCTGATATCATTC-----------CACATGCACAATCATTTTGTAGTTTTCAGGGATTTAAAGgtaagttcataatgccagttgcctcatggggataggccaaaaaggatctg #### Adrbk1_ID486_9 --> 0 - 1 Original Alignment GACTGCCCCTTCATC-GTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACg gtGGGGAC cccctctcagttcaccttctataagacactcatccttctttgacccctagGACTGCTCCTTCACTCGTGTGCATGTCATATGCATTCCACACACCGGACAAGCTAGGCTTTATCCTGGATCTTATGAATggtaagtgagtttcataactgtttatgtaatcactgatcgcagggGTAGAG Alignment from CESAR GACTGCCCCTTC-ATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACg gtGGGGAC cccctctcagttcaccttctataagacactcatccttctttgacccctagGACTGCTCCTTCACTCGTGTGCATGTCATATGCATTCCACACACCGGACAAGCTAGGCTTTATCCTGGATCTTATGAATggtaagtgagtttcataactgtgatttgggaattgctttgcagggGTAGAG Alignment from Spaln_aa2Genome --------CCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGA cccctctcagttcaccttctataagacactcatccttctttgacccctagGACTGCTCCTTCACTCGTGTGCATGTCATATGCATTCCACACACCGGACAAGCTAGGCTTTATCCTGGATCTTATGAATGgtaagtgagtttcataactgtttatgtaatcactgatcgcagGGGTAGAG Alignment from Spaln_nt2Genome GACTGCCCCTTCA-TCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC cccctctcagttcaccttctataagacactcatccttctttgacccctagGACTGCTCCTTCACTCGTGTGCATGTCATATGCATTCCACACACCGGACAAGCTAGGCTTTATCCTGGATCTTATGAATGgtaagtgagtttcataactgtttatgtaatcactgatcgcagGGGTAGAG Alignment from Pairagon GACTGCCCCTTCA-TCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC cccctctcagttcaccttctataagacactcatccttctttgacccctagGACTGCTCCTTCACTCGTGTGCATGTCATATGCATTCCACACACCGGACAAGCTAGGCTTTATCCTGGATCTTATGAATGgtaagtgagtttcataactgtttatgtaatcactgatcgcagGGGTAGAG Alignment from Exonerate_protein2genome GACTGC-CCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC cccctctcagttcaccttctataagacactcatccttctttgacccctagGACTGCTCCTTCACTCGTGTGCATGTCATATGCATTCCACACACCGGACAAGCTAGGCTTTATCCTGGATCTTATGAATGgtaagtgagtttcataactgtttatgtaatcactgatcgcagGGGTAGAG Alignment from Exonerate_coding2genome cccctctcagttcaccttctataagacactcatccttctttgacccctaggactgctccttcactcgtgtgcatgtcatatgcattccacacaccggacaagctaggctttatcctggatcttatgaatggtaagtgagtttcataactgtttatgtaatcactgatcgcaggggtagag Alignment from GeneWise ----------------GTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC cccctctcagttcaccttctataagacactcatccttctttgacccctagGACTGCTCCTTCACTCGTGTGCATGTCATATGCATTCCACACACCGGACAAGCTAGGCTTTATCCTGGATCTTATGAATGgtaagtgagtttcataactgtttatgtaatcactgatcgcagGGGTAGAG #### Adrbk1_ID487_8 --> 1 - 0 Original Alignment gTACGCCATGAAGTGTCTG---GACAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCC-CTCGTCAGCACCGGG acccaccccatcaattgagctgtgctaccttcctttcctttccttttcaggCATGCTAAGAGATGTTTGGAAAACAAGAAACACATTAAGATGAAACAAGGAGAGACACTGGCCCTGAATAGGCGGATTATGCTATCACCTTGTGAGCACTGGTgtgagtcaagtggttaggtaaccccctctcagttcaccttctataagaca Alignment from CESAR gTACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCC-CTCGTCAGCACCGGG acccaccccatcaattgagctgtgctaccttcctttcctttccttttcaggCATGCTAAGAGATGTTTGGAAAACAAGAAACACATTAAGATGAAACAAGGAGAGACACTGGCCCTGAATAGGCGGATTATGCTATCACCTTGTGAGCACTGGTgtgagtcaagtggttaggtaaccccctctcagttcaccttctataagaca Alignment from Spaln_aa2Genome GTACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCC-CTCGTCAGCACCGGG acccaccccatcaattgagctgtgctaccttcctttcctttccttttcagGCATGCTAAGAGATGTTTGGAAAACAAGAAACACATTAAGATGAAACAAGGAGAGACACTGGCCCTGAATAGGCGGATTATGCTATCAcCTTGTGAGCACTGGTgtgagtcaagtggttaggtaaccccctctcagttcaccttctataagaca Alignment from Spaln_nt2Genome GTACGCCATGAAGTGTCTGGA---CAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTC-CCTCGTCAGCACCGGG acccaccccatcaattgagctgtgctaccttcctttcctttccttttcagGCATGCTAAGAGATGTTTGGAAAACAAGAAACACATTAAGATGAAACAAGGAGAGACACTGGCCCTGAATAGGCGGATTATGCTATCACCTTGTGAGCACTGGTgtgagtcaagtggttaggtaaccccctctcagttcaccttctataagaca Alignment from Pairagon GTACGCCATGAAGTGTCTGG---ACAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTC-CCTCGTCAGCACCGGG acccaccccatcaattgagctgtgctaccttcctttcctttccttttcagGCATGCTAAGAGATGTTTGGAAAACAAGAAACACATTAAGATGAAACAAGGAGAGACACTGGCCCTGAATAGGCGGATTATGCTATCACCTTGTGAGCACTGGTgtgagtcaagtggttaggtaaccccctctcagttcaccttctataagaca Alignment from Exonerate_protein2genome GTACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCC-CTCGTCAGCACCGGG acccaccccatcaattgagctgtgctaccttcctttcctttccttttcagGCATGCTAAGAGATGTTTGGAAAACAAGAAACACATTAAGATGAAACAAGGAGAGACACTGGCCCTGAATAGGCGGATTATGCTATCACCTTGTGAGCACTGGTgtgagtcaagtggttaggtaaccccctctcagttcaccttctataagaca Alignment from Exonerate_coding2genome acccaccccatcaattgagctgtgctaccttcctttcctttccttttcaggcatgctaagagatgtttggaaaacaagaaacacattaagatgaaacaaggagagacactggccctgaataggcggattatgctatcaccttgtgagcactggtgtgagtcaagtggttaggtaaccccctctcagttcaccttctataagaca Alignment from GeneWise GTACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTT-TCCCTCGTCAGCACCGGG acccaccccatcaattgagctgtgctaccttcctttcctttccttttcagGCATGCTAAGAGATGTTTGGAAAACAAGAAACACATTAAGATGAAACAAGGAGAGACACTGGCCCTGAATAGGCGGATTATGCTATCACCTTGTGAGCACTGGTgtgagtcaagtggttaggtaaccccctctcagttcaccttctataagaca #### Adrbk1_ID490_5 --> 0 - 2 Original Alignment CCATACATTGAGGAGATTTGTCAGAACCTCCGAGGGGAC-GTGTTCCAGAAGTTCATAGAGag aaaccagggctagccagaatggcgcaccctcacctggcctctccctacagCCTTACATTGAGGATATTTGTCAGAAACTCCGAAGGGATCTTGTTCCAAAAGTTTATAGAGaggtgggctggaggcacttctttgcctctacaaacagcttggtgaaggtctg Alignment from CESAR CCATACATTGAGGAGATTTGTCAGAACCTCCGAGGGGAC-GTGTTCCAGAAGTTCATAGAGag aaaccagggctagccagaatggcgcaccctcacctggcctctccctacagCCTTACATTGAGGATATTTGTCAGAAACTCCGAAGGGATCTTGTTCCAAAAGTTTATAGAGaggtgggctggaggcacttctttgcctctacaaacagcttggtgaaggtctg Alignment from Spaln_aa2Genome CCATACATTGAGGAGATTTGTCAGAACCTCCGAGGGGAC-GTGTTCCAGAAGTTCATAGAGAG aaaccagggctagccagaatggcgcaccctcacctggcctctccctacagCCTTACATTGAGGATATTTGTCAGAAACTCCGAAGGGATcTTGTTCCAAAAGTTTATAGAGAGgtgggctggaggcacttctttgcctctacaaacagcttggtgaaggtctg Alignment from Spaln_nt2Genome CCATACATTGAGGAGATTTGTCAGAACCTCCGAGGGGA-CGTGTTCCAGAAGTTCATAGAGAG aaaccagggctagccagaatggcgcaccctcacctggcctctccctacagCCTTACATTGAGGATATTTGTCAGAAACTCCGAAGGGATCTTGTTCCAAAAGTTTATAGAGAGgtgggctggaggcacttctttgcctctacaaacagcttggtgaaggtctg Alignment from Pairagon CCATACATTGAGGAGATTTGTCAGAACCTCCGAGGGGA-CGTGTTCCAGAAGTTCATAGAGAG aaaccagggctagccagaatggcgcaccctcacctggcctctccctacagCCTTACATTGAGGATATTTGTCAGAAACTCCGAAGGGATCTTGTTCCAAAAGTTTATAGAGAGgtgggctggaggcacttctttgcctctacaaacagcttggtgaaggtctg Alignment from Exonerate_protein2genome CCATACATTGAGGAGATTTGTCAGAACCTCCGAGGGGAC-GTGTTCCAGAAGTTCATAGAGAG aaaccagggctagccagaatggcgcaccctcacctggcctctccctacagCCTTACATTGAGGATATTTGTCAGAAACTCCGAAGGGATCTTGTTCCAAAAGTTTATAGAGAGgtgggctggaggcacttctttgcctctacaaacagcttggtgaaggtctg Alignment from Exonerate_coding2genome aaaccagggctagccagaatggcgcaccctcacctggcctctccctacagccttacattgaggatatttgtcagaaactccgaagggatcttgttccaaaagtttatagagaggtgggctggaggcacttctttgcctctacaaacagcttggtgaaggtctg Alignment from GeneWise CCATACATTGAGGAGATTTGTCAGAACCTCCGAGGGGAC-GTGTTCCAGAAGTTCATAGAGAG aaaccagggctagccagaatggcgcaccctcacctggcctctccctacagCCTTACATTGAGGATATTTGTCAGAAACTCCGAAGGGATCTTGTTCCAAAAGTTTATAGAGAGgtgggctggaggcacttctttgcctctacaaacagcttggtgaaggtctg #### Adrbk1_ID492_3 --> 0 - 0 Original Alignment ATCAAGAAATATGAGAAGCTGGAGACAGAGGAG-GAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccccacacaaccagcctcaaacagtgataatcatgttttttaattcctagATTAAAAAATATGCAAAGCTGGAGACAGAGGAGCGAGTGTGTTGTCCGCAGCCGAGAGATCTTTGAGTCCTACATTATGAAAGAGCTACTTGCATGCTCACATgtaagggcagaatttatctctcataagaagacatttatccagccaaaaaa Alignment from CESAR ATCAAGAAATATGAGAAGCTGGAGACAGAGGAG-GAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccccacacaaccagcctcaaacagtgataatcatgttttttaattcctagATTAAAAAATATGCAAAGCTGGAGACAGAGGAGCGAGTGTGTTGTCCGCAGCCGAGAGATCTTTGAGTCCTACATTATGAAAGAGCTACTTGCATGCTCACATgtaagggcagaatttatctctcataagaagacatttatccagccaaaaaa Alignment from Spaln_aa2Genome ATCAAGAAATATGAGAAGCTGGAGACAGAGGAG-GAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccccacacaaccagcctcaaacagtgataatcatgttttttaattcctagATTAAAAAATATGCAAAGCTGGAGACAGAGGAGcGAGTGTGTTGTCCGCAGCCGAGAGATCTTTGAGTCCTACATTATGAAAGAGCTACTTGCATGCTCACATgtaagggcagaatttatctctcataagaagacatttatccagccaaaaaa Alignment from Spaln_nt2Genome ATCAAGAAATATGAGAAGCTGGAGACAGAGGAG-GAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccccacacaaccagcctcaaacagtgataatcatgttttttaattcctagATTAAAAAATATGCAAAGCTGGAGACAGAGGAGCGAGTGTGTTGTCCGCAGCCGAGAGATCTTTGAGTCCTACATTATGAAAGAGCTACTTGCATGCTCACATgtaagggcagaatttatctctcataagaagacatttatccagccaaaaaa Alignment from Pairagon ATCAAGAAATATGAGAAGCTGGAGACAGAGGAG-GAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccccacacaaccagcctcaaacagtgataatcatgttttttaattcctagATTAAAAAATATGCAAAGCTGGAGACAGAGGAGCGAGTGTGTTGTCCGCAGCCGAGAGATCTTTGAGTCCTACATTATGAAAGAGCTACTTGCATGCTCACATgtaagggcagaatttatctctcataagaagacatttatccagccaaaaaa Alignment from Exonerate_protein2genome ATCAAGAAATATGAGAAGCTGGAGACAGAGGAG-GAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccccacacaaccagcctcaaacagtgataatcatgttttttaattcctagATTAAAAAATATGCAAAGCTGGAGACAGAGGAGCGAGTGTGTTGTCCGCAGCCGAGAGATCTTTGAGTCCTACATTATGAAAGAGCTACTTGCATGCTCACATgtaagggcagaatttatctctcataagaagacatttatccagccaaaaaa Alignment from Exonerate_coding2genome ccccacacaaccagcctcaaacagtgataatcatgttttttaattcctagattaaaaaatatgcaaagctggagacagaggagcgagtgtgttgtccgcagccgagagatctttgagtcctacattatgaaagagctacttgcatgctcacatgtaagggcagaatttatctctcataagaagacatttatccagccaaaaaa Alignment from GeneWise ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAA-CGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT ccccacacaaccagcctcaaacagtgataatcatgttttttaattcctagATTAAAAAATATGCAAAGCTGGAGACAGAGGAGCGAGTGTGTTGTCCGCAGCCGAGAGATCTTTGAGTCCTACATTATGAAAGAGCTACTTGCATGCTCACATgtaagggcagaatttatctctcataagaagacatttatccagccaaaaaa #### Afap1l2_ID12248_15 --> 0 - 0 Original Alignment GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAAC-AGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG tagcagaccagcactagcactccagagatttcacttggtctccttttcagGTGGAACCTGCTGAAGAAGAGGCT---ACTGTTGACACGAACCAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCAGAGTCCATCACTACCCGAGAGGAGGCCCACACA---GCACCAGGAGATCCTGAGTTGCAGCAGgtaaggaagtggacacactacattacctgctcttcaaaccacctggaagt Alignment from CESAR GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAAC-AGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG tagcagaccagcactagcactccagagatttcacttggtctccttttcagGTGGAACCTGCTGAAGAAGAGGCT---ACTGTTGACACGAACCAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCAGAGTCCATCACTACCCGAGAGGAGGCCCACACA---GCACCAGGAGATCCTGAGTTGCAGCAGgtaaggaagtggacacactacattacctgctcttcaaaccacctggaagt Alignment from Spaln_aa2Genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAAC-AGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG tagcagaccagcactagcactccagagatttcacttggtctccttttcagGTGGAACCTGCTGAAGAAGAGGCT---ACTGTTGACACGAACcAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCAGAGTCCATCACTACCCGAGAGGAGGCCCACACA---GCACCAGGAGATCCTGAGTTGCAGCAGgtaaggaagtggacacactacattacctgctcttcaaaccacctggaagt Alignment from Spaln_nt2Genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAAC-AGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG tagcagaccagcactagcactccagagatttcacttggtctccttttcagGTGGAACCTGCTGAAGAAGAGG---CTACTGTTGACACGAACCAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCAGAGTCCATCACTACCCGAGAGGAGGCCCACACAG---CACCAGGAGATCCTGAGTTGCAGCAGgtaaggaagtggacacactacattacctgctcttcaaaccacctggaagt Alignment from Pairagon GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCT-------------AACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG tagcagaccagcactagcactccagagatttcacttggtctccttttcagGTGGAACCTGCTGAAGAA---------------GAGGCTACTGTTGACACGAACCAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCAGAGTCCATCACTACCCGAGAGGAGGCCCACACAG---CACCAGGAGATCCTGAGTTGCAGCAGgtaaggaagtggacacactacattacctgctcttcaaaccacctggaagt Alignment from Exonerate_protein2genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAAC-AGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG tagcagaccagcactagcactccagagatttcacttggtctccttttcagGTGGAACCTGCTGAAGAAGAGGCT---ACTGTTGACACGAACCAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCAGAGTCCATCACTACCCGAGAGGAGGCCCACACA---GCACCAGGAGATCCTGAGTTGCAGCAGgtaaggaagtggacacactacattacctgctcttcaaaccacctggaagt Alignment from Exonerate_coding2genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAAC-AGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG tagcagaccagcactagcactccagagatttcacttggtctccttttcagGTGGAACCTGCTGAAGAAGAGGCT---ACTGTTGACACGAACCAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCAGAGTCCATCACTACCCGAGAGGAGGCCCACACA---GCACCAGGAGATCCTGAGTTGCAGCAGgtaaggaagtggacacactacattacctgctcttcaaaccacctggaagt Alignment from GeneWise GCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG tagcagaccagcactagcactccagagatttcacttggtctccttttcaggtggaacctgctgaagAAGAGGCTACTGTTGACACGAACCAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCAGAGTCCATCACTACCCGAGAGGAGGCCCACACA---GCACCAGGAGATCCTGAGTTGCAGCAGgtaaggaagtggacacactacattacctgctcttcaaaccacctggaagt #### Afap1l2_ID12252_11 --> 2 - 1 Original Alignment tcAAGAAGAAATGCTCTGCT-GGCCTCAAGCTGAGCAACCTTATGAACCTGGGCAGGAAGAAATCTACCTCGCTGGAGCCCCCGGAGAGATCCCTTGAGACATCCa gcttagaataaattccaagctctgattcaccctttttgttctggggccagtgAAGAAGCGGTACTCGGCCCGGTGTAAAGCTGAGTAACCTTATGAACCTGGGCCGGAAAAAATCTACATCACTAGAGGCCCCAGAGAGGTCCCTTGAAACATCTggtaagccgacctctagtaatccctgaggacctgagcagggccactggttg Alignment from CESAR tcAAGAAGAAATGCTCTGCT-GGCCTCAAGCTGAGCAACCTTATGAACCTGGGCAGGAAGAAATCTACCTCGCTGGAGCCCCCGGAGAGATCCCTTGAGACATCCa gcttagaataaattccaagctctgattcaccctttttgttctggggccagtgAAGAAGCGGTACTCGGCCCGGTGTAAAGCTGAGTAACCTTATGAACCTGGGCCGGAAAAAATCTACATCACTAGAGGCCCCAGAGAGGTCCCTTGAAACATCTggtaagccgacctctagtaatccctgaggacctgagcagggccactggttg Alignment from Spaln_aa2Genome TCAAGAAGAAATGCTCTGCT-GGCCTCAAGCTGAGCAACCTTATGAACCTGGGCAGGAAGAAATCTACCTCGCTGGAGCCCCCGGAGAGATCCCTTGAGACATCCA gcttagaataaattccaagctctgattcaccctttttgttctggggccagTGAAGAAGCGGTACTCGGCCcGGTGTAAAGCTGAGTAACCTTATGAACCTGGGCCGGAAAAAATCTACATCACTAGAGGCCCCAGAGAGGTCCCTTGAAACATCTGgtaagccgacctctagtaatccctgaggacctgagcagggccactggttg Alignment from Spaln_nt2Genome TCAAGAAGAAATGCTCTGCT-GGCCTCAAGCTGAGCAACCTTATGAACCTGGGCAGGAAGAAATCTACCTCGCTGGAGCCCCCGGAGAGATCCCTTGAGACATCCA gcttagaataaattccaagctctgattcaccctttttgttctggggccagTGAAGAAGCGGTACTCGGCCCGGTGTAAAGCTGAGTAACCTTATGAACCTGGGCCGGAAAAAATCTACATCACTAGAGGCCCCAGAGAGGTCCCTTGAAACATCTGgtaagccgacctctagtaatccctgaggacctgagcagggccactggttg Alignment from Pairagon TCAAGAAGAAATGCTCTG-CTGGCCTCAAGCTGAGCAACCTTATGAACCTGGGCAGGAAGAAATCTACCTCGCTGGAGCCCCCGGAGAGATCCCTTGAGACATCCA gcttagaataaattccaagctctgattcaccctttttgttctggggccagTGAAGAAGCGGTACTCGGCCCGGTGTAAAGCTGAGTAACCTTATGAACCTGGGCCGGAAAAAATCTACATCACTAGAGGCCCCAGAGAGGTCCCTTGAAACATCTGgtaagccgacctctagtaatccctgaggacctgagcagggccactggttg Alignment from Exonerate_protein2genome TCAAGAAGAAATGCTCTGCT-GGCCTCAAGCTGAGCAACCTTATGAACCTGGGCAGGAAGAAATCTACCTCGCTGGAGCCCCCGGAGAGATCCCTTGAGACATCCA gcttagaataaattccaagctctgattcaccctttttgttctggggccagTGAAGAAGCGGTACTCGGCCCGGTGTAAAGCTGAGTAACCTTATGAACCTGGGCCGGAAAAAATCTACATCACTAGAGGCCCCAGAGAGGTCCCTTGAAACATCTGgtaagccgacctctagtaatccctgaggacctgagcagggccactggttg Alignment from Exonerate_coding2genome gcttagaataaattccaagctctgattcaccctttttgttctggggccagtgaagaagcggtactcggcccggtgtaaagctgagtaaccttatgaacctgggccggaaaaaatctacatcactagaggccccagagaggtcccttgaaacatctggtaagccgacctctagtaatccctgaggacctgagcagggccactggttg Alignment from GeneWise TCAAGAAGAAATGCTCT-GCTGGCCTCAAGCTGAGCAACCTTATGAACCTGGGCAGGAAGAAATCTACCTCGCTGGAGCCCCCGGAGAGATCCCTTGAGACATCCA gcttagaataaattccaagctctgattcaccctttttgttctggggccagTGAAGAAGCGGTACTCGGCCCGGTGTAAAGCTGAGTAACCTTATGAACCTGGGCCGGAAAAAATCTACATCACTAGAGGCCCCAGAGAGGTCCCTTGAAACATCTGgtaagccgacctctagtaatccctgaggacctgagcagggccactggttg #### Afap1l2_ID12253_10 --> 0 - 1 Original Alignment CCAGACATAGCTGAGAAGTACCTGTCAGCAGCG-GAGTACGGGATCACCATCAACGGCCACCCTGAGATCCCAGAGACCAAAGATg ttgtctttgcagtatcataaaccatttaagatcatggctcactcttgcagTCTGATATTGCTGCAAAATACCTCTCAGCAGCACGAGTACGGAATTACCATCAATGGTCACCCTGAGATTCCAGAAACTAAAGATggttggtcagtaaggatccccaaagggcttttttaagcgtgtaggccagcc Alignment from CESAR CCAGACATAGCTGAGAAGTACCTGTCAGCAGCG-GAGTACGGGATCACCATCAACGGCCACCCTGAGATCCCAGAGACCAAAGATg ttgtctttgcagtatcataaaccatttaagatcatggctcactcttgcagTCTGATATTGCTGCAAAATACCTCTCAGCAGCACGAGTACGGAATTACCATCAATGGTCACCCTGAGATTCCAGAAACTAAAGATggttggtcagtaaggatccccaaagggcttttttaagcgtgtaggccagcc Alignment from Spaln_aa2Genome CCAGACATAGCTGAGAAGTACCTGTCAGCAGCG-GAGTACGGGATCACCATCAACGGCCACCCTGAGATCCCAGAGACCAAAGATG ttgtctttgcagtatcataaaccatttaagatcatggctcactcttgcagTCTGATATTGCTGCAAAATACCTCTCAGCAGCAcGAGTACGGAATTACCATCAATGGTCACCCTGAGATTCCAGAAACTAAAGATGgttggtcagtaaggatccccaaagggcttttttaagcgtgtaggccagcc Alignment from Spaln_nt2Genome CCAGACATAGCTGAGAAGTACCTGTCAGCAGCG-GAGTACGGGATCACCATCAACGGCCACCCTGAGATCCCAGAGACCAAAGATG ttgtctttgcagtatcataaaccatttaagatcatggctcactcttgcagTCTGATATTGCTGCAAAATACCTCTCAGCAGCACGAGTACGGAATTACCATCAATGGTCACCCTGAGATTCCAGAAACTAAAGATGgttggtcagtaaggatccccaaagggcttttttaagcgtgtaggccagcc Alignment from Pairagon CCAGACATAGCTGAGAAGTACCTGTCAGCAGCG-GAGTACGGGATCACCATCAACGGCCACCCTGAGATCCCAGAGACCAAAGATG ttgtctttgcagtatcataaaccatttaagatcatggctcactcttgcagTCTGATATTGCTGCAAAATACCTCTCAGCAGCACGAGTACGGAATTACCATCAATGGTCACCCTGAGATTCCAGAAACTAAAGATGgttggtcagtaaggatccccaaagggcttttttaagcgtgtaggccagcc Alignment from Exonerate_protein2genome CCAGACATAGCTGAGAAGTACCTGTCAGCAGCG-GAGTACGGGATCACCATCAACGGCCACCCTGAGATCCCAGAGACCAAAGATG ttgtctttgcagtatcataaaccatttaagatcatggctcactcttgcagTCTGATATTGCTGCAAAATACCTCTCAGCAGCACGAGTACGGAATTACCATCAATGGTCACCCTGAGATTCCAGAAACTAAAGATGgttggtcagtaaggatccccaaagggcttttttaagcgtgtaggccagcc Alignment from Exonerate_coding2genome ttgtctttgcagtatcataaaccatttaagatcatggctcactcttgcagtctgatattgctgcaaaatacctctcagcagcacgagtacggaattaccatcaatggtcaccctgagattccagaaactaaagatggttggtcagtaaggatccccaaagggcttttttaagcgtgtaggccagcc Alignment from GeneWise CCAGACATAGCTGAGAAGTACCTGTCAGCA-GCGGAGTACGGGATCACCATCAACGGCCACCCTGAGATCCCAGAGACCAAAGATG ttgtctttgcagtatcataaaccatttaagatcatggctcactcttgcagTCTGATATTGCTGCAAAATACCTCTCAGCAGCACGAGTACGGAATTACCATCAATGGTCACCCTGAGATTCCAGAAACTAAAGATGgttggtcagtaaggatccccaaagggcttttttaagcgtgtaggccagcc #### Aldh3b2_ID240_6 --> 0 - 1 Original Alignment GGACCAG AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAG-CTGCTGGAACACAAATTTGACTATATCTTCTTCACAg TGATCAAgtaaggttgattgtgcaggttcccacatcctttgactcctcagAGTTGTTTTGCTGTGATGCTGGGAAGTCCTGATGAGACACGGCAACCTGCTGGAACACAGATTTGATTATATCTTTTTCATTggtaaatctgggtccaaggcctgccacagagcagcacgtgaggtgcctcta Alignment from CESAR GGACCAG AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAG-CTGCTGGAACACAAATTTGACTATATCTTCTTCACAg TGATCAAgtaaggttgattgtgcaggttcccacatcctttgactcctcagAGTTGTTTTGCTGTGATGCTGGGAAGTCCTGATGAGACACGGCAACCTGCTGGAACACAGATTTGATTATATCTTTTTCATTggtaaatctgggtccaaggcctgccacagagcagcacgtgaggtgcctcta Alignment from Spaln_aa2Genome GGACCAG AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAG-CTGCTGGAACACAAATTTGACTATATCTTCTTCACAG TGATCAAgtaaggttgattgtgcaggttcccacatcctttgactcctcagAGTTGTTTTGCTGTGATGCTGGGAAGTCCTGATGAGACACGGCAAcCTGCTGGAACACAGATTTGATTATATCTTTTTCATTGgtaaatctgggtccaaggcctgccacagagcagcacgtgaggtgcctcta Alignment from Spaln_nt2Genome GGACCAG AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGC-TGCTGGAACACAAATTTGACTATATCTTCTTCACAG TGATCAAgtaaggttgattgtgcaggttcccacatcctttgactcctcagAGTTGTTTTGCTGTGATGCTGGGAAGTCCTGATGAGACACGGCAACCTGCTGGAACACAGATTTGATTATATCTTTTTCATTGgtaaatctgggtccaaggcctgccacagagcagcacgtgaggtgcctcta Alignment from Pairagon GGACCAG AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAG-CTGCTGGAACACAAATTTGACTATATCTTCTTCACAG TGATCAAgtaaggttgattgtgcaggttcccacatcctttgactcctcagAGTTGTTTTGCTGTGATGCTGGGAAGTCCTGATGAGACACGGCAACCTGCTGGAACACAGATTTGATTATATCTTTTTCATTGgtaaatctgggtccaaggcctgccacagagcagcacgtgaggtgcctcta Alignment from Exonerate_protein2genome GGACCAG AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAG-CTGCTGGAACACAAATTTGACTATATCTTCTTCACAG TGATCAAgtaaggttgattgtgcaggttcccacatcctttgactcctcagAGTTGTTTTGCTGTGATGCTGGGAAGTCCTGATGAGACACGGCAACCTGCTGGAACACAGATTTGATTATATCTTTTTCATTGgtaaatctgggtccaaggcctgccacagagcagcacgtgaggtgcctcta Alignment from Exonerate_coding2genome CAGAGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAG-CTGCTGGAACACAAATTTGACTATATCTTCTTCACAG tgatcaagtaaggttgattgtgcaggttcccacatcctttgactcctCAGAGTTGTTTTGCTGTGATGCTGGGAAGTCCTGATGAGACACGGCAACCTGCTGGAACACAGATTTGATTATATCTTTTTCATTGgtaaatctgggtccaaggcctgccacagagcagcacgtgaggtgcctcta Alignment from GeneWise GGACCAG AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAG-CTGCTGGAACACAAATTTGACTATATCTTCTTCACAG TGATCAAgtaaggttgattgtgcaggttcccacatcctttgactcctcagAGTTGTTTTGCTGTGATGCTGGGAAGTCCTGATGAGACACGGCAACCTGCTGGAACACAGATTTGATTATATCTTTTTCATTGgtaaatctgggtccaaggcctgccacagagcagcacgtgaggtgcctcta #### Aldh3b2_ID241_7 --> 2 - 1 Original Alignment gaAGTCCTCGGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTGACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAGC-CAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTg gcatgctaggtaagtaggtgcctccagttacaatattttcgctttttcaggaAGCCCTCGAGTAGGCAAGATGGTGATGACGGCTATGGCCAACCACCTAACCCCCACTTCCCTGCAACTAGGAGGCAAGAACCCCTGCTAT---GATGATAACTGTGATCCGCAGACAGTGACCAACAGAGTGGCCTGGTTCCACTATTTTAATGCCGGGCAAACCTGCGTTGCACCAGAATACATCTTATGTAGCCCAAGAAATGCAGGAACAGTTAGTT------TTGCAAAATTCTATCACTCGTTTT------TACAATCCACAGACCCCACCTAACCTAGGAAGGATGATTAATCAGAAGCATTTCAAAAGGCTTCCAGGACTGCTGGGGTGTGGCCGTGTGGCCATCAGTCTGAAGAGTGATGAGGGAGGCTGTTGCATTggtttgcccttgccatttctgcggcccatcagaggggccatgccatctgca Alignment from CESAR gaAGTCCTCGGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTGACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAGC-CAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTg gcatgctaggtaagtaggtgcctccagttacaatattttcgctttttcaggaAGCCCTCGAGTAGGCAAGATGGTGATGACGGCTATGGCCAACCACCTAACCCCCACTTCCCTGCAACTAGGAGGCAAGAACCCCTGCTAT---GATGATAACTGTGATCCGCAGACAGTGACCAACAGAGTGGCCTGGTTCCACTATTTTAATGCCGGGCAAACCTGCGTTGCACCAGAATACATCTTATGTAGCCCAAGAAATGCAGGAACAGTTAGTT------TTGCAAAATTCTATCACTCGTTTTTAC------AATCCACAGACCCCACCTAACCTAGGAAGGATGATTAATCAGAAGCATTTCAAAAGGCTTCCAGGACTGCTGGGGTGTGGCCGTGTGGCCATCAGTCTGAAGAGTGATGAGGGAGGCTGTTGCATTggtttgcccttgccatttctgcggcccatcagaggggccatgccatctgca Alignment from Spaln_aa2Genome GAAGTCCTCGGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTGACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAGC-CAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTG gcatgctaggtaagtaggtgcctccagttacaatattttcgctttttcagGAAGCCCTCGAGTAGGCAAGATGGTGATGACGGCTATGGCCAACCACCTAACCCCCACTTCCCTGCAACTAGGAGGCAAGAACCCCTGCTATGAT---GATAACTGTGATCCGCAGACAGTGACCAACAGAGTGGCCTGGTTCCACTATTTTAATGCCGGGCAAACCTGCGTTGCACCAGAATACATCTTATGTAGCcCAAGAAATGCAGGAACAGTTAGTT------TTGCAAAATTCTATCACTCGTTTTTAC------AATCCACAGACCCCACCTAACCTAGGAAGGATGATTAATCAGAAGCATTTCAAAAGGCTTCCAGGACTGCTGGGGTGTGGCCGTGTGGCCATCAGTCTGAAGAGTGATGAGGGAGGCTGTTGCATTGgtttgcccttgccatttctgcggcccatcagaggggccatgccatctgca Alignment from Spaln_nt2Genome GAAGTCCTCGGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTGACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAGCC-AGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTG gcatgctaggtaagtaggtgcctccagttacaatattttcgctttttcagGAAGCCCTCGAGTAGGCAAGATGGTGATGACGGCTATGGCCAACCACCTAACCCCCACTTCCCTGCAACTAGGAGGCAAGAACCCCTGCTAT---GATGATAACTGTGATCCGCAGACAGTGACCAACAGAGTGGCCTGGTTCCACTATTTTAATGCCGGGCAAACCTGCGTTGCACCAGAATACATCTTATGTAGCCCAAGAAATGCAGGAACAGTTAGT------TTTGCAAAATTCTATCACTCGTTTTT------ACAATCCACAGACCCCACCTAACCTAGGAAGGATGATTAATCAGAAGCATTTCAAAAGGCTTCCAGGACTGCTGGGGTGTGGCCGTGTGGCCATCAGTCTGAAGAGTGATGAGGGAGGCTGTTGCATTGgtttgcccttgccatttctgcggcccatcagaggggccatgccatctgca Alignment from Pairagon GAAGTCCTCGGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTGACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAG-CCAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTG gcatgctaggtaagtaggtgcctccagttacaatattttcgctttttcagGAAGCCCTCGAGTAGGCAAGATGGTGATGACGGCTATGGCCAACCACCTAACCCCCACTTCCCTGCAACTAGGAGGCAAGAACCCCTGCTAT---GATGATAACTGTGATCCGCAGACAGTGACCAACAGAGTGGCCTGGTTCCACTATTTTAATGCCGGGCAAACCTGCGTTGCACCAGAATACATCTTATGTAGCCCAAGAAATGCAGGAACAGTTAGT------TTTGCAAAATTCTATCACTCGTTTTT------ACAATCCACAGACCCCACCTAACCTAGGAAGGATGATTAATCAGAAGCATTTCAAAAGGCTTCCAGGACTGCTGGGGTGTGGCCGTGTGGCCATCAGTCTGAAGAGTGATGAGGGAGGCTGTTGCATTGgtttgcccttgccatttctgcggcccatcagaggggccatgccatctgca Alignment from Exonerate_protein2genome GAAGTCCTCGGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTGACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAGC-CAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTG gcatgctaggtaagtaggtgcctccagttacaatattttcgctttttcagGAAGCCCTCGAGTAGGCAAGATGGTGATGACGGCTATGGCCAACCACCTAACCCCCACTTCCCTGCAACTAGGAGGCAAGAACCCCTGCTAT---GATGATAACTGTGATCCGCAGACAGTGACCAACAGAGTGGCCTGGTTCCACTATTTTAATGCCGGGCAAACCTGCGTTGCACCAGAATACATCTTATGTAGCCCAAGAAATGCAGGAACAGTTAGTT------TTGCAAAATTCTATCACTCGTTTTTAC------AATCCACAGACCCCACCTAACCTAGGAAGGATGATTAATCAGAAGCATTTCAAAAGGCTTCCAGGACTGCTGGGGTGTGGCCGTGTGGCCATCAGTCTGAAGAGTGATGAGGGAGGCTGTTGCATTGgtttgcccttgccatttctgcggcccatcagaggggccatgccatctgca Alignment from Exonerate_coding2genome GAAGTCCTCGGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTGACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAGC-CAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTG gcatgctaggtaagtaggtgcctccagttacaatattttcgctttttcagGAAGCCCTCGAGTAGGCAAGATGGTGATGACGGCTATGGCCAACCACCTAACCCCCACTTCCCTGCAACTAGGAGGCAAGAACCCCTGCTAT---GATGATAACTGTGATCCGCAGACAGTGACCAACAGAGTGGCCTGGTTCCACTATTTTAATGCCGGGCAAACCTGCGTTGCACCAGAATACATCTTATGTAGCCCAAGAAATGCAGGAACAGTTAGTT------TTGCAAAATTCTATCACTCGTTTTTAC------AATCCACAGACCCCACCTAACCTAGGAAGGATGATTAATCAGAAGCATTTCAAAAGGCTTCCAGGACTGCTGGGGTGTGGCCGTGTGGCCATCAGTCTGAAGAGTGATGAGGGAGGCTGTTGCATTGgtttgcccttgccatttctgcggcccatcagaggggccatgccatctgca Alignment from GeneWise TCCTCGGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTGACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGT-AGCCAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTG gcatgctaggtaagtaggtgcctccagttacaatattttcgctttttcaggaagCCCTCGAGTAGGCAAGATGGTGATGACGGCTATGGCCAACCACCTAACCCCCACTTCCCTGCAACTAGGAGGCAAGAACCCCTGCTAT---GATGATAACTGTGATCCGCAGACAGTGACCAACAGAGTGGCCTGGTTCCACTATTTTAATGCCGGGCAAACCTGCGTTGCACCAGAATACATCTTATGTAGCCCAAGAAATGCAGGAACAGTTAGTT------TTGCAAAATTCTATCACTCGTTTTTAC------AATCCACAGACCCCACCTAACCTAGGAAGGATGATTAATCAGAAGCATTTCAAAAGGCTTCCAGGACTGCTGGGGTGTGGCCGTGTGGCCATCAGTCTGAAGAGTGATGAGGGAGGCTGTTGCATTGgtttgcccttgccatttctgcggcccatcagaggggccatgccatctgca #### Aldh3b2_ID242_8 --> 2 - 0 Original Alignment ccCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAG-ATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcttctgtacagtcttcattctgcctgcctgccctactctagcgCCGACAGATCTAGTAGATGTTCATGCAACAGAGCCCCTTATGCAAGAGGAACATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAGCTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCACTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgagttggtggtgagacaagtcaagtgtggccagactggtcagaccttt Alignment from CESAR ccCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAG-ATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcttctgtacagtcttcattctgcctgcctgccctactctagcgCCGACAGATCTAGTAGATGTTCATGCAACAGAGCCCCTTATGCAAGAGGAACATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAGCTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCACTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgagttggtggtgagacaagtcaagtgtggccagactggtcagaccttt Alignment from Spaln_aa2Genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAG-ATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcttctgtacagtcttcattctgcctgcctgccctactctagCGCCGACAGATCTAGTAGATGTTCATGCAACAGAGCCCCTTATGCAAGAGGAAcATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAGCTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCACTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgagttggtggtgagacaagtcaagtgtggccagactggtcagaccttt Alignment from Spaln_nt2Genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAG-ATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcttctgtacagtcttcattctgcctgcctgccctactctagCGCCGACAGATCTAGTAGATGTTCATGCAACAGAGCCCCTTATGCAAGAGGAACATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAGCTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCACTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgagttggtggtgagacaagtcaagtgtggccagactggtcagaccttt Alignment from Pairagon CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAG-ATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcttctgtacagtcttcattctgcctgcctgccctactctagCGCCGACAGATCTAGTAGATGTTCATGCAACAGAGCCCCTTATGCAAGAGGAACATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAGCTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCACTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgagttggtggtgagacaagtcaagtgtggccagactggtcagaccttt Alignment from Exonerate_protein2genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAG-ATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcttctgtacagtcttcattctgcctgcctgccctactctagCGCCGACAGATCTAGTAGATGTTCATGCAACAGAGCCCCTTATGCAAGAGGAACATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAGCTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCACTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgagttggtggtgagacaagtcaagtgtggccagactggtcagaccttt Alignment from Exonerate_coding2genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAG-ATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcttctgtacagtcttcattctgcctgcctgccctactctagCGCCGACAGATCTAGTAGATGTTCATGCAACAGAGCCCCTTATGCAAGAGGAACATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAGCTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCACTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgagttggtggtgagacaagtcaagtgtggccagactggtcagaccttt Alignment from GeneWise CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAG-ATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcttctgtacagtcttcattctgcctgcctgccctactctagCGCCGACAGATCTAGTAGATGTTCATGCAACAGAGCCCCTTATGCAAGAGGAACATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAGCTTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCACTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgagttggtggtgagacaagtcaagtgtggccagactggtcagaccttt #### Aldh3b2_ID243_9 --> 0 - 1 Original Alignment GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCA-GCTCTGCCTTTGGGGGGAGTTg ggcaggcctggtcctgtgtatgcctgtagcctctcccttgcaccctgcagGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGGTTTGGAGGCAATGAGGGATTCCTATACCTAACACTGCCTCGCATTGCCTTTGGCTGGGGTTggtaagatcttacatgctattgccattggagagttatgttccctcggtata Alignment from CESAR GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCA-GCTCTGCCTTTGGGGGGAGTTg ggcaggcctggtcctgtgtatgcctgtagcctctcccttgcaccctgcagGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGGTTTGGAGGCAATGAGGGATTCCTATACCTAACACTGCCTCGCATTGCCTTTGGCTGGGGTTggtaagatcttacatgctattgccattggagagttatgttccctcggtata Alignment from Spaln_aa2Genome GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGA- ggcaggcctggtcctgtgtatgcctgtagcctctcccttgcaccctgcagGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGGTTTGGAGGCAATGAGGGATTCCTATACCTAACACTGCCTCGCATTGCCTTTGGCTGGGgttggtaagatcttacatgctattgccattggagagttatgttccctcggtata Alignment from Spaln_nt2Genome GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCA-GCTCTGCCTTTGGGGGGAGTTG ggcaggcctggtcctgtgtatgcctgtagcctctcccttgcaccctgcagGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGGTTTGGAGGCAATGAGGGATTCCTATACCTAACACTGCCTCGCATTGCCTTTGGCTGGGGTTGgtaagatcttacatgctattgccattggagagttatgttccctcggtata Alignment from Pairagon GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACC-AGCTCTGCCTTTGGGGGGAGTTG ggcaggcctggtcctgtgtatgcctgtagcctctcccttgcaccctgcagGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGGTTTGGAGGCAATGAGGGATTCCTATACCTAACACTGCCTCGCATTGCCTTTGGCTGGGGTTGgtaagatcttacatgctattgccattggagagttatgttccctcggtata Alignment from Exonerate_protein2genome GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCA-GCTCTGCCTTTGGGGGGAGTTG ggcaggcctggtcctgtgtatgcctgtagcctctcccttgcaccctgcagGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGGTTTGGAGGCAATGAGGGATTCCTATACCTAACACTGCCTCGCATTGCCTTTGGCTGGGGTTGgtaagatcttacatgctattgccattggagagttatgttccctcggtata Alignment from Exonerate_coding2genome GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCA-GCTCTGCCTTTGGGGGGAGTTG ggcaggcctggtcctgtgtatgcctgtagcctctcccttgcaccctgcagGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGGTTTGGAGGCAATGAGGGATTCCTATACCTAACACTGCCTCGCATTGCCTTTGGCTGGGGTTGgtaagatcttacatgctattgccattggagagttatgttccctcggtata Alignment from GeneWise GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAG ggcaggcctggtcctgtgtatgcctgtagcctctcccttgcaccctgcagGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGGTTTGGAGGCAATGAGGGATTCCTATACCTAACACTGCCTCGCATTGCCTTTGGCTGGGgttggtaagatcttacatgctattgccattggagagttatgttccctcggtata #### Ankrd13d_ID461_12 --> 2 - 1 Original Alignment agATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAAC-TCCAGTTCTGCCATTTCTGCTTCAg ggcctaaattacatgttaatgggtacttcacaaatgttctctgaacccagaaATTGCCCTCTTCCATGTTCACAATGCCCACACCACCTTTAGTAACCTATGCAGCTGTGATGAACCTGTG---TCAGTGTCTGTCCCCAACCTCCAGTCTGGCAATTTCTGCTTTGggtgagtctatagccatactgacctgtctgtagccataacagccagctaga Alignment from CESAR agATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAAC-TCCAGTTCTGCCATTTCTGCTTCAg ggcctaaattacatgttaatgggtacttcacaaatgttctctgaacccagaaATTGCCCTCTTCCATGTTCACAATGCCCACACCACCTTTAGTAACCTATGCAGCTGTGATGAACCTGTG---TCAGTGTCTGTCCCCAACCTCCAGTCTGGCAATTTCTGCTTTGggtgagtctatagccatactgacctgtctgtagccataacagccagctaga Alignment from Spaln_aa2Genome AGATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGT G ggcctaaattacatgttaatgggtacttcacaaatgttctctgaacccagAAATTGCCCTCTTCCATGTTCACAATGCCCACACCACCTTTAGTAACCTATGCAGCTGTGATGAACCTGTG---TCAGTgtctgtccccaacctccagtctggcaatttctgctttgggtgagtctatagccatactgacctgtctgtagccataacagccagctagA Alignment from Spaln_nt2Genome AGATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAAC-TCCAGTTCTGCCATTTCTGCTTCAG ggcctaaattacatgttaatgggtacttcacaaatgttctctgaacccagAAATTGCCCTCTTCCATGTTCACAATGCCCACACCACCTTTAGTAACCTATGCAGCTGTGATGAACCTGTG---TCAGTGTCTGTCCCCAACCTCCAGTCTGGCAATTTCTGCTTTGGgtgagtctatagccatactgacctgtctgtagccataacagccagctaga Alignment from Pairagon AGATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAA-CTCCAGTTCTGCCATTTCTGCTTCAG ggcctaaattacatgttaatgggtacttcacaaatgttctctgaacccagAAATTGCCCTCTTCCATGTTCACAATGCCCACACCACCTTTAGTAACCTATGCAGCTGTGATGAACCTGTG---TCAGTGTCTGTCCCCAACCTCCAGTCTGGCAATTTCTGCTTTGGgtgagtctatagccatactgacctgtctgtagccataacagccagctaga Alignment from Exonerate_protein2genome ggcctaaattacatgttaatgggtacttcacaaatgttctctgaacccagaaattgccctcttccatgttcacaatgcccacaccacctttagtaacctatgcagctgtgatgaacctgtgtcagtgtctgtccccaacctccagtctggcaatttctgctttgggtgagtctatagccatactgacctgtctgtagccataacagccagctaga Alignment from Exonerate_coding2genome ggcctaaattacatgttaatgggtacttcacaaatgttctctgaacccagaaattgccctcttccatgttcacaatgcccacaccacctttagtaacctatgcagctgtgatgaacctgtgtcagtgtctgtccccaacctccagtctggcaatttctgctttgggtgagtctatagccatactgacctgtctgtagccataacagccagctaga Alignment from GeneWise AGATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGC ---TCGGTG ggcctaaattacatgttaatgggtacttcacaaatgttctctgaacccagAAATTGCCCTCTTCCATGTTCACAATGCCCACACCACCTTTAGTAACCTATGCAGCTGTGATGAACCTGTGTCAgtgtctgtccccaacctccagtctggcaatttctgctttgggtgagtctatagccatactgacctgtctgtagccataacagCCAGCTAGA #### Ankrd13d_ID464_9 --> 2 - 0 Original Alignment ggGGGAAGACTCCATTCCAG-TCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG gcctgcctacttacagataaacaagtcaactgacctcttctgttccccaggaGGAAAGACACCATTCCAACTCCTTCTTGGGTATGGCCCAGCAACATTCACCC---ACATTGgtgagattggttaaaccacagaccgcaaaggctgggtgagtgttgagagg Alignment from CESAR ggGGGAAGACTCCATTCCAG-TCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG gcctgcctacttacagataaacaagtcaactgacctcttctgttccccaggaGGAAAGACACCATTCCAACTCCTTCTTGGGTATGGCCCAGCAACATTCACCC---ACATTGgtgagattggttaaaccacagaccgcaaaggctgggtgagtgttgagagg Alignment from Spaln_aa2Genome GGGGGAAGACTCCATTCCAG-TCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG gcctgcctacttacagataaacaagtcaactgacctcttctgttccccagGAGGAAAGACACCATTCCAAcTCCTTCTTGGGTATGGCCCAGCAACATTCACCC---ACATTGgtgagattggttaaaccacagaccgcaaaggctgggtgagtgttgagagg Alignment from Spaln_nt2Genome GGGGGAAGACTCCATTCCAG-TCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG gcctgcctacttacagataaacaagtcaactgacctcttctgttccccagGAGGAAAGACACCATTCCAACTCCTTCTTGGGTATGGCCCAGCAACA-TTCACCCACA--TTGgtgagattggttaaaccacagaccgcaaaggctgggtgagtgttgagagg Alignment from Pairagon GGGGGAAGACTCCATTCCAG-TCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG gcctgcctacttacagataaacaagtcaactgacctcttctgttccccagGAGGAAAGACACCATTCCAACTCCTTCTTGGGTATGGCCCAGCAACATTCACC---CACATTGgtgagattggttaaaccacagaccgcaaaggctgggtgagtgttgagagg Alignment from Exonerate_protein2genome GGGGGAAGACTCCATTCCAG-TCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG gcctgcctacttacagataaacaagtcaactgacctcttctgttccccagGAGGAAAGACACCATTCCAACTCCTTCTTGGGTATGGCCCAGCAACATTCACCC---ACATTGgtgagattggttaaaccacagaccgcaaaggctgggtgagtgttgagagg Alignment from Exonerate_coding2genome gcctgcctacttacagataaacaagtcaactgacctcttctgttccccaggaggaaagacaccattccaactccttcttgggtatggcccagcaacattcacccacattggtgagattggttaaaccacagaccgcaaaggctgggtgagtgttgagagg Alignment from GeneWise TGG gcctgcctacttacagataaacaagtcaactgacctcttctgttccccaggaggaaagacaccattccaactccttcttgggtatggcccagcaacattcacccacattggtgagattggttaaaccacagaccgcaaaggctgggtgagtgttgagAGG #### Ankrd13d_ID465_8 --> 0 - 1 Original Alignment GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGC-ACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAg ctaacatcccctgctgtccactcaagtcgtcacagtgactgtcatttcagGTATACAGTGCTACGAATGTTGAGCTGGTGACTCGCCACGAGAACAGAACATCTCTCTGATCAGGACAAGTTAAGGAACAAAggtgcgcactgctgctgcagtgttctgggtgcacccatcctggacttacag Alignment from CESAR GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGC-ACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAg ctaacatcccctgctgtccactcaagtcgtcacagtgactgtcatttcagGTATACAGTGCTACGAATGTTGAGCTGGTGACTCGCCACGAGAACAGAACATCTCTCTGATCAGGACAAGTTAAGGAACAAAggtgcgcactgctgctgcagtgttctgggtgcacccatcctggacttacag Alignment from Spaln_aa2Genome GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGC-ACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG ctaacatcccctgctgtccactcaagtcgtcacagtgactgtcatttcagGTATACAGTGCTACGAATGTTGAGCTGGTGACTCGCcACGAGAACAGAACATCTCTCTGATCAGGACAAGTTAAGGAACAAAGgtgcgcactgctgctgcagtgttctgggtgcacccatcctggacttacag Alignment from Spaln_nt2Genome GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGC-ACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG ctaacatcccctgctgtccactcaagtcgtcacagtgactgtcatttcagGTATACAGTGCTACGAATGTTGAGCTGGTGACTCGCCACGAGAACAGAACATCTCTCTGATCAGGACAAGTTAAGGAACAAAGgtgcgcactgctgctgcagtgttctgggtgcacccatcctggacttacag Alignment from Pairagon GTGTACAGTGCCACCAATGTGGAGCTGGTGACACG-CACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG ctaacatcccctgctgtccactcaagtcgtcacagtgactgtcatttcagGTATACAGTGCTACGAATGTTGAGCTGGTGACTCGCCACGAGAACAGAACATCTCTCTGATCAGGACAAGTTAAGGAACAAAGgtgcgcactgctgctgcagtgttctgggtgcacccatcctggacttacag Alignment from Exonerate_protein2genome GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGC-ACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG ctaacatcccctgctgtccactcaagtcgtcacagtgactgtcatttcagGTATACAGTGCTACGAATGTTGAGCTGGTGACTCGCCACGAGAACAGAACATCTCTCTGATCAGGACAAGTTAAGGAACAAAGgtgcgcactgctgctgcagtgttctgggtgcacccatcctggacttacag Alignment from Exonerate_coding2genome GTGTACAGTGCCACCAATGTGGAGCTGGTGACACG---CACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG ctaacatcccctgctgtccactcaagtcgtcacagtgactgtcatttcagGTATACAGTGCTACGAATGTTGAGCTGGTG--ACTCGCCACGAGAACAGAACATCTCTCTGATCAGGACAAGTTAAGGAACAAAGgtgcgcactgctgctgcagtgttctgggtgcacccatcctggacttacag Alignment from GeneWise GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGC-ACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG ctaacatcccctgctgtccactcaagtcgtcacagtgactgtcatttcagGTATACAGTGCTACGAATGTTGAGCTGGTGACTCGCCACGAGAACAGAACATCTCTCTGATCAGGACAAGTTAAGGAACAAAGgtgcgcactgctgctgcagtgttctgggtgcacccatcctggacttacag #### Ankrd1_ID7101_4 --> 0 - 0 Original Alignment ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAG-AACAAACTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gggatggaagcataagaagccaattagtaagatgccttccttgcctctagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATCAACAAACTTCCAGTTGTAGAAAAGTTCCTCTCCGAGAAGAACAGTCCTGATGTCTGTGATGAAgtgagtagtagtagtgtgccctgccactttctggcctgtcatttgcctga Alignment from CESAR ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAG-AACAAACTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gggatggaagcataagaagccaattagtaagatgccttccttgcctctagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATCAACAAACTTCCAGTTGTAGAAAAGTTCCTCTCCGAGAAGAACAGTCCTGATGTCTGTGATGAAgtgagtagtagtagtgtgccctgccactttctggcctgtcatttgcctga Alignment from Spaln_aa2Genome ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAG-AACAAACTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gggatggaagcataagaagccaattagtaagatgccttccttgcctctagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATcAACAAACTTCCAGTTGTAGAAAAGTTCCTCTCCGAGAAGAACAGTCCTGATGTCTGTGATGAAgtgagtagtagtagtgtgccctgccactttctggcctgtcatttgcctga Alignment from Spaln_nt2Genome ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAG-AACAAACTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gggatggaagcataagaagccaattagtaagatgccttccttgcctctagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATCAACAAACTTCCAGTTGTAGAAAAGTTCCTCTCCGAGAAGAACAGTCCTGATGTCTGTGATGAAgtgagtagtagtagtgtgccctgccactttctggcctgtcatttgcctga Alignment from Pairagon ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGA-GAACAAACTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gggatggaagcataagaagccaattagtaagatgccttccttgcctctagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATCAACAAACTTCCAGTTGTAGAAAAGTTCCTCTCCGAGAAGAACAGTCCTGATGTCTGTGATGAAgtgagtagtagtagtgtgccctgccactttctggcctgtcatttgcctga Alignment from Exonerate_protein2genome ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAG-AACAAACTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gggatggaagcataagaagccaattagtaagatgccttccttgcctctagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATCAACAAACTTCCAGTTGTAGAAAAGTTCCTCTCCGAGAAGAACAGTCCTGATGTCTGTGATGAAgtgagtagtagtagtgtgccctgccactttctggcctgtcatttgcctga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTG-GAGAACAAACTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gggatggaagcataagaagccaattagtaagatgccttccttgcctctagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATCAACAAACTTCCAGTTGTAGAAAAGTTCCTCTCCGAGAAGAACAGTCCTGATGTCTGTGATGAAgtgagtagtagtagtgtgccctgccactttctggcctgtcatttgcctga #### Apba1_ID5242_11 --> 0 - 0 Original Alignment ATCTGCAGCCTCATGAGAGGGGGAATCGCTGAGAGAGGAGGCGTCCGCGTGGGACATCGGATCATCGAAATCAATGGCCAGAGTGTCGTAGCCACACCACACGAGAAGATCGTCCACATCCTC-TCCAATGCTGTTGGGGAG gcatactaaaaaaatgcagtaggacaggttggacttggtttcatttgtagATCTGCAGCCTTACAAGAGGGGGAATAGCTGAAAGAGGAGATGTCCGCGTTGGACATCGAATCATTGAGATTAATGGTCAAAGTATTGTAGCTATACCACATGAAGAGATTGTCCACATCCTGCTCCAATGCCGTGGGGGAGgtaagtttcaatcaattggtcaggctttatagtggtgtgtccttctcaga Alignment from CESAR ATCTGCAGCCTCATGAGAGGGGGAATCGCTGAGAGAGGAGGCGTCCGCGTGGGACATCGGATCATCGAAATCAATGGCCAGAGTGTCGTAGCCACACCACACGAGAAGATCGTCCACATCCTC-TCCAATGCTGTTGGGGAG gcatactaaaaaaatgcagtaggacaggttggacttggtttcatttgtagATCTGCAGCCTTACAAGAGGGGGAATAGCTGAAAGAGGAGATGTCCGCGTTGGACATCGAATCATTGAGATTAATGGTCAAAGTATTGTAGCTATACCACATGAAGAGATTGTCCACATCCTGCTCCAATGCCGTGGGGGAGgtaagtttcaatcaattggtcaggctttatagtggtgtgtccttctcaga Alignment from Spaln_aa2Genome ATCTGCAGCCTCATGAGAGGGGGAATCGCTGAGAGAGGAGGCGTCCGCGTGGGACATCGGATCATCGAAATCAATGGCCAGAGTGTCGTAGCCACACCACACGAGAAGATCGTCCACATCCTC-TCCAATGCTGTTGGGGAG gcatactaaaaaaatgcagtaggacaggttggacttggtttcatttgtagATCTGCAGCCTTACAAGAGGGGGAATAGCTGAAAGAGGAGATGTCCGCGTTGGACATCGAATCATTGAGATTAATGGTCAAAGTATTGTAGCTATACCACATGAAGAGATTGTCCACATCCTGcTCCAATGCCGTGGGGGAGgtaagtttcaatcaattggtcaggctttatagtggtgtgtccttctcaga Alignment from Spaln_nt2Genome ATCTGCAGCCTCATGAGAGGGGGAATCGCTGAGAGAGGAGGCGTCCGCGTGGGACATCGGATCATCGAAATCAATGGCCAGAGTGTCGTAGCCACACCACACGAGAAGATCGTCCACATCCT-CTCCAATGCTGTTGGGGAG gcatactaaaaaaatgcagtaggacaggttggacttggtttcatttgtagATCTGCAGCCTTACAAGAGGGGGAATAGCTGAAAGAGGAGATGTCCGCGTTGGACATCGAATCATTGAGATTAATGGTCAAAGTATTGTAGCTATACCACATGAAGAGATTGTCCACATCCTGCTCCAATGCCGTGGGGGAGgtaagtttcaatcaattggtcaggctttatagtggtgtgtccttctcaga Alignment from Pairagon ATCTGCAGCCTCATGAGAGGGGGAATCGCTGAGAGAGGAGGCGTCCGCGTGGGACATCGGATCATCGAAATCAATGGCCAGAGTGTCGTAGCCACACCACACGAGAAGATCGTCCACATCCT-CTCCAATGCTGTTGGGGAG gcatactaaaaaaatgcagtaggacaggttggacttggtttcatttgtagATCTGCAGCCTTACAAGAGGGGGAATAGCTGAAAGAGGAGATGTCCGCGTTGGACATCGAATCATTGAGATTAATGGTCAAAGTATTGTAGCTATACCACATGAAGAGATTGTCCACATCCTGCTCCAATGCCGTGGGGGAGgtaagtttcaatcaattggtcaggctttatagtggtgtgtccttctcaga Alignment from Exonerate_protein2genome ATCTGCAGCCTCATGAGAGGGGGAATCGCTGAGAGAGGAGGCGTCCGCGTGGGACATCGGATCATCGAAATCAATGGCCAGAGTGTCGTAGCCACACCACACGAGAAGATCGTCCACATCCTC-TCCAATGCTGTTGGGGAG gcatactaaaaaaatgcagtaggacaggttggacttggtttcatttgtagATCTGCAGCCTTACAAGAGGGGGAATAGCTGAAAGAGGAGATGTCCGCGTTGGACATCGAATCATTGAGATTAATGGTCAAAGTATTGTAGCTATACCACATGAAGAGATTGTCCACATCCTGCTCCAATGCCGTGGGGGAGgtaagtttcaatcaattggtcaggctttatagtggtgtgtccttctcaga Alignment from Exonerate_coding2genome gcatactaaaaaaatgcagtaggacaggttggacttggtttcatttgtagatctgcagccttacaagagggggaatagctgaaagaggagatgtccgcgttggacatcgaatcattgagattaatggtcaaagtattgtagctataccacatgaagagattgtccacatcctgctccaatgccgtgggggaggtaagtttcaatcaattggtcaggctttatagtggtgtgtccttctcaga Alignment from GeneWise ATCTGCAGCCTCATGAGAGGGGGAATCGCTGAGAGAGGAGGCGTCCGCGTGGGACATCGGATCATCGAAATCAATGGCCAGAGTGTCGTAGCCACACCACACGAGAAGATCGTCCACATCCTC-TCCAATGCTGTTGGGGAG gcatactaaaaaaatgcagtaggacaggttggacttggtttcatttgtagATCTGCAGCCTTACAAGAGGGGGAATAGCTGAAAGAGGAGATGTCCGCGTTGGACATCGAATCATTGAGATTAATGGTCAAAGTATTGTAGCTATACCACATGAAGAGATTGTCCACATCCTGCTCCAATGCCGTGGGGGAGgtaagtttcaatcaattggtcaggctttatagtggtgtgtccttctcaga #### B3gat3_ID2492_4 --> 0 - 0 Original Alignment ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCC-CAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG agtcagtcttttcagactaacctcccctatgctaagaaactcacctacagATGCGCTGGACACGTGGTGTCTCTGTGTGGCCTGTTGGCTTGGTGGGTGGCCTACGATTTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGATATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCCAATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGCCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgttggcggtcagttagcaggtcaggaacatggaggatggtgggctaagaa Alignment from CESAR ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCC-CAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG agtcagtcttttcagactaacctcccctatgctaagaaactcacctacagATGCGCTGGACACGTGGTGTCTCTGTGTGGCCTGTTGGCTTGGTGGGTGGCCTACGATTTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGATATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCCAATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGCCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgttggcggtcagttagcaggtcaggaacatggaggatggtgggctaagaa Alignment from Spaln_aa2Genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCC-CAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG agtcagtcttttcagactaacctcccctatgctaagaaactcacctacagATGCGCTGGACACGTGGTGTCTCTGTGTGGCCTGTTGGCTTGGTGGGTGGCCTACGATTTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGATATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCcCAATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGCCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgttggcggtcagttagcaggtcaggaacatggaggatggtgggctaagaa Alignment from Spaln_nt2Genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATG-CCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG agtcagtcttttcagactaacctcccctatgctaagaaactcacctacagATGCGCTGGACACGTGGTGTCTCTGTGTGGCCTGTTGGCTTGGTGGGTGGCCTACGATTTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGATATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCCAATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGCCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgttggcggtcagttagcaggtcaggaacatggaggatggtgggctaagaa Alignment from Pairagon ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATG-CCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAGGTACTGGTATGGCACACCCGGACAGAGAAACCTAAGATGAAGCAGGAGGA agtcagtcttttcagactaacctcccctatgctaagaaactcacctacagATGCGCTGGACACGTGGTGTCTCTGTGTGGCCTGTTGGCTTGGTGGGTGGCCTACGATTTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGATATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCCAATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGCCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGGT------------------------------------------------ Alignment from Exonerate_protein2genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCC-CAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG agtcagtcttttcagactaacctcccctatgctaagaaactcacctacagATGCGCTGGACACGTGGTGTCTCTGTGTGGCCTGTTGGCTTGGTGGGTGGCCTACGATTTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGATATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCCAATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGCCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgttggcggtcagttagcaggtcaggaacatggaggatggtgggctaagaa Alignment from Exonerate_coding2genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCC-CAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAGGTA agtcagtcttttcagactaacctcccctatgctaagaaactcacctacagATGCGCTGGACACGTGGTGTCTCTGTGTGGCCTGTTGGCTTGGTGGGTGGCCTACGATTTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGATATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCCAATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGCCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGGTTggcggtcagttagcaggtcaggaacatggaggatggtgggctaagaa Alignment from GeneWise ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAAT-GCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG agtcagtcttttcagactaacctcccctatgctaagaaactcacctacagATGCGCTGGACACGTGGTGTCTCTGTGTGGCCTGTTGGCTTGGTGGGTGGCCTACGATTTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGATATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCCAATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGCCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgttggcggtcagttagcaggtcaggaacatggaggatggtgggctaagaa #### Bbs1_ID728_6 --> 1 - 2 Original Alignment gGAAAAGGCAGACGTG-CCTTTGTCTGTGCAGTCACTCag ttttcatggtggcgcctcaatattccttgactcttgccggcttcccacagaGAAAAGGCAGATTTACCCCTTATCTGTCCAGTCACTTaggtgagcatttattgcaaagaggaatgggtcagtgacatgtagggctgcta Alignment from CESAR gGAAAAGGCAGACGTGCCT-TTGTCTGTGCAGTCACTCag ttttcatggtggcgcctcaatattccttgactcttgccggcttcccacagaGAAAAGGCAGATTTACCCCTTATCTGTCCAGTCACTTaggtgagcatttattgcaaagaggaatgggtcagtgacatgtagggctgcta Alignment from Spaln_aa2Genome GGAAAAGGCAGACGTGCCT-TTGTCTGTGCAGTCACTCAG ttttcatggtggcgcctcaatattccttgactcttgccggcttcccacagAGAAAAGGCAGATTTACCCcTTATCTGTCCAGTCACTTAGgtgagcatttattgcaaagaggaatgggtcagtgacatgtagggctgcta Alignment from Spaln_nt2Genome GGAAAAGGCAGACGTGCCT-TTGTCTGTGCAGTCACTCAG ttttcatggtggcgcctcaatattccttgactcttgccggcttcccacagAGAAAAGGCAGATTTACCCCTTATCTGTCCAGTCACTTAGgtgagcatttattgcaaagaggaatgggtcagtgacatgtagggctgcta Alignment from Pairagon GGAAAAGGCAGACGTG-CCTTTGTCTGTGCAGTCACTCAG ttttcatggtggcgcctcaatattccttgactcttgccggcttcccacagAGAAAAGGCAGATTTACCCCTTATCTGTCCAGTCACTTAGgtgagcatttattgcaaagaggaatgggtcagtgacatgtagggctgcta Alignment from Exonerate_protein2genome GGAAAAGGCAGACGTG-CCTTTGTCTGTGCAGTCACTCAG ttttcatggtggcgcctcaatattccttgactcttgccggcttcccacagAGAAAAGGCAGATTTACCCCTTATCTGTCCAGTCACTTAGgtgagcatttattgcaaagaggaatgggtcagtgacatgtagggctgcta Alignment from Exonerate_coding2genome CAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAGGGAAAAGGCAGACG ttttcatggtggcgcctcaatattccttgactcttgccggcttcccacagagaaaaggcagatttaccccttatctgtccagTCACTTAGGTGAGCATTTATTGCAAAGAGGAATGGGTCAGTGACATGTAGGGCTGCTA Alignment from GeneWise GAGATGCTGGAGGACATCAGGGAAAAGGCAG ttttcatggtggcgcctcaatattccttgactcttgccggcttcccacagagaaaaggcagatttaccccttatctgtccagtcacttaggtgagcatttattgcaaagAGGAAT---GGGTCAGTGACATGTAGGGCTG #### Blnk_ID8061_10 --> 1 - 0 Original Alignment gAAGAAGCCAGCTACA-CCACTTAAGACT attaatgcaggccaatgagtcttttcctctgaggtgctgtctccctgcaggAAGAAGCCAGCAACACCCCCTCAAGACTgtatgttaacaacaaaataccctctagcaacaattgcctctcttgagtga Alignment from CESAR gAAGAAGCCAGCTACACCA-CTTAAGACT attaatgcaggccaatgagtcttttcctctgaggtgctgtctccctgcaggAAGAAGCCAGCAACACCCCCTCAAGACTgtatgttaacaacaaaataccctctagcaacaattgcctctcttgagtga Alignment from Spaln_aa2Genome GAAGAAGCCAGCTACACCA-CTTAAGACT attaatgcaggccaatgagtcttttcctctgaggtgctgtctccctgcagGAAGAAGCCAGCAACACCCcCTCAAGACTgtatgttaacaacaaaataccctctagcaacaattgcctctcttgagtga Alignment from Spaln_nt2Genome GAAGAAGCCAGCTACACCACTT-AAGACT attaatgcaggccaatgagtcttttcctctgaggtgctgtctccctgcagGAAGAAGCCAGCAACACCCCCTCAAGACTgtatgttaacaacaaaataccctctagcaacaattgcctctcttgagtga Alignment from Pairagon GAAGAAGCCAGCTACA-CCACTTAAGACT attaatgcaggccaatgagtcttttcctctgaggtgctgtctccctgcagGAAGAAGCCAGCAACACCCCCTCAAGACTgtatgttaacaacaaaataccctctagcaacaattgcctctcttgagtga Alignment from Exonerate_protein2genome GAAGAAGCCAGCTACA-CCACTTAAGACT attaatgcaggccaatgagtcttttcctctgaggtgctgtctccctgcagGAAGAAGCCAGCAACACCCCCTCAAGACTgtatgttaacaacaaaataccctctagcaacaattgcctctcttgagtga Alignment from Exonerate_coding2genome attaatgcaggccaatgagtcttttcctctgaggtgctgtctccctgcaggaagaagccagcaacaccccctcaagactgtatgttaacaacaaaataccctctagcaacaattgcctctcttgagtga Alignment from GeneWise attaatgcaggccaatgagtcttttcctctgaggtgctgtctccctgcaggaagaagccagcaacaccccctcaagactgtatgttaacaacaaaataccctctagcaacaattgcctctcttgagtga #### Bscl2_ID2423_6 --> 0 - 2 Original Alignment TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGC-ATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCag tatatttctcaatgggccagaattgcatatcttttgcttttttcttctagTATGTTCCAACAACTGGAGCAATTATTGAAATTCACAGTAAACGCCATTGAGATGTATGGGGCCTACCTCTGGATCCATGCCCACTTCACAGGGCTCaggtaagtaaagtgtagaagggacaactgttctacaatatggcccaaatagt Alignment from CESAR TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGC-ATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCag tatatttctcaatgggccagaattgcatatcttttgcttttttcttctagTATGTTCCAACAACTGGAGCAATTATTGAAATTCACAGTAAACGCCATTGAGATGTATGGGGCCTACCTCTGGATCCATGCCCACTTCACAGGGCTCaggtaagtaaagtgtagaagggacaactgttctacaatatggcccaaatagt Alignment from Spaln_aa2Genome TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGC-ATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCAG tatatttctcaatgggccagaattgcatatcttttgcttttttcttctagTATGTTCCAACAACTGGAGCAATTATTGAAATTCACAGTAAACGCcATTGAGATGTATGGGGCCTACCTCTGGATCCATGCCCACTTCACAGGGCTCAGgtaagtaaagtgtagaagggacaactgttctacaatatggcccaaatagt Alignment from Spaln_nt2Genome TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGC-ATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCAG tatatttctcaatgggccagaattgcatatcttttgcttttttcttctagTATGTTCCAACAACTGGAGCAATTATTGAAATTCACAGTAAACGCCATTGAGATGTATGGGGCCTACCTCTGGATCCATGCCCACTTCACAGGGCTCAGgtaagtaaagtgtagaagggacaactgttctacaatatggcccaaatagt Alignment from Pairagon TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCG-CATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCAG tatatttctcaatgggccagaattgcatatcttttgcttttttcttctagTATGTTCCAACAACTGGAGCAATTATTGAAATTCACAGTAAACGCCATTGAGATGTATGGGGCCTACCTCTGGATCCATGCCCACTTCACAGGGCTCAGgtaagtaaagtgtagaagggacaactgttctacaatatggcccaaatagt Alignment from Exonerate_protein2genome TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGC-ATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCAG tatatttctcaatgggccagaattgcatatcttttgcttttttcttctagTATGTTCCAACAACTGGAGCAATTATTGAAATTCACAGTAAACGCCATTGAGATGTATGGGGCCTACCTCTGGATCCATGCCCACTTCACAGGGCTCAGgtaagtaaagtgtagaagggacaactgttctacaatatggcccaaatagt Alignment from Exonerate_coding2genome TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGC-ATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCAG tatatttctcaatgggccagaattgcatatcttttgcttttttcttctagTATGTTCCAACAACTGGAGCAATTATTGAAATTCACAGTAAACGCCATTGAGATGTATGGGGCCTACCTCTGGATCCATGCCCACTTCACAGGGCTCAGgtaagtaaagtgtagaagggacaactgttctacaatatggcccaaatagt Alignment from GeneWise TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGC-ATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCAG tatatttctcaatgggccagaattgcatatcttttgcttttttcttctagTATGTTCCAACAACTGGAGCAATTATTGAAATTCACAGTAAACGCCATTGAGATGTATGGGGCCTACCTCTGGATCCATGCCCACTTCACAGGGCTCAGgtaagtaaagtgtagaagggacaactgttctacaatatggcccaaatagt #### Bscl2_ID2426_9 --> 2 - 1 Original Alignment gtCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGAT-GGTGAGAGCCCTGAAGATCCCTCAGGAACAg agtgttaggtcctcatgttgggggtaaatctccctcgcctcctctcttaggtCAGAAATCCACCCAGCAGTCAGATGTTATGGAAGATCGGTGAGAGCCCTGAAGATCCTTCAAGAACAggtagggtcagtctccctaagatctttattgagatagatcttcaggtctgg Alignment from CESAR gtCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGAT-GGTGAGAGCCCTGAAGATCCCTCAGGAACAg agtgttaggtcctcatgttgggggtaaatctccctcgcctcctctcttaggtCAGAAATCCACCCAGCAGTCAGATGTTATGGAAGATCGGTGAGAGCCCTGAAGATCCTTCAAGAACAggtagggtcagtctccctaagatctttattgagatagatcttcaggtctgg Alignment from Spaln_aa2Genome GTCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGAT-GGTGAGAGCCCTGAAGATCCCTCAGGAACAG agtgttaggtcctcatgttgggggtaaatctccctcgcctcctctcttagGTCAGAAATCCACCCAGCAGTCAGATGTTATGGAAGATcGGTGAGAGCCCTGAAGATCCTTCAAGAACAGgtagggtcagtctccctaagatctttattgagatagatcttcaggtctgg Alignment from Spaln_nt2Genome GTCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGAT-GGTGAGAGCCCTGAAGATCCCTCAGGAACAG agtgttaggtcctcatgttgggggtaaatctccctcgcctcctctcttagGTCAGAAATCCACCCAGCAGTCAGATGTTATGGAAGATCGGTGAGAGCCCTGAAGATCCTTCAAGAACAGgtagggtcagtctccctaagatctttattgagatagatcttcaggtctgg Alignment from Pairagon GTCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGAT-GGTGAGAGCCCTGAAGATCCCTCAGGAACAG agtgttaggtcctcatgttgggggtaaatctccctcgcctcctctcttagGTCAGAAATCCACCCAGCAGTCAGATGTTATGGAAGATCGGTGAGAGCCCTGAAGATCCTTCAAGAACAGgtagggtcagtctccctaagatctttattgagatagatcttcaggtctgg Alignment from Exonerate_protein2genome GGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAGGTCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGAT-GGTGAGAGCCCTGAAGATCCCTCAGGAACA AGTGTTAGGTCCTCATGTTGGGGGTAAATCTCCCTCGCCTCCTCTCTTAGGTCAGAAATCCACCCAGCAGTCAGATGTTATGGAAGATCGGTGAGAGCCCTGAAGATCCTTCAAGAACAggtagggtcagtctccctaagatctttattgagatagatcttcaggtctgg Alignment from Exonerate_coding2genome agtgttaggtcctcatgttgggggtaaatctccctcgcctcctctcttaggtcagaaatccacccagcagtcagatgttatggaagatcggtgagagccctgaagatccttcaagaacaggtagggtcagtctccctaagatctttattgagatagatcttcaggtctgg Alignment from GeneWise agtgttaggtcctcatgttgggggtaaatctccctcgcctcctctcttaggtcagaaatccacccagcagtcagatgttatggaagatcggtgagagccctgaagatccttcaagaacaggtagggtcagtctccctaagatctttattgagatagatcttcaggtctgg #### Btaf1_ID7249_28 --> 1 - 2 Original Alignment GAGATCACTGTCAGag gGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCTTCCTTGGTGGTTTGTCCACCAACATTAACAGGT-CATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAag GAGATCACTGTCAGaggtgagtgccttggcttcacgctcttcattcacaggGCCCAGGAATATGCAAGATCAAGATTAGTAGAGTGTATGTCACTCCCTTCCCTAGTGGTTTGTCCTCCATCATTGACAGGTCCACTGGGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTTCATTATACCGGCCCTTCTACTGAAAGGATAaggtgagtgggtggattatctaacaatccgtagctaaagacaaggtcctttg Alignment from CESAR GAGATCACTGTCAGag gGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCTTCCTTGGTGGTTTGTCCACCAACATTAACAGGT-CATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAag GAGATCACTGTCAGaggtaatcgccttggcttcacgctcttcattcacaggGCCCAGGAATATGCAAGATCAAGATTAGTAGAGTGTATGTCACTCCCTTCCCTAGTGGTTTGTCCTCCATCATTGACAGGTCCACTGGGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTTCATTATACCGGCCCTTCTACTGAAAGGATAaggtgagtgggtggattatctaacaatccgtagctaaagacaaggtcctttg Alignment from Spaln_aa2Genome GAGATCACTGTCAGA GGGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCTTCCTTGGTGGTTTGTCCACCAACATTAACAGGT-CATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAA GAGATCACTGTCAGAGgtgagtgccttggcttcacgctcttcattcacagGGCCCAGGAATATGCAAGATCAAGATTAGTAGAGTGTATGTCACTCCCTTCCCTAGTGGTTTGTCCTCCATCATTGACAGGTcCACTGGGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTTCATTATACCGGCCCTTCTACTGAAAGGATAAGgtgagtgggtggattatctaacaatccgtagctaaagacaaggtcctttg Alignment from Spaln_nt2Genome GAGATCACTGTCAGAG GGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCTTCCTTGGTGGTTTGTCCACCAACATTAACAGGTC-ATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAAG GAGATCACTGTCAGAGgtgagtgccttggcttcacgctcttcattcacagGGCCCAGGAATATGCAAGATCAAGATTAGTAGAGTGTATGTCACTCCCTTCCCTAGTGGTTTGTCCTCCATCATTGACAGGTCCACTGGGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTTCATTATACCGGCCCTTCTACTGAAAGGATAAGgtgagtgggtggattatctaacaatccgtagctaaagacaaggtcctttg Alignment from Pairagon GAGATCACTGTCAGAG GGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCTTCCTTGGTGGTTTGTCCACCAACATTAACAGGT-CATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAAG GAGATCACTGTCAGAGgtgagtgccttggcttcacgctcttcattcacagGGCCCAGGAATATGCAAGATCAAGATTAGTAGAGTGTATGTCACTCCCTTCCCTAGTGGTTTGTCCTCCATCATTGACAGGTCCACTGGGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTTCATTATACCGGCCCTTCTACTGAAAGGATAAGgtgagtgggtggattatctaacaatccgtagctaaagacaaggtcctttg Alignment from Exonerate_protein2genome GAGATCACTGTCAGAG GGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCTTCCTTGGTGGTTTGTCCACCAACATTAACAGGT-CATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAAG GAGATCACTGTCAGAGgtgagtgccttggcttcacgctcttcattcacagGGCCCAGGAATATGCAAGATCAAGATTAGTAGAGTGTATGTCACTCCCTTCCCTAGTGGTTTGTCCTCCATCATTGACAGGTCCACTGGGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTTCATTATACCGGCCCTTCTACTGAAAGGATAAGgtgagtgggtggattatctaacaatccgtagctaaagacaaggtcctttg Alignment from Exonerate_coding2genome GAGATCACTGTCAGAG GGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCTTCCTTGGTGGTTTGTCCACCAACATTAACAGGT-CATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAAG GAGATCACTGTCAGAGgtgagtgccttggcttcacgctcttcattcacagGGCCCAGGAATATGCAAGATCAAGATTAGTAGAGTGTATGTCACTCCCTTCCCTAGTGGTTTGTCCTCCATCATTGACAGGTCCACTGGGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTTCATTATACCGGCCCTTCTACTGAAAGGATAAGgtgagtgggtggattatctaacaatccgtagctaaagacaaggtcctttg Alignment from GeneWise GAGATCACTGTCAGAG GGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCTTCCTTGGTGGTTTGTCCACCAACATTAACA-GGTCATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAAG GAGATCACTGTCAGAGgtgagtgccttggcttcacgctcttcattcacagGGCCCAGGAATATGCAAGATCAAGATTAGTAGAGTGTATGTCACTCCCTTCCCTAGTGGTTTGTCCTCCATCATTGACAGGTCCACTGGGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTTCATTATACCGGCCCTTCTACTGAAAGGATAAGgtgagtgggtggattatctaacaatccgtagctaaagacaaggtcctttg #### Btaf1_ID7254_33 --> 0 - 0 Original Alignment GTTCAGCTTTATGAAGATTTTGCTAAGTCGCGTGCCAAGTGTGATGTTGATGAGACCGTGTCTTCAGCTGCACTTTCAGAAGAAACT-GAAAAACCAAAACTTAAAGCGACAGGTCATGTATTCCAG cctagttcctgtccatttaaagtttgcacctcggtttccccttcctgtagGTACAGCTTTATGAAGATTTTGCTAAGTCTCGTGCCAAGTGTGATGTTGATGAGACTGTGTCCTCAGCTGCACTTTCAGAAGAAACTCGAAAAACCAAAACTCAAAGCCACAGGGCATGTTTTCCAGgtaaagatgagatttactttcaccattattgtaacactaatgtctagtgc Alignment from CESAR GTTCAGCTTTATGAAGATTTTGCTAAGTCGCGTGCCAAGTGTGATGTTGATGAGACCGTGTCTTCAGCTGCACTTTCAGAAGAAACT-GAAAAACCAAAACTTAAAGCGACAGGTCATGTATTCCAG cctagttcctgtccatttaaagtttgcacctcggtttccccttcctgtagGTACAGCTTTATGAAGATTTTGCTAAGTCTCGTGCCAAGTGTGATGTTGATGAGACTGTGTCCTCAGCTGCACTTTCAGAAGAAACTCGAAAAACCAAAACTCAAAGCCACAGGGCATGTTTTCCAGgtaaagatgagatttactttcaccattattgtaacactaatgtctagtgc Alignment from Spaln_aa2Genome GGTTCAGCTTTATGAAGATTTTGCTAAGTCGCGTGCCAAGTGTGATGTTGATGAGACCGTGTCTTCAGCTGCACTTTCAGAAGAAACT-GAAAAACCAAAACTTAAAGCGACAGGTCATGTATTCCA cctagttcctgtccatttaaagtttgcacctcggtttccccttcctgtagGTACAGCTTTATGAAGATTTTGCTAAGTCTCGTGCCAAGTGTGATGTTGATGAGACTGTGTCCTCAGCTGCACTTTCAGAAGAAACTcGAAAAACCAAAACTCAAAGCCACAGGGCATGTTTTCCAGgtaaagatgagatttactttcaccattattgtaacactaatgtctagtgc Alignment from Spaln_nt2Genome GTTCAGCTTTATGAAGATTTTGCTAAGTCGCGTGCCAAGTGTGATGTTGATGAGACCGTGTCTTCAGCTGCACTTTCAGAAGAAACT-GAAAAACCAAAACTTAAAGCGACAGGTCATGTATTCCAG cctagttcctgtccatttaaagtttgcacctcggtttccccttcctgtagGTACAGCTTTATGAAGATTTTGCTAAGTCTCGTGCCAAGTGTGATGTTGATGAGACTGTGTCCTCAGCTGCACTTTCAGAAGAAACTCGAAAAACCAAAACTCAAAGCCACAGGGCATGTTTTCCAGgtaaagatgagatttactttcaccattattgtaacactaatgtctagtgc Alignment from Pairagon GTTCAGCTTTATGAAGATTTTGCTAAGTCGCGTGCCAAGTGTGATGTTGATGAGACCGTGTCTTCAGCTGCACTTTCAGAAGAAACT-GAAAAACCAAAACTTAAAGCGACAGGTCATGTATTCCAG cctagttcctgtccatttaaagtttgcacctcggtttccccttcctgtagGTACAGCTTTATGAAGATTTTGCTAAGTCTCGTGCCAAGTGTGATGTTGATGAGACTGTGTCCTCAGCTGCACTTTCAGAAGAAACTCGAAAAACCAAAACTCAAAGCCACAGGGCATGTTTTCCAGgtaaagatgagatttactttcaccattattgtaacactaatgtctagtgc Alignment from Exonerate_protein2genome GTTCAGCTTTATGAAGATTTTGCTAAGTCGCGTGCCAAGTGTGATGTTGATGAGACCGTGTCTTCAGCTGCACTTTCAGAAGAAACT-GAAAAACCAAAACTTAAAGCGACAGGTCATGTATTCCAGGCG cctagttcctgtccatttaaagtttgcacctcggtttccccttcctgtagGTACAGCTTTATGAAGATTTTGCTAAGTCTCGTGCCAAGTGTGATGTTGATGAGACTGTGTCCTCAGCTGCACTTTCAGAAGAAACTCGAAAAACCAAAACTCAAAGCCACAGGGCATGTTTTCCAG---gtaaagatgagatttactttcaccattattgtaacactaatgtctag Alignment from Exonerate_coding2genome GTTCAGCTTTATGAAGATTTTGCTAAGTCGCGTGCCAAGTGTGATGTTGATGAGACCGTGTCTTCAGCTGCACTTTCAGAAGAAACT-GAAAAACCAAAACTTAAAGCGACAGGTCATGTATTCCAGGCG cctagttcctgtccatttaaagtttgcacctcggtttccccttcctgtagGTACAGCTTTATGAAGATTTTGCTAAGTCTCGTGCCAAGTGTGATGTTGATGAGACTGTGTCCTCAGCTGCACTTTCAGAAGAAACTCGAAAAACCAAAACTCAAAGCCACAGGGCATGTTTTCCAG---gtaaagatgagatttactttcaccattattgtaacactaatgtctag Alignment from GeneWise GTTCAGCTTTATGAAGATTTTGCTAAGTCGCGTGCCAAGTGTGATGTTGATGAGACCGTGTCTTCAGCTGCACTTTCAGAAGAA-ACTGAAAAACCAAAACTTAAAGCGACAGGTCATGTATTCCAG cctagttcctgtccatttaaagtttgcacctcggtttccccttcctgtagGTACAGCTTTATGAAGATTTTGCTAAGTCTCGTGCCAAGTGTGATGTTGATGAGACTGTGTCCTCAGCTGCACTTTCAGAAGAAACTCGAAAAACCAAAACTCAAAGCCACAGGGCATGTTTTCCAGgtaaagatgagatttactttcaccattattgtaacactaatgtctagtgc #### Cabp2_ID289_4 --> 2 - 1 Original Alignment agCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACG-GAGATGGAGCTCATTGAGATATCACAACAGATCa tgttaacccccttataacagctatggtgctctcatcccccatccccttagagCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATTGGGTACCGGGAGCTGGGTGACTGCATGCAGACACTGGGATACATGCCCACACGAGATGGCGCTCATAGAGATATCACAACAGGTTagtaagggtgacttttgtggtcagtgcatgtagccccctggcacatggtgc Alignment from CESAR agCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACG-GAGATGGAGCTCATTGAGATATCACAACAGATCa tgttaacccccttataacagctatggtgctctcatcccccatccccttagagCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATTGGGTACCGGGAGCTGGGTGACTGCATGCAGACACTGGGATACATGCCCACACGAGATGGCGCTCATAGAGATATCACAACAGGTTagtaagggtgacttttgtggtcagtgcatgtagccccctggcacatggtgc Alignment from Spaln_aa2Genome CTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACG-GAGATGGAGCTCATTGAGATATCACAACAGATCA tgttaacccccttataacagctatggtgctctcatcccccatccccttagagCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATTGGGTACCGGGAGCTGGGTGACTGCATGCAGACACTGGGATACATGCCCACAcGAGATGGCGCTCATAGAGATATCACAACAGGTTAgtaagggtgacttttgtggtcagtgcatgtagccccctggcacatggtgc Alignment from Spaln_nt2Genome AGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACG-GAGATGGAGCTCATTGAGATATCACAACAG tgttaacccccttataacagctatggtgctctcatcccccatccccttagAGCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATTGGGTACCGGGAGCTGGGTGACTGCATGCAGACACTGGGATACATGCCCACACGAGATGGCGCTCATAGAGATATCACAACAGgttagtaagggtgacttttgtggtcagtgcatgtagccccctggcacatggtgc Alignment from Pairagon AGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACG-GAGATGGAGCTCATTGAGATATCACAACAGATCA tgttaacccccttataacagctatggtgctctcatcccccatccccttagAGCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATTGGGTACCGGGAGCTGGGTGACTGCATGCAGACACTGGGATACATGCCCACACGAGATGGCGCTCATAGAGATATCACAACAGGTTAgtaagggtgacttttgtggtcagtgcatgtagccccctggcacatggtgc Alignment from Exonerate_protein2genome CTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACG-GAGATGGAGCTCATTGAGATATCACAACAGATCA tgttaacccccttataacagctatggtgctctcatcccccatccccttagagCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATTGGGTACCGGGAGCTGGGTGACTGCATGCAGACACTGGGATACATGCCCACACGAGATGGCGCTCATAGAGATATCACAACAGGTTAgtaagggtgacttttgtggtcagtgcatgtagccccctggcacatggtgc Alignment from Exonerate_coding2genome CTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACG-GAGATGGAGCTCATTGAGATATCACAACAGATCA tgttaacccccttataacagctatggtgctctcatcccccatccccttagagCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATTGGGTACCGGGAGCTGGGTGACTGCATGCAGACACTGGGATACATGCCCACACGAGATGGCGCTCATAGAGATATCACAACAGGTTAgtaagggtgacttttgtggtcagtgcatgtagccccctggcacatggtgc Alignment from GeneWise CTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCC-ACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tgttaacccccttataacagctatggtgctctcatcccccatccccttagagCTGCAGATAGGCTTCCAGGAGTTTGACCGAGACAGGGACGGCTACATTGGGTACCGGGAGCTGGGTGACTGCATGCAGACACTGGGATACATGCCCACACGAGATGGCGCTCATAGAGATATCACAACAGGTTAgtaagggtgacttttgtggtcagtgcatgtagccccctggcacatggtgc #### Cabp2_ID290_5 --> 2 - 0 Original Alignment gtGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAG-CTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctgagaccccatggatattctcatctctttcaggtGGGGGAAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGTGGGCATGATTGGGGAAAGAGAACCTTAAAGACACTTTTAGGGAGgtgagttttaggtgctggctggcaagcaattcagcatgtttttggaagaa Alignment from CESAR gtGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAG-CTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctgagaccccatggatattctcatctctttcaggtGGGGGAAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGTGGGCATGATTGGGGAAAGAGAACCTTAAAGACACTTTTAGGGAGgtgagttttaggtgctggctggcaagcaattcagcatgtttttggaagaa Alignment from Spaln_aa2Genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAG-CTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctgagaccccatggatattctcatctctttcagGTGGGGGAAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGTGGGCATGATTGGGGAAAGAGAAcCTTAAAGACACTTTTAGGGAGgtgagttttaggtgctggctggcaagcaattcagcatgtttttggaagaa Alignment from Spaln_nt2Genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGC-TTCGAGACGCCTTCCGGGAG caacaccctgcactaacctgagaccccatggatattctcatctctttcagGTGGGGGAAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGTGGGCATGATTGGGGAAAGAGAACCTTAAAGACACTTTTAGGGAGgtgagttttaggtgctggctggcaagcaattcagcatgtttttggaagaa Alignment from Pairagon GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAG-CTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctgagaccccatggatattctcatctctttcagGTGGGGGAAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGTGGGCATGATTGGGGAAAGAGAACCTTAAAGACACTTTTAGGGAGgtgagttttaggtgctggctggcaagcaattcagcatgtttttggaagaa Alignment from Exonerate_protein2genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAG-CTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctgagaccccatggatattctcatctctttcagGTGGGGGAAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGTGGGCATGATTGGGGAAAGAGAACCTTAAAGACACTTTTAGGGAGgtgagttttaggtgctggctggcaagcaattcagcatgtttttggaagaa Alignment from Exonerate_coding2genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAG-CTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctgagaccccatggatattctcatctctttcagGTGGGGGAAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGTGGGCATGATTGGGGAAAGAGAACCTTAAAGACACTTTTAGGGAGgtgagttttaggtgctggctggcaagcaattcagcatgtttttggaagaa Alignment from GeneWise GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAG-CTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctgagaccccatggatattctcatctctttcagGTGGGGGAAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGTGGGCATGATTGGGGAAAGAGAACCTTAAAGACACTTTTAGGGAGgtgagttttaggtgctggctggcaagcaattcagcatgtttttggaagaa #### Cabp4_ID342_2 --> 0 - 1 Original Alignment GATCGTGAACTGGGC-CCTGAGGAGTTGGAGg aacaatccataattaggctctgcatggactgtatatctttgtctgtgtagGATCGTGAGCTGGGGCCCTGAGGAGTTGGAGagtaaatgactcttcctctctatgagaagcctggagttgataaaatatgtt Alignment from CESAR GATCGTGAACTG-GGCCCTGAGGAGTTGGAGg aacaatccataattaggctctgcatggactgtatatctttgtctgtgtagGATCGTGAGCTGGGGCCCTGAGGAGTTGGAGagtaaatgactcttcctctctatgagaagcctggagttgataaaatatgtt Alignment from Spaln_aa2Genome GATCGTGAACTGGGC-CCTGAGGAGTTGGAGG aacaatccataattaggctctgcatggactgtatatctttgtctgtgtagGATCGTGAGCTGGGGcCCTGAGGAGTTGGAGAgtaaatgactcttcctctctatgagaagcctggagttgataaaatatgtt Alignment from Spaln_nt2Genome GATCGTGAACTGGG-CCCTGAGGAGTTGGAGG aacaatccataattaggctctgcatggactgtatatctttgtctgtgtagGATCGTGAGCTGGGGCCCTGAGGAGTTGGAGAgtaaatgactcttcctctctatgagaagcctggagttgataaaatatgtt Alignment from Pairagon GATCGTGAACT-GGGCCCTGAGGAGTTGGAGG aacaatccataattaggctctgcatggactgtatatctttgtctgtgtagGATCGTGAGCTGGGGCCCTGAGGAGTTGGAGAgtaaatgactcttcctctctatgagaagcctggagttgataaaatatgtt Alignment from Exonerate_protein2genome GATCGTGAACTG-GGCCCTGAGGAGTTGGAGG aacaatccataattaggctctgcatggactgtatatctttgtctgtgtagGATCGTGAGCTGGGGCCCTGAGGAGTTGGAGAgtaaatgactcttcctctctatgagaagcctggagttgataaaatatgtt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise aacaatccataattaggctctgcatggactgtatatctttgtctgtgtaggatcgtgagctggggccctgaggagttggagagtaaatgactcttcctctctatgagaagcctggagttgataaaatatgtt #### Capn1_ID1356_20 --> 2 - 0 Original Alignment ggTTTTTCAAACTTCTGGACACAGAC-CTGGATGGTGTTGTGACCTTTGATCTATTTAAG gcaaggagaaccaggggaagccagccagatgttcggtgttttgtacatagggTTTTCCAAACTACTAGACCGAGGCCCTGGATGGTGTTGTTACCTTTGATCTTTTTAAGgtaaggatataagaatgaattctaacccatctgatcattaagatgtaatc Alignment from CESAR ggTTTTTCAAACTTCTGGACACAGAC---CTGGATGGTGTTGTGACCTTTGATCTATTTAAG gcaaggagaaccaggggaagccagccagatgttcggtgttttgtacatagggTTTTCCAAACTACTAG--ACCGAGGCCCTGGATGGTGTTGTTACCTTTGATCTTTTTAAGgtaaggatataagaatgaattctaacccatctgatcattaagatgtaatc Alignment from Spaln_aa2Genome GGTTTTTCAAACTTCTGGACACAGAC-CTGGATGGTGTTGTGACCTTTGATCTATTTAAG gcaaggagaaccaggggaagccagccagatgttcggtgttttgtacatagGGTTTTCCAAACTACTAGACCGAGGCcCTGGATGGTGTTGTTACCTTTGATCTTTTTAAGgtaaggatataagaatgaattctaacccatctgatcattaagatgtaatc Alignment from Spaln_nt2Genome GGTTTTTCAAACTTCTGGACACAGACC-TGGATGGTGTTGTGACCTTTGATCTATTTAAG gcaaggagaaccaggggaagccagccagatgttcggtgttttgtacatagGGTTTTCCAAACTACTAGACCGAGGCCCTGGATGGTGTTGTTACCTTTGATCTTTTTAAGgtaaggatataagaatgaattctaacccatctgatcattaagatgtaatc Alignment from Pairagon GGTTTTTCAAACTTCTGGACACAGA-CCTGGATGGTGTTGTGACCTTTGATCTATTTAAG gcaaggagaaccaggggaagccagccagatgttcggtgttttgtacatagGGTTTTCCAAACTACTAGACCGAGGCCCTGGATGGTGTTGTTACCTTTGATCTTTTTAAGgtaaggatataagaatgaattctaacccatctgatcattaagatgtaatc Alignment from Exonerate_protein2genome GGTTTTTCAAACTTCTGGACACAGAC-CTGGATGGTGTTGTGACCTTTGATCTATTTAAG gcaaggagaaccaggggaagccagccagatgttcggtgttttgtacatagGGTTTTCCAAACTACTAGACCGAGGCCCTGGATGGTGTTGTTACCTTTGATCTTTTTAAGgtaaggatataagaatgaattctaacccatctgatcattaagatgtaatc Alignment from Exonerate_coding2genome GGTTTTTCAAACTTCTGGACACAGAC-CTGGATGGTGTTGTGACCTTTGATCTATTTAAG gcaaggagaaccaggggaagccagccagatgttcggtgttttgtacatagGGTTTTCCAAACTACTAGACCGAGGCCCTGGATGGTGTTGTTACCTTTGATCTTTTTAAGgtaaggatataagaatgaattctaacccatctgatcattaagatgtaatc Alignment from GeneWise gcaaggagaaccaggggaagccagccagatgttcggtgttttgtacatagggttttccaaactactagaccgaggccctggatggtgttgttacctttgatctttttaaggtaaggatataagaatgaattctaacccatctgatcattaagatgtaatc #### Capn1_ID1362_14 --> 0 - 0 Original Alignment AAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAG-ACCTTGTTCAGCAAGTTGGCAGGGGAT agcccataatgctagctatgttttccaccgtgtcatctcgttttgtctagAAAGTTCTCTCTGAAGAAGAAATTGATGACAACTTCAAGCACTTTGTTCAGCAAGTTGGCAGGGGATgtgagtaagataaaaaagaagcatgcacaacagttcctgtgtagagatgc Alignment from CESAR AAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAG-ACCTTGTTCAGCAAGTTGGCAGGGGAT agcccataatgctagctatgttttccaccgtgtcatctcgttttgtctagAAAGTTCTCTCTGAAGAAGAAATTGATGACAACTTCAAGCACTTTGTTCAGCAAGTTGGCAGGGGATgtgagtaagataaaaaagaagcatgcacaacagttcctgtgtagagatgc Alignment from Spaln_aa2Genome AAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAG-ACCTTGTTCAGCAAGTTGGCAGGGGAT agcccataatgctagctatgttttccaccgtgtcatctcgttttgtctagAAAGTTCTCTCTGAAGAAGAAATTGATGACAACTTCAAGcACTTTGTTCAGCAAGTTGGCAGGGGATgtgagtaagataaaaaagaagcatgcacaacagttcctgtgtagagatgc Alignment from Spaln_nt2Genome AAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAG-ACCTTGTTCAGCAAGTTGGCAGGGGAT agcccataatgctagctatgttttccaccgtgtcatctcgttttgtctagAAAGTTCTCTCTGAAGAAGAAATTGATGACAACTTCAAGCACTTTGTTCAGCAAGTTGGCAGGGGATgtgagtaagataaaaaagaagcatgcacaacagttcctgtgtagagatgc Alignment from Pairagon AAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAG-ACCTTGTTCAGCAAGTTGGCAGGGGAT agcccataatgctagctatgttttccaccgtgtcatctcgttttgtctagAAAGTTCTCTCTGAAGAAGAAATTGATGACAACTTCAAGCACTTTGTTCAGCAAGTTGGCAGGGGATgtgagtaagataaaaaagaagcatgcacaacagttcctgtgtagagatgc Alignment from Exonerate_protein2genome AAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAG-ACCTTGTTCAGCAAGTTGGCAGGGGAT agcccataatgctagctatgttttccaccgtgtcatctcgttttgtctagAAAGTTCTCTCTGAAGAAGAAATTGATGACAACTTCAAGCACTTTGTTCAGCAAGTTGGCAGGGGATgtgagtaagataaaaaagaagcatgcacaacagttcctgtgtagagatgc Alignment from Exonerate_coding2genome AAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAG-ACCTTGTTCAGCAAGTTGGCAGGGGAT agcccataatgctagctatgttttccaccgtgtcatctcgttttgtctagAAAGTTCTCTCTGAAGAAGAAATTGATGACAACTTCAAGCACTTTGTTCAGCAAGTTGGCAGGGGATgtgagtaagataaaaaagaagcatgcacaacagttcctgtgtagagatgc Alignment from GeneWise AAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTC-AAGACCTTGTTCAGCAAGTTGGCAGGGGAT agcccataatgctagctatgttttccaccgtgtcatctcgttttgtctagAAAGTTCTCTCTGAAGAAGAAATTGATGACAACTTCAAGCACTTTGTTCAGCAAGTTGGCAGGGGATgtgagtaagataaaaaagaagcatgcacaacagttcctgtgtagagatgc #### Carns1_ID387_5 --> 0 - 1 Original Alignment GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCA-TTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAg tctaccatcgagtggtaattttgcaaggagtaacgctgttttctttgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCAGCAGGCACTTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTAGTGATGATGGTACTGGGATTATTGACAAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTACCCTTGCCAggtgagctttgattttaactcacaagcacaaacagccttaatgagatgcag Alignment from CESAR GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCA-TTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAg tctaccatcgagtggtaattttgcaaggagtaacgctgttttctttgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCAGCAGGCACTTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTAGTGATGATGGTACTGGGATTATTGACAAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTACCCTTGCCAggtgagctttgattttaactcacaagcacaaacagccttaatgagatgcag Alignment from Spaln_aa2Genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTG-CCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG tctaccatcgagtggtaattttgcaaggagtaacgctgttttctttgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCAGCAGGCACTTgCCTTTACATCTGCAGGTAAAGCCATCCACAGTAGTGATGATGGTACTGGGATTATTGACAAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTACCCTTGCCAGgtgagctttgattttaactcacaagcacaaacagccttaatgagatgcag Alignment from Spaln_nt2Genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCA-TTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG tctaccatcgagtggtaattttgcaaggagtaacgctgttttctttgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCAGCAGGCACTTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTAGTGATGATGGTACTGGGATTATTGACAAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTACCCTTGCCAGgtgagctttgattttaactcacaagcacaaacagccttaatgagatgcag Alignment from Pairagon GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCA-TTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG tctaccatcgagtggtaattttgcaaggagtaacgctgttttctttgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCAGCAGGCACTTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTAGTGATGATGGTACTGGGATTATTGACAAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTACCCTTGCCAGgtgagctttgattttaactcacaagcacaaacagccttaatgagatgcag Alignment from Exonerate_protein2genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCA-TTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG tctaccatcgagtggtaattttgcaaggagtaacgctgttttctttgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCAGCAGGCACTTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTAGTGATGATGGTACTGGGATTATTGACAAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTACCCTTGCCAGgtgagctttgattttaactcacaagcacaaacagccttaatgagatgcag Alignment from Exonerate_coding2genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCA-TTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG tctaccatcgagtggtaattttgcaaggagtaacgctgttttctttgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCAGCAGGCACTTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTAGTGATGATGGTACTGGGATTATTGACAAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTACCCTTGCCAGgtgagctttgattttaactcacaagcacaaacagccttaatgagatgcag Alignment from GeneWise GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAG-GCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG tctaccatcgagtggtaattttgcaaggagtaacgctgttttctttgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCAGCAGGCACTTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTAGTGATGATGGTACTGGGATTATTGACAAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTACCCTTGCCAGgtgagctttgattttaactcacaagcacaaacagccttaatgagatgcag #### Carns1_ID388_4 --> 2 - 0 Original Alignment gaAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCT-GTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tacgtagtcaatttcattgccttgcctgaactggtcatctttattaccaggaAATATGCTCCTCTGCCTGTCC---GCCTGGTTAATGAAAGTGGCAACACCAAGGCAGGAGGGTGAGGCGGTTTTACTGGTTTCTCAAGTTCGTGAGTTTCTATCCAGGTGGTTTGACGTTTCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAATCTGGGCGTGGCAAGGAGGCAGCAGAGCTGGCCCGAAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGCAGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAGGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCAAGGgtaactatacatctctgcatactctgaatatgttcctagttgtgtattct Alignment from CESAR gaAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCT-AAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tacgtagtcaatttcattgccttgcctgaactggtcatctttattaccaggaAATATGCTCCTCTGCCTGTCC---GCCTGGTTAATGAAAGTGGCAACACCAAGGCAGGAGGGTGAGGCGGTTTTACTGGTTTCTCAAGTTCGTGAGTTTCTATCCAGGTGGTTTGACGTTTCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAATCTGGGCGTGGCAAGGAGGCAGCAGAGCTGGCCCGAAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGCAGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAGGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCAAGGgtaactatacatctctgcatactctgaatatgttcctagttgtgtattct Alignment from Spaln_aa2Genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCT-AAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tacgtagtcaatttcattgccttgcctgaactggtcatctttattaccagGAAATATGCTCCTCTGCCTGTCC---GCCTGGTTAATGAAAGTGGCAACACCAAGGCAGGAGGGTGAGGCGGTTTTACTGGTTTCTcAAGTTCGTGAGTTTCTATCCAGGTGGTTTGACGTTTCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAATCTGGGCGTGGCAAGGAGGCAGCAGAGCTGGCCCGAAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGCAGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAGGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCAAGGgtaactatacatctctgcatactctgaatatgttcctagttgtgtattct Alignment from Spaln_nt2Genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCT-GTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tacgtagtcaatttcattgccttgcctgaactggtcatctttattaccagGAAATATGCTCCTCTGCCTGTCC---GCCTGGTTAATGAAAGTGGCAACACCAAGGCAGGAGGGTGAGGCGGTTTTACTGGTTTCTCAAGTTCGTGAGTTTCTATCCAGGTGGTTTGACGTTTCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAATCTGGGCGTGGCAAGGAGGCAGCAGAGCTGGCCCGAAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGCAGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAGGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCAAGGgtaactatacatctctgcatactctgaatatgttcctagttgtgtattct Alignment from Pairagon GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCT-AAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tacgtagtcaatttcattgccttgcctgaactggtcatctttattaccagGAAATATGCTCCTCTGCCTGTCC---GCCTGGTTAATGAAAGTGGCAACACCAAGGCAGGAGGGTGAGGCGGTTTTACTGGTTTCTCAAGTTCGTGAGTTTCTATCCAGGTGGTTTGACGTTTCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAATCTGGGCGTGGCAAGGAGGCAGCAGAGCTGGCCCGAAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGCAGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAGGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCAAGGgtaactatacatctctgcatactctgaatatgttcctagttgtgtattct Alignment from Exonerate_protein2genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCT-AAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tacgtagtcaatttcattgccttgcctgaactggtcatctttattaccagGAAATATGCTCCTCTGCCTGTCC---GCCTGGTTAATGAAAGTGGCAACACCAAGGCAGGAGGGTGAGGCGGTTTTACTGGTTTCTCAAGTTCGTGAGTTTCTATCCAGGTGGTTTGACGTTTCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAATCTGGGCGTGGCAAGGAGGCAGCAGAGCTGGCCCGAAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGCAGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAGGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCAAGGgtaactatacatctctgcatactctgaatatgttcctagttgtgtattct Alignment from Exonerate_coding2genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCT-AAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tacgtagtcaatttcattgccttgcctgaactggtcatctttattaccagGAAATATGCTCCTCTGCCTGTCC---GCCTGGTTAATGAAAGTGGCAACACCAAGGCAGGAGGGTGAGGCGGTTTTACTGGTTTCTCAAGTTCGTGAGTTTCTATCCAGGTGGTTTGACGTTTCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAATCTGGGCGTGGCAAGGAGGCAGCAGAGCTGGCCCGAAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGCAGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAGGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCAAGGgtaactatacatctctgcatactctgaatatgttcctagttgtgtattct Alignment from GeneWise GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAG-GCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tacgtagtcaatttcattgccttgcctgaactggtcatctttattaccagGAAATATGCTCCTCTGCCTGTCC---GCCTGGTTAATGAAAGTGGCAACACCAAGGCAGGAGGGTGAGGCGGTTTTACTGGTTTCTCAAGTTCGTGAGTTTCTATCCAGGTGGTTTGACGTTTCTGGATGACTTTGTTCCACCTCGGCATGCTACTTACTTCCTGGCAGGTCTGGGGCCAGAATCTGGGCGTGGCAAGGAGGCAGCAGAGCTGGCCCGAAATCTTACTTGCCCTACAGGAACTTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGCTACTTTCCCAGCAGAGCAGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAGGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCCTCAAGGgtaactatacatctctgcatactctgaatatgttcctagttgtgtattct #### Catsper1_ID926_3 --> 2 - 1 Original Alignment aaTGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGC-CTGGAGTATTTTTATGACCCATGGAACAACCTGg gtgagcagtgtagtcccagcctgtcccaaactctgttctgtgtctcacagaaTGGTATTTCATGATCCTAGACTCCATCTTCCTCACCATCTTTGTACTAGAGGCAGTC---AAACTTATTGCTTTGGGCCTTAGAGTATTTCTATGACCCGTCAAATAATCTGggtcagtcaatacagctagtccataatgaagcgtttcgctggttcataatg Alignment from CESAR aaTGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTG-GAGTATTTTTATGACCCATGGAACAACCTGg gtgagcagtgtagtcccagcctgtcccaaactctgttctgtgtctcacagaaTGGTATTTCATGATCCTAGACTCCATCTTCCTCACCATCTTTGTACTAGAGGCAGTC---AAACTTATTGCTTTGGGCCTTAGAGTATTTCTATGACCCGTCAAATAATCTGggtcagtcaatacagctagtccataatgaagcgtttcgctggttcataatg Alignment from Spaln_aa2Genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTG-GAGTATTTTTATGACCCATGGAACAACCTGG gtgagcagtgtagtcccagcctgtcccaaactctgttctgtgtctcacagAATGGTATTTCATGATCCTAGACTCCATCTTCCTCACCATCTTTGTACTAGAGGCAGTC---AAACTTATTGCTTTGGGCCTTaGAGTATTTCTATGACCCGTCAAATAATCTGGgtcagtcaatacagctagtccataatgaagcgtttcgctggttcataatg Alignment from Spaln_nt2Genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTG-GAGTATTTTTATGACCCATGGAACAACCTGG gtgagcagtgtagtcccagcctgtcccaaactctgttctgtgtctcacagAATGGTATTTCATGATCCTAGACTCCATCTTCCTCACCATCTTTGTACTAGAGGCAG---TCAAACTTATTGCTTTGGGCCTTAGAGTATTTCTATGACCCGTCAAATAATCTGGgtcagtcaatacagctagtccataatgaagcgtttcgctggttcataatg Alignment from Pairagon AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCC-TGGAGTATTTTTATGACCCATGGAACAACCTGG gtgagcagtgtagtcccagcctgtcccaaactctgttctgtgtctcacagAATGGTATTTCATGATCCTAGACTCCATCTTCCTCACCATCTTTGTACTAGAGGCAG---TCAAACTTATTGCTTTGGGCCTTAGAGTATTTCTATGACCCGTCAAATAATCTGGgtcagtcaatacagctagtccataatgaagcgtttcgctggttcataatg Alignment from Exonerate_protein2genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGC-CTGGAGTATTTTTATGACCCATGGAACAACCTGG gtgagcagtgtagtcccagcctgtcccaaactctgttctgtgtctcacagAATGGTATTTCATGATCCTAGACTCCATCTTCCTCACCATCTTTGTACTAGAGGCAGTC---AAACTTATTGCTTTGGGCCTTAGAGTATTTCTATGACCCGTCAAATAATCTGGgtcagtcaatacagctagtccataatgaagcgtttcgctggttcataatg Alignment from Exonerate_coding2genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGC-CTGGAGTATTTTTATGACCCATGGAACAACCTGG gtgagcagtgtagtcccagcctgtcccaaactctgttctgtgtctcacagAATGGTATTTCATGATCCTAGACTCCATCTTCCTCACCATCTTTGTACTAGAGGCAGTC---AAACTTATTGCTTTGGGCCTTAGAGTATTTCTATGACCCGTCAAATAATCTGGgtcagtcaatacagctagtccataatgaagcgtttcgctggttcataatg Alignment from GeneWise AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGC-CTGGAGTATTTTTATGACCCATGGAACAACCTGG gtgagcagtgtagtcccagcctgtcccaaactctgttctgtgtctcacagAATGGTATTTCATGATCCTAGACTCCATCTTCCTCACCATCTTTGTACTAGAGGCAGTC---AAACTTATTGCTTTGGGCCTTAGAGTATTTCTATGACCCGTCAAATAATCTGGgtcagtcaatacagctagtccataatgaagcgtttcgctggttcataatg #### Catsper1_ID931_8 --> 1 - 0 Original Alignment cCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGC-CTAGAGAAAGTGAAGCTGGAG tcctcactcataagccccatttatgcaactctttttaaaatgttttatagtCTAGTAATTGCAGCTCTAGTAGACAACTTCCTAATGGTCCTGCTCAAAGGCCCTGGAGAAAGTGAAGCTGGAAgtaagaacgatgtagaagcacagataatccagatgtgctgtgcaaagatg Alignment from CESAR cCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGC-CTAGAGAAAGTGAAGCTGGAG tcctcactcataagccccatttatgcaactctttttaaaatgttttatagtCTAGTAATTGCAGCTCTAGTAGACAACTTCCTAATGGTCCTGCTCAAAGGCCCTGGAGAAAGTGAAGCTGGAAgtaagaacgatgtagaagcacagataatccagatgtgctgtgcaaagatg Alignment from Spaln_aa2Genome CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGC-CTAGAGAAAGTGAAGCTGGAG tcctcactcataagccccatttatgcaactctttttaaaatgttttatagTCTAGTAATTGCAGCTCTAGTAGACAACTTCCTAATGGTCCTGCTCAAAGGCcCTGGAGAAAGTGAAGCTGGAAgtaagaacgatgtagaagcacagataatccagatgtgctgtgcaaagatg Alignment from Spaln_nt2Genome CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCC-TAGAGAAAGTGAAGCTGGAG tcctcactcataagccccatttatgcaactctttttaaaatgttttatagTCTAGTAATTGCAGCTCTAGTAGACAACTTCCTAATGGTCCTGCTCAAAGGCCCTGGAGAAAGTGAAGCTGGAAgtaagaacgatgtagaagcacagataatccagatgtgctgtgcaaagatg Alignment from Pairagon CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGG-CCTAGAGAAAGTGAAGCTGGAG tcctcactcataagccccatttatgcaactctttttaaaatgttttatagTCTAGTAATTGCAGCTCTAGTAGACAACTTCCTAATGGTCCTGCTCAAAGGCCCTGGAGAAAGTGAAGCTGGAAgtaagaacgatgtagaagcacagataatccagatgtgctgtgcaaagatg Alignment from Exonerate_protein2genome CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGC-CTAGAGAAAGTGAAGCTGGAG tcctcactcataagccccatttatgcaactctttttaaaatgttttatagTCTAGTAATTGCAGCTCTAGTAGACAACTTCCTAATGGTCCTGCTCAAAGGCCCTGGAGAAAGTGAAGCTGGAAgtaagaacgatgtagaagcacagataatccagatgtgctgtgcaaagatg Alignment from Exonerate_coding2genome tcctcactcataagccccatttatgcaactctttttaaaatgttttatagtctagtaattgcagctctagtagacaacttcctaatggtcctgctcaaaggccctggagaaagtgaagctggaagtaagaacgatgtagaagcacagataatccagatgtgctgtgcaaagatg Alignment from GeneWise CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGC-CTAGAGAAAGTGAAGCTGGAG tcctcactcataagccccatttatgcaactctttttaaaatgttttatagTCTAGTAATTGCAGCTCTAGTAGACAACTTCCTAATGGTCCTGCTCAAAGGCCCTGGAGAAAGTGAAGCTGGAAgtaagaacgatgtagaagcacagataatccagatgtgctgtgcaaagatg #### Cbwd1_ID5353_14 --> 0 - 1 Original Alignment GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAA-GAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTg caattatgttgtcgtatgttgcaagcagttactgccctttcctttcttagGGATTGGTGTCTATCAAAGTGAAGCCACATCAAATGATTGTGCAAGGTATTCATGATTTGTATGACTTGGAACGGGAGCCTTGTGAAATGGAAGGATGATGCAGCAAGGGCTTGTCAGCTAGTTTTCATTggtgagaaacactaatgtactactaaatgtactactacgttctgtgtctaa Alignment from CESAR GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAA-GAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTg caattatgttgtcgtatgttgcaagcagttactgccctttcctttcttagGGATTGGTGTCTATCAAAGTGAAGCCACATCAAATGATTGTGCAAGGTATTCATGATTTGTATGACTTGGAACGGGAGCCTTGTGAAATGGAAGGATGATGCAGCAAGGGCTTGTCAGCTAGTTTTCATTggtgagaaacactaatgtactactaaatgtactactacgttctgtgtctaa Alignment from Spaln_aa2Genome GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAA-GAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTG caattatgttgtcgtatgttgcaagcagttactgccctttcctttcttagGGATTGGTGTCTATCAAAGTGAAGCCACATCAAATGATTGTGCAAGGTATTCATGATTTGTATGACTTGGAAcGGGAGCCTTGTGAAATGGAAGGATGATGCAGCAAGGGCTTGTCAGCTAGTTTTCATTGgtgagaaacactaatgtactactaaatgtactactacgttctgtgtctaa Alignment from Spaln_nt2Genome GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAA-GAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTG caattatgttgtcgtatgttgcaagcagttactgccctttcctttcttagGGATTGGTGTCTATCAAAGTGAAGCCACATCAAATGATTGTGCAAGGTATTCATGATTTGTATGACTTGGAACGGGAGCCTTGTGAAATGGAAGGATGATGCAGCAAGGGCTTGTCAGCTAGTTTTCATTGgtgagaaacactaatgtactactaaatgtactactacgttctgtgtctaa Alignment from Pairagon GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAA-GAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTG caattatgttgtcgtatgttgcaagcagttactgccctttcctttcttagGGATTGGTGTCTATCAAAGTGAAGCCACATCAAATGATTGTGCAAGGTATTCATGATTTGTATGACTTGGAACGGGAGCCTTGTGAAATGGAAGGATGATGCAGCAAGGGCTTGTCAGCTAGTTTTCATTGgtgagaaacactaatgtactactaaatgtactactacgttctgtgtctaa Alignment from Exonerate_protein2genome GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAA-AGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTG caattatgttgtcgtatgttgcaagcagttactgccctttcctttcttagGGATTGGTGTCTATCAAAGTGAAGCCACATCAAATGATTGTGCAAGGTATTCATGATTTGTATGACTTGGAACGGGAGCCTTGTGAAATGGAAGGATGATGCAGCAAGGGCTTGTCAGCTAGTTTTCATTGgtgagaaacactaatgtactactaaatgtactactacgttctgtgtctaa Alignment from Exonerate_coding2genome GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAA-AGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTG caattatgttgtcgtatgttgcaagcagttactgccctttcctttcttagGGATTGGTGTCTATCAAAGTGAAGCCACATCAAATGATTGTGCAAGGTATTCATGATTTGTATGACTTGGAACGGGAGCCTTGTGAAATGGAAGGATGATGCAGCAAGGGCTTGTCAGCTAGTTTTCATTGgtgagaaacactaatgtactactaaatgtactactacgttctgtgtctaa Alignment from GeneWise GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAA-GAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTG caattatgttgtcgtatgttgcaagcagttactgccctttcctttcttagGGATTGGTGTCTATCAAAGTGAAGCCACATCAAATGATTGTGCAAGGTATTCATGATTTGTATGACTTGGAACGGGAGCCTTGTGAAATGGAAGGATGATGCAGCAAGGGCTTGTCAGCTAGTTTTCATTGgtgagaaacactaatgtactactaaatgtactactacgttctgtgtctaa #### Ccdc88b_ID1824_25 --> 2 - 1 Original Alignment ggTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGAC-ACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAg catcatggtgacttccctgatccatacaagacatttggtctctttggaagggTCATCGTCACCAGCGCCCATGCACCAAATAGAGAGCTCCCTTTGCTTGGGAGACGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTAAGTTCTCAGTTCTCTATTGGACAAAGTCCCGCTTCATTCAGTCCCAGT---CACTTCACAGCAATGGTTCAAACAGCAGAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAggtcagcggtgtcttattataattgtaatttcaatcgaagtatgaagttgt Alignment from CESAR ggTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAg catcatggtgacttccctgatccatacaagacatttggtctctttggaagggTCATCGTCACCAGCGCCCATGCACCAAATAGAGAGCTCCCTTTGCTTGGGAGACGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTAAGTTCTCAGTTCTCTATTGGACAAAGTCCCGCTTCATTCAGTCCCAGT--CACTTCACAGCAATGGTTCAAACAGCAGAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAggtcagcggtgtcttattataattgtaatttcaatcgaagtatgaagttgt Alignment from Spaln_aa2Genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG catcatggtgacttccctgatccatacaagacatttggtctctttggaagGGTCATCGTCACCAGCGCCCATGCACCAAATAGAGAGCTCCCTTTGCTTGGGAGACGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTAAGTTCTCAGTTCTCTATTGGACAAAGTCCCGCTTCATTCAGTCCCAGTC--ACTTCACAGCAATGGTTCAAACAGCAGAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtcagcggtgtcttattataattgtaatttcaatcgaagtatgaagttgt Alignment from Spaln_nt2Genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG catcatggtgacttccctgatccatacaagacatttggtctctttggaagGGTCATCGTCACCAGCGCCCATGCACCAAATAGAGAGCTCCCTTTGCTTGGGAGACGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTAAGTTCTCAGTTCTCTATTGGACAAAGTCCCGCTTCATTCAGTCC--CAGTCACTTCACAGCAATGGTTCAAACAGCAGAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtcagcggtgtcttattataattgtaatttcaatcgaagtatgaagttgt Alignment from Pairagon GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTC------------CAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG catcatggtgacttccctgatccatacaagacatttggtctctttggaagGGTCATCGTCACCAGCGCCCATGCACCAAATAGAGAGCTCCCTTTGCTTGGGAGACGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTAAGTTCTCAGTTCTCTATTGGACAAAGTCCCGCTTCATTCAGTCCCAGTCACTTCACA--------------GCAATGGTTCAAACAGCAGAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtcagcggtgtcttattataattgtaatttcaatcgaagtatgaagttgt Alignment from Exonerate_protein2genome catcatggtgacttccctgatccatacaagacatttggtctctttggaagggtcatcgtcaccagcgcccatgcaccaaatagagagctccctttgcttgggagacgagaccctagctggtgggcagcgacggagtctaagttctcagttctctattggacaaagtcccgcttcattcagtcccagtcacttcacagcaatggttcaaacagcagaggccaggcccccttggggcactgagtacctacagcaaaggtcagcggtgtcttattataattgtaatttcaatcgaagtatgaagttgt Alignment from Exonerate_coding2genome catcatggtgacttccctgatccatacaagacatttggtctctttggaagggtcatcgtcaccagcgcccatgcaccaaatagagagctccctttgcttgggagacgagaccctagctggtgggcagcgacggagtctaagttctcagttctctattggacaaagtcccgcttcattcagtcccagtcacttcacagcaatggttcaaacagcagaggccaggcccccttggggcactgagtacctacagcaaaggtcagcggtgtcttattataattgtaatttcaatcgaagtatgaagttgt Alignment from GeneWise GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG catcatggtgacttccctgatccatacaagacatttggtctctttggaagGGTCATCGTCACCAGCGCCCATGCACCAAATAGAGAGCTCCCTTTGCTTGGGAGACGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTAAGTTCTCAGTTCTCTATTGGACAAAGTCCCGCTTCATTCAGTCCCAGTC--ACTTCACAGCAATGGTTCAAACAGCAGAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtcagcggtgtcttattataattgtaatttcaatcgaagtatgaagttgt #### Ccdc88b_ID1827_22 --> 0 - 2 Original Alignment CTTCTGACCCAG-CTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACct cttcaatggataggttaactaataaattcaggttttatgtttgttttcagCTCTTAACACAGCCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTAGTAGAGGTGAAGGCTTCAAGCCGCACAAACAGGGAGTTGCAAGAGTGTAGTTTGGAGAGT---GACCCCGTGCATTGTGAGCAGCCAGAATACctgtgggcccaacttaaggtcagattgatgctaccttaaggtcagattgatg Alignment from CESAR CTTCTGACCCAG-CTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACct cttcaatggataggttaactaataaattcaggttttatgtttgttttcagCTCTTAACACAGCCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTAGTAGAGGTGAAGGCTTCAAGCCGCACAAACAGGGAGTTGCAAGAGTGTAGTTTGGAGAGT---GACCCCGTGCATTGTGAGCAGCCAGAATACctgtgggcccaacttaaggtcagattgatgctaccttaaggtcagattgatg Alignment from Spaln_aa2Genome -CTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT cttcaatggataggttaactaataaattcaggttttatgtttgttttcagctcttaacacagCCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTAGTAGAGGTGAAGGCTTCAAGCCGCACAAACAGGGAGTTGCAAGAGTGTAGTTTGGAGAGT---GACCCCGTGCATTGTGAGCAGCCAGAATACCTgtgggcccaacttaaggtcagattgatgctaccttaaggtcagattgatg Alignment from Spaln_nt2Genome CTTCTGACCCAGC-TTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT cttcaatggataggttaactaataaattcaggttttatgtttgttttcagCTCTTAACACAGCCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTAGTAGAGGTGAAGGCTTCAAGCCGCACAAACAGGGAGTTGCAAGAGTGTAGTTTGGAGA---GTGACCCCGTGCATTGTGAGCAGCCAGAATACCTgtgggcccaacttaaggtcagattgatgctaccttaaggtcagattgatg Alignment from Pairagon CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT cttcaatggataggttaactaataaattcaggttttatgtttgttttcagctcttaacacagccttcatacagtacaaaaag-------------------------------AGGAGAATAGGCAGCTTTTAGTAGAGGTGAAGGCTTCAAGCCGCACAAACAGGGAGTTGCAAGAGTGTAGTTTGGAGA---GTGACCCCGTGCATTGTGAGCAGCCAGAATACCTgtgggcccaacttaaggtcagattgatgctaccttaaggtcagattgatg Alignment from Exonerate_protein2genome CTTCTGACCCAG-CTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT cttcaatggataggttaactaataaattcaggttttatgtttgttttcagCTCTTAACACAGCCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTAGTAGAGGTGAAGGCTTCAAGCCGCACAAACAGGGAGTTGCAAGAGTGTAGTTTGGAGAGT---GACCCCGTGCATTGTGAGCAGCCAGAATACCTgtgggcccaacttaaggtcagattgatgctaccttaaggtcagattgatg Alignment from Exonerate_coding2genome cttcaatggataggttaactaataaattcaggttttatgtttgttttcagctcttaacacagccttcatacagtacaaaaagaggagaataggcagcttttagtagaggtgaaggcttcaagccgcacaaacagggagttgcaagagtgtagtttggagagtgaccccgtgcattgtgagcagccagaatacctgtgggcccaacttaaggtcagattgatgctaccttaaggtcagattgatg Alignment from GeneWise GCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT cttcaatggataggttaactaataaattcaggttttatgtttgttttcagctcttaacacagCCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTAGTAGAGGTGAAGGCTTCAAGCCGCACAAACAGGGAGTTGCAAGAGTGTAGTTTGGAGAGT---GACCCCGTGCATTGTGAGCAGCCAGAATACCTgtgggcccaacttaaggtcagattgatgctaccttaaggtcagattgatg #### Ccdc88b_ID1831_18 --> 0 - 0 Original Alignment AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTG-CAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG aagggctgtcacatcacaacgttaatatcctaaccttttttccccctaagAATGCCACATTAGTGGCAGAGAAAGTGGCTCTGCAGGGACAGTTACAGCATCTTGAGGGCCAGCTGGGTAGCCTACCATGCTCGTGCACAGGAGTTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtgagcttgggtgattgaatgggttgggtcatccaccttgaaacaatgta Alignment from CESAR AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTG-CAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG aagggctgtcacatcacaacgttaatatcctaaccttttttccccctaagAATGCCACATTAGTGGCAGAGAAAGTGGCTCTGCAGGGACAGTTACAGCATCTTGAGGGCCAGCTGGGTAGCCTACCATGCTCGTGCACAGGAGTTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtgagcttgggtgattgaatgggttgggtcatccaccttgaaacaatgta Alignment from Spaln_aa2Genome AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTG-CAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG aagggctgtcacatcacaacgttaatatcctaaccttttttccccctaagAATGCCACATTAGTGGCAGAGAAAGTGGCTCTGCAGGGACAGTTACAGCATCTTGAGGGCCAGCTGGGTAGCCTAcCATGCTCGTGCACAGGAGTTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtgagcttgggtgattgaatgggttgggtcatccaccttgaaacaatgta Alignment from Spaln_nt2Genome AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGC-CGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG aagggctgtcacatcacaacgttaatatcctaaccttttttccccctaagAATGCCACATTAGTGGCAGAGAAAGTGGCTCTGCAGGGACAGTTACAGCATCTTGAGGGCCAGCTGGGTAGCCTACCATGCTCGTGCACAGGAGTTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtgagcttgggtgattgaatgggttgggtcatccaccttgaaacaatgta Alignment from Pairagon AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTG-CAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG aagggctgtcacatcacaacgttaatatcctaaccttttttccccctaagAATGCCACATTAGTGGCAGAGAAAGTGGCTCTGCAGGGACAGTTACAGCATCTTGAGGGCCAGCTGGGTAGCCTACCATGCTCGTGCACAGGAGTTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtgagcttgggtgattgaatgggttgggtcatccaccttgaaacaatgta Alignment from Exonerate_protein2genome aagggctgtcacatcacaacgttaatatcctaaccttttttccccctaagaatgccacattagtggcagagaaagtggctctgcagggacagttacagcatcttgagggccagctgggtagcctaccatgctcgtgcacaggagttgcttctacagagtcaacgggctcaagagcacagtagttgcttgcaggtgagcttgggtgattgaatgggttgggtcatccaccttgaaacaatgta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTG-CAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG aagggctgtcacatcacaacgttaatatcctaaccttttttccccctaagAATGCCACATTAGTGGCAGAGAAAGTGGCTCTGCAGGGACAGTTACAGCATCTTGAGGGCCAGCTGGGTAGCCTACCATGCTCGTGCACAGGAGTTGCTTCTACAGAGTCAACGGGCTCAAGAGCACAGTAGTTGCTTGCAGgtgagcttgggtgattgaatgggttgggtcatccaccttgaaacaatgta #### Ccdc88b_ID1836_13 --> 2 - 0 Original Alignment ccTCCCTACCCGGAGCAGCACCCTCACTGCAAGAT-GAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggaaacatgacaggatagaactgtcctcccatccattcccagcaTCCCTTCCTGGCCCAGCACCCTCACTGCAGGATCGAGGTGAGGAAAGTAGAGGGTTGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---CATATG------GCACAGCTTGGGAGCCAGgtacagcctctgtcgtttcatctctgagtaattcagttctttgtggatac Alignment from CESAR ccTCCCTACCCGGAGCAGCACCCTCACTGCAAGAT-GAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggaaacatgacaggatagaactgtcctcccatccattcccagcaTCCCTTCCTGGCCCAGCACCCTCACTGCAGGATCGAGGTGAGGAAAGTAGAGGGTTGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---CATATG------GCACAGCTTGGGAGCCAGgtacagcctctgtcgtttcatctctgagtaattcagttctttgtggatac Alignment from Spaln_aa2Genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGAT-GAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggaaacatgacaggatagaactgtcctcccatccattcccagCATCCCTTCCTGGCCCAGCACCCTCACTGCAGGATcGAGGTGAGGAAAGTAGAGGGTTGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---CATATG------GCACAGCTTGGGAGCCAGgtacagcctctgtcgtttcatctctgagtaattcagttctttgtggatac Alignment from Spaln_nt2Genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGAT-GAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggaaacatgacaggatagaactgtcctcccatccattcccagCATCCCTTCCTGGCCCAGCACCCTCACTGCAGGATCGAGGTGAGGAAAGTAGAGGGTTGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCA---ACATAT------GGCACAGCTTGGGAGCCAGgtacagcctctgtcgtttcatctctgagtaattcagttctttgtggatac Alignment from Pairagon CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGAT-GAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggaaacatgacaggatagaactgtcctcccatccattcccagCATCCCTTCCTGGCCCAGCACCCTCACTGCAGGATCGAGGTGAGGAAAGTAGAGGGTTGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---------CATATGGCACAGCTTGGGAGCCAGgtacagcctctgtcgtttcatctctgagtaattcagttctttgtggatac Alignment from Exonerate_protein2genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGAT-GAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggaaacatgacaggatagaactgtcctcccatccattcccagCATCCCTTCCTGGCCCAGCACCCTCACTGCAGGATCGAGGTGAGGAAAGTAGAGGGTTGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---------CATATGGCACAGCTTGGGAGCCAGgtacagcctctgtcgtttcatctctgagtaattcagttctttgtggatac Alignment from Exonerate_coding2genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGAT-GAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggaaacatgacaggatagaactgtcctcccatccattcccagCATCCCTTCCTGGCCCAGCACCCTCACTGCAGGATCGAGGTGAGGAAAGTAGAGGGTTGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---------CATATGGCACAGCTTGGGAGCCAGgtacagcctctgtcgtttcatctctgagtaattcagttctttgtggatac Alignment from GeneWise CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGAT-GAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggaaacatgacaggatagaactgtcctcccatccattcccagCATCCCTTCCTGGCCCAGCACCCTCACTGCAGGATCGAGGTGAGGAAAGTAGAGGGTTGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---------CATATGGCACAGCTTGGGAGCCAGgtacagcctctgtcgtttcatctctgagtaattcagttctttgtggatac #### Ccdc88b_ID1837_12 --> 0 - 1 Original Alignment GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAG-CCACCCCCAGGCTCCCCTGGGGAGg aggcctaatgggcagatagctctggcacggcactgtactttctcccacagGACCTGGACTCACTGCGGCATCAGTTGGAACAGTTAGTGGAAGAGAACGTAGAGCTGGAGTTGGAGCTACAAAGAAGTTTGGAGCCCACCTCCAGGCTCCCCTGGGGAGggtgagttgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from CESAR GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAG-CCACCCCCAGGCTCCCCTGGGGAGg aggcctaatgggcagatagctctggcacggcactgtactttctcccacagGACCTGGACTCACTGCGGCATCAGTTGGAACAGTTAGTGGAAGAGAACGTAGAGCTGGAGTTGGAGCTACAAAGAAGTTTGGAGCCCACCTCCAGGCTCCCCTGGGGAGggtgagttgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from Spaln_aa2Genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAG-CCACCCCCAGGCTCCCCTGGGGAGG aggcctaatgggcagatagctctggcacggcactgtactttctcccacagGACCTGGACTCACTGCGGCATCAGTTGGAACAGTTAGTGGAAGAGAACGTAGAGCTGGAGTTGGAGCTACAAAGAAGTTTGGAGcCCACCTCCAGGCTCCCCTGGGGAGGgtgagttgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from Spaln_nt2Genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCC-ACCCCCAGGCTCCCCTGGGGAGG aggcctaatgggcagatagctctggcacggcactgtactttctcccacagGACCTGGACTCACTGCGGCATCAGTTGGAACAGTTAGTGGAAGAGAACGTAGAGCTGGAGTTGGAGCTACAAAGAAGTTTGGAGCCCACCTCCAGGCTCCCCTGGGGAGGgtgagttgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from Pairagon GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAG-CCACCCCCAGGCTCCCCTGGGGAGG aggcctaatgggcagatagctctggcacggcactgtactttctcccacagGACCTGGACTCACTGCGGCATCAGTTGGAACAGTTAGTGGAAGAGAACGTAGAGCTGGAGTTGGAGCTACAAAGAAGTTTGGAGCCCACCTCCAGGCTCCCCTGGGGAGGgtgagttgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from Exonerate_protein2genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAG-CCACCCCCAGGCTCCCCTGGGGAGG aggcctaatgggcagatagctctggcacggcactgtactttctcccacagGACCTGGACTCACTGCGGCATCAGTTGGAACAGTTAGTGGAAGAGAACGTAGAGCTGGAGTTGGAGCTACAAAGAAGTTTGGAGCCCACCTCCAGGCTCCCCTGGGGAGGgtgagttgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTG-GAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatgggcagatagctctggcacggcactgtactttctcccacagGACCTGGACTCACTGCGGCATCAGTTGGAACAGTTAGTGGAAGAGAACGTAGAGCTGGAGTTGGAGCTACAAAGAAGTTTGGAGCCCACCTCCAGGCTCCCCTGGGGAGGgtgagttgtagcagacaggatttggcaaggaacctttagtcttaagaaga #### Ccdc88b_ID1839_10 --> 0 - 0 Original Alignment ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTG-CGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG actccttcactggcagccccctgtccagtattttctgttttctactgaagACTCAGGCATTGTCTGCCCAAGCAAAGTGCACCGAACTCTGCTGTGAAGAGGCAGAGGCATCACGAA---GAGGCAGGTCACCTGCCCCACCTGCAGGAAGATCTTCGAAGATGCTGGGAGAAGCTTCAAGCTGCAGAAGTCTTCAAGGGACATTTGGAAgtgaggttatgcacatatgaaccagagcaatgggtagtgtcgatgctgct Alignment from CESAR ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG actccttcactggcagccccctgtccagtattttctgttttctactgaagACTCAGGCATTGTCTGCCCAAGCAAAGTGCACCGAACTCTGCTGTGAAGAGGCAGAGGCATCAC--GAAGAGGCAGGTCACCTGCCCCACCTGCAGGAAGATCTTCGAAGATGCTGGGAGAAGCTTCAAGCTGCAGAAGTCTTCAAGGGACATTTGGAAgtgaggttatgcacatatgaaccagagcaatgggtagtgtcgatgctgct Alignment from Spaln_aa2Genome ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG actccttcactggcagccccctgtccagtattttctgttttctactgaagACTCAGGCATTGTCTGCCCAAGCAAAGTGCACCGAACTCTGCTGTGAAGAGGCAGAGGCAT--CACGAAGAGGCAGGTCACCTGCCCCACCTGCAGGAAGATCTTCGAAGATGCTGGGAGAAGCTTCAAGCTGCAGAAGTCTTCAAGGGACATTTGGAAgtgaggttatgcacatatgaaccagagcaatgggtagtgtcgatgctgct Alignment from Spaln_nt2Genome ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG actccttcactggcagccccctgtccagtattttctgttttctactgaagACTCAGGCATTGTCTGCCCAAGCAAAGTGCACCGAACTCTGCTGTGAAGAGGCAGAGGCA--TCACGAAGAGGCAGGTCACCTGCCCCACCTGCAGGAAGATCTTCGAAGATGCTGGGAGAAGCTTCAAGCTGCAGAAGTCTTCAAGGGACATTTGGAAgtgaggttatgcacatatgaaccagagcaatgggtagtgtcgatgctgct Alignment from Pairagon ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGC---------ACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG actccttcactggcagccccctgtccagtattttctgttttctactgaagACTCAGGCATTGTCTGCCCAAGCAAAGTGCACCGAACTCTGCTGTGAAGAGGCAGAGGCATCACGAAGA-----------GGCAGGTCACCTGCCCCACCTGCAGGAAGATCTTCGAAGATGCTGGGAGAAGCTTCAAGCTGCAGAAGTCTTCAAGGGACATTTGGAAgtgaggttatgcacatatgaaccagagcaatgggtagtgtcgatgctgct Alignment from Exonerate_protein2genome GGTGCAGGGCTTGGAGGCTGAAATTCGAAGGCTCCGCCAGGAGACTCAGGCGCTGTCC-----GCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG ACTCCTTCACTGGCAGCCCCCTGTCCAGTATTTTCTGTTTTCTACTGAAGACTCAGGCATTGTCTGCCCAAGCAAAGTGCACCGAACTCTGCTGTGAAGAGGCAGAGGCATCACGAAGAGGCAGGTCACCTGCCCCACCTGCAGGAAGATCTTCGAAGATGCTGGGAGAAGCTTCAAGCTGCAGAAGTCTTCAAGGGACATTTGGAAgtgaggttatgcacatatgaaccagagcaatgggtagtgtcgatgctgct Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG actccttcactggcagccccctgtccagtattttctgttttctactgaagACTCAGGCATTGTCTGCCCAAGCAAAGTGCACCGAACTCTGCTGTGAAGAGGCAGAGGCAT--CACGAAGAGGCAGGTCACCTGCCCCACCTGCAGGAAGATCTTCGAAGATGCTGGGAGAAGCTTCAAGCTGCAGAAGTCTTCAAGGGACATTTGGAAgtgaggttatgcacatatgaaccagagcaatgggtagtgtcgatgctgct #### Ccdc88b_ID1844_5 --> 2 - 0 Original Alignment aaGAGGCAGTGGAC------------------------------------------------------GAGCTGGAAAGCATCCTTCGGCTGTTG-CTGGGGGCCTCAGTGCAG tataccctcatctttttctccttgcccggccaagtgggcctgacttgcagagGAGACTGTGGATGAGTTGGAGAGCATCCTGTGGTTGTTATTGGGGGCTTCCATACAGGTGAAAAGGAAGCTTGAAAGCATTTTTAGGCTGCTGCTTAGGGGTTTCAGTACGAgtagagaagctggagtacgaatacacactgagtgccccctaggtggggaa Alignment from CESAR aaGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG tataccctcatctttttctccttgcccggccaagtgggcctgacttgcagagGAGACTGTGGATGAGTTGGAGAGCATCCTGTGGTTGTTATTGGGGGCTTCCATACAGgtgaaaaggaagcttgaaagcatttttaggctgctgcttaggggtttcagtacgagtagagaagctggagtacgaatacacactgagtgccccctaggtggggaa Alignment from Spaln_aa2Genome AAGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG tataccctcatctttttctccttgcccggccaagtgggcctgacttgcagAGGAGACTGTGGATGAGTTGGAGAGCATCCTGTGGTTGTTATTGGGGGCTTCCATACAGgtgaaaaggaagcttgaaagcatttttaggctgctgcttaggggtttcagtacgagtagagaagctggagtacgaatacacactgagtgccccctaggtggggaa Alignment from Spaln_nt2Genome AAGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG tataccctcatctttttctccttgcccggccaagtgggcctgacttgcagAGGAGACTGTGGATGAGTTGGAGAGCATCCTGTGGTTGTTATTGGGGGCTTCCATACAGgtgaaaaggaagcttgaaagcatttttaggctgctgcttaggggtttcagtacgagtagagaagctggagtacgaatacacactgagtgccccctaggtggggaa Alignment from Pairagon AAGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG tataccctcatctttttctccttgcccggccaagtgggcctgacttgcagAGGAGACTGTGGATGAGTTGGAGAGCATCCTGTGGTTGTTATTGGGGGCTTCCATACAGgtgaaaaggaagcttgaaagcatttttaggctgctgcttaggggtttcagtacgagtagagaagctggagtacgaatacacactgagtgccccctaggtggggaa Alignment from Exonerate_protein2genome tataccctcatctttttctccttgcccggccaagtgggcctgacttgcagaggagactgtggatgagttggagagcatcctgtggttgttattgggggcttccatacaggtgaaaaggaagcttgaaagcatttttaggctgctgcttaggggtttcagtacgagtagagaagctggagtacgaatacacactgagtgccccctaggtggggaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AAGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG tataccctcatctttttctccttgcccggccaagtgggcctgacttgcagAGGAGACTGTGGATGAGTTGGAGAGCATCCTGTGGTTGTTATTGGGGGCTTCCATACAGgtgaaaaggaagcttgaaagcatttttaggctgctgcttaggggtttcagtacgagtagagaagctggagtacgaatacacactgagtgccccctaggtggggaa #### Ccdc88b_ID1845_4 --> 0 - 1 Original Alignment GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAG-ACAATGGGGTGTGACCCCTTCTCAg agagcccaggcacctagctcagacacattctaacccctgctcctttaaagGAAGAGCTACAGCTTTTAATATTATCTACATCACCAGACCTCCAGCCCTACAGGGTGTGAACCCTTTTCAggtatgtgttctaaccttgtctatcactagactaccatgtataccctcatc Alignment from CESAR GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAG-ACAATGGGGTGTGACCCCTTCTCAg agagcccaggcacctagctcagacacattctaacccctgctcctttaaagGAAGAGCTACAGCTTTTAATATTATCTACATCACCAGACCTCCAGCCCTACAGGGTGTGAACCCTTTTCAggtatgtgttctaaccttgtctatcactagactaccatgtataccctcatc Alignment from Spaln_aa2Genome GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACA-ATGGGGTGTGACCCCTTCTCAG agagcccaggcacctagctcagacacattctaacccctgctcctttaaagGAAGAGCTACAGCTTTTAATATTATCTACATCACCAGACCTCCAGCCCtACAGGGTGTGAACCCTTTTCAGgtatgtgttctaaccttgtctatcactagactaccatgtataccctcatc Alignment from Spaln_nt2Genome GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACA-ATGGGGTGTGACCCCTTCTCAG agagcccaggcacctagctcagacacattctaacccctgctcctttaaagGAAGAGCTACAGCTTTTAATATTATCTACATCACCAGACCTCCAGCCCTACAGGGTGTGAACCCTTTTCAGgtatgtgttctaaccttgtctatcactagactaccatgtataccctcatc Alignment from Pairagon GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAG----ACAATGGGGTGTGACCCCTTCTCAG agagcccaggcacctagctcagacacattctaacccctgctcctttaaagGAAGAGCTACAGCTTTTAATATTATCTACATCACCAGACCTCCAGCCCTACA---GGGTGTGAACCCTTTTCAGgtatgtgttctaaccttgtctatcactagactaccatgtataccctcatc Alignment from Exonerate_protein2genome agagcccaggcacctagctcagacacattctaacccctgctcctttaaaggaagagctacagcttttaatattatctacatcaccagacctccagccctacagggtgtgaacccttttcaggtatgtgttctaaccttgtctatcactagactaccatgtataccctcatc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAG-ACAATGGGGTGTGACCCCTTCTCAG agagcccaggcacctagctcagacacattctaacccctgctcctttaaagGAAGAGCTACAGCTTTTAATATTATCTACATCACCAGACCTCCAGCCCTACAGGGTGTGAACCCTTTTCAGgtatgtgttctaaccttgtctatcactagactaccatgtataccctcatc #### Ccnj_ID8043_4 --> 2 - 2 Original Alignment atTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATC-GAACGGCTGTTGct cctaatattaagcattctatactgtaggagtctttattttacatgcacagatTATGCCTTTCTGAATTATGCACCCTCCTTAATAGCAGCTGCATGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACTGTTACACGGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGCGAATGGTTATCGctgtaagtagagtcacatgattgaactcagactgccatggtgattgctgtat Alignment from CESAR atTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATC-GAACGGCTGTTGct cctaatattaagcattctatactgtaggagtctttattttacatgcacagatTATGCCTTTCTGAATTATGCACCCTCCTTAATAGCAGCTGCATGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACTGTTACACGGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGCGAATGGTTATCGctgtaagtagagtcacatgattgaactcagactgccatggtgattgctgtat Alignment from Spaln_aa2Genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGG cctaatattaagcattctatactgtaggagtctttattttacatgcacagATTATGCCTTTCTGAATTATGCACCCTCCTTAATAGCAGCTGCATGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACTGTTACACGGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGCGAATGgttatcgctgtaagtagagtcacatgattgaactcagactgccatggtgattgctgtat Alignment from Spaln_nt2Genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTAT-CGAACGGCTGTTGCT cctaatattaagcattctatactgtaggagtctttattttacatgcacagATTATGCCTTTCTGAATTATGCACCCTCCTTAATAGCAGCTGCATGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACTGTTACACGGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGCGAATGGTTATCGCTgtaagtagagtcacatgattgaactcagactgccatggtgattgctgtat Alignment from Pairagon ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTAT-CGAACGGCTGTTGCT cctaatattaagcattctatactgtaggagtctttattttacatgcacagATTATGCCTTTCTGAATTATGCACCCTCCTTAATAGCAGCTGCATGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACTGTTACACGGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGCGAATGGTTATCGCTgtaagtagagtcacatgattgaactcagactgccatggtgattgctgtat Alignment from Exonerate_protein2genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCTT cctaatattaagcattctatactgtaggagtctttattttacatgcacagATTATGCCTTTCTGAATTATGCACCCTCCTTAATAGCAGCTGCATGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACTGTTACACGGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGCGAATGGTTATCGCTgtaagtagagtcacatgattgaactcagactgccatggtgattgctgtat Alignment from Exonerate_coding2genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCTT cctaatattaagcattctatactgtaggagtctttattttacatgcacagATTATGCCTTTCTGAATTATGCACCCTCCTTAATAGCAGCTGCATGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACTGTTACACGGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGCGAATGGTTATCGCTgtaagtagagtcacatgattgaactcagactgccatggtgattgctgtat Alignment from GeneWise ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGG cctaatattaagcattctatactgtaggagtctttattttacatgcacagATTATGCCTTTCTGAATTATGCACCCTCCTTAATAGCAGCTGCATGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACTGTTACACGGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGCGAATGgttatcgctgtaagtagagtcacatgattgaactcagactgccatggtgattgctgtat #### Ccs_ID661_7 --> 0 - 2 Original Alignment GTGTGGGATGTGATT-GGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGag gTTGGCCT gtgcatatgaagggcagatgaatctgactccctcctttatctttgaatagGTTTGGGATGTGATTCGCCCGCACCTTGGTTATTGATGAGGGAGAAGACGATGTGGGCTGGGGGGGCCACCCTTTATCCAAGATTACTGGGAATTTAGAGAAAaggtaagccatatcacaatcaaaacaggtatttttccatttcagaCTCTCAT Alignment from CESAR GTGTGGGATGTGATT-GGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGag gTTGGCCT gtgcatatgaagggcagatgaatctgactccctcctttatctttgaatagGTTTGGGATGTGATTCGCCCGCACCTTGGTTATTGATGAGGGAGAAGACGATGTGGGCTGGGGGGGCCACCCTTTATCCAAGATTACTGGGAATTTAGAGAAAaggtaagccatatcacaatcaaaactcctgggtttttttctcagaCTCTCAT Alignment from Spaln_aa2Genome GTGTGGGATGTGATT-GGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG GTTGGCCT gtgcatatgaagggcagatgaatctgactccctcctttatctttgaatagGTTTGGGATGTGATTcGCCCGCACCTTGGTTATTGATGAGGGAGAAGACGATGTGGGCTGGGGGGGCCACCCTTTATCCAAGATTACTGGGAATTTAGAGAAAAGgtaagccatatcacaatcaaaacaggtatttttccatttcagACTCTCAT Alignment from Spaln_nt2Genome GTGTGGGATGTGATTGGCC-GCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG GTTGGCCT gtgcatatgaagggcagatgaatctgactccctcctttatctttgaatagGTTTGGGATGTGATTCGCCCGCACCTTGGTTATTGATGAGGGAGAAGACGATGTGGGCTGGGGGGGCCACCCTTTATCCAAGATTACTGGGAATTTAGAGAAAAGgtaagccatatcacaatcaaaacaggtatttttccatttcagACTCTCAT Alignment from Pairagon ------------------------------------------------AGGTGTGGGATGTGATT-GGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAGGTTGGCC------------------------------------------T GTGCATATGAAGGGCAGATGAATCTGACTCCCTCCTTTATCTTTGAATAGGTTTGGGATGTGATTCGCCCGCACCTTGGTTATTGATGAGGGAGAAGACGATGTGGGCTGGGGGGGCCACCCTTTATCCAAGATTACTGGGAATTTAGAGAAAAGGTAAGCCATATCACAATCAAAACAGGTATTTTTCCATTTCAGACTCTCAT Alignment from Exonerate_protein2genome GTGTGGGATGTGATT-GGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG GTTGGCCT gtgcatatgaagggcagatgaatctgactccctcctttatctttgaatagGTTTGGGATGTGATTCGCCCGCACCTTGGTTATTGATGAGGGAGAAGACGATGTGGGCTGGGGGGGCCACCCTTTATCCAAGATTACTGGGAATTTAGAGAAAAGgtaagccatatcacaatcaaaacaggtatttttccatttcagACTCTCAT Alignment from Exonerate_coding2genome gtgcatatgaagggcagatgaatctgactccctcctttatctttgaataggtttgggatgtgattcgcccgcaccttggttattgatgagggagaagacgatgtgggctgggggggccaccctttatccaagattactgggaatttagagaaaaggtaagccatatcacaatcaaaacaggtatttttccatttcagactctcat Alignment from GeneWise GTGTGGGATGTGATT-GGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG GTTGGCCT gtgcatatgaagggcagatgaatctgactccctcctttatctttgaatagGTTTGGGATGTGATTCGCCCGCACCTTGGTTATTGATGAGGGAGAAGACGATGTGGGCTGGGGGGGCCACCCTTTATCCAAGATTACTGGGAATTTAGAGAAAAGgtaagccatatcacaatcaaaacaggtatttttccatttcagACTCTCAT #### Cd5_ID2994_4 --> 2 - 1 Original Alignment GCTGAGCCTGATCTGCCTAg agCCCCAGAGAACGACACCTCCACCCACAACCACCCCA-CCCACCACCGTGCCGGAGCCCACAg ACTGAGCCTGAGCTGCCTAggtaagtcactattatttcttttaaatacagaaCCCCAGAGAACTGCTCCTCCACCCACAACTGCTCCACTCCACCACTGTACCAGAACCCACAggtgcccggatgcacaacaggaaaacaaagcagagaattacattggtataa Alignment from CESAR GCTGAGCCTGATCTGCCTAg agCCCCAGAGAACGACACCTCCACCCACAACCACCCCA-CCCACCACCGTGCCGGAGCCCACAg ACTGAGCCTGAGCTGCCTAggtacctcactattatttcttttaaatacagaaCCCCAGAGAACTGCTCCTCCACCCACAACTGCTCCACTCCACCACTGTACCAGAACCCACAggtgcccggatgcacaacaggaaaacaaagcagagaattacattggtataa Alignment from Spaln_aa2Genome GCTGAGCCTGATCTGCCTA------------------------------GAGCCCCAGAGAACGACACCTCCACCCACAACCACCCCA-CCCACCACCGTGCCGGAGCCCACAG ACTGAGCCTGAGCTGCCTAGGTAAGTCACTATTATTTCTTTTAAATACAGAACCCCAGAGAACTGCTCCTCCACCCACAACTGCTCCAcTCCACCACTGTACCAGAACCCACAGgtgcccggatgcacaacaggaaaacaaagcagagaattacattggtataa Alignment from Spaln_nt2Genome GCTGAGCCTGATCTGCCTAG AGCCCCAGAGAACGACACCTCCACCCACAACCACCCCAC-CCACCACCGTGCCGGAGCCCACAG ACTGAGCCTGAGCTGCCTAGgtaagtcactattatttcttttaaatacagaaccccag--------AGAACTGCTCCTCCACCCACAACTGCTCCACTCCACCACTGTACCAGAACCCACAGgtgcccggatgcacaacaggaaaacaaagcagagaattacattggtataa Alignment from Pairagon GCTGAGCCTGATCTGCCTAG AGCCCCAGAGAACGACACCTCCACCCACAACCACCCCAC-CCACCACCGTGCCGGAGCCCACAG ACTGAGCCTGAGCTGCCTAGgtaagtcactattatttcttttaaatacagAACCCCAGAGAACTGCTCCTCCACCCACAACTGCTCCACTCCACCACTGTACCAGAACCCACAGgtgcccggatgcacaacaggaaaacaaagcagagaattacattggtataa Alignment from Exonerate_protein2genome GCTGAGCCTGATCTGCCTAG AGCCCCAGAGAACGACACCTCCACCCACAACCACCCCA-CCCACCACCGTGCCGGAGCCCACAG ACTGAGCCTGAGCTGCCTAGgtaagtcactattatttcttttaaatacagAACCCCAGAGAACTGCTCCTCCACCCACAACTGCTCCACTCCACCACTGTACCAGAACCCACAGgtgcccggatgcacaacaggaaaacaaagcagagaattacattggtataa Alignment from Exonerate_coding2genome GCTGAGCCTGATCTGCCTAG AGCCCCAGAGAACGACACCTCCACCCACAACCACCCCA-CCCACCACCGTGCCGGAGCCCACAG ACTGAGCCTGAGCTGCCTAGgtaagtcactattatttcttttaaatacagAACCCCAGAGAACTGCTCCTCCACCCACAACTGCTCCACTCCACCACTGTACCAGAACCCACAGgtgcccggatgcacaacaggaaaacaaagcagagaattacattggtataa Alignment from GeneWise GCTGAGCCTGATCTGCCTA------------------------------GAGCCCCAGAGAACGACACCTCCACCCACAACCACCCCA-CCCACCACCGTGCCGGAGCCCACAG ACTGAGCCTGAGCTGCCTAGGTAAGTCACTATTATTTCTTTTAAATACAGAACCCCAGAGAACTGCTCCTCCACCCACAACTGCTCCACTCCACCACTGTACCAGAACCCACAGgtgcccggatgcacaacaggaaaacaaagcagagaattacattggtataa #### Cdc42bpg_ID1573_3 --> 0 - 0 Original Alignment GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAG-ATGCTGAAGAGGGCTGAG attgatccttttgtgagtccagtcacaggaccccacttgttcctttccagGTTATTGTGGTGAGGCAGAGAGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAACATGTTGAAGAGGGCTGAGgtaagttggcacaactgtgaaatctatccctacctgtttgctgtgtacag Alignment from CESAR GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAG-ATGCTGAAGAGGGCTGAG attgatccttttgtgagtccagtcacaggaccccacttgttcctttccagGTTATTGTGGTGAGGCAGAGAGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAACATGTTGAAGAGGGCTGAGgtaagttggcacaactgtgaaatctatccctacctgtttgctgtgtacag Alignment from Spaln_aa2Genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAG-ATGCTGAAGAGGGCTGAG attgatccttttgtgagtccagtcacaggaccccacttgttcctttccagGTTATTGTGGTGAGGCAGAGAGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAAcATGTTGAAGAGGGCTGAGgtaagttggcacaactgtgaaatctatccctacctgtttgctgtgtacag Alignment from Spaln_nt2Genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAG-ATGCTGAAGAGGGCTGAG attgatccttttgtgagtccagtcacaggaccccacttgttcctttccagGTTATTGTGGTGAGGCAGAGAGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAACATGTTGAAGAGGGCTGAGgtaagttggcacaactgtgaaatctatccctacctgtttgctgtgtacag Alignment from Pairagon GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAG-ATGCTGAAGAGGGCTGAG attgatccttttgtgagtccagtcacaggaccccacttgttcctttccagGTTATTGTGGTGAGGCAGAGAGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAACATGTTGAAGAGGGCTGAGgtaagttggcacaactgtgaaatctatccctacctgtttgctgtgtacag Alignment from Exonerate_protein2genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAG-ATGCTGAAGAGGGCTGAG attgatccttttgtgagtccagtcacaggaccccacttgttcctttccagGTTATTGTGGTGAGGCAGAGAGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAACATGTTGAAGAGGGCTGAGgtaagttggcacaactgtgaaatctatccctacctgtttgctgtgtacag Alignment from Exonerate_coding2genome attgatccttttgtgagtccagtcacaggaccccacttgttcctttccaggttattgtggtgaggcagagaggaagtggccagatctttgcaatgaatatgtttcataagtgggaacatgttgaagagggctgaggtaagttggcacaactgtgaaatctatccctacctgtttgctgtgtacag Alignment from GeneWise GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATG attgatccttttgtgagtccagtcacaggaccccacttgttcctttccagGTTATTGTGGTGAGGCAGAGAGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAACATgttgaagagggctgaggtaagttggcacaactgtgaaatctatccctacctgtttgctgtgtacag #### Cdc42bpg_ID1575_5 --> 0 - 2 Original Alignment TACCTGGTGATGGACTACTATGCTGGCGGGGAC-CTTCTC---ACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGC------------TATGTCCACag tgcaatcagacttctggttggataactatgactattgaaatattttacagTACCTGTTGATGGATTTTTATGCTGGTGGTGATCCTTCTAAAAAGATTACTGAGCTGCTTTGAAGACCGTCTCCCGCCTGAACTAGCTCAAATATATGTGGCTGAGATGGTGTTGGCGATTCACTCCTTGCACCAGCTAGGCTATGCCCACAGCTATGCCCACaggtaatgaagctagaggtgtgttgttgaggtattgggatcattctttcacc Alignment from CESAR TACCTGGTGATGGACTACTATGCTGGCGGGGAC-CTTCTCACG---CTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCAC------------ag tgcaatcagacttctggttggataactatgactattgaaatattttacagTACCTGTTGATGGATTTTTATGCTGGTGGTGATCCTTCTAAAAAGATTACTGAGCTGCTTTGAAGACCGTCTCCCGCCTGAACTAGCTCAAATATATGTGGCTGAGATGGTGTTGGCGATTCACTCCTTGCACCAGCTAGGCTATGCCCACAGCTATGCCCACaggtaatgaagctagaggtgtgttgttgaggtattgggatcattctttcacc Alignment from Spaln_aa2Genome TACCTGGTGATGGACTACTATGCTGGCGGGGAC----CTTCTCACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGC------------TATGTCCACAG tgcaatcagacttctggttggataactatgactattgaaatattttacagTACCTGTTGATGGATTTTTATGCTGGTGGTGATCCTtCTAAAAAGATTACTGAGCTGCTTTGAAGACCGTCTCCCGCCTGAACTAGCTCAAATATATGTGGCTGAGATGGTGTTGGCGATTCACTCCTTGCACCAGCTAGGCTATGCCCACAGCTATGCCCACAGgtaatgaagctagaggtgtgttgttgaggtattgggatcattctttcacc Alignment from Spaln_nt2Genome TACCTGGTGATGGACTACTATGCTGGCGGGGA-CCTTCTCACGC---TGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACA tgcaatcagacttctggttggataactatgactattgaaatattttacagTACCTGTTGATGGATTTTTATGCTGGTGGTGATCCTTCTAAAAAGATTACTGAGCTGCTTTGAAGACCGTCTCCCGCCTGAACTAGCTCAAATATATGTGGCTGAGATGGTGTTGGCGATTCACTCCTTGCACCAGCTAGGCTATGCCCACAgctatgcccacaggtaatgaagctagaggtgtgttgttgaggtattgggatcattctttcacc Alignment from Pairagon TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACGCTG------------------CTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACAG--------------------------- tgcaatcagacttctggttggataactatgactattgaaatattttacagTACCTGTTGATGGATTTTTATGCTGGTGG--------------TGATCCTTCTAAAAAGATTACTGAGCTGCTTTGAAGACCGTCTCCCGCCTGAACTAGCTCAAATATATGTGGCTGAGATGGTGTTGGCGATTCACTCCTTGCACCAGCTAGGCTATGCCCACAGCTATGCCCACAGGTAATGAAGCTAGAGgtgtgttgttgaggtattgggatcattctttcacc Alignment from Exonerate_protein2genome TACCTGGTGATGGACTACTATGCTGGCGGGGAC----CTTCTCACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACAG tgcaatcagacttctggttggataactatgactattgaaatattttacagTACCTGTTGATGGATTTTTATGCTGGTGGTGATCCTTCTAAAAAGATTACTGAGCTGCTTTGAAGACCGTCTCCCGCCTGAACTAGCTCAAATATATGTGGCTGAGATGGTGTTGGCGATTCACTCCTTGCACCAGCTAGGCTATGCCCACAGctatgcccacaggtaatgaagctagaggtgtgttgttgaggtattgggatcattctttcacc Alignment from Exonerate_coding2genome tgcaatcagacttctggttggataactatgactattgaaatattttacagtacctgttgatggatttttatgctggtggtgatccttctaaaaagattactgagctgctttgaagaccgtctcccgcctgaactagctcaaatatatgtggctgagatggtgttggcgattcactccttgcaccagctaggctatgcccacagctatgcccacaggtaatgaagctagaggtgtgttgttgaggtattgggatcattctttcacc Alignment from GeneWise TACCTGGTGATGGACTACTATGCTGGCGGGGAC-CTTCTC---ACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCAC------------AG tgcaatcagacttctggttggataactatgactattgaaatattttacagTACCTGTTGATGGATTTTTATGCTGGTGGTGATCCTTCTAAAAAGATTACTGAGCTGCTTTGAAGACCGTCTCCCGCCTGAACTAGCTCAAATATATGTGGCTGAGATGGTGTTGGCGATTCACTCCTTGCACCAGCTAGGCTATGCCCACAGCTATGCCCACAGgtaatgaagctagaggtgtgttgttgaggtattgggatcattctttcacc #### Cdc42bpg_ID1576_6 --> 1 - 0 Original Alignment gGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCA-GACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacctataccatagaacgaccagatgggtgtcttctcagaGATGTGGAGCCAGACAATGTTCTA---AGCATGAATGGTCAT---TGCTTAGCTCGATTTTGGCACCTGCCTATGCCTCAACATCAACACCAAGgtaggtacacttagaaattcttcatagataaattaaagacatttagttag Alignment from CESAR gGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCA-GACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacctataccatagaacgaccagatgggtgtcttctcagaGATGTGGAGCCAGACAATGTT---CTAAGCATGAATGGTCAT---TGCTTAGCTCGATTTTGGCACCTGCCTATGCCTCAACATCAACACCAAGgtaggtacacttagaaattcttcatagataaattaaagacatttagttag Alignment from Spaln_aa2Genome GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCA-GACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacctataccatagaacgaccagatgggtgtcttctcagAGATGTGGAGCCAGACAATGTT---CTAAGCATGAATGGTCAT---TGCTTAGCTcGATTTTGGCACCTGCCTATGCCTCAACATCAACACCAAGgtaggtacacttagaaattcttcatagataaattaaagacatttagttag Alignment from Spaln_nt2Genome GGGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCA-GACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacctataccatagaacgaccagatgggtgtcttctcag-AGATGTGGAGCCAGACAA---TGTTCTAAGCATGAATGGTCA---TTGCTTAGCTCGATTTTGGCACCTGCCTATGCCTCAACATCAACACCAAGgtaggtacacttagaaattcttcatagataaattaaagacatttagttag Alignment from Pairagon GGATGTGAAGCCTGACAA-------------------------------CATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacctataccatagaacgaccagatgggtgtcttctcagAGATGTGGAGCCAGACAATGTTCTAAGCATGAATGGTCATTGCTTAGCTC------------------------------------GATTTTGGCACCTGCCTATGCCTCAACATCAACACCAAGgtaggtacacttagaaattcttcatagataaattaaagacatttagttag Alignment from Exonerate_protein2genome GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCA-GACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacctataccatagaacgaccagatgggtgtcttctcagAGATGTGGAGCCAGACAATGTT---CTAAGCATGAATGGTCATTGC---TTAGCTCGATTTTGGCACCTGCCTATGCCTCAACATCAACACCAAGgtaggtacacttagaaattcttcatagataaattaaagacatttagttag Alignment from Exonerate_coding2genome ggacacacacatacctataccatagaacgaccagatgggtgtcttctcagagatgtggagccagacaatgttctaagcatgaatggtcattgcttagctcgattttggcacctgcctatgcctcaacatcaacaccaaggtaggtacacttagaaattcttcatagataaattaaagacatttagttag Alignment from GeneWise GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacctataccatagaacgaccagatgggtgtcttctcagAGATGTGGAGCCAGACAATGTTCTA---AGCATGAATGGTCATTGCTTAGCTC--GATTTTGGCACCTGCCTATGCCTCAACATCAACACCAAGgtaggtacacttagaaattcttcatagataaattaaagacatttagttag #### Cdc42bpg_ID1577_7 --> 0 - 0 Original Alignment GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCT-CCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG aatagtacctcctctacctctcagtactactctgtcactcattaccccagGTGGACTCATCCGTTCCGGTGGGAACTCCAGACTACATCTCTCCCTGAGATCCTGCAGGCTATGGAGGAAGGTAAGGGCCACTATGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCCCTGGTAGAGACTTATGGGAAAATCATGAACCATGAGgtaagcctggaagacccagtgaccctgggtttgtgaaagtcatctttata Alignment from CESAR GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCT-CCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG aatagtacctcctctacctctcagtactactctgtcactcattaccccagGTGGACTCATCCGTTCCGGTGGGAACTCCAGACTACATCTCTCCCTGAGATCCTGCAGGCTATGGAGGAAGGTAAGGGCCACTATGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCCCTGGTAGAGACTTATGGGAAAATCATGAACCATGAGgtaagcctggaagacccagtgaccctgggtttgtgaaagtcatctttata Alignment from Spaln_aa2Genome GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCT-CCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG aatagtacctcctctacctctcagtactactctgtcactcattaccccagGTGGACTCATCCGTTCCGGTGGGAACTCCAGACTACATCTCTcCCTGAGATCCTGCAGGCTATGGAGGAAGGTAAGGGCCACTATGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCCCTGGTAGAGACTTATGGGAAAATCATGAACCATGAGgtaagcctggaagacccagtgaccctgggtttgtgaaagtcatctttata Alignment from Spaln_nt2Genome GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCC-TGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG aatagtacctcctctacctctcagtactactctgtcactcattaccccagGTGGACTCATCCGTTCCGGTGGGAACTCCAGACTACATCTCTCCCTGAGATCCTGCAGGCTATGGAGGAAGGTAAGGGCCACTATGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCCCTGGTAGAGACTTATGGGAAAATCATGAACCATGAGgtaagcctggaagacccagtgaccctgggtttgtgaaagtcatctttata Alignment from Pairagon GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCT-CCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG aatagtacctcctctacctctcagtactactctgtcactcattaccccagGTGGACTCATCCGTTCCGGTGGGAACTCCAGACTACATCTCTCCCTGAGATCCTGCAGGCTATGGAGGAAGGTAAGGGCCACTATGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCCCTGGTAGAGACTTATGGGAAAATCATGAACCATGAGgtaagcctggaagacccagtgaccctgggtttgtgaaagtcatctttata Alignment from Exonerate_protein2genome GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCT-CCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG aatagtacctcctctacctctcagtactactctgtcactcattaccccagGTGGACTCATCCGTTCCGGTGGGAACTCCAGACTACATCTCTCCCTGAGATCCTGCAGGCTATGGAGGAAGGTAAGGGCCACTATGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCCCTGGTAGAGACTTATGGGAAAATCATGAACCATGAGgtaagcctggaagacccagtgaccctgggtttgtgaaagtcatctttata Alignment from Exonerate_coding2genome aatagtacctcctctacctctcagtactactctgtcactcattaccccaggtggactcatccgttccggtgggaactccagactacatctctccctgagatcctgcaggctatggaggaaggtaagggccactatggaccacaatttgattggtggtcactgggagtctgtgcctatgagctgctgtttggggaaacacccttttatgctgtatccctggtagagacttatgggaaaatcatgaaccatgaggtaagcctggaagacccagtgaccctgggtttgtgaaagtcatctttata Alignment from GeneWise GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATC-TCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG aatagtacctcctctacctctcagtactactctgtcactcattaccccagGTGGACTCATCCGTTCCGGTGGGAACTCCAGACTACATCTCTCCCTGAGATCCTGCAGGCTATGGAGGAAGGTAAGGGCCACTATGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCCCTGGTAGAGACTTATGGGAAAATCATGAACCATGAGgtaagcctggaagacccagtgaccctgggtttgtgaaagtcatctttata #### Cdc42bpg_ID1578_8 --> 0 - 0 Original Alignment GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTC-CGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA agtcatctttatagttaggtccctccacactcccctttcccctacttcagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGTCAGCTGTTATGCCGCCAGGAGGAGCAACTAAGCCGTGGTGCACTGGACGACTTCCCACAAGCATGCATTCTTTGAGGGGGTTGACTGGGAGAGGCTCACAACCAGCACAGCACCATATATTCCTGAGCTTCGAGGCCCAATGGACACTTCAAACCTTGATGTGGATGATGACACCCTCAACCGCTCAgtaagttgcagagaccattatgacacatttgtccaacaatgtactgagct Alignment from CESAR GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTC-CGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA agtcatctttatagttaggtccctccacactcccctttcccctacttcagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGTCAGCTGTTATGCCGCCAGGAGGAGCAACTAAGCCGTGGTGCACTGGACGACTTCCCACAAGCATGCATTCTTTGAGGGGGTTGACTGGGAGAGGCTCACAACCAGCACAGCACCATATATTCCTGAGCTTCGAGGCCCAATGGACACTTCAAACCTTGATGTGGATGATGACACCCTCAACCGCTCAgtaagttgcagagaccattatgacacatttgtccaacaatgtactgagct Alignment from Spaln_aa2Genome GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTC-CGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA agtcatctttatagttaggtccctccacactcccctttcccctacttcagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGTCAGCTGTTATGCCGCCAGGAGGAGCAACTAAGCCGTGGTGCACTGGACGACTTCcCACAAGCATGCATTCTTTGAGGGGGTTGACTGGGAGAGGCTCACAACCAGCACAGCACCATATATTCCTGAGCTTCGAGGCCCAATGGACACTTCAAACCTTGATGTGGATGATGACACCCTCAACCGCTCAgtaagttgcagagaccattatgacacatttgtccaacaatgtactgagct Alignment from Spaln_nt2Genome GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGG-AAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA agtcatctttatagttaggtccctccacactcccctttcccctacttcagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGTCAGCTGTTATGCCGCCAGGAGGAGCAACTAAGCCGTGGTGCACTGGACGACTTCCCACAAGCATGCATTCTTTGAGGGGGTTGACTGGGAGAGGCTCACAACCAGCACAGCACCATATATTCCTGAGCTTCGAGGCCCAATGGACACTTCAAACCTTGATGTGGATGATGACACCCTCAACCGCTCAgtaagttgcagagaccattatgacacatttgtccaacaatgtactgagct Alignment from Pairagon GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTT-CCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA agtcatctttatagttaggtccctccacactcccctttcccctacttcagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGTCAGCTGTTATGCCGCCAGGAGGAGCAACTAAGCCGTGGTGCACTGGACGACTTCCCACAAGCATGCATTCTTTGAGGGGGTTGACTGGGAGAGGCTCACAACCAGCACAGCACCATATATTCCTGAGCTTCGAGGCCCAATGGACACTTCAAACCTTGATGTGGATGATGACACCCTCAACCGCTCAgtaagttgcagagaccattatgacacatttgtccaacaatgtactgagct Alignment from Exonerate_protein2genome GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTC-CGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA agtcatctttatagttaggtccctccacactcccctttcccctacttcagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGTCAGCTGTTATGCCGCCAGGAGGAGCAACTAAGCCGTGGTGCACTGGACGACTTCCCACAAGCATGCATTCTTTGAGGGGGTTGACTGGGAGAGGCTCACAACCAGCACAGCACCATATATTCCTGAGCTTCGAGGCCCAATGGACACTTCAAACCTTGATGTGGATGATGACACCCTCAACCGCTCAgtaagttgcagagaccattatgacacatttgtccaacaatgtactgagct Alignment from Exonerate_coding2genome agtcatctttatagttaggtccctccacactcccctttcccctacttcaggaccatctccagtttcctgctgccgtcacagatgtgcctgctagtgcccgtgatctgatctgtcagctgttatgccgccaggaggagcaactaagccgtggtgcactggacgacttcccacaagcatgcattctttgagggggttgactgggagaggctcacaaccagcacagcaccatatattcctgagcttcgaggcccaatggacacttcaaaccttgatgtggatgatgacaccctcaaccgctcagtaagttgcagagaccattatgacacatttgtccaacaatgtactgagct Alignment from GeneWise GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTC-CGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA agtcatctttatagttaggtccctccacactcccctttcccctacttcagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGTCAGCTGTTATGCCGCCAGGAGGAGCAACTAAGCCGTGGTGCACTGGACGACTTCCCACAAGCATGCATTCTTTGAGGGGGTTGACTGGGAGAGGCTCACAACCAGCACAGCACCATATATTCCTGAGCTTCGAGGCCCAATGGACACTTCAAACCTTGATGTGGATGATGACACCCTCAACCGCTCAgtaagttgcagagaccattatgacacatttgtccaacaatgtactgagct #### Cdc42bpg_ID1581_11 --> 2 - 1 Original Alignment agCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAG-GAAGTACAGGTTCTTCAGGAGAAACTGGCAg tcctaactgttcgggcactacaattgcacatccccgtctgttcaccacagggCATCTTCATAGTCCACTACAACCACAGGGGTTAGTACATCTTCATAAACGAGGTTCAGGTTCTTCAGGAGAAACTGACAggtaagtctggccagctattaggggtggcttggttccctgtcatgtcccag Alignment from CESAR agCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAG-GAAGTACAGGTTCTTCAGGAGAAACTGGCAg tcctaactgttcgggcactacaattgcacatccccgtctgttcaccacagggCATCTTCATAGTCCACTACAACCACAGGGGTTAGTACATCTTCATAAACGAGGTTCAGGTTCTTCAGGAGAAACTGACAggtaagtctggccagctattaggggtggcttggttccctgtcatgtcccag Alignment from Spaln_aa2Genome AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAG-GAAGTACAGGTTCTTCAGGAGAAACTGGCAG tcctaactgttcgggcactacaattgcacatccccgtctgttcaccacagGGCATCTTCATAGTCCACTACAACCACAGGGGTTAGTACATCTTCATAAAcGAGGTTCAGGTTCTTCAGGAGAAACTGACAGgtaagtctggccagctattaggggtggcttggttccctgtcatgtcccag Alignment from Spaln_nt2Genome AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAG-GAAGTACAGGTTCTTCAGGAGAAACTGGCAG tcctaactgttcgggcactacaattgcacatccccgtctgttcaccacagGGCATCTTCATAGTCCACTACAACCACAGGGGTTAGTACATCTTCATAAACGAGGTTCAGGTTCTTCAGGAGAAACTGACAGgtaagtctggccagctattaggggtggcttggttccctgtcatgtcccag Alignment from Pairagon AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCA-GAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG tcctaactgttcgggcactacaattgcacatccccgtctgttcaccacagGGCATCTTCATAGTCCACTACAACCACAGGGGTTAGTACATCTTCATAAACGAGGTTCAGGTTCTTCAGGAGAAACTGACAGgtaagtctggccagctattaggggtggcttggttccctgtcatgtcccag Alignment from Exonerate_protein2genome AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAG-GAAGTACAGGTTCTTCAGGAGAAACTGGCAG tcctaactgttcgggcactacaattgcacatccccgtctgttcaccacagGGCATCTTCATAGTCCACTACAACCACAGGGGTTAGTACATCTTCATAAACGAGGTTCAGGTTCTTCAGGAGAAACTGACAGgtaagtctggccagctattaggggtggcttggttccctgtcatgtcccag Alignment from Exonerate_coding2genome tcctaactgttcgggcactacaattgcacatccccgtctgttcaccacagggcatcttcatagtccactacaaccacaggggttagtacatcttcataaacgaggttcaggttcttcaggagaaactgacaggtaagtctggccagctattaggggtggcttggttccctgtcatgtcccag Alignment from GeneWise AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAG-AAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG tcctaactgttcgggcactacaattgcacatccccgtctgttcaccacagGGCATCTTCATAGTCCACTACAACCACAGGGGTTAGTACATCTTCATAAACGAGGTTCAGGTTCTTCAGGAGAAACTGACAGgtaagtctggccagctattaggggtggcttggttccctgtcatgtcccag #### Cdc42bpg_ID1582_12 --> 2 - 0 Original Alignment agACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAG-GAGAAGGACCGCCTCCAGCAG aatgttcataatttagggcaatgacggacttggtcatttatctactttagaaACCTTGAAGGACAGTGAGGCTTCTCTTGCCCAAGCTGATGGCCCTGATGCTAGAAGCCCTGTCCCAAACATTCAGTTACAGCAGCGAAAAGGATCGCCTTCAACAGgtgaccatagtggtgagaattatgcagcgtgtcatttgttcatatatgcc Alignment from CESAR agACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAG-GAGAAGGACCGCCTCCAGCAG aatgttcataatttagggcaatgacggacttggtcatttatctactttagaaACCTTGAAGGACAGTGAGGCTTCTCTTGCCCAAGCTGATGGCCCTGATGCTAGAAGCCCTGTCCCAAACATTCAGTTACAGCAGCGAAAAGGATCGCCTTCAACAGgtgaccatagtggtgagaattatgcagcgtgtcatttgttcatatatgcc Alignment from Spaln_aa2Genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAG-GAGAAGGACCGCCTCCAGCAG aatgttcataatttagggcaatgacggacttggtcatttatctactttagAAACCTTGAAGGACAGTGAGGCTTCTCTTGCCCAAGCTGATGGCCCTGATGCTAGAAGCCCTGTCCCAAACATTCAGTTACAGCAGcGAAAAGGATCGCCTTCAACAGgtgaccatagtggtgagaattatgcagcgtgtcatttgttcatatatgcc Alignment from Spaln_nt2Genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAG-GAGAAGGACCGCCTCCAGCAG aatgttcataatttagggcaatgacggacttggtcatttatctactttagAAACCTTGAAGGACAGTGAGGCTTCTCTTGCCCAAGCTGATGGCCCTGATGCTAGAAGCCCTGTCCCAAACATTCAGTTACAGCAGCGAAAAGGATCGCCTTCAACAGgtgaccatagtggtgagaattatgcagcgtgtcatttgttcatatatgcc Alignment from Pairagon AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAG-GAGAAGGACCGCCTCCAGCAG aatgttcataatttagggcaatgacggacttggtcatttatctactttagAAACCTTGAAGGACAGTGAGGCTTCTCTTGCCCAAGCTGATGGCCCTGATGCTAGAAGCCCTGTCCCAAACATTCAGTTACAGCAGCGAAAAGGATCGCCTTCAACAGgtgaccatagtggtgagaattatgcagcgtgtcatttgttcatatatgcc Alignment from Exonerate_protein2genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAG-GAGAAGGACCGCCTCCAGCAG aatgttcataatttagggcaatgacggacttggtcatttatctactttagAAACCTTGAAGGACAGTGAGGCTTCTCTTGCCCAAGCTGATGGCCCTGATGCTAGAAGCCCTGTCCCAAACATTCAGTTACAGCAGCGAAAAGGATCGCCTTCAACAGgtgaccatagtggtgagaattatgcagcgtgtcatttgttcatatatgcc Alignment from Exonerate_coding2genome aatgttcataatttagggcaatgacggacttggtcatttatctactttagaaaccttgaaggacagtgaggcttctcttgcccaagctgatggccctgatgctagaagccctgtcccaaacattcagttacagcagcgaaaaggatcgccttcaacaggtgaccatagtggtgagaattatgcagcgtgtcatttgttcatatatgcc Alignment from GeneWise AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAG-GAGAAGGACCGCCTCCAGCAG aatgttcataatttagggcaatgacggacttggtcatttatctactttagAAACCTTGAAGGACAGTGAGGCTTCTCTTGCCCAAGCTGATGGCCCTGATGCTAGAAGCCCTGTCCCAAACATTCAGTTACAGCAGCGAAAAGGATCGCCTTCAACAGgtgaccatagtggtgagaattatgcagcgtgtcatttgttcatatatgcc #### Cdc42bpg_ID1586_16 --> 1 - 0 Original Alignment gATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAG-CGGCTGAGCCGGGAGCAGGAACGG acttgctatctggaattggcaaaataattgttttccttttttctacgtaggATCAGTGTTGGGAAAATGGAGGTTCTATGCCATCTACAGGCAGTGAACCAGCCAGCTGAGTCGAGAACAGGAGTGGgtgaggatcaagtacgacaaagccgtgattgcgatcactgacttgtgggt Alignment from CESAR gATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAG-CGGCTGAGCCGGGAGCAGGAACGG acttgctatctggaattggcaaaataattgttttccttttttctacgtaggATCAGTGTTGGGAAAATGGAGGTTCTATGCCATCTACAGGCAGTGAACCAGCCAGCTGAGTCGAGAACAGGAGTGGgtgaggatcaagtacgacaaagccgtgattgcgatcactgacttgtgggt Alignment from Spaln_aa2Genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAG-CGGCTGAGCCGGGAGCAGGAACGG acttgctatctggaattggcaaaataattgttttccttttttctacgtagGATCAGTGTTGGGAAAATGGAGGTTCTATGCCATCTACAGGCAGTGAACCAGcCAGCTGAGTCGAGAACAGGAGTGGgtgaggatcaagtacgacaaagccgtgattgcgatcactgacttgtgggt Alignment from Spaln_nt2Genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCG-GCTGAGCCGGGAGCAGGAACGG acttgctatctggaattggcaaaataattgttttccttttttctacgtagGATCAGTGTTGGGAAAATGGAGGTTCTATGCCATCTACAGGCAGTGAACCAGCCAGCTGAGTCGAGAACAGGAGTGGgtgaggatcaagtacgacaaagccgtgattgcgatcactgacttgtgggt Alignment from Pairagon GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAG-CGGCTGAGCCGGGAGCAGGAACGG acttgctatctggaattggcaaaataattgttttccttttttctacgtagGATCAGTGTTGGGAAAATGGAGGTTCTATGCCATCTACAGGCAGTGAACCAGCCAGCTGAGTCGAGAACAGGAGTGGgtgaggatcaagtacgacaaagccgtgattgcgatcactgacttgtgggt Alignment from Exonerate_protein2genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAG-CGGCTGAGCCGGGAGCAGGAACGG acttgctatctggaattggcaaaataattgttttccttttttctacgtagGATCAGTGTTGGGAAAATGGAGGTTCTATGCCATCTACAGGCAGTGAACCAGCCAGCTGAGTCGAGAACAGGAGTGGgtgaggatcaagtacgacaaagccgtgattgcgatcactgacttgtgggt Alignment from Exonerate_coding2genome acttgctatctggaattggcaaaataattgttttccttttttctacgtaggatcagtgttgggaaaatggaggttctatgccatctacaggcagtgaaccagccagctgagtcgagaacaggagtgggtgaggatcaagtacgacaaagccgtgattgcgatcactgacttgtgggt Alignment from GeneWise GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAG------------CGGCTGAGCCGGGAGCAGGAACGG acttgctatctggaattggcaaaataattgttttccttttttctacgtagGATCAGTGTTGGGAAAATGGAGGTTCTATGCCATCTACAGGCAGTGAACCAGCCAGCTGAGTCGAGAACAGGAGTGGGTGAGGATCAAgtacgacaaagccgtgattgcgatcactgacttgtgggt #### Cdc42bpg_ID1587_17 --> 0 - 2 Original Alignment CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGG-CGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtg gagcccattgggtaatgaggattaacatagagtgtttccctctgaaacagTTGGCAGGTGAGCTGGAACTGGAGCTCCAGACTAAGCAACGTCTGGAGGGTGAACGGCCGGGAAACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTAAGTtggtaagcctacacagctgatgcaaccaacaatattgtgggccgcctggctg Alignment from CESAR CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGG-CGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtg gagcccattgggtaatgaggattaacatagagtgtttccctctgaaacagTTGGCAGGTGAGCTGGAACTGGAGCTCCAGACTAAGCAACGTCTGGAGGGTGAACGGCCGGGAAACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTAAGTtggtaagcctacacagctgatgcaaccaacaatattgtgggctcctcacctc Alignment from Spaln_aa2Genome CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGG-CGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gagcccattgggtaatgaggattaacatagagtgtttccctctgaaacagTTGGCAGGTGAGCTGGAACTGGAGCTCCAGACTAAGCAACGTCTGGAGGGTGAACGGcCGGGAAACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTAAGTTGgtaagcctacacagctgatgcaaccaacaatattgtgggccgcctggctg Alignment from Spaln_nt2Genome CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGG-CGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gagcccattgggtaatgaggattaacatagagtgtttccctctgaaacagTTGGCAGGTGAGCTGGAACTGGAGCTCCAGACTAAGCAACGTCTGGAGGGTGAACGGCCGGGAAACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTAAGTTGgtaagcctacacagctgatgcaaccaacaatattgtgggccgcctggctg Alignment from Pairagon CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGG-CGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gagcccattgggtaatgaggattaacatagagtgtttccctctgaaacagTTGGCAGGTGAGCTGGAACTGGAGCTCCAGACTAAGCAACGTCTGGAGGGTGAACGGCCGGGAAACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTAAGTTGgtaagcctacacagctgatgcaaccaacaatattgtgggccgcctggctg Alignment from Exonerate_protein2genome CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGG-CGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gagcccattgggtaatgaggattaacatagagtgtttccctctgaaacagTTGGCAGGTGAGCTGGAACTGGAGCTCCAGACTAAGCAACGTCTGGAGGGTGAACGGCCGGGAAACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTAAGTTGgtaagcctacacagctgatgcaaccaacaatattgtgggccgcctggctg Alignment from Exonerate_coding2genome gagcccattgggtaatgaggattaacatagagtgtttccctctgaaacagttggcaggtgagctggaactggagctccagactaagcaacgtctggagggtgaacggccgggaaactgagagcaactgggaggctcagattgctgacatcctaagttggtaagcctacacagctgatgcaaccaacaatattgtgggccgcctggctg Alignment from GeneWise CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGG-CGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gagcccattgggtaatgaggattaacatagagtgtttccctctgaaacagTTGGCAGGTGAGCTGGAACTGGAGCTCCAGACTAAGCAACGTCTGGAGGGTGAACGGCCGGGAAACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTAAGTTGgtaagcctacacagctgatgcaaccaacaatattgtgggccgcctggctg #### Cdc42bpg_ID1593_23 --> 0 - 0 Original Alignment AGTGTGTTCCCCAGGGTGCCCGCAGCCACC-ACCACCCCTGCCGAAGGTCCTCCTGCTAAG tacacaggatttctgcattatcaattcatgttctttgtattctcttttagTGCGTGTTCCCACGTGTGCATGCACCCACCCACCACCCCCGCCAAGGGTCCACCTGCAAAAgtaagtgtccagagtggtctcagcactcaagtgatagatcatggccatta Alignment from CESAR AGTGTGTTCCCCAGGGTGCCCGCAGCCACC-ACCACCCCTGCCGAAGGTCCTCCTGCTAAG tacacaggatttctgcattatcaattcatgttctttgtattctcttttagTGCGTGTTCCCACGTGTGCATGCACCCACCCACCACCCCCGCCAAGGGTCCACCTGCAAAAgtaagtgtccagagtggtctcagcactcaagtgatagatcatggccatta Alignment from Spaln_aa2Genome AGTGTGTTCCCCAGGGTGCCCGCAGCCACC-ACCACCCCTGCCGAAGGTCCTCCTGCTAAG tacacaggatttctgcattatcaattcatgttctttgtattctcttttagTGCGTGTTCCCACGTGTGCATGCACCCACCcACCACCCCCGCCAAGGGTCCACCTGCAAAAgtaagtgtccagagtggtctcagcactcaagtgatagatcatggccatta Alignment from Spaln_nt2Genome AGTGTGTTCCCCAGGGTGCCCGCAGCCACC-ACCACCCCTGCCGAAGGTCCTCCTGCTAAG tacacaggatttctgcattatcaattcatgttctttgtattctcttttagTGCGTGTTCCCACGTGTGCATGCACCCACCCACCACCCCCGCCAAGGGTCCACCTGCAAAAgtaagtgtccagagtggtctcagcactcaagtgatagatcatggccatta Alignment from Pairagon AGTGTGTTCCCCAGGGTGCCCGCAGCCA-CCACCACCCCTGCCGAAGGTCCTCCTGCTAAG tacacaggatttctgcattatcaattcatgttctttgtattctcttttagTGCGTGTTCCCACGTGTGCATGCACCCACCCACCACCCCCGCCAAGGGTCCACCTGCAAAAgtaagtgtccagagtggtctcagcactcaagtgatagatcatggccatta Alignment from Exonerate_protein2genome AGTGTGTTCCCCAGGGTGCCCGCAGCCACC-ACCACCCCTGCCGAAGGTCCTCCTGCTAAG tacacaggatttctgcattatcaattcatgttctttgtattctcttttagTGCGTGTTCCCACGTGTGCATGCACCCACCCACCACCCCCGCCAAGGGTCCACCTGCAAAAgtaagtgtccagagtggtctcagcactcaagtgatagatcatggccatta Alignment from Exonerate_coding2genome tacacaggatttctgcattatcaattcatgttctttgtattctcttttagtgcgtgttcccacgtgtgcatgcacccacccaccacccccgccaagggtccacctgcaaaagtaagtgtccagagtggtctcagcactcaagtgatagatcatggccatta Alignment from GeneWise tacacaggatttctgcattatcaattcatgttctttgtattctcttttagtgcgtgttcccacgtgtgcatgcacccacccaccacccccgccaagggtccacctgcaaaagtaagtgtccagagtggtctcagcactcaagtgatagatcatggccatta #### Cdc42bpg_ID1594_24 --> 0 - 1 Original Alignment CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGC-CTGGGCTGTGACa tgacagttcttccaagtcaagagctttatgacagctggggtctttttcagCCTGGTTCACACACCTTGAGACCTCGCAGTTTTCCATCTCCAACTAAGTGTCTCCGCTGCACTTCGCTGATGTTGGGCCTTGGCCGCCAAGGCCCTGGGCTGTGACagtgagtgcatatgtattgtagtccctcattgttgagcacatacatgctaa Alignment from CESAR CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGC-CTGGGCTGTGACa tgacagttcttccaagtcaagagctttatgacagctggggtctttttcagCCTGGTTCACACACCTTGAGACCTCGCAGTTTTCCATCTCCAACTAAGTGTCTCCGCTGCACTTCGCTGATGTTGGGCCTTGGCCGCCAAGGCCCTGGGCTGTGACagtgagtgcatatgtattgtagtccctcattgttgagcacatacatgctaa Alignment from Spaln_aa2Genome CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGC-CTGGGCTGTGACA tgacagttcttccaagtcaagagctttatgacagctggggtctttttcagCCTGGTTCACACACCTTGAGACCTCGCAGTTTTCCATCTCCAACTAAGTGTCTCCGCTGCACTTCGCTGATGTTGGGCCTTGGCCGCCAAGGCcCTGGGCTGTGACAgtgagtgcatatgtattgtagtccctcattgttgagcacatacatgctaa Alignment from Spaln_nt2Genome CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCC-TGGGCTGTGACA tgacagttcttccaagtcaagagctttatgacagctggggtctttttcagCCTGGTTCACACACCTTGAGACCTCGCAGTTTTCCATCTCCAACTAAGTGTCTCCGCTGCACTTCGCTGATGTTGGGCCTTGGCCGCCAAGGCCCTGGGCTGTGACAgtgagtgcatatgtattgtagtccctcattgttgagcacatacatgctaa Alignment from Pairagon CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGG-CCTGGGCTGTGACA tgacagttcttccaagtcaagagctttatgacagctggggtctttttcagCCTGGTTCACACACCTTGAGACCTCGCAGTTTTCCATCTCCAACTAAGTGTCTCCGCTGCACTTCGCTGATGTTGGGCCTTGGCCGCCAAGGCCCTGGGCTGTGACAgtgagtgcatatgtattgtagtccctcattgttgagcacatacatgctaa Alignment from Exonerate_protein2genome CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGC-CTGGGCTGTGACA tgacagttcttccaagtcaagagctttatgacagctggggtctttttcagCCTGGTTCACACACCTTGAGACCTCGCAGTTTTCCATCTCCAACTAAGTGTCTCCGCTGCACTTCGCTGATGTTGGGCCTTGGCCGCCAAGGCCCTGGGCTGTGACAgtgagtgcatatgtattgtagtccctcattgttgagcacatacatgctaa Alignment from Exonerate_coding2genome CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGC-CTGGGCTGTGACA tgacagttcttccaagtcaagagctttatgacagctggggtctttttcagCCTGGTTCACACACCTTGAGACCTCGCAGTTTTCCATCTCCAACTAAGTGTCTCCGCTGCACTTCGCTGATGTTGGGCCTTGGCCGCCAAGGCCCTGGGCTGTGACAgtgagtgcatatgtattgtagtccctcattgttgagcacatacatgctaa Alignment from GeneWise CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGC-CTGGGCTGTGACA tgacagttcttccaagtcaagagctttatgacagctggggtctttttcagCCTGGTTCACACACCTTGAGACCTCGCAGTTTTCCATCTCCAACTAAGTGTCTCCGCTGCACTTCGCTGATGTTGGGCCTTGGCCGCCAAGGCCCTGGGCTGTGACAgtgagtgcatatgtattgtagtccctcattgttgagcacatacatgctaa #### Cdc42bpg_ID1595_25 --> 2 - 0 Original Alignment ccTGTGGCTACTTCTGTCACTCA-GCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC agtaacctcaacattatttaattcacatatgtcaactttttctctattagcaTGTGGTTATTTCTGT------CGCCTGTGCCTCGCAAACCCCTCCTTGCCCAGTGCCCCCTGAACTTCTTCGCACAGCCTTGGGAGTGCACCCCAAGAAGCGAACAGAGTCAGCCTATGATGGGTTCTTGTCAgtaggctgggggggttctattcctcactctatccttgcagGTACGACAGC Alignment from CESAR ccTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC agtaacctcaacattatttaattcacatatgtcaactttttctctattagcaTGTGGTTATTTCTGTC-----GCCTGTGCCTCGCAAACCCCTCCTTGCCCAGTGCCCCCTGAACTTCTTCGCACAGCCTTGGGAGTGCACCCCAAGAAGCGAACAGAGTCAGCCTATGATGGGTTCTTGTCAgtaggctgggggggttctgaagcccctggtccttacacagGTACGACAGC Alignment from Spaln_aa2Genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC agtaacctcaacattatttaattcacatatgtcaactttttctctattagCATGTGGTTATTTCTGTC-----GCCTGTGCCTCGCAAACCCCTCCTTGCCCAGTGCCCCCTGAACTTCTTCGCACAGCCTTGGGAGTGCACCCCAAGAAGCGAACAGAGTCAGCCTATGATGGGTTCTTGTCAgtaggctgggggggttctattcctcactctatccttgcagGTACGACAGC Alignment from Spaln_nt2Genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC agtaacctcaacattatttaattcacatatgtcaactttttctctattagCATGTGGTTATTTCTGTC-----GCCTGTGCCTCGCAAACCCCTCCTTGCCCAGTGCCCCCTGAACTTCTTCGCACAGCCTTGGGAGTGCACCCCAAGAAGCGAACAGAGTCAGCCTATGATGGGTTCTTGTCAgtaggctgggggggttctattcctcactctatccttgcagGTACGACAGC Alignment from Pairagon CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC agtaacctcaacattatttaattcacatatgtcaactttttctctattagCATGTGGTTATTTCTGTC-----GCCTGTGCCTCGCAAACCCCTCCTTGCCCAGTGCCCCCTGAACTTCTTCGCACAGCCTTGGGAGTGCACCCCAAGAAGCGAACAGAGTCAGCCTATGATGGGTTCTTGTCAgtaggctgggggggttctattcctcactctatccttgcagGTACGACAGC Alignment from Exonerate_protein2genome GGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC agtaacctcaacattatttaattcacatatgtcaactttttctctattagCATGTGGTTATTTCTGTCGCCTGTGCCTCGCAAACCCCTCCTTGCCCAGTGCCCCCTGAACTTCTTCGCACAGCCTTGGGAGTGCACCCCAAGAAGCGAACAGAGTCAGCCTATGATGGGTTCTTGTCAgtaggctgggggggttctattcctcactctatccttgcagGTACGACAGC Alignment from Exonerate_coding2genome GGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC agtaacctcaacattatttaattcacatatgtcaactttttctctattagCATGTGGTTATTTCTGTCGCCTGTGCCTCGCAAACCCCTCCTTGCCCAGTGCCCCCTGAACTTCTTCGCACAGCCTTGGGAGTGCACCCCAAGAAGCGAACAGAGTCAGCCTATGATGGGTTCTTGTCAgtaggctgggggggttctattcctcactctatccttgcagGTACGACAGC Alignment from GeneWise ---------------TCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC agtaacctcaacattatttaattcacatatgtcaactttttctctattagCATGTGGTTATTTCTGTCGCCTGTGCCTCGCAAACCCCTCCTTGCCCAGTGCCCCCTGAACTTCTTCGCACAGCCTTGGGAGTGCACCCCAAGAAGCGAACAGAGTCAGCCTATGATGGGTTCTTGTCAgtaggctgggggggttctattcctcactctatccttgcagGTACGACAGC #### Cdc42bpg_ID1596_26 --> 0 - 2 Original Alignment CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCC-CGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAag GTTCTTGTCAgtgagttgggggggttctgaagcccctggtccttacacagGTACGACAGCCATCATGTGTTCGCTGGGACTGGCAGCGGGTATATGCTGCTCTCAGTGACTCCCCGTTTGTTATTGTTTGACGCTCCTGACCCTCATGGTAGCCTAGCCAGTAGCATTCTTCTTCAGGCCTTAGATCTAcggtacctttcaccttttgaggacatagtgcgcccaatgtgcatgttggaac Alignment from CESAR CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCC-CGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAag GTTCTTGTCAgtaggctgggggggttctgaagcccctggtccttacacagGTACGACAGCCATCATGTGTTCGCTGGGACTGGCAGCGGGTATATGCTGCTCTCAGTGACTCCCCGTTTGTTATTGTTTGACGCTCCTGACCCTCATGGTAGCCTAGCCAGTAGCATTCTTCTTCAGGCCTTAGATCTAcggtacctttcaccttttgaggacatagtgcgcccaatgtgcatgttggaac Alignment from Spaln_aa2Genome CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCC-CGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG GTTCTTGTCAgtgagttgggggggttctgaagcccctggtccttacacagGTACGACAGCCATCATGTGTTCGCTGGGACTGGCAGCGGGTATATGCTGCTCTCAGTGACTCCcCGTTTGTTATTGTTTGACGCTCCTGACCCTCATGGTAGCCTAGCCAGTAGCATTCTTCTTCAGGCCTTAGATCTACGgtacctttcaccttttgaggacatagtgcgcccaatgtgcatgttggaac Alignment from Spaln_nt2Genome CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACT-CCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG GTTCTTGTCAgtgagttgggggggttctgaagcccctggtccttacacagGTACGACAGCCATCATGTGTTCGCTGGGACTGGCAGCGGGTATATGCTGCTCTCAGTGACTCCCCGTTTGTTATTGTTTGACGCTCCTGACCCTCATGGTAGCCTAGCCAGTAGCATTCTTCTTCAGGCCTTAGATCTACGgtacctttcaccttttgaggacatagtgcgcccaatgtgcatgttggaac Alignment from Pairagon CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACT-CCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG GTTCTTGTCAgtgagttgggggggttctgaagcccctggtccttacacagGTACGACAGCCATCATGTGTTCGCTGGGACTGGCAGCGGGTATATGCTGCTCTCAGTGACTCCCCGTTTGTTATTGTTTGACGCTCCTGACCCTCATGGTAGCCTAGCCAGTAGCATTCTTCTTCAGGCCTTAGATCTACGgtacctttcaccttttgaggacatagtgcgcccaatgtgcatgttggaac Alignment from Exonerate_protein2genome CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCC-CGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG GTTCTTGTCAgtgagttgggggggttctgaagcccctggtccttacacagGTACGACAGCCATCATGTGTTCGCTGGGACTGGCAGCGGGTATATGCTGCTCTCAGTGACTCCCCGTTTGTTATTGTTTGACGCTCCTGACCCTCATGGTAGCCTAGCCAGTAGCATTCTTCTTCAGGCCTTAGATCTACGgtacctttcaccttttgaggacatagtgcgcccaatgtgcatgttggaac Alignment from Exonerate_coding2genome CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCC-CGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG GTTCTTGTCAgtgagttgggggggttctgaagcccctggtccttacacagGTACGACAGCCATCATGTGTTCGCTGGGACTGGCAGCGGGTATATGCTGCTCTCAGTGACTCCCCGTTTGTTATTGTTTGACGCTCCTGACCCTCATGGTAGCCTAGCCAGTAGCATTCTTCTTCAGGCCTTAGATCTACGgtacctttcaccttttgaggacatagtgcgcccaatgtgcatgttggaac Alignment from GeneWise CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGAC-TCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG GTTCTTGTCAgtgagttgggggggttctgaagcccctggtccttacacagGTACGACAGCCATCATGTGTTCGCTGGGACTGGCAGCGGGTATATGCTGCTCTCAGTGACTCCCCGTTTGTTATTGTTTGACGCTCCTGACCCTCATGGTAGCCTAGCCAGTAGCATTCTTCTTCAGGCCTTAGATCTACGgtacctttcaccttttgaggacatagtgcgcccaatgtgcatgttggaac #### Cdc42bpg_ID1602_32 --> 0 - 1 Original Alignment GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAG-GTCCGCCTGACCTACCTCAGGAATCCATTGGCAg tggttgtcacattaggacattgagtggacattgccttttctttttagcagGTGAGACCCCTCAATCCAGAAGGCTTGTTATTCCTTTATGGGACTGAAAAACCTACGCCTGACTTACCTCAGAAACCCACTGGCAagtaagtgtacacaatgccaattgactgtcagagcaataagtgaacaacca Alignment from CESAR GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAG-GTCCGCCTGACCTACCTCAGGAATCCATTGGCAg tggttgtcacattaggacattgagtggacattgccttttctttttagcagGTGAGACCCCTCAATCCAGAAGGCTTGTTATTCCTTTATGGGACTGAAAAACCTACGCCTGACTTACCTCAGAAACCCACTGGCAagtaagtgtacacaatgccaattgactgtcagagcaataagtgaacaacca Alignment from Spaln_aa2Genome AAGGTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAG-GTCCGCCTGACCTACCTCAGGAATCCATTGGCAG tggttgtcacattaggacattgagtggacattgccttttctttttagCAGGTGAGACCCCTCAATCCAGAAGGCTTGTTATTCCTTTATGGGACTGAAAAAcCTACGCCTGACTTACCTCAGAAACCCACTGGCAAgtaagtgtacacaatgccaattgactgtcagagcaataagtgaacaacca Alignment from Spaln_nt2Genome CTCAAGAAGGTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGG-TCCGCCTGACCTACCTCAGGAATCCATTGGCAG tcacattaggacattgagtggacattgccttttctttttagC------AGGTGAGACCCCTCAATCCAGAAGGCTTGTTATTCCTTTATGGGACTGAAAAACCTACGCCTGACTTACCTCAGAAACCCACTGGCAAgtaagtgtacacaatgccaattgactgtcagagcaataagtgaacaacca Alignment from Pairagon ---------------------------------------------AGAAGGTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAG-GTCCGCCTGACCTACCTCAGGAATCCATTGGCAG TGGTTGTCACATTAGGACATTGAGTGGACATTGCCTTTTCTTTTTAGCAGGTGAGACCCCTCAATCCAGAAGGCTTGTTATTCCTTTATGGGACTGAAAAACCTACGCCTGACTTACCTCAGAAACCCACTGGCAAgtaagtgtacacaatgccaattgactgtcagagcaataagtgaacaacca Alignment from Exonerate_protein2genome AAGGTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAG-GTCCGCCTGACCTACCTCAGGAATCCATTGGCAG tggttgtcacattaggacattgagtggacattgccttttctttttagCAGGTGAGACCCCTCAATCCAGAAGGCTTGTTATTCCTTTATGGGACTGAAAAACCTACGCCTGACTTACCTCAGAAACCCACTGGCAAgtaagtgtacacaatgccaattgactgtcagagcaataagtgaacaacca Alignment from Exonerate_coding2genome AAGGTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAG-GTCCGCCTGACCTACCTCAGGAATCCATTGGCAG tggttgtcacattaggacattgagtggacattgccttttctttttagCAGGTGAGACCCCTCAATCCAGAAGGCTTGTTATTCCTTTATGGGACTGAAAAACCTACGCCTGACTTACCTCAGAAACCCACTGGCAAgtaagtgtacacaatgccaattgactgtcagagcaataagtgaacaacca Alignment from GeneWise AAGGTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAG-GTCCGCCTGACCTACCTCAGGAATCCATTGGCAG tggttgtcacattaggacattgagtggacattgccttttctttttagCAGGTGAGACCCCTCAATCCAGAAGGCTTGTTATTCCTTTATGGGACTGAAAAACCTACGCCTGACTTACCTCAGAAACCCACTGGCAAgtaagtgtacacaatgccaattgactgtcagagcaataagtgaacaacca #### Cdc42bpg_ID1605_35 --> 0 - 1 Original Alignment GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTC-TCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAt aatgcaagagttccatgtagtctgctctattcgtccgtgggtctttgcagGCCCAGGAACAGAAGAGTAGTGGTGCCTGTAGCTCTGGACCACAACGGCCTCACAGCTTCCTTAAAGGCATTGCAGCGGCCAGTGTCAACAGACAGTGATCGTCCACCAGGACAAACAGACCCCtgtgagtattcaggatagttctcagtgagatattcccgattatttccttta Alignment from CESAR GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTC-TCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAt aatgcaagagttccatgtagtctgctctattcgtccgtgggtctttgcagGCCCAGGAACAGAAGAGTAGTGGTGCCTGTAGCTCTGGACCACAACGGCCTCACAGCTTCCTTAAAGGCATTGCAGCGGCCAGTGTCAACAGACAGTGATCGTCCACCAGGACAAACAGACCCCtgtgagtattcaggatagttctcagtgagatattcccgattatttccttta Alignment from Spaln_aa2Genome GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAG-GCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT aatgcaagagttccatgtagtctgctctattcgtccgtgggtctttgcagGCCCAGGAACAGAAGAGTAGTGGTGCCTGTAGCTCTGGACCACAACGGCCTCACAGCTTCCTTAAAgGCATTGCAGCGGCCAGTGTCAACAGACAGTGATCGTCCACCAGGACAAACAGACCCCTgtgagtattcaggatagttctcagtgagatattcccgattatttccttta Alignment from Spaln_nt2Genome GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTT-CTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT aatgcaagagttccatgtagtctgctctattcgtccgtgggtctttgcagGCCCAGGAACAGAAGAGTAGTGGTGCCTGTAGCTCTGGACCACAACGGCCTCACAGCTTCCTTAAAGGCATTGCAGCGGCCAGTGTCAACAGACAGTGATCGTCCACCAGGACAAACAGACCCCTgtgagtattcaggatagttctcagtgagatattcccgattatttccttta Alignment from Pairagon GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTT-CTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT aatgcaagagttccatgtagtctgctctattcgtccgtgggtctttgcagGCCCAGGAACAGAAGAGTAGTGGTGCCTGTAGCTCTGGACCACAACGGCCTCACAGCTTCCTTAAAGGCATTGCAGCGGCCAGTGTCAACAGACAGTGATCGTCCACCAGGACAAACAGACCCCTgtgagtattcaggatagttctcagtgagatattcccgattatttccttta Alignment from Exonerate_protein2genome GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTC-TCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT aatgcaagagttccatgtagtctgctctattcgtccgtgggtctttgcagGCCCAGGAACAGAAGAGTAGTGGTGCCTGTAGCTCTGGACCACAACGGCCTCACAGCTTCCTTAAAGGCATTGCAGCGGCCAGTGTCAACAGACAGTGATCGTCCACCAGGACAAACAGACCCCTgtgagtattcaggatagttctcagtgagatattcccgattatttccttta Alignment from Exonerate_coding2genome GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTC-TCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT aatgcaagagttccatgtagtctgctctattcgtccgtgggtctttgcagGCCCAGGAACAGAAGAGTAGTGGTGCCTGTAGCTCTGGACCACAACGGCCTCACAGCTTCCTTAAAGGCATTGCAGCGGCCAGTGTCAACAGACAGTGATCGTCCACCAGGACAAACAGACCCCTgtgagtattcaggatagttctcagtgagatattcccgattatttccttta Alignment from GeneWise GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTC-TCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT aatgcaagagttccatgtagtctgctctattcgtccgtgggtctttgcagGCCCAGGAACAGAAGAGTAGTGGTGCCTGTAGCTCTGGACCACAACGGCCTCACAGCTTCCTTAAAGGCATTGCAGCGGCCAGTGTCAACAGACAGTGATCGTCCACCAGGACAAACAGACCCCTgtgagtattcaggatagttctcagtgagatattcccgattatttccttta #### Cdca5_ID1428_2 --> 2 - 0 Original Alignment ggCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTC-CCGAACTCGTTCTCTGAAATCTGGCCGAGG cagctggcctggtaatgggttatttggcgtgttttattgctttctggtaggaCCAAGGACTTTACTAACTCAGCCTTCAGAGTCACTAAAACACAAGCCATGTTCAGACCTCCACAAACTCATTTTCTGAAACCTGGCAACGGgtgcgcactgacttccctggtctgaaagcagctgcatacatcacaatttt Alignment from CESAR ggCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTC-CCGAACTCGTTCTCTGAAATCTGGCCGAGG cagctggcctggtaatgggttatttggcgtgttttattgctttctggtaggaCCAAGGACTTTACTAACTCAGCCTTCAGAGTCACTAAAACACAAGCCATGTTCAGACCTCCACAAACTCATTTTCTGAAACCTGGCAACGGgtgcgcactgacttccctggtctgaaagcagctgcatacatcacaatttt Alignment from Spaln_aa2Genome GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTC-CCGAACTCGTTCTCTGAAATCTGGCCGAGG cagctggcctggtaatgggttatttggcgtgttttattgctttctggtagGACCAAGGACTTTACTAACTCAGCCTTCAGAGTCACTAAAACACAAGCCATGTTCAGACCTCcACAAACTCATTTTCTGAAACCTGGCAACGGgtgcgcactgacttccctggtctgaaagcagctgcatacatcacaatttt Alignment from Spaln_nt2Genome GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCC-CGAACTCGTTCTCTGAAATCTGGCCGAGG cagctggcctggtaatgggttatttggcgtgttttattgctttctggtagGACCAAGGACTTTACTAACTCAGCCTTCAGAGTCACTAAAACACAAGCCATGTTCAGACCTCCACAAACTCATTTTCTGAAACCTGGCAACGGgtgcgcactgacttccctggtctgaaagcagctgcatacatcacaatttt Alignment from Pairagon GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTC-----------------GTCCAAGCGGAAATCTGGCTCAGATCTCC-CGAACTCGTTCTCTGAAATCTGGCCGAGG cagctggcctggtaatgggttatttggcgtgttttattgctttctggtagGACCAAGGACTTTACTAACTCAGCCTTCAGAGTCACTAAAACACAAGCCATGT-----------------TCAGACCTCCACAAACTCATTTTCTGAAACCTGGCAACGGgtgcgcactgacttccctggtctgaaagcagctgcatacatcacaatttt Alignment from Exonerate_protein2genome cagctggcctggtaatgggttatttggcgtgttttattgctttctggtaggaccaaggactttactaactcagccttcagagtcactaaaacacaagccatgttcagacctccacaaactcattttctgaaacctggcaacgggtgcgcactgacttccctggtctgaaagcagctgcatacatcacaatttt Alignment from Exonerate_coding2genome cagctggcctggtaatgggttatttggcgtgttttattgctttctggtaggaccaaggactttactaactcagccttcagagtcactaaaacacaagccatgttcagacctccacaaactcattttctgaaacctggcaacgggtgcgcactgacttccctggtctgaaagcagctgcatacatcacaatttt Alignment from GeneWise cagctggcctggtaatgggttatttggcgtgttttattgctttctggtaggaccaaggactttactaactcagccttcagagtcactaaaacacaagccatgttcagacctccacaaactcattttctgaaacctggcaacgggtgcgcactgacttccctggtctgaaagcagctgcatacatcacaatttt #### Cdca5_ID1429_3 --> 0 - 0 Original Alignment ACAACTCCAGCGGTCCCAGTCAGAAAGGCCATCGTCTTGAAG-AAGATCGTAGCTCATGCAGTAGAG cccactatcccaattcccaaacgacactctatatgcttcttctgttccagATGACTCCCACAGTGCCAGTTAGAAAAGCTATCATCTTGAAGCAAGATAGTTGCACATGCAGTTGAAgtgaagggggtggtggggcagagaattgggcactgagatgtccaaattca Alignment from CESAR ACAACTCCAGCGGTCCCAGTCAGAAAGGCCATCGTCTTGAAG-AAGATCGTAGCTCATGCAGTAGAG cccactatcccaattcccaaacgacactctatatgcttcttctgttccagATGACTCCCACAGTGCCAGTTAGAAAAGCTATCATCTTGAAGCAAGATAGTTGCACATGCAGTTGAAgtgaagggggtggtggggcagagaattgggcactgagatgtccaaattca Alignment from Spaln_aa2Genome ACAACTCCAGCGGTCCCAGTCAGAAAGGCCATCGTCTTGAAG-AAGATCGTAGCTCATGCAGTAGAG cccactatcccaattcccaaacgacactctatatgcttcttctgttccagATGACTCCCACAGTGCCAGTTAGAAAAGCTATCATCTTGAAGcAAGATAGTTGCACATGCAGTTGAAgtgaagggggtggtggggcagagaattgggcactgagatgtccaaattca Alignment from Spaln_nt2Genome ACAACTCCAGCGGTCCCAGTCAGAAAGGCCATCGTCTTGAAG-AAGATCGTAGCTCATGCAGTAGAG cccactatcccaattcccaaacgacactctatatgcttcttctgttccagATGACTCCCACAGTGCCAGTTAGAAAAGCTATCATCTTGAAGCAAGATAGTTGCACATGCAGTTGAAgtgaagggggtggtggggcagagaattgggcactgagatgtccaaattca Alignment from Pairagon ACAACTCCAGCGGTCCCAGTCAGAAAGGCCATCGTCTTGAAG-AAGATCGTAGCTCATGCAGTAGAG cccactatcccaattcccaaacgacactctatatgcttcttctgttccagATGACTCCCACAGTGCCAGTTAGAAAAGCTATCATCTTGAAGCAAGATAGTTGCACATGCAGTTGAAgtgaagggggtggtggggcagagaattgggcactgagatgtccaaattca Alignment from Exonerate_protein2genome AGGACAACTCCAGCGGTCCCAGTCAGAAAGGCCATCGTCTTGAAG-AAGATCGTAGCTCATGCAGTAGAG cccactatcccaattcccaaacgacactctatatgcttcttctgttcCAGATGACTCCCACAGTGCCAGTTAGAAAAGCTATCATCTTGAAGCAAGATAGTTGCACATGCAGTTGAAgtgaagggggtggtggggcagagaattgggcactgagatgtccaaattca Alignment from Exonerate_coding2genome cccactatcccaattcccaaacgacactctatatgcttcttctgttccagatgactcccacagtgccagttagaaaagctatcatcttgaagcaagatagttgcacatgcagttgaagtgaagggggtggtggggcagagaattgggcactgagatgtccaaattca Alignment from GeneWise ACAACTCCAGCGGTCCCAGTCAGAAAGGCCATCGTCTTGAAG-AAGATCGTAGCTCATGCAGTAGAG cccactatcccaattcccaaacgacactctatatgcttcttctgttccagATGACTCCCACAGTGCCAGTTAGAAAAGCTATCATCTTGAAGCAAGATAGTTGCACATGCAGTTGAAgtgaagggggtggtggggcagagaattgggcactgagatgtccaaattca #### Cdk2ap2_ID298_2 --> 2 - 0 Original Alignment ccGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCC-ATGGGGTATGTACAG atgcccaatctaaaagtctgcaatgtaatcaccaacacctccacttccagctGGTAGTGTCCCATTGCCATCAGGCTCGGTACCAGGGGCTGCTGCCCCTTTCAGACCA---TTCAATGACTTTGGTCCACCCTCTCATGGGTTATGTTAAAgtttgtttgataaaagagttactcaagcatgtggagcccaacccctattg Alignment from CESAR ccGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCC-ATGGGGTATGTACAG atgcccaatctaaaagtctgcaatgtaatcaccaacacctccacttccagctGGTAGTGTCCCATTGCCATCAGGCTCGGTACCAGGGGCTGCTGCCCCTTTCAGACCA---TTCAATGACTTTGGTCCACCCTCTCATGGGTTATGTTAAAgtttgtttgataaaagagttactcaagcatgtggagcccaacccctattg Alignment from Spaln_aa2Genome CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCC-ATGGGGTATGTACAG atgcccaatctaaaagtctgcaatgtaatcaccaacacctccacttccagCTGGTAGTGTCCCATTGCCATCAGGCTCGGTACCAGGGGCTGCTGCCCCTTTCAGACCA---TTCAATGACTTTGGTCCACCCTCTcATGGGTTATGTTAAAgtttgtttgataaaagagttactcaagcatgtggagcccaacccctattg Alignment from Spaln_nt2Genome CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTC-CATGGGGTATGTACAG atgcccaatctaaaagtctgcaatgtaatcaccaacacctccacttccagCTGGTAGTGTCCCATTGCCATCAGGCTCGGTACCAGGGGCTGCTGCCCCTTTCAGACC---ATTCAATGACTTTGGTCCACCCTCTCATGGGTTATGTTAAAgtttgtttgataaaagagttactcaagcatgtggagcccaacccctattg Alignment from Pairagon CCTACAGCCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTC-CATGGGGTATG------------------------------------------------------- atgcccaatctaaaagtctgcaatgtaatcaccaacacctccacttccag-------CTGGTAGTGTCCCATTGCCATCAGGCTCGGTACCAGGGGCTGCTGCCCCTTTCAGACC---ATTCAATGACTTTGGTCCACCCTCTCATGGGTTATGTTAAAGTTTGTTTGATAAAAGAGTTACTCAAGCATGTGGAGCCCAACCCCTATTG Alignment from Exonerate_protein2genome CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCC-ATGGGGTATGTACAG atgcccaatctaaaagtctgcaatgtaatcaccaacacctccacttccagCTGGTAGTGTCCCATTGCCATCAGGCTCGGTACCAGGGGCTGCTGCCCCTTTCAGACCA---TTCAATGACTTTGGTCCACCCTCTCATGGGTTATGTTAAAgtttgtttgataaaagagttactcaagcatgtggagcccaacccctattg Alignment from Exonerate_coding2genome ACCCCGGTCCCTACAGCCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCC-ATGGGGTATGTACAG atgcccaatctaaaagtctgcaatgtaatcaccaACACCTCCACTTCCAGCTGGTAGTGTCCCATTGCCATCAGGCTCGGTACCAGGGGCTGCTGCCCCTTTCAGACCA---TTCAATGACTTTGGTCCACCCTCTCATGGGTTATGTTAAAgtttgtttgataaaagagttactcaagcatgtggagcccaacccctattg Alignment from GeneWise CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCC-TCCATGGGGTATGTACAG atgcccaatctaaaagtctgcaatgtaatcaccaacacctccacttccagCTGGTAGTGTCCCATTGCCATCAGGCTCGGTACCAGGGGCTGCTGCCCCTTTCAGACCA---TTCAATGACTTTGGTCCACCCTCTCATGGGTTATGTTAAAgtttgtttgataaaagagttactcaagcatgtggagcccaacccctattg #### Chuk_ID8920_8 --> 1 - 2 Original Alignment gCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAG-CCAAACAGCCTTTGTag tggggcatggttcttggatgcactatgccctgcgccttgctccctgttaggCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCCAAACAGCCTTTGTaggtcagtgacactttgagtttgggaatatgcccctatctactcataagggc Alignment from CESAR gCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAG-CCAAACAGCCTTTGTag tggggcatggttcttggatgcactatgccctgcgccttgctccctgttaggCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCCAAACAGCCTTTGTaggtcagtgacactttgagtttgggaatatgcccctatctactcataagggc Alignment from Spaln_aa2Genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTG tggggcatggttcttggatgcactatgccctgcgccttgctccctgttagGCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCCAAACAGCCTTTgtaggtcagtgacactttgagtttgggaatatgcccctatctactcataagggc Alignment from Spaln_nt2Genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGC-CAAACAGCCTTTGTAG tggggcatggttcttggatgcactatgccctgcgccttgctccctgttagGCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCCAAACAGCCTTTGTAGgtcagtgacactttgagtttgggaatatgcccctatctactcataagggc Alignment from Pairagon GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAG-CCAAACAGCCTTTGTAG tggggcatggttcttggatgcactatgccctgcgccttgctccctgttagGCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCCAAACAGCCTTTGTAGgtcagtgacactttgagtttgggaatatgcccctatctactcataagggc Alignment from Exonerate_protein2genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAG-CCAAACAGCCTTTGTAG tggggcatggttcttggatgcactatgccctgcgccttgctccctgttagGCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCCAAACAGCCTTTGTAGgtcagtgacactttgagtttgggaatatgcccctatctactcataagggc Alignment from Exonerate_coding2genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAG-CCAAACAGCCTTTGTAG tggggcatggttcttggatgcactatgccctgcgccttgctccctgttagGCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCCAAACAGCCTTTGTAGgtcagtgacactttgagtttgggaatatgcccctatctactcataagggc Alignment from GeneWise GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTG tggggcatggttcttggatgcactatgccctgcgccttgctccctgttagGCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCCAAACAGCCTTTgtaggtcagtgacactttgagtttgggaatatgcccctatctactcataagggc #### Chuk_ID8921_7 --> 0 - 2 Original Alignment GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACT-GTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCtg ttctcaaaagtctaagctttatagttccaatttttaactaccttttttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTCGTGGATTATTGGAGCTTTGGTACCATGGTTTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCtggtaggtcagtgctatttgttgttggggagaactcccagttacatgaggta Alignment from CESAR GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACT-GTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCtg ttctcaaaagtctaagctttatagttccaatttttaactaccttttttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTCGTGGATTATTGGAGCTTTGGTACCATGGTTTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCtggtaggtcagtgctatttgttgttggggagaactcccagttacatgaggta Alignment from Spaln_aa2Genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACT-GTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG ttctcaaaagtctaagctttatagttccaatttttaactaccttttttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTcGTGGATTATTGGAGCTTTGGTACCATGGTTTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtaggtcagtgctatttgttgttggggagaactcccagttacatgaggta Alignment from Spaln_nt2Genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACT-GTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG ttctcaaaagtctaagctttatagttccaatttttaactaccttttttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTCGTGGATTATTGGAGCTTTGGTACCATGGTTTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtaggtcagtgctatttgttgttggggagaactcccagttacatgaggta Alignment from Pairagon GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACT-GTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG ttctcaaaagtctaagctttatagttccaatttttaactaccttttttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTCGTGGATTATTGGAGCTTTGGTACCATGGTTTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtaggtcagtgctatttgttgttggggagaactcccagttacatgaggta Alignment from Exonerate_protein2genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACT-GTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG ttctcaaaagtctaagctttatagttccaatttttaactaccttttttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTCGTGGATTATTGGAGCTTTGGTACCATGGTTTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtaggtcagtgctatttgttgttggggagaactcccagttacatgaggta Alignment from Exonerate_coding2genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACT-GTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG ttctcaaaagtctaagctttatagttccaatttttaactaccttttttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTCGTGGATTATTGGAGCTTTGGTACCATGGTTTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtaggtcagtgctatttgttgttggggagaactcccagttacatgaggta Alignment from GeneWise GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACT-GTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG ttctcaaaagtctaagctttatagttccaatttttaactaccttttttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTCGTGGATTATTGGAGCTTTGGTACCATGGTTTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtaggtcagtgctatttgttgttggggagaactcccagttacatgaggta #### Chuk_ID8922_6 --> 0 - 0 Original Alignment ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAA-GGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG tcacaagtcttgtggaacttgatgacattccgctgtttgttttcttacagACAGTGCATAAAATAATTGATCTGGGGTATGCCAAAGATGTTGATCAACGGAAGTCTTTGTTCAACTTTTGTAGGAACATTGAAATACTTGgtcagtaaatgacatgttagttctgattctgttacttcgttggtctttca Alignment from CESAR ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAA-GGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG tcacaagtcttgtggaacttgatgacattccgctgtttgttttcttacagACAGTGCATAAAATAATTGATCTGGGGTATGCCAAAGATGTTGATCAACGGAAGTCTTTGTTCAACTTTTGTAGGAACATTGAAATACTTGgtcagtaaatgacatgttagttctgattctgttacttcgttggtctttca Alignment from Spaln_aa2Genome ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAA-GGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG tcacaagtcttgtggaacttgatgacattccgctgtttgttttcttacagACAGTGCATAAAATAATTGATCTGGGGTATGCCAAAGATGTTGATCAAcGGAAGTCTTTGTTCAACTTTTGTAGGAACATTGAAATACTTGgtcagtaaatgacatgttagttctgattctgttacttcgttggtctttca Alignment from Spaln_nt2Genome ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAA-GGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG tcacaagtcttgtggaacttgatgacattccgctgtttgttttcttacagACAGTGCATAAAATAATTGATCTGGGGTATGCCAAAGATGTTGATCAACGGAAGTCTTTGTTCAACTTTTGTAGGAACATTGAAATACTTGgtcagtaaatgacatgttagttctgattctgttacttcgttggtctttca Alignment from Pairagon ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAA-GGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG tcacaagtcttgtggaacttgatgacattccgctgtttgttttcttacagACAGTGCATAAAATAATTGATCTGGGGTATGCCAAAGATGTTGATCAACGGAAGTCTTTGTTCAACTTTTGTAGGAACATTGAAATACTTGgtcagtaaatgacatgttagttctgattctgttacttcgttggtctttca Alignment from Exonerate_protein2genome ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAA-GGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG tcacaagtcttgtggaacttgatgacattccgctgtttgttttcttacagACAGTGCATAAAATAATTGATCTGGGGTATGCCAAAGATGTTGATCAACGGAAGTCTTTGTTCAACTTTTGTAGGAACATTGAAATACTTGgtcagtaaatgacatgttagttctgattctgttacttcgttggtctttca Alignment from Exonerate_coding2genome ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAA-GGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG tcacaagtcttgtggaacttgatgacattccgctgtttgttttcttacagACAGTGCATAAAATAATTGATCTGGGGTATGCCAAAGATGTTGATCAACGGAAGTCTTTGTTCAACTTTTGTAGGAACATTGAAATACTTGgtcagtaaatgacatgttagttctgattctgttacttcgttggtctttca Alignment from GeneWise ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGAT-CAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG tcacaagtcttgtggaacttgatgacattccgctgtttgttttcttacagACAGTGCATAAAATAATTGATCTGGGGTATGCCAAAGATGTTGATCAACGGAAGTCTTTGTTCAACTTTTGTAGGAACATTGAAATACTTGgtcagtaaatgacatgttagttctgattctgttacttcgttggtctttca #### Col17a1_ID10282_40 --> 2 - 1 Original Alignment aaACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCA-GGTCCCAAGGGAGACCAAg agccaatgttaagccctgagcaacctgcttttcctgtttcttctgtttagtaACATTCTTTAGGGGCCCTCCAGGTCCACCTGGCCCTCCACGGTCCAAAAGGGGACCAAggtgagtaggtagtgcaaaaactgccaagtgtgagcactagtatgagacta Alignment from CESAR aaACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCA-GGTCCCAAGGGAGACCAAg agccaatgttaagccctgagcaacctgcttttcctgtttcttctgtttagtaACATTCTTTAGGGGCCCTCCAGGTCCACCTGGCCCTCCACGGTCCAAAAGGGGACCAAggtgagtaggtagtgcaaaaactgccaagtgtgagcactagtatgagacta Alignment from Spaln_aa2Genome AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCA-GGTCCCAAGGGAGACCAAG agccaatgttaagccctgagcaacctgcttttcctgtttcttctgtttagTAACATTCTTTAGGGGCCCTCCAGGTCCACCTGGCCCTCCAcGGTCCAAAAGGGGACCAAGgtgagtaggtagtgcaaaaactgccaagtgtgagcactagtatgagacta Alignment from Spaln_nt2Genome AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCA-GGTCCCAAGGGAGACCAAG agccaatgttaagccctgagcaacctgcttttcctgtttcttctgtttagTAACATTCTTTAGGGGCCCTCCAGGTCCACCTGGCCCTCCACGGTCCAAAAGGGGACCAAGgtgagtaggtagtgcaaaaactgccaagtgtgagcactagtatgagacta Alignment from Pairagon AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCA-GGTCCCAAGGGAGACCAAG agccaatgttaagccctgagcaacctgcttttcctgtttcttctgtttagTAACATTCTTTAGGGGCCCTCCAGGTCCACCTGGCCCTCCACGGTCCAAAAGGGGACCAAGgtgagtaggtagtgcaaaaactgccaagtgtgagcactagtatgagacta Alignment from Exonerate_protein2genome AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCA-GGTCCCAAGGGAGACCAAG agccaatgttaagccctgagcaacctgcttttcctgtttcttctgtttagTAACATTCTTTAGGGGCCCTCCAGGTCCACCTGGCCCTCCACGGTCCAAAAGGGGACCAAGgtgagtaggtagtgcaaaaactgccaagtgtgagcactagtatgagacta Alignment from Exonerate_coding2genome agccaatgttaagccctgagcaacctgcttttcctgtttcttctgtttagtaacattctttaggggccctccaggtccacctggccctccacggtccaaaaggggaccaaggtgagtaggtagtgcaaaaactgccaagtgtgagcactagtatgagacta Alignment from GeneWise AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCA-GGTCCCAAGGGAGACCAAG agccaatgttaagccctgagcaacctgcttttcctgtttcttctgtttagTAACATTCTTTAGGGGCCCTCCAGGTCCACCTGGCCCTCCACGGTCCAAAAGGGGACCAAGgtgagtaggtagtgcaaaaactgccaagtgtgagcactagtatgagacta #### Col17a1_ID10283_39 --> 2 - 1 Original Alignment ggGAAGGCGTACCAGGCCCACCCGGGCCACCAGGA-TCCTTCCTGACTGACTCAg attgtcaatagtgagggtaatatgacattgaactaacatggtttttacaggaGAGGGAGTGCCAGGTCCACCTGGGCCTCCAGGACTCTTTTTTGACTGATTCTggtaagcatgtccatcccctctgctctgatttggccagaaaaccatgcata Alignment from CESAR ggGAAGGCGTACCAGGCCCACCCGGGCCACCAGGA-TCCTTCCTGACTGACTCAg attgtcaatagtgagggtaatatgacattgaactaacatggtttttacaggaGAGGGAGTGCCAGGTCCACCTGGGCCTCCAGGACTCTTTTTTGACTGATTCTggtaagcatgtccatcccctctgctctgatttggccagaaaaccatgcata Alignment from Spaln_aa2Genome GGGAAGGCGTACCAGGCCCACCCGGGCCACCAGGA-TCCTTCCTGACTGACTCAG attgtcaatagtgagggtaatatgacattgaactaacatggtttttacagGAGAGGGAGTGCCAGGTCCACCTGGGCCTCCAGGAcTCTTTTTTGACTGATTCTGgtaagcatgtccatcccctctgctctgatttggccagaaaaccatgcata Alignment from Spaln_nt2Genome GGGAAGGCGTACCAGGCCCACCCGGGCCACCAGGA-TCCTTCCTGACTGACTCAG attgtcaatagtgagggtaatatgacattgaactaacatggtttttacagGAGAGGGAGTGCCAGGTCCACCTGGGCCTCCAGGACTCTTTTTTGACTGATTCTGgtaagcatgtccatcccctctgctctgatttggccagaaaaccatgcata Alignment from Pairagon GGGAAGGCGTACCAGGCCCACCCGGGCCACCAGGA-TCCTTCCTGACTGACTCAG attgtcaatagtgagggtaatatgacattgaactaacatggtttttacagGAGAGGGAGTGCCAGGTCCACCTGGGCCTCCAGGACTCTTTTTTGACTGATTCTGgtaagcatgtccatcccctctgctctgatttggccagaaaaccatgcata Alignment from Exonerate_protein2genome GGGAAGGCGTACCAGGCCCACCCGGGCCACCAGGA-TCCTTCCTGACTGACTCAG attgtcaatagtgagggtaatatgacattgaactaacatggtttttacagGAGAGGGAGTGCCAGGTCCACCTGGGCCTCCAGGACTCTTTTTTGACTGATTCTGgtaagcatgtccatcccctctgctctgatttggccagaaaaccatgcata Alignment from Exonerate_coding2genome attgtcaatagtgagggtaatatgacattgaactaacatggtttttacaggagagggagtgccaggtccacctgggcctccaggactcttttttgactgattctggtaagcatgtccatcccctctgctctgatttggccagaaaaccatgcata Alignment from GeneWise GGGAAGGCGTACCAGGCCCACCCGGGCCACCAGGA-TCCTTCCTGACTGACTCAG attgtcaatagtgagggtaatatgacattgaactaacatggtttttacagGAGAGGGAGTGCCAGGTCCACCTGGGCCTCCAGGACTCTTTTTTGACTGATTCTGgtaagcatgtccatcccctctgctctgatttggccagaaaaccatgcata #### Col17a1_ID10284_38 --> 2 - 1 Original Alignment ggCCTTCCATCCCAGGCCCGCCA-GGACCCAGAGGTCCACCAg acgatagtaatggagggagattcacaagtttgctttgtggtcacgtgcagggCCTTCTACCCCAGGGCCACCCCGGACCCCAAAGTCCACCAggtgactgattgaaagggatgtgaggattaaggccatgtccaacaggaggt Alignment from CESAR ggCCTTCCATCCCAGGCCCGCCA-GGACCCAGAGGTCCACCAg acgatagtaatggagggagattcacaagtttgctttgtggtcacgtgcagggCCTTCTACCCCAGGGCCACCCCGGACCCCAAAGTCCACCAggtgactgattgaaagggatgtgaggattaaggccatgtccaacaggaggt Alignment from Spaln_aa2Genome GGCCTTCCATCCCAGGCCCGCCA-GGACCCAGAGGTCCACCAG acgatagtaatggagggagattcacaagtttgctttgtggtcacgtgcagGGCCTTCTACCCCAGGGCCACCCcGGACCCCAAAGTCCACCAGgtgactgattgaaagggatgtgaggattaaggccatgtccaacaggaggt Alignment from Spaln_nt2Genome GGCCTTCCATCCCAGGCCCGCCA-GGACCCAGAGGTCCACCAG acgatagtaatggagggagattcacaagtttgctttgtggtcacgtgcagGGCCTTCTACCCCAGGGCCACCCCGGACCCCAAAGTCCACCAGgtgactgattgaaagggatgtgaggattaaggccatgtccaacaggaggt Alignment from Pairagon GGCCTTCCATCCCAGGCCCG-CCAGGACCCAGAGGTCCACCAG acgatagtaatggagggagattcacaagtttgctttgtggtcacgtgcagGGCCTTCTACCCCAGGGCCACCCCGGACCCCAAAGTCCACCAGgtgactgattgaaagggatgtgaggattaaggccatgtccaacaggaggt Alignment from Exonerate_protein2genome ACC ACGatagtaatggagggagattcacaagtttgctttgtggtcacgtgcagggccttctaccccagggccaccccggaccccaaagtccaccaggtgactgattgaaagggatgtgaggattaaggccatgtccaacaggaggt Alignment from Exonerate_coding2genome acgatagtaatggagggagattcacaagtttgctttgtggtcacgtgcagggccttctaccccagggccaccccggaccccaaagtccaccaggtgactgattgaaagggatgtgaggattaaggccatgtccaacaggaggt Alignment from GeneWise acgatagtaatggagggagattcacaagtttgctttgtggtcacgtgcagggccttctaccccagggccaccccggaccccaaagtccaccaggtgactgattgaaagggatgtgaggattaaggccatgtccaacaggaggt #### Col17a1_ID10287_35 --> 2 - 1 Original Alignment gtCCAGCTGGCCCTGCTGGTCTC-CCAGGACAACAAg caaatacacatggatggcagaactgtttacatctctcccttttcttccaggtCCGGCTAGCCCTGGTGGTCTACCCAGGAGAGCAAggtgagtatctgcatgactgacagtactaggctctgaggagtgacaagctt Alignment from CESAR gtCCAGCTGGCCCTGCTGGTCTC-CCAGGACAACAAg caaatacacatggatggcagaactgtttacatctctcccttttcttccaggtCCGGCTAGCCCTGGTGGTCTACCCAGGAGAGCAAggtgagtatctgcatgactgacagtactaggctctgaggagtgacaagctt Alignment from Spaln_aa2Genome GTCCAGCTGGCCCTGCTGGTCTC-CCAGGACAACAAG caaatacacatggatggcagaactgtttacatctctcccttttcttccagGTCCGGCTAGCCCTGGTGGTCTAcCCAGGAGAGCAAGgtgagtatctgcatgactgacagtactaggctctgaggagtgacaagctt Alignment from Spaln_nt2Genome GTCCAGCTGGCCCTGCTGGTCT-CCCAGGACAACAAG caaatacacatggatggcagaactgtttacatctctcccttttcttccagGTCCGGCTAGCCCTGGTGGTCTACCCAGGAGAGCAAGgtgagtatctgcatgactgacagtactaggctctgaggagtgacaagctt Alignment from Pairagon GTCCAGCTGGCCCTGCTGGTCT-CCCAGGACAACAAG caaatacacatggatggcagaactgtttacatctctcccttttcttccagGTCCGGCTAGCCCTGGTGGTCTACCCAGGAGAGCAAGgtgagtatctgcatgactgacagtactaggctctgaggagtgacaagctt Alignment from Exonerate_protein2genome caaatacacatggatggcagaactgtttacatctctcccttttcttccaggtccggctagccctggtggtctacccaggagagcaaggtgagtatctgcatgactgacagtactaggctctgaggagtgacaagctt Alignment from Exonerate_coding2genome caaatacacatggatggcagaactgtttacatctctcccttttcttccaggtccggctagccctggtggtctacccaggagagcaaggtgagtatctgcatgactgacagtactaggctctgaggagtgacaagctt Alignment from GeneWise caaatacacatggatggcagaactgtttacatctctcccttttcttccaggtccggctagccctggtggtctacccaggagagcaaggtgagtatctgcatgactgacagtactaggctctgaggagtgacaagctt #### Col17a1_ID10288_34 --> 2 - 1 Original Alignment agGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCC-CCAGGACCTCCAGGGACGCCAg cctagttgaggatagtgtaacatggcatattctcatcaccctctctttagaaGGATCCTCAACCACCACTGTCCCTGGGACTCCTGGGCCTTCAGGTGCCATGGATCCTCCCTGGGCCTCCAGGGACGCTTagtgagtttttgccaacaaatcaacaataatttacataaaaactgatagga Alignment from CESAR agGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCC-CCAGGACCTCCAGGGACGCCAg cctagttgaggatagtgtaacatggcatattctcatcaccctctctttagaaGGATCCTCAACCACCACTGTCCCTGGGACTCCTGGGCCTTCAGGTGCCATGGATCCTCCCTGGGCCTCCAGGGACGCTTagtgagtttttgccaacaaatcaacaataatttacataaaaactgatagga Alignment from Spaln_aa2Genome AGGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCA-GGACCTCCAGGGACGCCAG cctagttgaggatagtgtaacatggcatattctcatcaccctctctttagAAGGATCCTCAACCACCACTGTCCCTGGGACTCCTGGGCCTTCAGGTGCCATGGATCCTCCCtGGGCCTCCAGGGACGCTTAgtgagtttttgccaacaaatcaacaataatttacataaaaactgatagga Alignment from Spaln_nt2Genome AGGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCC-CCCAGGACCTCCAGGGACGCCAG cctagttgaggatagtgtaacatggcatattctcatcaccctctctttagAAGGATCCTCAACCACCACTGTCCCTGGGACTCCTGGGCCTTCAGGTGCCATGGATCCTCCCTGGGCCTCCAGGGACGCTTAgtgagtttttgccaacaaatcaacaataatttacataaaaactgatagga Alignment from Pairagon AGGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCC-CCCAGGACCTCCAGGGACGCCAG cctagttgaggatagtgtaacatggcatattctcatcaccctctctttagAAGGATCCTCAACCACCACTGTCCCTGGGACTCCTGGGCCTTCAGGTGCCATGGATCCTCCCTGGGCCTCCAGGGACGCTTAgtgagtttttgccaacaaatcaacaataatttacataaaaactgatagga Alignment from Exonerate_protein2genome AGGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCC-CCAGGACCTCCAGGGACGCCAG cctagttgaggatagtgtaacatggcatattctcatcaccctctctttagAAGGATCCTCAACCACCACTGTCCCTGGGACTCCTGGGCCTTCAGGTGCCATGGATCCTCCCTGGGCCTCCAGGGACGCTTAgtgagtttttgccaacaaatcaacaataatttacataaaaactgatagga Alignment from Exonerate_coding2genome cctagttgaggatagtgtaacatggcatattctcatcaccctctctttagaaggatcctcaaccaccactgtccctgggactcctgggccttcaggtgccatggatcctccctgggcctccagggacgcttagtgagtttttgccaacaaatcaacaataatttacataaaaactgatagga Alignment from GeneWise GCGAACCCGGCGCTCCCGGCAGAGTCATGACTTCA---------GAGGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCA-GGACCTCCAGGGACGCCAG cctagTTGAGGATAGTGTAACATGGCATATTCTCATCACCCTCTCTTTAGAAGGATCCTCAACCACCACTGTCCCTGGGACTCCTGGGCCTTCAGGTGCCATGGATCCTCCCTGGGCCTCCAGGGACGCTTAgtgagtttttgccaacaaatcaacaataatttacataaaaactgatagga #### Col17a1_ID10293_29 --> 2 - 1 Original Alignment gtCCGGCTGGCGCTGATGGA-CAGCAAGGTTCCAGAg gatcagaaagcccattgatcataacacacttcctcccctgctctctccaggtCCAGCTGGCGCTGATGGACCAACAAGGTTCACGGggtaattcaatcccttgtagtttccttgatgactggttactgtttgtcctc Alignment from CESAR gtCCGGCTGGCGCTGATGGA-CAGCAAGGTTCCAGAg gatcagaaagcccattgatcataacacacttcctcccctgctctctccaggtCCAGCTGGCGCTGATGGACCAACAAGGTTCACGGggtaattcaatcccttgtagtttccttgatgactggttactgtttgtcctc Alignment from Spaln_aa2Genome GTCCGGCTGGCGCTGATGGA-CAGCAAGGTTCCAGAG gatcagaaagcccattgatcataacacacttcctcccctgctctctccagGTCCAGCTGGCGCTGATGGAcCAACAAGGTTCACGGGgtaattcaatcccttgtagtttccttgatgactggttactgtttgtcctc Alignment from Spaln_nt2Genome GTCCGGCTGGCGCTGATGGAC-AGCAAGGTTCCAGAG gatcagaaagcccattgatcataacacacttcctcccctgctctctccagGTCCAGCTGGCGCTGATGGACCAACAAGGTTCACGGGgtaattcaatcccttgtagtttccttgatgactggttactgtttgtcctc Alignment from Pairagon GTCCGGCTGGCGCTGATGGA-CAGCAAGGTTCCAGAG gatcagaaagcccattgatcataacacacttcctcccctgctctctccagGTCCAGCTGGCGCTGATGGACCAACAAGGTTCACGGGgtaattcaatcccttgtagtttccttgatgactggttactgtttgtcctc Alignment from Exonerate_protein2genome GTCCGGCTGGCGCTGATGGA-CAGCAAGGTTCCAGAG gatcagaaagcccattgatcataacacacttcctcccctgctctctccagGTCCAGCTGGCGCTGATGGACCAACAAGGTTCACGGGgtaattcaatcccttgtagtttccttgatgactggttactgtttgtcctc Alignment from Exonerate_coding2genome gatcagaaagcccattgatcataacacacttcctcccctgctctctccaggtccagctggcgctgatggaccaacaaggttcacggggtaattcaatcccttgtagtttccttgatgactggttactgtttgtcctc Alignment from GeneWise gatcagaaagcccattgatcataacacacttcctcccctgctctctccaggtccagctggcgctgatggaccaacaaggttcacggggtaattcaatcccttgtagtttccttgatgactggttactgtttgtcctc #### Col17a1_ID10297_25 --> 2 - 1 Original Alignment gtGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTT-CCTGGTGTCAAAg catataggaaaggggtatcattgctgagtatttttctttctggtgtgtaggtGCTGTTGGAACCCAGGGACTTCGGGGTGATGTGGGATTGCCCTGGTGTCAAAggtaagacaggtagtgaaaggtgagggcttatttgcaaaggcattctaagc Alignment from CESAR gtGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTT-CCTGGTGTCAAAg catataggaaaggggtatcattgctgagtatttttctttctggtgtgtaggtGCTGTTGGAACCCAGGGACTTCGGGGTGATGTGGGATTGCCCTGGTGTCAAAggtaagacaggtagtgaaaggtgagggcttatttgcaaaggcattctaagc Alignment from Spaln_aa2Genome GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGG catataggaaaggggtatcattgctgagtatttttctttctggtgtgtagGTGCTGTTGGAACCCAGGGACTTCGGGGTGATGTGGGATTGCCCTGgtgtcaaaggtaagacaggtagtgaaaggtgagggcttatttgcaaaggcattctaagc Alignment from Spaln_nt2Genome GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCC-TGGTGTCAAAG catataggaaaggggtatcattgctgagtatttttctttctggtgtgtagGTGCTGTTGGAACCCAGGGACTTCGGGGTGATGTGGGATTGCCCTGGTGTCAAAGgtaagacaggtagtgaaaggtgagggcttatttgcaaaggcattctaagc Alignment from Pairagon GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACT-TCCTGGTGTCAAAG catataggaaaggggtatcattgctgagtatttttctttctggtgtgtagGTGCTGTTGGAACCCAGGGACTTCGGGGTGATGTGGGATTGCCCTGGTGTCAAAGgtaagacaggtagtgaaaggtgagggcttatttgcaaaggcattctaagc Alignment from Exonerate_protein2genome GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAGG catataggaaaggggtatcattgctgagtatttttctttctggtgtgtagGTGCTGTTGGAACCCAGGGACTTCGGGGTGATGTGGGATTGCCCTGGTGTCAAAGgtaagacaggtagtgaaaggtgagggcttatttgcaaaggcattctaagc Alignment from Exonerate_coding2genome catataggaaaggggtatcattgctgagtatttttctttctggtgtgtaggtgctgttggaacccagggacttcggggtgatgtgggattgccctggtgtcaaaggtaagacaggtagtgaaaggtgagggcttatttgcaaaggcattctaagc Alignment from GeneWise --GCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGG catataggaaaggggtatcattgctgagtatttttctttctggtgtgtagGTGCTGTTGGAACCCAGGGACTTCGGGGTGATGTGGGATTGCCCTGgtgtcaaaggtaagacaggtagtgaaaggtgagggcttatttgcaaaggcattctaagc #### Col17a1_ID10300_22 --> 2 - 1 Original Alignment gaGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCC-GGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAg taactatctgtactggtgactctttcttaccccatctcttctccccaaaggaGACCCAGGCATGGAAGCACCAATAGGCCAGAGAGGATTAGCAGGTCCCATGGGGCCCATTGGTGAACCACGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAggtaggtgtcaccatcaaagataacgcagtgacctgcatcttattgttgta Alignment from CESAR gaGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCC-GGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAg taactatctgtactggtgactctttcttaccccatctcttctccccaaaggaGACCCAGGCATGGAAGCACCAATAGGCCAGAGAGGATTAGCAGGTCCCATGGGGCCCATTGGTGAACCACGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAggtaggtgtcaccatcaaagataacgcagtgacctgcatcttattgttgta Alignment from Spaln_aa2Genome GAGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCC-GGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG taactatctgtactggtgactctttcttaccccatctcttctccccaaagGAGACCCAGGCATGGAAGCACCAATAGGCCAGAGAGGATTAGCAGGTCCCATGGGGCCCATTGGTGAACCAcGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtaggtgtcaccatcaaagataacgcagtgacctgcatcttattgttgta Alignment from Spaln_nt2Genome GAGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACC-CGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG taactatctgtactggtgactctttcttaccccatctcttctccccaaagGAGACCCAGGCATGGAAGCACCAATAGGCCAGAGAGGATTAGCAGGTCCCATGGGGCCCATTGGTGAACCACGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtaggtgtcaccatcaaagataacgcagtgacctgcatcttattgttgta Alignment from Pairagon GAGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACC-CGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG taactatctgtactggtgactctttcttaccccatctcttctccccaaagGAGACCCAGGCATGGAAGCACCAATAGGCCAGAGAGGATTAGCAGGTCCCATGGGGCCCATTGGTGAACCACGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtaggtgtcaccatcaaagataacgcagtgacctgcatcttattgttgta Alignment from Exonerate_protein2genome GAGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCC-GGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG taactatctgtactggtgactctttcttaccccatctcttctccccaaagGAGACCCAGGCATGGAAGCACCAATAGGCCAGAGAGGATTAGCAGGTCCCATGGGGCCCATTGGTGAACCACGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtaggtgtcaccatcaaagataacgcagtgacctgcatcttattgttgta Alignment from Exonerate_coding2genome GAGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCC-GGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG taactatctgtactggtgactctttcttaccccatctcttctccccaaagGAGACCCAGGCATGGAAGCACCAATAGGCCAGAGAGGATTAGCAGGTCCCATGGGGCCCATTGGTGAACCACGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtaggtgtcaccatcaaagataacgcagtgacctgcatcttattgttgta Alignment from GeneWise GAGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCC-GGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG taactatctgtactggtgactctttcttaccccatctcttctccccaaagGAGACCCAGGCATGGAAGCACCAATAGGCCAGAGAGGATTAGCAGGTCCCATGGGGCCCATTGGTGAACCACGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtaggtgtcaccatcaaagataacgcagtgacctgcatcttattgttgta #### Coro1b_ID352_2 --> 0 - 0 Original Alignment ACGGGCCGCATT-GACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG atgtctgagccaaaatgcttgagaccagctcgcttttgtttgccttctagACTGGCCATGTGCGACAAGGCATTCCCAACAGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGTCCACACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACTgtgagtaaaacctgttcagtttttattgtttcaagtgcaccaacttccag Alignment from CESAR ACGGGCCGCATT-GACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG atgtctgagccaaaatgcttgagaccagctcgcttttgtttgccttctagACTGGCCATGTGCGACAAGGCATTCCCAACAGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGTCCACACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACTgtgagtaaaacctgttcagtttttattgtttcaagtgcaccaacttccag Alignment from Spaln_aa2Genome GCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG atgtctgagccaaaatgcttgagaccagctcgcttttgtttgccttctagactggccatgtgcgacaagGCATTCCCAACAGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGTCCACACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACTgtgagtaaaacctgttcagtttttattgtttcaagtgcaccaacttccag Alignment from Spaln_nt2Genome ACGGGCCGCATT-GACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG atgtctgagccaaaatgcttgagaccagctcgcttttgtttgccttctagACTGGCCATGTGCGACAAGGCATTCCCAACAGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGTCCACACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACTgtgagtaaaacctgttcagtttttattgtttcaagtgcaccaacttccag Alignment from Pairagon ACGGGCC----GCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG atgtctgagccaaaatgcttgagaccagctcgcttttgtttgccttctagACTGGCCATGTGC---GACAAGGCATTCCCAACAGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGTCCACACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACTgtgagtaaaacctgttcagtttttattgtttcaagtgcaccaacttccag Alignment from Exonerate_protein2genome ACGGGCCGCATT-GACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG atgtctgagccaaaatgcttgagaccagctcgcttttgtttgccttctagACTGGCCATGTGCGACAAGGCATTCCCAACAGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGTCCACACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACTgtgagtaaaacctgttcagtttttattgtttcaagtgcaccaacttccag Alignment from Exonerate_coding2genome ACGGGCCGCATT-GACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG atgtctgagccaaaatgcttgagaccagctcgcttttgtttgccttctagACTGGCCATGTGCGACAAGGCATTCCCAACAGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGTCCACACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACTgtgagtaaaacctgttcagtttttattgtttcaagtgcaccaacttccag Alignment from GeneWise --------------------------GGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG atgtctgagccaaaatgcttgagaccagCTCGCTTTTGTTTGCCTTCTAGACTGGCCATGTGCGACAAGGCATTCCCAACAGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGTCCACACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACTgtgagtaaaacctgttcagtttttattgtttcaagtgcaccaacttccag #### Coro1b_ID353_3 --> 0 - 1 Original Alignment GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTA-GTGGTGCTCGAGGGGCATACC------AAGCGCGTGGGCATTATCACCTGGCAC---CCCACAGCCCGAAATGTGCTTCTCAGTGCAg aatagtaccctttcttgatgattgaccccacctgttgctgcatcctctagATCTGGCAGATCCCAGAGAATGGTTTGACC---CCATTGACAGAGCCTGTACGTTGTGCCTGAGGGGCATACAATTAAACGACATCTGGGTATTGCCACTTGGCATCCTCCTACTGCCCAAATTGTGATTCTTGGTGCTggtgagcttattatgcctagaccatgctctctacactaatgtccgttcagc Alignment from CESAR GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTA-GTGGTGCTCGAGGGGCATACC---AAGCGC---GTGGGCATTATCACCTGGCAC---CCCACAGCCCGAAATGTGCTTCTCAGTGCAg aatagtaccctttcttgatgattgaccccacctgttgctgcatcctctagATCTGGCAGATCCCAGAGAATGGTTTGACC---CCATTGACAGAGCCTGTACGTTGTGCCTGAGGGGCATACAATTAAACGACATCTGGGTATTGCCACTTGGCATCCTCCTACTGCCCAAATTGTGATTCTTGGTGCTggtgagcttattatgcctagaccatgctctctacactaatgtccgttcagc Alignment from Spaln_aa2Genome GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTA-GTGGTGCTCGAGGGGCATACC------AAGCGCGTGGGCATTATCACCTGGCAC---CCCACAGCCCGAAATGTGCTTCTCAGTGCAG aatagtaccctttcttgatgattgaccccacctgttgctgcatcctctagATCTGGCAGATCCCAGAGAATGGTTTGACC---CCATTGACAGAGCCTGTAcGTTGTGCCTGAGGGGCATACAATTAAACGACATCTGGGTATTGCCACTTGGCATCCTCCTACTGCCCAAATTGTGATTCTTGGTGCTGgtgagcttattatgcctagaccatgctctctacactaatgtccgttcagc Alignment from Spaln_nt2Genome GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTA-GTGGTGCTCGAGGGGCATACCA---AGCGCG---TGGGCATTATCACCTGGCACCCC---ACAGCCCGAAATGTGCTTCTCAGTGCAG aatagtaccctttcttgatgattgaccccacctgttgctgcatcctctagATCTGGCAGATCCCAGAGAATGGTTTGA---CCCCATTGACAGAGCCTGTACGTTGTGCCTGAGGGGCATACAATTAAACGACATCTGGGTATTGCCACTTGGCATCCTCCTACTGCCCAAATTGTGATTCTTGGTGCTGgtgagcttattatgcctagaccatgctctctacactaatgtccgttcagc Alignment from Pairagon GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTA-GTGGTGCTCGAGGGGCATAC-------------CAAGCGCGTGGGCATTATCACCTGGCA---CCCCACAGCCCGAAATGTGCTTCTCAGTGCAG aatagtaccctttcttgatgattgaccccacctgttgctgcatcctctagATCTGGCAGATCCCAGAGAATGGTTTGA---CCCCATTGACAGAGCCTGTACGTTGTGCCTGAGGGGCATACAATTAAACGACATC-------TGGGTATTGCCACTTGGCATCCTCCTACTGCCCAAATTGTGATTCTTGGTGCTGgtgagcttattatgcctagaccatgctctctacactaatgtccgttcagc Alignment from Exonerate_protein2genome GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTA-GTGGTGCTCGAGGGGCATACC------AAGCGCGTGGGCATTATCACCTGGCAC---CCCACAGCCCGAAATGTGCTTCTCAGTGCAG aatagtaccctttcttgatgattgaccccacctgttgctgcatcctctagATCTGGCAGATCCCAGAGAATGGTTTGACC---CCATTGACAGAGCCTGTACGTTGTGCCTGAGGGGCATACAATTAAACGACATCTGGGTATTGCCACTTGGCATCCTCCTACTGCCCAAATTGTGATTCTTGGTGCTGgtgagcttattatgcctagaccatgctctctacactaatgtccgttcagc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTA-GTGGTGCTCGAGGGGCATACC------AAGCGCGTGGGCATTATCACCTGGCACCCC---ACAGCCCGAAATGTGCTTCTCAGTGCAG aatagtaccctttcttgatgattgaccccacctgttgctgcatcctctagATCTGGCAGATCCCAGAGAATGGTTTGACC---CCATTGACAGAGCCTGTACGTTGTGCCTGAGGGGCATACAATTAAACGACATCTGGGTATTGCCACTTGGCATCCTCCTACTGCCCAAATTGTGATTCTTGGTGCTGgtgagcttattatgcctagaccatgctctctacactaatgtccgttcagc #### Crtac1_ID8462_10 --> 2 - 0 Original Alignment ggGGCGTAGTGACCGACTTCGAT-GGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccctccttacccaaaaagtgatagcctgactgactctttgtttgaaacagggGGTGTGGTGACTGATTTTGATCGGGGATGGGATGCTAGATTTGATCTTATCACATGGAAGGTCCATAGCTCAGCCCTTGTCCATTTTCTGTGGTAATCAGgtaagtaacacttttacccctacatgagaatgcaggtactacaggacaga Alignment from CESAR ggGGCGTAGTGACCGACTTCGAT-GGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccctccttacccaaaaagtgatagcctgactgactctttgtttgaaacagggGGTGTGGTGACTGATTTTGATCGGGGATGGGATGCTAGATTTGATCTTATCACATGGAAGGTCCATAGCTCAGCCCTTGTCCATTTTCTGTGGTAATCAGgtaagtaacacttttacccctacatgagaatgcaggtactacaggacaga Alignment from Spaln_aa2Genome GGGGCGTAGTGACCGACTTCGAT-GGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccctccttacccaaaaagtgatagcctgactgactctttgtttgaaacagGGGGTGTGGTGACTGATTTTGATcGGGGATGGGATGCTAGATTTGATCTTATCACATGGAAGGTCCATAGCTCAGCCCTTGTCCATTTTCTGTGGTAATCAGgtaagtaacacttttacccctacatgagaatgcaggtactacaggacaga Alignment from Spaln_nt2Genome GGGGCGTAGTGACCGACTTCGAT-GGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccctccttacccaaaaagtgatagcctgactgactctttgtttgaaacagGGGGTGTGGTGACTGATTTTGATCGGGGATGGGATGCTAGATTTGATCTTATCACATGGAAGGTCCATAGCTCAGCCCTTGTCCATTTTCTGTGGTAATCAGgtaagtaacacttttacccctacatgagaatgcaggtactacaggacaga Alignment from Pairagon GGGGCGTAGTGACCGACTTCGAT-GGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccctccttacccaaaaagtgatagcctgactgactctttgtttgaaacagGGGGTGTGGTGACTGATTTTGATCGGGGATGGGATGCTAGATTTGATCTTATCACATGGAAGGTCCATAGCTCAGCCCTTGTCCATTTTCTGTGGTAATCAGgtaagtaacacttttacccctacatgagaatgcaggtactacaggacaga Alignment from Exonerate_protein2genome GGGGCGTAGTGACCGACTTCGAT-GGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccctccttacccaaaaagtgatagcctgactgactctttgtttgaaacagGGGGTGTGGTGACTGATTTTGATCGGGGATGGGATGCTAGATTTGATCTTATCACATGGAAGGTCCATAGCTCAGCCCTTGTCCATTTTCTGTGGTAATCAGgtaagtaacacttttacccctacatgagaatgcaggtactacaggacaga Alignment from Exonerate_coding2genome ccctccttacccaaaaagtgatagcctgactgactctttgtttgaaacagggggtgtggtgactgattttgatcggggatgggatgctagatttgatcttatcacatggaaggtccatagctcagcccttgtccattttctgtggtaatcaggtaagtaacacttttacccctacatgagaatgcaggtactacaggacaga Alignment from GeneWise GGGGCGTAGTGACCGACTTCGAT-GGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccctccttacccaaaaagtgatagcctgactgactctttgtttgaaacagGGGGTGTGGTGACTGATTTTGATCGGGGATGGGATGCTAGATTTGATCTTATCACATGGAAGGTCCATAGCTCAGCCCTTGTCCATTTTCTGTGGTAATCAGgtaagtaacacttttacccctacatgagaatgcaggtactacaggacaga #### Csf2ra_ID13432_8 --> 0 - 1 Original Alignment GTGCTCGTCGTGGAGGAGACCCGCCTC-GCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCg ggcccacaaagatatgttctcactcccacttttcttttttttttttttagGCCCTGGTTGTTGAGGAGACCCGCCTCCACTTTCCCTAGTCCTGCTCCCCACGGATGGCACAGGGTCAAAGTCCGAGCAGGTGATACTAGGATGAAGCACTGGGGGAAATGG------GTGCAGCCTCTTggtaaaccaattgttttgttttcatacaaatgatatatctattgttcaaca Alignment from CESAR GTGCTCGTCGTGGAGGAGACCCGCCTC-GCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCg ggcccacaaagatatgttctcactcccacttttcttttttttttttttagGCCCTGGTTGTTGAGGAGACCCGCCTCCACTTTCCCTAGTCCTGCTCCCCACGGATGGCACAGGGTCAAAGTCCGAGCAGGTGATACTAGGATGAAGCACTGGGGGAAATGG------GTGCAGCCTCTTggtaaaccaattgttttgttttcatacaaatgatatatctattgttcaaca Alignment from Spaln_aa2Genome GTGCTCGTCGTGGAGGAGACCCGCCTC-GCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggcccacaaagatatgttctcactcccacttttcttttttttttttttagGCCCTGGTTGTTGAGGAGACCCGCCTCcACTTTCCCTAGTCCTGCTCCCCACGGATGGCACAGGGTCAAAGTCCGAGCAGGTGATACTAGGATGAAGCACTGGGGGAAATGG------GTGCAGCCTCTTGgtaaaccaattgttttgttttcatacaaatgatatatctattgttcaaca Alignment from Spaln_nt2Genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCC-AGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggcccacaaagatatgttctcactcccacttttcttttttttttttttagGCCCTGGTTGTTGAGGAGACCCGCCTCCACTTTCCCTAGTCCTGCTCCCCACGGATGGCACAGGGTCAAAGTCCGAGCAGGTGATACTAGGATGAAGCACTGGGGGAAATGG------GTGCAGCCTCTTGgtaaaccaattgttttgttttcatacaaatgatatatctattgttcaaca Alignment from Pairagon GTGCTCGTCGTGGAGGAGACCCGCCT-CGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggcccacaaagatatgttctcactcccacttttcttttttttttttttagGCCCTGGTTGTTGAGGAGACCCGCCTCCACTTTCCCTAGTCCTGCTCCCCACGGATGGCACAGGGTCAAAGTCCGAGCAGGTGATACTAGGATGAAGCACTGGGGGAAATGG------GTGCAGCCTCTTGgtaaaccaattgttttgttttcatacaaatgatatatctattgttcaaca Alignment from Exonerate_protein2genome GTGCTCGTCGTGGAGGAGACCCGCCTC-GCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggcccacaaagatatgttctcactcccacttttcttttttttttttttagGCCCTGGTTGTTGAGGAGACCCGCCTCCACTTTCCCTAGTCCTGCTCCCCACGGATGGCACAGGGTCAAAGTCCGAGCAGGTGATACTAGGATGAAGCACTGGGGGAAATGG------GTGCAGCCTCTTGgtaaaccaattgttttgttttcatacaaatgatatatctattgttcaaca Alignment from Exonerate_coding2genome ggcccacaaagatatgttctcactcccacttttcttttttttttttttaggccctggttgttgaggagacccgcctccactttccctagtcctgctccccacggatggcacagggtcaaagtccgagcaggtgatactaggatgaagcactgggggaaatgggtgcagcctcttggtaaaccaattgttttgttttcatacaaatgatatatctattgttcaaca Alignment from GeneWise GTGCTCGTCGTGGAGGAGACCCGCCTC-GCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggcccacaaagatatgttctcactcccacttttcttttttttttttttagGCCCTGGTTGTTGAGGAGACCCGCCTCCACTTTCCCTAGTCCTGCTCCCCACGGATGGCACAGGGTCAAAGTCCGAGCAGGTGATACTAGGATGAAGCACTGGGGGAAATGG------GTGCAGCCTCTTGgtaaaccaattgttttgttttcatacaaatgatatatctattgttcaaca #### Csf2ra_ID13433_7 --> 0 - 0 Original Alignment AGCGCAGAGCCA-GGAAGCACACCCCGGAAG aaagcctgcctatataggacataaattaacttttcatgtttttctttaagAGCACAGAACCACGGAAGCACACCTCGGCAGgtgagttagcacaaaacatggcctggttttaaaaaagccacaatcatgtc Alignment from CESAR AGCGCAGAGCCA-GGAAGCACACCCCGGAAG aaagcctgcctatataggacataaattaacttttcatgtttttctttaagAGCACAGAACCACGGAAGCACACCTCGGCAGgtgagttagcacaaaacatggcctggttttaaaaaagccacaatcatgtc Alignment from Spaln_aa2Genome CAGAG---CCAGGAAGCACACCCCGGAAG aaagcctgcctatataggacataaattaacttttcatgtttttctttaagagCACAGAACCACGGAAGCACACCTCGGCAGgtgagttagcacaaaacatggcctggttttaaaaaagccacaatcatgtc Alignment from Spaln_nt2Genome AGCGCAGAGCCA-GGAAGCACACCCCGGAAG aaagcctgcctatataggacataaattaacttttcatgtttttctttaagAGCACAGAACCACGGAAGCACACCTCGGCAGgtgagttagcacaaaacatggcctggttttaaaaaagccacaatcatgtc Alignment from Pairagon AGCGCAGAGCCA-GGAAGCACACCCCGGAAG aaagcctgcctatataggacataaattaacttttcatgtttttctttaagAGCACAGAACCACGGAAGCACACCTCGGCAGgtgagttagcacaaaacatggcctggttttaaaaaagccacaatcatgtc Alignment from Exonerate_protein2genome AGCGCAGAGCCA-GGAAGCACACCCCGGAAG aaagcctgcctatataggacataaattaacttttcatgtttttctttaagAGCACAGAACCACGGAAGCACACCTCGGCAGgtgagttagcacaaaacatggcctggttttaaaaaagccacaatcatgtc Alignment from Exonerate_coding2genome aaagcctgcctatataggacataaattaacttttcatgtttttctttaagagcacagaaccacggaagcacacctcggcaggtgagttagcacaaaacatggcctggttttaaaaaagccacaatcatgtc Alignment from GeneWise aaagcctgcctatataggacataaattaacttttcatgtttttctttaagagcacagaaccacggaagcacacctcggcaggtgagttagcacaaaacatggcctggttttaaaaaagccacaatcatgtc #### Csf2ra_ID13434_6 --> 2 - 0 Original Alignment agCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCG-CCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tcattgtcagtgtatttgtgtgcttcattaccctcctctttgtcttgaagagCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGTAATTCTTCCCATTGCACTGTGTCTTGGGCTCCACCCTTCCACTTGGGCATCTCTGGCAGCACGGGATTATCAGTTTGAGGTTCAGTGGCAGgtgagttgaggcctcaattttctgggaaagcctgcctatataggacataa Alignment from CESAR agCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCC-TCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tcattgtcagtgtatttgtgtgcttcattaccctcctctttgtcttgaagagCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGTAATTCTTCCCATTGCACTGTGTCTTGGGCTCCACCCTTCCACTTGGGCATCTCTGGCAGCACGGGATTATCAGTTTGAGGTTCAGTGGCAGgtgagttgaggcctcaattttctgggaaagcctgcctatataggacataa Alignment from Spaln_aa2Genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCC-TCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tcattgtcagtgtatttgtgtgcttcattaccctcctctttgtcttgaagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGTAATTCTTCCCATTGCACTGTGTCTTGGGCTCCACCCtTCCACTTGGGCATCTCTGGCAGCACGGGATTATCAGTTTGAGGTTCAGTGGCAGgtgagttgaggcctcaattttctgggaaagcctgcctatataggacataa Alignment from Spaln_nt2Genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCT-CGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tcattgtcagtgtatttgtgtgcttcattaccctcctctttgtcttgaagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGTAATTCTTCCCATTGCACTGTGTCTTGGGCTCCACCCTTCCACTTGGGCATCTCTGGCAGCACGGGATTATCAGTTTGAGGTTCAGTGGCAGgtgagttgaggcctcaattttctgggaaagcctgcctatataggacataa Alignment from Pairagon AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCC-TCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tcattgtcagtgtatttgtgtgcttcattaccctcctctttgtcttgaagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGTAATTCTTCCCATTGCACTGTGTCTTGGGCTCCACCCTTCCACTTGGGCATCTCTGGCAGCACGGGATTATCAGTTTGAGGTTCAGTGGCAGgtgagttgaggcctcaattttctgggaaagcctgcctatataggacataa Alignment from Exonerate_protein2genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCG-CCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tcattgtcagtgtatttgtgtgcttcattaccctcctctttgtcttgaagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGTAATTCTTCCCATTGCACTGTGTCTTGGGCTCCACCCTTCCACTTGGGCATCTCTGGCAGCACGGGATTATCAGTTTGAGGTTCAGTGGCAGgtgagttgaggcctcaattttctgggaaagcctgcctatataggacataa Alignment from Exonerate_coding2genome tcattgtcagtgtatttgtgtgcttcattaccctcctctttgtcttgaagagcgccttggtcctccatgtgatgtcacagcagcctgtaattcttcccattgcactgtgtcttgggctccacccttccacttgggcatctctggcagcacgggattatcagtttgaggttcagtggcaggtgagttgaggcctcaattttctgggaaagcctgcctatataggacataa Alignment from GeneWise AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCC-TCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG tcattgtcagtgtatttgtgtgcttcattaccctcctctttgtcttgaagAGCGCCTTGGTCCTCCATGTGATGTCACAGCAGCCTGTAATTCTTCCCATTGCACTGTGTCTTGGGCTCCACCCTTCCACTTGGGCATCTCTGGCAGCACGGGATTATCAGTTTGAGGTTCAGTGGCAGgtgagttgaggcctcaattttctgggaaagcctgcctatataggacataa #### Ctsf_ID674_2 --> 0 - 0 Original Alignment GCCGGCCAGGGCTCT-CTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG ctaaaaataataaggggaaaggcagcattgggagacatgacccttttcagGCCGGCCAGGGCTCACCTCTTTTCTCTGGAATCCACACTAGATGAGCCCCCTTGCAATGACCCTTTGGTGTGCTCTCTCCCTGAGACAAAGAAGACTGTGgtctggtctccctgagacaaagaagactatggtgatgtagtggttacatt Alignment from CESAR GCCGGCCAGGGCTCT-CTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG ctaaaaataataaggggaaaggcagcattgggagacatgacccttttcagGCCGGCCAGGGCTCACCTCTTTTCTCTGGAATCCACACTAGATGAGCCCCCTTGCAATGACCCTTTGGTGTGCTCTCTCCCTGAGACAAAGAAGACTGTGgtctggtctccctgagacaaagaagactatggtgatgtagtggttacatt Alignment from Spaln_aa2Genome GGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG ctaaaaataataaggggaaaggcagcattgggagacatgacccttttcaggccggccagGGCTCACCTCTTTTCTCTGGAATCCACACTAGATGAGCCCCCTTGCAATGACCCTTTGGTGTGCTCTCTCCCTGAGACAAAGAAGACTGTGgtctggtctccctgagacaaagaagactatggtgatgtagtggttacatt Alignment from Spaln_nt2Genome GCCGGCCAGGGCTCTC-TGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG ctaaaaataataaggggaaaggcagcattgggagacatgacccttttcagGCCGGCCAGGGCTCACCTCTTTTCTCTGGAATCCACACTAGATGAGCCCCCTTGCAATGACCCTTTGGTGTGCTCTCTCCCTGAGACAAAGAAGACTGTGgtctggtctccctgagacaaagaagactatggtgatgtagtggttacatt Alignment from Pairagon GCCGGCCAGGGCTC-TCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG ctaaaaataataaggggaaaggcagcattgggagacatgacccttttcagGCCGGCCAGGGCTCACCTCTTTTCTCTGGAATCCACACTAGATGAGCCCCCTTGCAATGACCCTTTGGTGTGCTCTCTCCCTGAGACAAAGAAGACTGTGgtctggtctccctgagacaaagaagactatggtgatgtagtggttacatt Alignment from Exonerate_protein2genome GCCGGCCAGGGCTCT-CTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG ctaaaaataataaggggaaaggcagcattgggagacatgacccttttcagGCCGGCCAGGGCTCACCTCTTTTCTCTGGAATCCACACTAGATGAGCCCCCTTGCAATGACCCTTTGGTGTGCTCTCTCCCTGAGACAAAGAAGACTGTGgtctggtctccctgagacaaagaagactatggtgatgtagtggttacatt Alignment from Exonerate_coding2genome GCCGGCCAGGGCTCT-CTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG ctaaaaataataaggggaaaggcagcattgggagacatgacccttttcagGCCGGCCAGGGCTCACCTCTTTTCTCTGGAATCCACACTAGATGAGCCCCCTTGCAATGACCCTTTGGTGTGCTCTCTCCCTGAGACAAAGAAGACTGTGgtctggtctccctgagacaaagaagactatggtgatgtagtggttacatt Alignment from GeneWise ----GGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG ctaaaaataataaggggaaaggcagcattgggagacatgacccttttcagGCCGGCCAGGGCTCACCTCTTTTCTCTGGAATCCACACTAGATGAGCCCCCTTGCAATGACCCTTTGGTGTGCTCTCTCCCTGAGACAAAGAAGACTGTGgtctggtctccctgagacaaagaagactatggtgatgtagtggttacatt #### Ctsf_ID680_8 --> 0 - 1 Original Alignment GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAG-GGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGg cctcctaggaacccattagggggctctgctttatcacctgaaccttccagAGCAGTATGTGCAGCTCTTGCTGGGCCTTCTCTGTCACTGGCAATGGCGAGCGGCCAGTGG---TTGATTCAAGGAACTCTTCTATCA---TCAGAACAGggtgagtatatgagccactctggatatatcaggcaaactcctcaatagggt Alignment from CESAR GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAG-GGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGg cctcctaggaacccattagggggctctgctttatcacctgaaccttccagAGCAGTATGTGCAGCTCTTGCTGGGCCTTCTCTGTCACTGGCAATGGCGAGCGGCCAGTGG---TTGATTCAAGGAACTCTTCTATCA---TCAGAACAGggtgagtatatgagccactctggatatatcaggcaaactcctcaatagggt Alignment from Spaln_aa2Genome ---GGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAG-GGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cctcctaggaacccattagggggctctgctttatcacctgaaccttccagAGCAGTATGTGCAGCTCTTGCTGGGCCTTCTCTGTCACTGGCAATGGCGAGcGGCCAGTGGTTGATT---CAAGGAACTCTTCTATCA---TCAGAACAGGgtgagtatatgagccactctggatatatcaggcaaactcctcaatagggt Alignment from Spaln_nt2Genome GGCA---TGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAG-GGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cctcctaggaacccattagggggctctgctttatcacctgaaccttccagAGCAGTATGTGCAGCTCTTGCTGGGCCTTCTCTGTCACTGGCAATGGCGAGCGGCCAGTGGT---TGATTCAAGGAACTCTTCTATC---ATCAGAACAGGgtgagtatatgagccactctggatatatcaggcaaactcctcaatagggt Alignment from Pairagon ----------------------------------------------CCAGGGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAG-GGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTG---------------------TCAGAGCAGG CCTCCTAGGAACCCATTAGGGGGCTCTGCTTTATCACCTGAACCTTCCAGAGCAGTATGTGCAGCTCTTGCTGGGCCTTCTCTGTCACTGGCAATGGCGAGCGGCCAGTGGT---------------------------TGATTCAAGGAACTCTTCTATCATCAGAACAGGgtgagtatatgagccactctggatatatcaggcaaactcctcaatagggt Alignment from Exonerate_protein2genome CAGGGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAG-GGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cctcctaggaacccattagggggctctgctttatcacctgaaccttccagAGCAGTATGTGCAGCTCTTGCTGGGCCTTCTCTGTCACTGGCAATGGCGAGCGGCCAGTGGTTGATT---CAAGGAACTCTTCTATCA---TCAGAACAGGgtgagtatatgagccactctggatatatcaggcaaactcctcaatagggt Alignment from Exonerate_coding2genome CAGGGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAG-GGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cctcctaggaacccattagggggctctgctttatcacctgaaccttccagAGCAGTATGTGCAGCTCTTGCTGGGCCTTCTCTGTCACTGGCAATGGCGAGCGGCCAGTGGTTGATT---CAAGGAACTCTTCTATCA---TCAGAACAGGgtgagtatatgagccactctggatatatcaggcaaactcctcaatagggt Alignment from GeneWise ---GGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAAC-GTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cctcctaggaacccattagggggctctgctttatcacctgaaccttccagAGCAGTATGTGCAGCTCTTGCTGGGCCTTCTCTGTCACTGGCAATGGCGAGCGGCCAGTGGTTGATT---CAAGGAACTCTTCTATCA---TCAGAACAGGgtgagtatatgagccactctggatatatcaggcaaactcctcaatagggt #### Ctsf_ID685_13 --> 2 - 0 Original Alignment gcTCTAACATTCCTTACTGGGCCATCAAGAAC-AGCTGGGGCAGTGACTGGGGTGAGGAG GG cgtaagctctggtaattccttactattagacactatggtcccctccacaggtTCTAACATCCCTTACTGGGCAATCAAGAATCAGCTGGGGAAGTGACTGGGGTGAGGAGgtgagaaggaggtaaccttgggtctaatattcctaacctctctcctagGG Alignment from CESAR gcTCTAACATTCCTTACTGGGCCATCAAGAAC-AGCTGGGGCAGTGACTGGGGTGAGGAG GG cgtaagctctggtaattccttactattagacactatggtcccctccacaggtTCTAACATCCCTTACTGGGCAATCAAGAATCAGCTGGGGAAGTGACTGGGGTGAGGAGgtgagaaggaggtaaccttgggtctatatttgtttgtttgcttttcagGG Alignment from Spaln_aa2Genome GCTCTAACATTCCTTACTGGGCCATCAAGAAC-AGCTGGGGCAGTGACTGGGGTGAGGAG GG cgtaagctctggtaattccttactattagacactatggtcccctccacagGTTCTAACATCCCTTACTGGGCAATCAAGAATcAGCTGGGGAAGTGACTGGGGTGAGGAGgtgagaaggaggtaaccttgggtctaatattcctaacctctctcctagGG Alignment from Spaln_nt2Genome GCTCTAACATTCCTTACTGGGCCATCAAGAA-CAGCTGGGGCAGTGACTGGGGTGAGGAG GG cgtaagctctggtaattccttactattagacactatggtcccctccacagGTTCTAACATCCCTTACTGGGCAATCAAGAATCAGCTGGGGAAGTGACTGGGGTGAGGAGgtgagaaggaggtaaccttgggtctaatattcctaacctctctcctagGG Alignment from Pairagon GCTCTAACATTCCTTACTGGGCCATCAAGAA-CAGCTGGGGCAGTGACTGGGGTGAGGAG GG cgtaagctctggtaattccttactattagacactatggtcccctccacagGTTCTAACATCCCTTACTGGGCAATCAAGAATCAGCTGGGGAAGTGACTGGGGTGAGGAGgtgagaaggaggtaaccttgggtctaatattcctaacctctctcctagGG Alignment from Exonerate_protein2genome GCTCTAACATTCCTTACTGGGCCATCAAGAAC-AGCTGGGGCAGTGACTGGGGTGAGGAG GG cgtaagctctggtaattccttactattagacactatggtcccctccacagGTTCTAACATCCCTTACTGGGCAATCAAGAATCAGCTGGGGAAGTGACTGGGGTGAGGAGgtgagaaggaggtaaccttgggtctaatattcctaacctctctcctagGG Alignment from Exonerate_coding2genome cgtaagctctggtaattccttactattagacactatggtcccctccacaggttctaacatcccttactgggcaatcaagaatcagctggggaagtgactggggtgaggaggtgagaaggaggtaaccttgggtctaatattcctaacctctctcctaggg Alignment from GeneWise GCTCTAACATTCCTTACTGGGCCATCAAGAAC-AGCTGGGGCAGTGACTGGGGTGAGGAG GG cgtaagctctggtaattccttactattagacactatggtcccctccacagGTTCTAACATCCCTTACTGGGCAATCAAGAATCAGCTGGGGAAGTGACTGGGGTGAGGAGgtgagaaggaggtaaccttgggtctaatattcctaacctctctcctagGG #### Ctsw_ID1017_9 --> 0 - 0 Original Alignment CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTC------TTGCTGGTGGGCTTTGGCAAG-GAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctaattacactgcttgaactctttgatactttagTATTATCAGAAAGGTGTCATCAAAGCCACACCCAGTTTTTGTGACCCACATCAAGAAGACCACCCTGTTCTGCTATTGTTAGTTGGTTTTGGTAAACAGGGATGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCCTTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtaaccccaggaacataatgagtcatagaaaagtgataaagcaaatccta Alignment from CESAR CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTC------TTGCTGGTGGGCTTTGGCAAGGAG-AAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctaattacactgcttgaactctttgatactttagTATTATCAGAAAGGTGTCATCAAAGCCACACCCAGTTTTTGTGACCCACATCAAGAAGACCACCCTGTTCTGCTATTGTTAGTTGGTTTTGGTAAACAGGGATGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCCTTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtaaccccaggaacataatgagtcatagaaaagtgataaagcaaatccta Alignment from Spaln_aa2Genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTC------TTGCTGGTGGGCTTTGGCAAGGAG-AAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctaattacactgcttgaactctttgatactttagTATTATCAGAAAGGTGTCATCAAAGCCACACCCAGTTTTTGTGACCCACATCAAGAAGACCACCCTGTTCTGCTATTGTTAGTTGGTTTTGGTAAACAGgGATGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCCTTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtaaccccaggaacataatgagtcatagaaaagtgataaagcaaatccta Alignment from Spaln_nt2Genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTCTTGCTGGTG------GGCTTTGGCAAGGAGAAA-GAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctaattacactgcttgaactctttgatactttagTATTATCAGAAAGGTGTCATCAAAGCCACACCCAGTTTTTGTGACCCACATCAAGAAGACCACCCTGTTCTGCTATTGTTAGTTGGTTTTGGTAAACAGGGATGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCCTTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtaaccccaggaacataatgagtcatagaaaagtgataaagcaaatccta Alignment from Pairagon CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTCTTGCT-------------------------GGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctaattacactgcttgaactctttgatactttagTATTATCAGAAAGGTGTCATCAAAGCCACACCCAGTTTTTGTGACCCACATCAAGAAGACCACCCTGTTCTGCTATTGTTAGTTGGTTTTGGTAAACAGGG------------------ATGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCCTTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtaaccccaggaacataatgagtcatagaaaagtgataaagcaaatccta Alignment from Exonerate_protein2genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTC------TTGCTGGTGGGCTTTGGCAAGGAG-AAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctaattacactgcttgaactctttgatactttagTATTATCAGAAAGGTGTCATCAAAGCCACACCCAGTTTTTGTGACCCACATCAAGAAGACCACCCTGTTCTGCTATTGTTAGTTGGTTTTGGTAAACAGGGATGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCCTTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtaaccccaggaacataatgagtcatagaaaagtgataaagcaaatccta Alignment from Exonerate_coding2genome CGTGCATGGACCTATCACCGTGACC----ATCAACATGAAACTACTCCAGCATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTC------TTGCTGGTGGGCTTTGGCAAGGAG-AAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG AAATCAATCCAGAGATCTAATTACACTGCTTGAACTCTTTGATACTTTAGTATTATCAGAAAGGTGTCATCAAAGCCACACCCAGTTTTTGTGACCCACATCAAGAAGACCACCCTGTTCTGCTATTGTTAGTTGGTTTTGGTAAACAGGGATGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCCTTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtaaccccaggaacataatgagtcatagaaaagtgataaagcaaatccta Alignment from GeneWise CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTCTTGCTG------GTGGGCTTTGGCAAGGAG-AAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctaattacactgcttgaactctttgatactttagTATTATCAGAAAGGTGTCATCAAAGCCACACCCAGTTTTTGTGACCCACATCAAGAAGACCACCCTGTTCTGCTATTGTTAGTTGGTTTTGGTAAACAGGGATGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCCTTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtaaccccaggaacataatgagtcatagaaaagtgataaagcaaatccta #### Ctsw_ID1018_8 --> 2 - 0 Original Alignment caATTGCCCACTACCTG-GCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG tgcaggtagaaatgccaccctctaagatcaattttttattatttattcagtcATTGGACATTACCTCCACTGCACATAGGCCCATCACTGTGACTATTAACATGAAGCTGCTTCTGgtacgttgtccagcacattaagaggaagggggactctaggagctctcctc Alignment from CESAR caATTGCCCACTACCTG-GCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG tgcaggtagaaatgccaccctctaagatcaattttttattatttattcagtcATTGGACATTACCTCCACTGCACATAGGCCCATCACTGTGACTATTAACATGAAGCTGCTTCTGgtacgttgtccagcacattaagaggaagggggactctaggagctctcctc Alignment from Spaln_aa2Genome CAATTGCCCACTACCTG-GCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG tgcaggtagaaatgccaccctctaagatcaattttttattatttattcagTCATTGGACATTACCTCcACTGCACATAGGCCCATCACTGTGACTATTAACATGAAGCTGCTTCTGgtacgttgtccagcacattaagaggaagggggactctaggagctctcctc Alignment from Spaln_nt2Genome CAATTGCCCACTACCTGGCC-GTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG tgcaggtagaaatgccaccctctaagatcaattttttattatttattcagTCATTGGACATTACCTCCACTGCACATAGGCCCATCACTGTGACTATTAACATGAAGCTGCTTCTGgtacgttgtccagcacattaagaggaagggggactctaggagctctcctc Alignment from Pairagon CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG tgcaggtagaaatgccaccctctaagatcaattttttattatttattcagtcattggacattacctccactgcacatag----------------------------GCCCATCACTGTGACTATTAACATGAAGCTGCTTCTGgtacgttgtccagcacattaagaggaagggggactctaggagctctcctc Alignment from Exonerate_protein2genome CAATTGCCCACTACCTG-GCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG tgcaggtagaaatgccaccctctaagatcaattttttattatttattcagTCATTGGACATTACCTCCACTGCACATAGGCCCATCACTGTGACTATTAACATGAAGCTGCTTCTGgtacgttgtccagcacattaagaggaagggggactctaggagctctcctc Alignment from Exonerate_coding2genome tgcaggtagaaatgccaccctctaagatcaattttttattatttattcagtcattggacattacctccactgcacataggcccatcactgtgactattaacatgaagctgcttctggtacgttgtccagcacattaagaggaagggggactctaggagctctcctc Alignment from GeneWise CAATTGCCCACTACCTG-GCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG tgcaggtagaaatgccaccctctaagatcaattttttattatttattcagTCATTGGACATTACCTCCACTGCACATAGGCCCATCACTGTGACTATTAACATGAAGCTGCTTCTGgtacgttgtccagcacattaagaggaagggggactctaggagctctcctc #### Ctsw_ID1019_7 --> 2 - 1 Original Alignment gtGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTAC-AAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGg caagcgtacttgacatcaaaatcttgctgatgacttcttcctctctgcaggtAGTCTAGCCACTGAAAAGGAATTTCTATTCCAGAAGGAAAGAAAGCCTCACAGATGCCTGGCAAAAAAGTATCAAAGAAGTGGCCTGGATCCCA------GCCACATTGTCTAATAATGAGCAGggtaagttcagggtgagatgaggtagctctgtgtctgccacctgaccggta Alignment from CESAR gtGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTAC-AAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGg caagcgtacttgacatcaaaatcttgctgatgacttcttcctctctgcaggtAGTCTAGCCACTGAAAAGGAATTTCTATTCCAGAAGGAAAGAAAGCCTCACAGATGCCTGGCAAAAAAGTATCAAAGAAGTGGCCTGGATCCCA------GCCACATTGTCTAATAATGAGCAGggtaagttcagggtgagatgaggtagctctgtgtctgccacctgaccggta Alignment from Spaln_aa2Genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTAC-AAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG caagcgtacttgacatcaaaatcttgctgatgacttcttcctctctgcagGTAGTCTAGCCACTGAAAAGGAATTTCTATTCCAGAAGGAAAGAAAGCCTCACAGATGCCTGGCAAAAAAGTATcAAAGAAGTGGCCTGGATCCCA------GCCACATTGTCTAATAATGAGCAGGgtaagttcagggtgagatgaggtagctctgtgtctgccacctgaccggta Alignment from Spaln_nt2Genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTA-CAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG caagcgtacttgacatcaaaatcttgctgatgacttcttcctctctgcagGTAGTCTAGCCACTGAAAAGGAATTTCTATTCCAGAAGGAAAGAAAGCCTCACAGATGCCTGGCAAAAAAGTATCAAAGAAGTGGCCTGGATCCCAG------CCACATTGTCTAATAATGAGCAGGgtaagttcagggtgagatgaggtagctctgtgtctgccacctgaccggta Alignment from Pairagon GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTA-CAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG caagcgtacttgacatcaaaatcttgctgatgacttcttcctctctgcagGTAGTCTAGCCACTGAAAAGGAATTTCTATTCCAGAAGGAAAGAAAGCCTCACAGATGCCTGGCAAAAAAGTATCAAAGAAGTGGCCTGGATCCCAG------CCACATTGTCTAATAATGAGCAGGgtaagttcagggtgagatgaggtagctctgtgtctgccacctgaccggta Alignment from Exonerate_protein2genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTAC-AAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG caagcgtacttgacatcaaaatcttgctgatgacttcttcctctctgcagGTAGTCTAGCCACTGAAAAGGAATTTCTATTCCAGAAGGAAAGAAAGCCTCACAGATGCCTGGCAAAAAAGTATCAAAGAAGTGGCCTGGATCCCA------GCCACATTGTCTAATAATGAGCAGGgtaagttcagggtgagatgaggtagctctgtgtctgccacctgaccggta Alignment from Exonerate_coding2genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTAC-AAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG caagcgtacttgacatcaaaatcttgctgatgacttcttcctctctgcagGTAGTCTAGCCACTGAAAAGGAATTTCTATTCCAGAAGGAAAGAAAGCCTCACAGATGCCTGGCAAAAAAGTATCAAAGAAGTGGCCTGGATCCCA------GCCACATTGTCTAATAATGAGCAGGgtaagttcagggtgagatgaggtagctctgtgtctgccacctgaccggta Alignment from GeneWise GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAG-AAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG caagcgtacttgacatcaaaatcttgctgatgacttcttcctctctgcagGTAGTCTAGCCACTGAAAAGGAATTTCTATTCCAGAAGGAAAGAAAGCCTCACAGATGCCTGGCAAAAAAGTATCAAAGAAGTGGCCTGGATCCCA------GCCACATTGTCTAATAATGAGCAGGgtaagttcagggtgagatgaggtagctctgtgtctgccacctgaccggta #### Ctsw_ID1021_5 --> 0 - 1 Original Alignment GGAAGCTGCAAA---------------------------TGCTGCTGGGCCATGGCAGCT-GCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGg tggtttgtgtgaatggaactcaaggacaattatttatcttctcccaccagAGAGGGTGCAATCATTTCCCTGGACGATGGATCAGTGTGTGCTGTTGGGCAATGGCAGCTCGCTGACAACATTCAATCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGGATGTCTCAGTCCAGggtgagtggggtttccgagtggttaactgtattcactatctgtgcatacca Alignment from CESAR GGAAGCTGCAAA---------------------------TGCTGCTGGGCCATGGCAGCT-GCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGg tggtttgtgtgaatggaactcaaggacaattatttatcttctcccaccagAGAGGGTGCAATCATTTCCCTGGACGATGGATCAGTGTGTGCTGTTGGGCAATGGCAGCTCGCTGACAACATTCAATCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGGATGTCTCAGTCCAGggtgagtggggtttccgagtggttaactgtattcactatctgtgcatacca Alignment from Spaln_aa2Genome TG CAAATGCTGCTGGGCCATGGCAGCT-GCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGG TGgtttgtgtgaatggaactcaaggacaattatttatcttctcccaccagagagggtgcaatcatttccctggacgatggatcagTGTGTGCTGTTGGGCAATGGCAGCTcGCTGACAACATTCAATCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGGATGTCTCAGTCCAGGgtgagtggggtttccgagtggttaactgtattcactatctgtgcatacca Alignment from Spaln_nt2Genome GGAAGCTGCAAATGCTGCTGGGCCATGGCAGCT-GCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGG tggtttgtgtgaatggaactcaaggacaattatttatcttctcccaccagagagggtgcaatcatttccctggacgatggatcagTG----TG----TGCTGTTGGGCAATGGCAGCTCGCTGACAACATTCAATCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGGATGTCTCAGTCCAGGgtgagtggggtttccgagtggttaactgtattcactatctgtgcatacca Alignment from Pairagon GGAAGCTGCAA---------------------------ATGCTGCTGGGCCATGGCAGCT-GCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGG tggtttgtgtgaatggaactcaaggacaattatttatcttctcccaccagAGAGGGTGCAATCATTTCCCTGGACGATGGATCAGTGTGTGCTGTTGGGCAATGGCAGCTCGCTGACAACATTCAATCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGGATGTCTCAGTCCAGGgtgagtggggtttccgagtggttaactgtattcactatctgtgcatacca Alignment from Exonerate_protein2genome GGAAGCTGCAAATGCTGCTGGGCCATGGCAGCT-GCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGG tggtttgtgtgaatggaactcaaggacaattatttatcttctcccaccagagagggtgcaatcatttccctggacgaTGGATCAGTGTGTGCTGTTGGGCAATGGCAGCTCGCTGACAACATTCAATCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGGATGTCTCAGTCCAGGgtgagtggggtttccgagtggttaactgtattcactatctgtgcatacca Alignment from Exonerate_coding2genome TGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCA TGGTTTGTGTGAATGGAACTCAAGGACAATTATTTATCTTCTCCCACCAgagagggtgcaatcatttccctggacgatggatcagtgtgtgctgttgggcaatggcagctcgctgacaacattcaatctttgtggtgcataaagcaccagaagtttgtggatgtctcagtccagggtgagtggggtttccgagtggttaactgtattcactatctgtgcatacca Alignment from GeneWise TG CAAATGCTGCTGGGCCATGGCAGCT-GCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGG TGgtttgtgtgaatggaactcaaggacaattatttatcttctcccaccagagagggtgcaatcatttccctggacgatggatcagTGTGTGCTGTTGGGCAATGGCAGCTCGCTGACAACATTCAATCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGGATGTCTCAGTCCAGGgtgagtggggtttccgagtggttaactgtattcactatctgtgcatacca #### Ctsw_ID1022_4 --> 2 - 0 Original Alignment agGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGG-CGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accacactgttaccacactgctgggacctacgtgtttatttcccccacagagGAGCAGTTTGGGCAATTATATGGGAGA---AGATCCCCAGAATGGACCCCAAATATGACCAAGAGGGTGGAGTCAAACACATGGGGGGAGTCTGTGCCTCGAACCTGTGATTGGCTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGgtaagtgccttagcttggtttgtgtgaatggaactcaaggacaactaaca Alignment from CESAR agGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGG-CGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accacactgttaccacactgctgggacctacgtgtttatttcccccacagagGAGCAGTTTGGGCAATTATATGGGAGA---AGATCCCCAGAATGGACCCCAAATATGACCAAGAGGGTGGAGTCAAACACATGGGGGGAGTCTGTGCCTCGAACCTGTGATTGGCTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGgtaagtgccttagcttggtttgtgtgaatggaactcaaggacaattattt Alignment from Spaln_aa2Genome AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGG-CGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAGGGAAGCTGC-------- accacactgttaccacactgctgggacctacgtgtttatttcccccacagAGGAGCAGTTTGGGCAATTATATGGGAGA---AGATCCCCAGAATGGACCCCAAATATGACCAAGAGGGTGGAGTCAAACACATGGGGGGAGTCTGTGCCTCGAACCTGTGATTGGcTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGGTAAGTGCCTTAGCTTGgtttgtgtgaatggaactcaaggacaactaaca Alignment from Spaln_nt2Genome AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGC-GTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accacactgttaccacactgctgggacctacgtgtttatttcccccacagAGGAGCAGTTTGGGCAATTATATGGG-AGAAGA--TCCCCAGAATGGACCCCAAATATGACCAAGAGGGTGGAGTCAAACACATGGGGGGAGTCTGTGCCTCGAACCTGTGATTGGCTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGgtaagtgccttagcttggtttgtgtgaatggaactcaaggacaactaaca Alignment from Pairagon ------------------------------------------CCTCACAGAGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGC-GTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG ACCACACTGTTACCACACTGCTGGGACCTACGTGTTTATTTCCCCCACAGAGGAGCAGTTTGGGCAATTATATGGG-AGAAGA--TCCCCAGAATGGACCCCAAATATGACCAAGAGGGTGGAGTCAAACACATGGGGGGAGTCTGTGCCTCGAACCTGTGATTGGCTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGgtaagtgccttagcttggtttgtgtgaatggaactcaaggacaactaaca Alignment from Exonerate_protein2genome AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGT-AAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accacactgttaccacactgctgggacctacgtgtttatttcccccacagAGGAGCAGTTTGGGCAATTATATGGGAGA---AGATCCCCAGAATGGACCCCAAATATGACCAAGAGGGTGGAGTCAAACACATGGGGGGAGTCTGTGCCTCGAACCTGTGATTGGCTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGgtaagtgccttagcttggtttgtgtgaatggaactcaaggacaactaaca Alignment from Exonerate_coding2genome AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGT-AAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAGGGAAGCTGCAAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGC accacactgttaccacactgctgggacctacgtgtttatttcccccacagAGGAGCAGTTTGGGCAATTATATGGGAGA---AGATCCCCAGAATGGACCCCAAATATGACCAAGAGGGTGGAGTCAAACACATGGGGGGAGTCTGTGCCTCGAACCTGTGATTGGCTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGGTAAGTGCCTTAGCTTGGTTTGTGTGAATGGAACTCAAGGACAACTAACA Alignment from GeneWise AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGG-CGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAGGGAAGC---------TG accacactgttaccacactgctgggacctacgtgtttatttcccccacagAGGAGCAGTTTGGGCAATTATATGGGAGA---AGATCCCCAGAATGGACCCCAAATATGACCAAGAGGGTGGAGTCAAACACATGGGGGGAGTCTGTGCCTCGAACCTGTGATTGGCTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGGTAAGTGCCTTAGCTTGgtttgtgtgaatggaactcaaggacaactaaca #### Ctsw_ID1023_3 --> 2 - 1 Original Alignment agTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAG-ACTCCATTCAGTGACCTCACAg tctactggctcttatctaactcaaatgactccccatcctttgtttcccagagTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGGCACAGAGGCTCCAGCAGGAAGATTTGGGTACTGCCGAGCTTGGCGAGCACACCTTTCAGTGACTTCAACagtgagcgggtttgtgtggcaagatgccctcttcattatctgtgtgttcac Alignment from CESAR agTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAG-ACTCCATTCAGTGACCTCACAg tctactggctcttatctaactcaaatgactccccatcctttgtttcccagagTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGGCACAGAGGCTCCAGCAGGAAGATTTGGGTACTGCCGAGCTTGGCGAGCACACCTTTCAGTGACTTCAACagtgagcgggtttgtgtggcaagatgccctcttcattatctgtgtgttcac Alignment from Spaln_aa2Genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAG-ACTCCATTCAGTGACCTCACAG tctactggctcttatctaactcaaatgactccccatcctttgtttcccagAGTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGGCACAGAGGCTCCAGCAGGAAGATTTGGGTACTGCCGAGCTTGGCGAGcACACCTTTCAGTGACTTCAACAgtgagcgggtttgtgtggcaagatgccctcttcattatctgtgtgttcac Alignment from Spaln_nt2Genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAG-ACTCCATTCAGTGACCTCACAG tctactggctcttatctaactcaaatgactccccatcctttgtttcccagAGTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGGCACAGAGGCTCCAGCAGGAAGATTTGGGTACTGCCGAGCTTGGCGAGCACACCTTTCAGTGACTTCAACAgtgagcgggtttgtgtggcaagatgccctcttcattatctgtgtgttcac Alignment from Pairagon AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAG-ACTCCATTCAGTGACCTCACAG tctactggctcttatctaactcaaatgactccccatcctttgtttcccagAGTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGGCACAGAGGCTCCAGCAGGAAGATTTGGGTACTGCCGAGCTTGGCGAGCACACCTTTCAGTGACTTCAACAgtgagcgggtttgtgtggcaagatgccctcttcattatctgtgtgttcac Alignment from Exonerate_protein2genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAG-ACTCCATTCAGTGACCTCACAG tctactggctcttatctaactcaaatgactccccatcctttgtttcccagAGTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGGCACAGAGGCTCCAGCAGGAAGATTTGGGTACTGCCGAGCTTGGCGAGCACACCTTTCAGTGACTTCAACAgtgagcgggtttgtgtggcaagatgccctcttcattatctgtgtgttcac Alignment from Exonerate_coding2genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAG-ACTCCATTCAGTGACCTCACAG tctactggctcttatctaactcaaatgactccccatcctttgtttcccagAGTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGGCACAGAGGCTCCAGCAGGAAGATTTGGGTACTGCCGAGCTTGGCGAGCACACCTTTCAGTGACTTCAACAgtgagcgggtttgtgtggcaagatgccctcttcattatctgtgtgttcac Alignment from GeneWise AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAG-ACTCCATTCAGTGACCTCACAG tctactggctcttatctaactcaaatgactccccatcctttgtttcccagAGTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGGCACAGAGGCTCCAGCAGGAAGATTTGGGTACTGCCGAGCTTGGCGAGCACACCTTTCAGTGACTTCAACAgtgagcgggtttgtgtggcaagatgccctcttcattatctgtgtgttcac #### Cwf19l1_ID8941_3 --> 0 - 1 Original Alignment CTGCTGTTGTGTGTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAG-TATAAGACCGGCAACAAGAAAg tcagtagagagtaagtccatagagaaggctgctgtcttttgtccccacagTTGTTATTATGTGTGGGAAACTTCTTTGGCTCTGCTCAGGATGCTGGGTGGGATGAACTATAAGACTGGCAACAAGAAAggtaagtgagtattggtaagattggctacacattgctttaaataagatttg Alignment from CESAR CTGCTGTTGTGTGTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAG-TATAAGACCGGCAACAAGAAAg tcagtagagagtaagtccatagagaaggctgctgtcttttgtccccacagTTGTTATTATGTGTGGGAAACTTCTTTGGCTCTGCTCAGGATGCTGGGTGGGATGAACTATAAGACTGGCAACAAGAAAggtaagtgagtattggtaagattggctacacattgctttaaataagatttg Alignment from Spaln_aa2Genome CTGCTGTTGTGTGTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAG-TATAAGACCGGCAACAAGAAAG tcagtagagagtaagtccatagagaaggctgctgtcttttgtccccacagTTGTTATTATGTGTGGGAAACTTCTTTGGCTCTGCTCAGGATGCTGGGTGGGATGAAcTATAAGACTGGCAACAAGAAAGgtaagtgagtattggtaagattggctacacattgctttaaataagatttg Alignment from Spaln_nt2Genome CTGCTGTTGTGTGTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAG-TATAAGACCGGCAACAAGAAAG tcagtagagagtaagtccatagagaaggctgctgtcttttgtccccacagTTGTTATTATGTGTGGGAAACTTCTTTGGCTCTGCTCAGGATGCTGGGTGGGATGAACTATAAGACTGGCAACAAGAAAGgtaagtgagtattggtaagattggctacacattgctttaaataagatttg Alignment from Pairagon CTGCTGTTGTGTGTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGA-GGAGTATAAGACCGGCAACAAGAAAG tcagtagagagtaagtccatagagaaggctgctgtcttttgtccccacagTTGTTATTATGTGTGGGAAACTTCTTTGGCTCTGCTCAGGATGCTGGGTGGGATGAACTATAAGACTGGCAACAAGAAAGgtaagtgagtattggtaagattggctacacattgctttaaataagatttg Alignment from Exonerate_protein2genome CTGCTGTTGTGTGTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAG-TATAAGACCGGCAACAAGAAAG tcagtagagagtaagtccatagagaaggctgctgtcttttgtccccacagTTGTTATTATGTGTGGGAAACTTCTTTGGCTCTGCTCAGGATGCTGGGTGGGATGAACTATAAGACTGGCAACAAGAAAGgtaagtgagtattggtaagattggctacacattgctttaaataagatttg Alignment from Exonerate_coding2genome tcagtagagagtaagtccatagagaaggctgctgtcttttgtccccacagttgttattatgtgtgggaaacttctttggctctgctcaggatgctgggtgggatgaactataagactggcaacaagaaaggtaagtgagtattggtaagattggctacacattgctttaaataagatttg Alignment from GeneWise CTGCTGTTGTGTGTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGAG-GAGTATAAGACCGGCAACAAGAAAG tcagtagagagtaagtccatagagaaggctgctgtcttttgtccccacagTTGTTATTATGTGTGGGAAACTTCTTTGGCTCTGCTCAGGATGCTGGGTGGGATGAACTATAAGACTGGCAACAAGAAAGgtaagtgagtattggtaagattggctacacattgctttaaataagatttg #### Cyp2c50_ID7861_2 --> 0 - 1 Original Alignment TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCT-CTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg ctattacatggcagacagatatctcttgcagcttaatgtttttctcttagTTATCCAAAGTCTATGATGGTCCTGTGTATACACTGTATTTAGGTAAGAATCCTACTGTAGTATTACAGGGTTATGAGGCGGTGAGGGAATCGCTTAGTTGACCATGGAGAAGAATTTGCTGGGAGAGAGAGACTACCTGTTTTTGATAAAGCTACCAATGGAATGggtacatttagatttccaatgccagtaaaggggagtacgagtccatagcag Alignment from CESAR TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTG-GTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg ctattacatggcagacagatatctcttgcagcttaatgtttttctcttagTTATCCAAAGTCTATGATGGTCCTGTGTATACACTGTATTTAGGTAAGAATCCTACTGTAGTATTACAGGGTTATGAGGCGGTGAGGGAATCGCTTAGTTGACCATGGAGAAGAATTTGCTGGGAGAGAGAGACTACCTGTTTTTGATAAAGCTACCAATGGAATGggtacatttagatttccaatgccagtaaaggggagtacgagtccatagcag Alignment from Spaln_aa2Genome TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTG-GTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG ctattacatggcagacagatatctcttgcagcttaatgtttttctcttagTTATCCAAAGTCTATGATGGTCCTGTGTATACACTGTATTTAGGTAAGAATCCTACTGTAGTATTACAGGGTTATGAGGCGGTGAGGGAATCGCTTaGTTGACCATGGAGAAGAATTTGCTGGGAGAGAGAGACTACCTGTTTTTGATAAAGCTACCAATGGAATGGgtacatttagatttccaatgccagtaaaggggagtacgagtccatagcag Alignment from Spaln_nt2Genome TTATCAAAAGTTTATG---GCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTG-GTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG ctattacatggcagacagatatctcttgcagcttaatgtttttctcttagTTATCCAAAGTCTATGATGGTCCTGTGTATACACTGTATTTAGGTAAGAATCCTACTGTAGTATTACAGGGTTATGAGGCGGTGAGGGAATCGCTTAGTTGACCATGGAGAAGAATTTGCTGGGAGAGAGAGACTACCTGTTTTTGATAAAGCTACCAATGGAATGGgtacatttagatttccaatgccagtaaaggggagtacgagtccatagcag Alignment from Pairagon TTATCAAAAGTTT---ATGGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTC-TGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG ctattacatggcagacagatatctcttgcagcttaatgtttttctcttagTTATCCAAAGTCTATGATGGTCCTGTGTATACACTGTATTTAGGTAAGAATCCTACTGTAGTATTACAGGGTTATGAGGCGGTGAGGGAATCGCTTAGTTGACCATGGAGAAGAATTTGCTGGGAGAGAGAGACTACCTGTTTTTGATAAAGCTACCAATGGAATGGgtacatttagatttccaatgccagtaaaggggagtacgagtccatagcag Alignment from Exonerate_protein2genome TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCT-CTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG ctattacatggcagacagatatctcttgcagcttaatgtttttctcttagTTATCCAAAGTCTATGATGGTCCTGTGTATACACTGTATTTAGGTAAGAATCCTACTGTAGTATTACAGGGTTATGAGGCGGTGAGGGAATCGCTTAGTTGACCATGGAGAAGAATTTGCTGGGAGAGAGAGACTACCTGTTTTTGATAAAGCTACCAATGGAATGGgtacatttagatttccaatgccagtaaaggggagtacgagtccatagcag Alignment from Exonerate_coding2genome TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCT-CTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG ctattacatggcagacagatatctcttgcagcttaatgtttttctcttagTTATCCAAAGTCTATGATGGTCCTGTGTATACACTGTATTTAGGTAAGAATCCTACTGTAGTATTACAGGGTTATGAGGCGGTGAGGGAATCGCTTAGTTGACCATGGAGAAGAATTTGCTGGGAGAGAGAGACTACCTGTTTTTGATAAAGCTACCAATGGAATGGgtacatttagatttccaatgccagtaaaggggagtacgagtccatagcag Alignment from GeneWise TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAA-GCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG ctattacatggcagacagatatctcttgcagcttaatgtttttctcttagTTATCCAAAGTCTATGATGGTCCTGTGTATACACTGTATTTAGGTAAGAATCCTACTGTAGTATTACAGGGTTATGAGGCGGTGAGGGAATCGCTTAGTTGACCATGGAGAAGAATTTGCTGGGAGAGAGAGACTACCTGTTTTTGATAAAGCTACCAATGGAATGGgtacatttagatttccaatgccagtaaaggggagtacgagtccatagcag #### Cyp2c50_ID7862_3 --> 2 - 1 Original Alignment gcATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGT-TGCCTTGTGGAGGAACTTAGGAAAACCAATg aggggagtacgagtccatagcagctaggcaaccctggccttttctttcagggATTATATTCAGTAAGGGAAATGTATGGAAAAATATAAGACATTTTGCACTTACCACTCTGCGAAATTTAGGCATTGGAAAACGAAGCATTGAAGACCAGCTTCAGGAGGAAGCCCGTCTGGCCTGTTGAGGAGCTTAGGAAGACCAATggtgagttgaagtgcagagtcagaacctaatgtgattttaatccagttttc Alignment from CESAR gcATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGT-TGCCTTGTGGAGGAACTTAGGAAAACCAATg aggggagtacgagtccatagcagctaggcaaccctggccttttctttcagggATTATATTCAGTAAGGGAAATGTATGGAAAAATATAAGACATTTTGCACTTACCACTCTGCGAAATTTAGGCATTGGAAAACGAAGCATTGAAGACCAGCTTCAGGAGGAAGCCCGTCTGGCCTGTTGAGGAGCTTAGGAAGACCAATggtgagttgaagtgcagagtcagaacctaatgtgattttaatccagttttc Alignment from Spaln_aa2Genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGT-TGCCTTGTGGAGGAACTTAGGAAAACCAATG aggggagtacgagtccatagcagctaggcaaccctggccttttctttcagGGATTATATTCAGTAAGGGAAATGTATGGAAAAATATAAGACATTTTGCACTTACCACTCTGCGAAATTTAGGCATTGGAAAACGAAGCATTGAAGACCAGCTTCAGGAGGAAGCCCGTcTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgagttgaagtgcagagtcagaacctaatgtgattttaatccagttttc Alignment from Spaln_nt2Genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGT-TGCCTTGTGGAGGAACTTAGGAAAACCAATG aggggagtacgagtccatagcagctaggcaaccctggccttttctttcagGGATTATATTCAGTAAGGGAAATGTATGGAAAAATATAAGACATTTTGCACTTACCACTCTGCGAAATTTAGGCATTGGAAAACGAAGCATTGAAGACCAGCTTCAGGAGGAAGCCCGTCTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgagttgaagtgcagagtcagaacctaatgtgattttaatccagttttc Alignment from Pairagon GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGT-TGCCTTGTGGAGGAACTTAGGAAAACCAATG aggggagtacgagtccatagcagctaggcaaccctggccttttctttcagGGATTATATTCAGTAAGGGAAATGTATGGAAAAATATAAGACATTTTGCACTTACCACTCTGCGAAATTTAGGCATTGGAAAACGAAGCATTGAAGACCAGCTTCAGGAGGAAGCCCGTCTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgagttgaagtgcagagtcagaacctaatgtgattttaatccagttttc Alignment from Exonerate_protein2genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTT-GTGGAGGAACTTAGGAAAACCAATG aggggagtacgagtccatagcagctaggcaaccctggccttttctttcagGGATTATATTCAGTAAGGGAAATGTATGGAAAAATATAAGACATTTTGCACTTACCACTCTGCGAAATTTAGGCATTGGAAAACGAAGCATTGAAGACCAGCTTCAGGAGGAAGCCCGTCTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgagttgaagtgcagagtcagaacctaatgtgattttaatccagttttc Alignment from Exonerate_coding2genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTT-GTGGAGGAACTTAGGAAAACCAATG aggggagtacgagtccatagcagctaggcaaccctggccttttctttcagGGATTATATTCAGTAAGGGAAATGTATGGAAAAATATAAGACATTTTGCACTTACCACTCTGCGAAATTTAGGCATTGGAAAACGAAGCATTGAAGACCAGCTTCAGGAGGAAGCCCGTCTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgagttgaagtgcagagtcagaacctaatgtgattttaatccagttttc Alignment from GeneWise GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGC-CTTGTGGAGGAACTTAGGAAAACCAATG aggggagtacgagtccatagcagctaggcaaccctggccttttctttcagGGATTATATTCAGTAAGGGAAATGTATGGAAAAATATAAGACATTTTGCACTTACCACTCTGCGAAATTTAGGCATTGGAAAACGAAGCATTGAAGACCAGCTTCAGGAGGAAGCCCGTCTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgagttgaagtgcagagtcagaacctaatgtgattttaatccagttttc #### Cyp2c54_ID7856_2 --> 0 - 1 Original Alignment TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGG-GATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg aggatgggtgacattatatggttacttccagtggggtatgtattccacagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGGAAGTCCTAGCAGACCAAGGGCGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGggtaatttctggggtgtgtaccatgcatggttgcagtacaatgatatccaa Alignment from CESAR TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGG-GATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg aggatgggtgacattatatggttacttccagtggggtatgtattccacagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGGAAGTCCTAGCAGACCAAGGGCGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGggtaatttctggggtgtgtaccatgcatggttgcagtacaatgatatccaa Alignment from Spaln_aa2Genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGG-GATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG aggatgggtgacattatatggttacttccagtggggtatgtattccacagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGGAAGTCCTAGCAGACCAAGGGcGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtaatttctggggtgtgtaccatgcatggttgcagtacaatgatatccaa Alignment from Spaln_nt2Genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGA---AGCTCTGGTTGACCATGGG-GATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG aggatgggtgacattatatggttacttccagtggggtatgtattccacagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGGAAGTCCTAGCAGACCAAGGGCGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtaatttctggggtgtgtaccatgcatggttgcagtacaatgatatccaa Alignment from Pairagon TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGA---AGGAAGCTCTGGTTGACCATGGG-GATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG aggatgggtgacattatatggttacttccagtggggtatgtattccacagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGGAAGTCCTAGCAGACCAAGGGCGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtaatttctggggtgtgtaccatgcatggttgcagtacaatgatatccaa Alignment from Exonerate_protein2genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTT----GACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG aggatgggtgacattatatggttacttccagtggggtatgtattccacagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGGAAGTCCTAGCAGACCAAGGGCGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtaatttctggggtgtgtaccatgcatggttgcagtacaatgatatccaa Alignment from Exonerate_coding2genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTT----GACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG aggatgggtgacattatatggttacttccagtggggtatgtattccacagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGGAAGTCCTAGCAGACCAAGGGCGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtaatttctggggtgtgtaccatgcatggttgcagtacaatgatatccaa Alignment from GeneWise TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAA---GCTCTGGTTGAC-CATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG aggatgggtgacattatatggttacttccagtggggtatgtattccacagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGGAAGTCCTAGCAGACCAAGGGCGATATTTTTGCTGGAAGGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtaatttctggggtgtgtaccatgcatggttgcagtacaatgatatccaa #### D19Bwg1357e_ID5846_6 --> 2 - 2 Original Alignment gcGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAA-TTTCTCATGTATgg tatgtttccctgtccagcagtgattacgtcttatctcctcacgtttgcaggtGACTTAGTGGAGTTAAGCAGAGCAAAACATACCCAGAATATTGTTAAAAAACTTTATTTCCTATgggtgagtgcaggattgtgaattgaaacttccctaaaatactaagttgaata Alignment from CESAR gcGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAA-TTTCTCATGTATgg tatgtttccctgtccagcagtgattacgtcttatctcctcacgtttgcaggtGACTTAGTGGAGTTAAGCAGAGCAAAACATACCCAGAATATTGTTAAAAAACTTTATTTCCTATgggtgagtgcaggattgtgaattgaaacttccctaaaatactaagttgaata Alignment from Spaln_aa2Genome GCGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAA-TTTCTCATGTATGG tatgtttccctgtccagcagtgattacgtcttatctcctcacgtttgcagGTGACTTAGTGGAGTTAAGCAGAGCAAAACATACCCAGAATATTGTTAAAAAAcTTTATTTCCTATGGgtgagtgcaggattgtgaattgaaacttccctaaaatactaagttgaata Alignment from Spaln_nt2Genome GCGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAA-TTTCTCATGTATGG tatgtttccctgtccagcagtgattacgtcttatctcctcacgtttgcagGTGACTTAGTGGAGTTAAGCAGAGCAAAACATACCCAGAATATTGTTAAAAAACTTTATTTCCTATGGgtgagtgcaggattgtgaattgaaacttccctaaaatactaagttgaata Alignment from Pairagon GCGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAA-----ATTTCTCATGTATGG tatgtttccctgtccagcagtgattacgtcttatctcctcacgtttgcagGTGACTTAGTGGAGTTAAGCAGAGCAAAACATACCCAGAATATTGTTAAAAAACTTTATTTCC----TATGGgtgagtgcaggattgtgaattgaaacttccctaaaatactaagttgaata Alignment from Exonerate_protein2genome GCGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAA-TTTCTCATGTATGG tatgtttccctgtccagcagtgattacgtcttatctcctcacgtttgcagGTGACTTAGTGGAGTTAAGCAGAGCAAAACATACCCAGAATATTGTTAAAAAACTTTATTTCCTATGGgtgagtgcaggattgtgaattgaaacttccctaaaatactaagttgaata Alignment from Exonerate_coding2genome tatgtttccctgtccagcagtgattacgtcttatctcctcacgtttgcaggtgacttagtggagttaagcagagcaaaacatacccagaatattgttaaaaaactttatttcctatgggtgagtgcaggattgtgaattgaaacttccctaaaatactaagttgaata Alignment from GeneWise GCGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAA------------TTTCTCATGTATGGAAG tatgtttccctgtccagcagtgattacgtcttatctcctcacgtttgcagGTGACTTAGTGGAGTTAAGCAGAGCAAAACATACCCAGAATATTGTTAAAAAACTTTATTTCCTATGGGTGAGTGCAGGATTgtgaattgaaacttccctaaaatactaagttgaata #### D19Ertd737e_ID13192_2 --> 0 - 1 Original Alignment AAATTTCAAGAATTGCATAAAAAAAATTCTGAA-CAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAg ttaacctcaagtgatgcccatcttctgcttggagtcctttcccctcctagAAGTTTCAAGAATTGCATAAAAAAAACTCGGAACCAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGggtctgggtagcctaggaatgtcgttaggaatgttggcttacatttaaatt Alignment from CESAR AAATTTCAAGAATTGCATAAAAAAAATTCTGAA-CAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAg ttaacctcaagtgatgcccatcttctgcttggagtcctttcccctcctagAAGTTTCAAGAATTGCATAAAAAAAACTCGGAACCAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGggtctgggtagcctaggaatgtcgttaggaatgttggcttacatttaaatt Alignment from Spaln_aa2Genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAA-CAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG ttaacctcaagtgatgcccatcttctgcttggagtcctttcccctcctagAAGTTTCAAGAATTGCATAAAAAAAACTCGGAAcCAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGGgtctgggtagcctaggaatgtcgttaggaatgttggcttacatttaaatt Alignment from Spaln_nt2Genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAG-AAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG ttaacctcaagtgatgcccatcttctgcttggagtcctttcccctcctagAAGTTTCAAGAATTGCATAAAAAAAACTCGGAACCAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGGgtctgggtagcctaggaatgtcgttaggaatgttggcttacatttaaatt Alignment from Pairagon AAATTTCAAGAATTGCATAAAAAAAATTCTGAA-CAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG ttaacctcaagtgatgcccatcttctgcttggagtcctttcccctcctagAAGTTTCAAGAATTGCATAAAAAAAACTCGGAACCAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGGgtctgggtagcctaggaatgtcgttaggaatgttggcttacatttaaatt Alignment from Exonerate_protein2genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAA-CAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG ttaacctcaagtgatgcccatcttctgcttggagtcctttcccctcctagAAGTTTCAAGAATTGCATAAAAAAAACTCGGAACCAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGGgtctgggtagcctaggaatgtcgttaggaatgttggcttacatttaaatt Alignment from Exonerate_coding2genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAA-CAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAGGCAAATTGAAGAATGAAAAGGAATCTCACAG ttaacctcaagtgatgcccatcttctgcttggagtcctttcccctcctagAAGTTTCAAGAATTGCATAAAAAAAACTCGGAACCAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGGGTCTGGGTAGCCTAGGAATGTCGTTAGGAATgttggcttacatttaaatt Alignment from GeneWise AAATTTCAAGAATTGCATAAAAAAAATTCT-GAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAGGCAAATTGAAGAATGAAAAGGAATCTCACAG ttaacctcaagtgatgcccatcttctgcttggagtcctttcccctcctagAAGTTTCAAGAATTGCATAAAAAAAACTCGGAACCAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGGGTCTGGGTAGCCTAGGAATGTCGTTAGGAATgttggcttacatttaaatt #### Dagla_ID2759_11 --> 0 - 0 Original Alignment GATGCCCTGACTGACCTGACA-GGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG ctttacacttcacttttgttacactaccacttgcgtctgccttcctacagGATGCCCTAACTGATTTAACACGGTGATGCAGAGCACCTTCCTGCAGAGACACATAGAGTTGCCTGGTTGGGGCATAAAgtacagcgttaactgatattccagtgtctcacagttgctctgatgctgaa Alignment from CESAR GATGCCCTGACTGACCTGACA-GGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG ctttacacttcacttttgttacactaccacttgcgtctgccttcctacagGATGCCCTAACTGATTTAACACGGTGATGCAGAGCACCTTCCTGCAGAGACACATAGAGTTGCCTGGTTGGGGCATAAAgtacagcgttaactgatattccagtgtctcacagttgctctgatgctgaa Alignment from Spaln_aa2Genome GATGCCCTGACTGACCTGACA-GGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG ctttacacttcacttttgttacactaccacttgcgtctgccttcctacagGATGCCCTAACTGATTTAACAcGGTGATGCAGAGCACCTTCCTGCAGAGACACATAGAGTTGCCTGGTTGGGGCATAAAgtacagcgttaactgatattccagtgtctcacagttgctctgatgctgaa Alignment from Spaln_nt2Genome GATGCCCTGACTGACCTGACA-GGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG ctttacacttcacttttgttacactaccacttgcgtctgccttcctacagGATGCCCTAACTGATTTAACACGGTGATGCAGAGCACCTTCCTGCAGAGACACATAGAGTTGCCTGGTTGGGGCATAAAgtacagcgttaactgatattccagtgtctcacagttgctctgatgctgaa Alignment from Pairagon GATGCCCTGACTGACCTGACA-GGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACA---------------------------------------------------- ctttacacttcacttttgttacactaccacttgcgtctgccttcctacagGATGCCCTAACTGATTTAACACGGTGATGCAGAGCACCTTCCTGCAGAGACACATAGAGTTGCCTGGTTGGGGCATAAAGTACAGCGTTAACTGATATTCCAGTGTCTCACAGTTGCTCTGATGCTGAA Alignment from Exonerate_protein2genome GATGCCCTGACTGACCTGACA-GGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG ctttacacttcacttttgttacactaccacttgcgtctgccttcctacagGATGCCCTAACTGATTTAACACGGTGATGCAGAGCACCTTCCTGCAGAGACACATAGAGTTGCCTGGTTGGGGCATAAAgtacagcgttaactgatattccagtgtctcacagttgctctgatgctgaa Alignment from Exonerate_coding2genome ctttacacttcacttttgttacactaccacttgcgtctgccttcctacaggatgccctaactgatttaacacggtgatgcagagcaccttcctgcagagacacatagagttgcctggttggggcataaagtacagcgttaactgatattccagtgtctcacagttgctctgatgctgaa Alignment from GeneWise GATGCCCTGACTGACCTG-ACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG ctttacacttcacttttgttacactaccacttgcgtctgccttcctacagGATGCCCTAACTGATTTAACACGGTGATGCAGAGCACCTTCCTGCAGAGACACATAGAGTTGCCTGGTTGGGGCATAAAgtacagcgttaactgatattccagtgtctcacagttgctctgatgctgaa #### Dak_ID2897_16 --> 0 - 0 Original Alignment CTGGATTCTCTGTGGGCAGCAGCACAGGAG-TTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG tggctctcccctgtggtgctaagattgggagtgctctcgtctgcttgcagCTAGACTCCCTGTGGTCAGCAGCACAGGAGCTTCCAAGCCTGGAAAAGTCCCGGCGCTAGCCTCCTTCCAGTCCTTACAAAAGCTGTCAAGgtaagtcactcactagtaaatcagctcaccgttaagaggatgtaaggatt Alignment from CESAR CTGGATTCTCTGTGGGCAGCAGCACAGGAG-TTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG tggctctcccctgtggtgctaagattgggagtgctctcgtctgcttgcagCTAGACTCCCTGTGGTCAGCAGCACAGGAGCTTCCAAGCCTGGAAAAGTCCCGGCGCTAGCCTCCTTCCAGTCCTTACAAAAGCTGTCAAGgtaagtcactcactagtaaatcagctcaccgttaagaggatgtaaggatt Alignment from Spaln_aa2Genome CTGGATTCTCTGTGGGCAGCAGCACAGGAG-TTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG tggctctcccctgtggtgctaagattgggagtgctctcgtctgcttgcagCTAGACTCCCTGTGGTCAGCAGCACAGGAGcTTCCAAGCCTGGAAAAGTCCCGGCGCTAGCCTCCTTCCAGTCCTTACAAAAGCTGTCAAGgtaagtcactcactagtaaatcagctcaccgttaagaggatgtaaggatt Alignment from Spaln_nt2Genome CTGGATTCTCTGTGGGCAGCAGCACAGGAGTTC-CAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG tggctctcccctgtggtgctaagattgggagtgctctcgtctgcttgcagCTAGACTCCCTGTGGTCAGCAGCACAGGAGCTTCCAAGCCTGGAAAAGTCCCGGCGCTAGCCTCCTTCCAGTCCTTACAAAAGCTGTCAAGgtaagtcactcactagtaaatcagctcaccgttaagaggatgtaaggatt Alignment from Pairagon CTGGATTCTCTGTGGGCAGCAGCACAGGAG-TTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG tggctctcccctgtggtgctaagattgggagtgctctcgtctgcttgcagCTAGACTCCCTGTGGTCAGCAGCACAGGAGCTTCCAAGCCTGGAAAAGTCCCGGCGCTAGCCTCCTTCCAGTCCTTACAAAAGCTGTCAAGgtaagtcactcactagtaaatcagctcaccgttaagaggatgtaaggatt Alignment from Exonerate_protein2genome CTGGATTCTCTGTGGGCAGCAGCACAGGAG-TTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG tggctctcccctgtggtgctaagattgggagtgctctcgtctgcttgcagCTAGACTCCCTGTGGTCAGCAGCACAGGAGCTTCCAAGCCTGGAAAAGTCCCGGCGCTAGCCTCCTTCCAGTCCTTACAAAAGCTGTCAAGgtaagtcactcactagtaaatcagctcaccgttaagaggatgtaaggatt Alignment from Exonerate_coding2genome tggctctcccctgtggtgctaagattgggagtgctctcgtctgcttgcagctagactccctgtggtcagcagcacaggagcttccaagcctggaaaagtcccggcgctagcctccttccagtccttacaaaagctgtcaaggtaagtcactcactagtaaatcagctcaccgttaagaggatgtaaggatt Alignment from GeneWise CTGGATTCTCTGTGGGCAGCAGCACAG-GAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG tggctctcccctgtggtgctaagattgggagtgctctcgtctgcttgcagCTAGACTCCCTGTGGTCAGCAGCACAGGAGCTTCCAAGCCTGGAAAAGTCCCGGCGCTAGCCTCCTTCCAGTCCTTACAAAAGCTGTCAAGgtaagtcactcactagtaaatcagctcaccgttaagaggatgtaaggatt #### Dak_ID2899_14 --> 0 - 2 Original Alignment CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATG-GATGCCGGCTTAGAGTCCATGCAGaa gccttaccacagctagtacaaatttattgggctaagtgctatctcctcagCTACATGGATTGTTCCTCACTGCTTCAGCCCAACCTCTG------AAAACTGACCTGCCAACCTGGTCTGCTGCCATGCGATGCTGGCCTAGACTCCATGCAGaagtaagacactctttttgcctcacaacaaaaagtgaggttgtgctatatgc Alignment from CESAR CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATG-GATGCCGGCTTAGAGTCCATGCAGaa gccttaccacagctagtacaaatttattgggctaagtgctatctcctcagCTACATGGATTGTTCCTCACTGCTTCAGCCCAACCTCTG------AAAACTGACCTGCCAACCTGGTCTGCTGCCATGCGATGCTGGCCTAGACTCCATGCAGaagtaagacactctttttgcctcacaacaaaaagtgaggttgtgctatatgc Alignment from Spaln_aa2Genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATG-GATGCCGGCTTAGAGTCCATGCAGAA gccttaccacagctagtacaaatttattgggctaagtgctatctcctcagCTACATGGATTGTTCCTCACTGCTTCAGCCCAACCTCTG------AAAACTGACCTGCCAACCTGGTCTGCTGCCATGcGATGCTGGCCTAGACTCCATGCAGAAgtaagacactctttttgcctcacaacaaaaagtgaggttgtgctatatgc Alignment from Spaln_nt2Genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATG-GATGCCGGCTTAGAGTCCATGCAGAA gccttaccacagctagtacaaatttattgggctaagtgctatctcctcagCTACATGGATTGTTCCTCACTGCTTCAGCCCAACCTCT------GAAAACTGACCTGCCAACCTGGTCTGCTGCCATGCGATGCTGGCCTAGACTCCATGCAGAAgtaagacactctttttgcctcacaacaaaaagtgaggttgtgctatatgc Alignment from Pairagon CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATG-GATGCCGGCTTAGAGTCCATGCAGAA gccttaccacagctagtacaaatttattgggctaagtgctatctcctcagCTACATGGATTGTTCCTCACTGCTTCAGCCCAACCTCT------GAAAACTGACCTGCCAACCTGGTCTGCTGCCATGCGATGCTGGCCTAGACTCCATGCAGAAgtaagacactctttttgcctcacaacaaaaagtgaggttgtgctatatgc Alignment from Exonerate_protein2genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATG-GATGCCGGCTTAGAGTCCATGCAGAA gccttaccacagctagtacaaatttattgggctaagtgctatctcctcagCTACATGGATTGTTCCTCACTGCTTCAGCCCAACCTCTG------AAAACTGACCTGCCAACCTGGTCTGCTGCCATGCGATGCTGGCCTAGACTCCATGCAGAAgtaagacactctttttgcctcacaacaaaaagtgaggttgtgctatatgc Alignment from Exonerate_coding2genome gccttaccacagctagtacaaatttattgggctaagtgctatctcctcagctacatggattgttcctcactgcttcagcccaacctctgaaaactgacctgccaacctggtctgctgccatgcgatgctggcctagactccatgcagaagtaagacactctttttgcctcacaacaaaaagtgaggttgtgctatatgc Alignment from GeneWise CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCC-ATGGATGCCGGCTTAGAGTCCATGCAGAA gccttaccacagctagtacaaatttattgggctaagtgctatctcctcagCTACATGGATTGTTCCTCACTGCTTCAGCCCAACCTCTGAAA------ACTGACCTGCCAACCTGGTCTGCTGCCATGCGATGCTGGCCTAGACTCCATGCAGAAgtaagacactctttttgcctcacaacaaaaagtgaggttgtgctatatgc #### Dak_ID2901_12 --> 2 - 1 Original Alignment gtGTAACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACC-CATAGCCGTGCTGCCAAAg acacatgcatagggaatatagaggttcaacctttgggttttatatctcaggtGTAACATCAAAGCAGGTAGCCTTGGTA---TATCGGATATGTGCCACCCTCATAGGGTCTGAAGAACACCTGAATGCA---GAGAGAGCTGCTGGTGATGGA------GATTCCATGCCACAGCCGCGCTTCTAAGggtaggatttcttcttctagccacacagaccaatcattggaccttgctatc Alignment from CESAR gtGTAACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACC-CATAGCCGTGCTGCCAAAg acacatgcatagggaatatagaggttcaacctttgggttttatatctcaggtGTAACATCAAAGCAGGTAGCCTTGGTA---TATCGGATATGTGCCACCCTCATAGGGTCTGAAGAACACCTGAATGCA---GAGAGAGCTGCTGGTGATGGAGAT------TCCATGCCACAGCCGCGCTTCTAAGggtaggatttcttcttctagccacacagaccaatcattggaccttgctatc Alignment from Spaln_aa2Genome GTGTAACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAG acacatgcatagggaatatagaggttcaacctttgggttttatatctcagGTGTAACATCAAAGCAGGTAGCCTTGGTATAT---CGGATATGTGCCACCCTCATAGGGTCTGAAGAACACCTGAATGCA---GAGAGAGCTGCTGGTGATGGAGATT-----CCATGCCACAGCCGCGCTTCTAAGGgtaggatttcttcttctagccacacagaccaatcattggaccttgctatc Alignment from Spaln_nt2Genome GTGTAACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAG acacatgcatagggaatatagaggttcaacctttgggttttatatctcagGTGTAACATCAAAGCAGGTAGC-CT--TGGTATATCGGATATGTGCCACCCTCATAGGGTCTGAAGAACACCTGAATGC---AGAGAGAGCTGCTGGTGATGGAGAT-----TCCATGCCACAGCCGCGCTTCTAAGGgtaggatttcttcttctagccacacagaccaatcattggaccttgctatc Alignment from Pairagon GTGTAACATCAAAGCAG-----------ATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCAT-----AGCCGTGCTGCCAAAG acacatgcatagggaatatagaggttcaacctttgggttttatatctcagGTGTAACATCAAAGCAGGTAGCCTTGGTAT--------------ATCGGATATGTGCCACCCTCATAGGGTCTGAAGAACACCTGAATGC---AGAGAGAGCTGCTGGTGATGGAGATT----------CCATGCCACAGCCGCGCTTCTAAGGgtaggatttcttcttctagccacacagaccaatcattggaccttgctatc Alignment from Exonerate_protein2genome GTGTAACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGAT----TGTGGTTCTACCCATAGCCGTG acacatgcatagggaatatagaggttcaacctttgggttttatatctcagGTGTAACATCAAAGCAGGTAGCCTTGGTATAT---CGGATATGTGCCACCCTCATAGGGTCTGAAGAACACCTGAATGCA---GAGAGAGCTGCTGGTGATGGAGATTCCATGCCACAGCCGCGCTTCTAAGGgtaggatttcttcttctagccacacagaccaatcattggaccttgctatc Alignment from Exonerate_coding2genome acacatgcatagggaatatagaggttcaacctttgggttttatatctcaggtgtaacatcaaagcaggtagccttggtatatcggatatgtgccaccctcatagggtctgaagaacacctgaatgcagagagagctgctggtgatggagattccatgccacagccgcgcttctaagggtaggatttcttcttctagccacacagaccaatcattggaccttgctatc Alignment from GeneWise GTGTAACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCT-ACCCATAGCCGTGCTGCCAAAG acacatgcatagggaatatagaggttcaacctttgggttttatatctcagGTGTAACATCAAAGCAGGTAGCCTTGGTATAT---CGGATATGTGCCACCCTCATAGGGTCTGAAGAACACCTGAATGCA---GAGAGAGCTGCTGGTGATGGAGAT------TCCATGCCACAGCCGCGCTTCTAAGGgtaggatttcttcttctagccacacagaccaatcattggaccttgctatc #### Ddb1_ID2917_2 --> 2 - 0 Original Alignment gaCACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGG-CCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tttttacatgaacagctcatctattgcagaaggtgtccttttgtccacaggcCACTTTACCCCAGCGGAAGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCAGAGGGTGTGCGCCCCAGTAAAAGAAGTTGGAATGTATGGTAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtatgttactgtgatggtgcaagaaacaatatagaaggaggggtgctcag Alignment from CESAR gaCACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGG-CCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tttttacatgaacagctcatctattgcagaaggtgtccttttgtccacaggcCACTTTACCCCAGCGGAAGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCAGAGGGTGTGCGCCCCAGTAAAAGAAGTTGGAATGTATGGTAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtatgttactgtgatggtgcaagaaacaatatagaaggaggggtgctcag Alignment from Spaln_aa2Genome GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCCA-GTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tttttacatgaacagctcatctattgcagaaggtgtccttttgtccacagGCCACTTTACCCCAGCGGAAGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCAGAGGGTGTGCGCCCCaGTAAAAGAAGTTGGAATGTATGGTAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtatgttactgtgatggtgcaagaaacaatatagaaggaggggtgctcag Alignment from Spaln_nt2Genome GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCC-AGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tttttacatgaacagctcatctattgcagaaggtgtccttttgtccacagGCCACTTTACCCCAGCGGAAGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCAGAGGGTGTGCGCCCCAGTAAAAGAAGTTGGAATGTATGGTAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtatgttactgtgatggtgcaagaaacaatatagaaggaggggtgctcag Alignment from Pairagon GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCG-GCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tttttacatgaacagctcatctattgcagaaggtgtccttttgtccacagGCCACTTTACCCCAGCGGAAGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCAGAGGGTGTGCGCCCCAGTAAAAGAAGTTGGAATGTATGGTAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtatgttactgtgatggtgcaagaaacaatatagaaggaggggtgctcag Alignment from Exonerate_protein2genome GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGG-CCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tttttacatgaacagctcatctattgcagaaggtgtccttttgtccacagGCCACTTTACCCCAGCGGAAGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCAGAGGGTGTGCGCCCCAGTAAAAGAAGTTGGAATGTATGGTAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtatgttactgtgatggtgcaagaaacaatatagaaggaggggtgctcag Alignment from Exonerate_coding2genome ACCGGACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGG-CCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tttttacatgaacagctcatctattgcagaaggtgtccttttgtccACAGGCCACTTTACCCCAGCGGAAGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCAGAGGGTGTGCGCCCCAGTAAAAGAAGTTGGAATGTATGGTAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtatgttactgtgatggtgcaagaaacaatatagaaggaggggtgctcag Alignment from GeneWise GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCCA-GTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tttttacatgaacagctcatctattgcagaaggtgtccttttgtccacagGCCACTTTACCCCAGCGGAAGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCAGAGGGTGTGCGCCCCAGTAAAAGAAGTTGGAATGTATGGTAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtatgttactgtgatggtgcaagaaacaatatagaaggaggggtgctcag #### Ddb1_ID2924_9 --> 0 - 0 Original Alignment CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTA-GGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tgtctgtttattcaagtctttagtctaatgggacctgggccatcccacagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATGTGCGGCCCTATTATAGATATGTTTGTTGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagtggcattcctaaagaggggaagaccaggagatataaacatcttta Alignment from CESAR CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTA-GGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tgtctgtttattcaagtctttagtctaatgggacctgggccatcccacagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATGTGCGGCCCTATTATAGATATGTTTGTTGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagtggcattcctaaagaggggaagaccaggagatataaacatcttta Alignment from Spaln_aa2Genome CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTA-GGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tgtctgtttattcaagtctttagtctaatgggacctgggccatcccacagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATGTGcGGCCCTATTATAGATATGTTTGTTGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagtggcattcctaaagaggggaagaccaggagatataaacatcttta Alignment from Spaln_nt2Genome CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCC-ATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tgtctgtttattcaagtctttagtctaatgggacctgggccatcccacagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATGTGCGGCCCTATTATAGATATGTTTGTTGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagtggcattcctaaagaggggaagaccaggagatataaacatcttta Alignment from Pairagon CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTA-GGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tgtctgtttattcaagtctttagtctaatgggacctgggccatcccacagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATGTGCGGCCCTATTATAGATATGTTTGTTGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagtggcattcctaaagaggggaagaccaggagatataaacatcttta Alignment from Exonerate_protein2genome CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTA-GGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tgtctgtttattcaagtctttagtctaatgggacctgggccatcccacagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATGTGCGGCCCTATTATAGATATGTTTGTTGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagtggcattcctaaagaggggaagaccaggagatataaacatcttta Alignment from Exonerate_coding2genome CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTA-GGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tgtctgtttattcaagtctttagtctaatgggacctgggccatcccacagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATGTGCGGCCCTATTATAGATATGTTTGTTGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagtggcattcctaaagaggggaagaccaggagatataaacatcttta Alignment from GeneWise CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAAT-TTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tgtctgtttattcaagtctttagtctaatgggacctgggccatcccacagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATGTGCGGCCCTATTATAGATATGTTTGTTGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgagtggcattcctaaagaggggaagaccaggagatataaacatcttta #### Ddb1_ID2934_19 --> 0 - 1 Original Alignment GCCCTGTCCAGCAGCGTCAGCTCCAGCAAACTTTTCTCCAGCAGTACGGCTCCTCACGAGACCTCCTTTGGAGAA---GAAGTGGAGGTGCACAACCTCCTCATCATT-GACCAGCACACCTTTGAAg ctcgaattgacttatccagattttttgacatagcccctccccctccccagGCTCTGTCTAGCAGTATCAGTTCCAGCAAACTTTTCTCCATCAGTACAGCCCCTCATGAAATGTCCTTTGGAGAAGAAGAC---GAGGTCCACAATCTCCTTATCAATCGACCAACATACATTTGAGtgtaaacaatgaccctttggggttaaaggcttggttgtagatctacaggtg Alignment from CESAR GCCCTGTCCAGCAGCGTCAGCTCCAGCAAACTTTTCTCCAGCAGTACGGCTCCTCACGAGACCTCCTTTGGAGAAGAAGTGGAGGTGCACAACCTCCTCATC-ATTGACCAGCACACCTTTGAAg ctcgaattgacttatccagattttttgacatagcccctccccctccccagGCTCTGTCTAGCAGTATCAGTTCCAGCAAACTTTTCTCCATCAGTACAGCCCCTCATGAAATGTCCTTTGGAGAAGAAGACGAGGTCCACAATCTCCTTATCAATCGACCAACATACATTTGAGtgtaaacaatgaccctttggggttaaaggcttggttgtagatctacaggtg Alignment from Spaln_aa2Genome GCCCTGTCCAGCAGCGTCAGCTCCAGCAAACTTTTCTCCAGCAGTACGGCTCCTCACGAGACCTCCTTTGGAGAAGAAGTGGAGGTGCACAACCTCCTCATC-ATTGACCAGCACACCTTTGAAG ctcgaattgacttatccagattttttgacatagcccctccccctccccagGCTCTGTCTAGCAGTATCAGTTCCAGCAAACTTTTCTCCATCAGTACAGCCCCTCATGAAATGTCCTTTGGAGAAGAAGACGAGGTCCACAATCTCCTTATCaATCGACCAACATACATTTGAGTgtaaacaatgaccctttggggttaaaggcttggttgtagatctacaggtg Alignment from Spaln_nt2Genome GCCCTGTCCAGCAGCGTCAGCTCCAGCAAACTTTTCTCCAGCAGTACGGCTCCTCACGAGACCTCCTTTGGAGAAGAAGTGGAGGTGCACAACCTCCTCATCATT-GACCAGCACACCTTTGAAG ctcgaattgacttatccagattttttgacatagcccctccccctccccagGCTCTGTCTAGCAGTATCAGTTCCAGCAAACTTTTCTCCATCAGTACAGCCCCTCATGAAATGTCCTTTGGAGAAGAAGACGAGGTCCACAATCTCCTTATCAATCGACCAACATACATTTGAGTgtaaacaatgaccctttggggttaaaggcttggttgtagatctacaggtg Alignment from Pairagon GCCCTGTCCAGCAGCGTCAGCTCCAGCAAACTTTTCTCCAGCAGTACGGCTCCTCACGAGACCTCCTTTGGAGAAGAAGTGGAGGTGCACAACCTCCTCATC-ATTGACCAGCACACCTTTG----------------------------------------------------- ctcgaattgacttatccagattttttgacatagcccctccccctccccagGCTCTGTCTAGCAGTATCAGTTCCAGCAAACTTTTCTCCATCAGTACAGCCCCTCATGAAATGTCCTTTGGAGAAGAAGACGAGGTCCACAATCTCCTTATCAATCGACCAACATACATTTGAGTGTAAACAATGACCCTTTGGGGTTAAAGGCTTGGTTGTAGATCTACAGGTG Alignment from Exonerate_protein2genome GCCCTGTCCAGCAGCGTCAGCTCCAGCAAACTTTTCTCCAGCAGTACGGCTCCTCACGAGACCTCCTTTGGAGAAGAAGTGGAGGTGCACAACCTCCTCATC-ATTGACCAGCACACCTTTGAAG ctcgaattgacttatccagattttttgacatagcccctccccctccccagGCTCTGTCTAGCAGTATCAGTTCCAGCAAACTTTTCTCCATCAGTACAGCCCCTCATGAAATGTCCTTTGGAGAAGAAGACGAGGTCCACAATCTCCTTATCAATCGACCAACATACATTTGAGTgtaaacaatgaccctttggggttaaaggcttggttgtagatctacaggtg Alignment from Exonerate_coding2genome GCCCTGTCCAGCAGCGTCAGCTCCAGCAAACTTTTCTCCAGCAGTACGGCTCCTCACGAGACCTCCTTTGGAGAAGAAGTGGAGGTGCACAACCTCCTCATC-ATTGACCAGCACACCTTTGAAG ctcgaattgacttatccagattttttgacatagcccctccccctccccagGCTCTGTCTAGCAGTATCAGTTCCAGCAAACTTTTCTCCATCAGTACAGCCCCTCATGAAATGTCCTTTGGAGAAGAAGACGAGGTCCACAATCTCCTTATCAATCGACCAACATACATTTGAGTgtaaacaatgaccctttggggttaaaggcttggttgtagatctacaggtg Alignment from GeneWise GCCCTGTCCAGCAGCGTCAGCTCCAGCAAACTTTTCTCCAGCAGTACGGCTCCTCACGAGACCTCCTTTGGAGAAGAAGTGGAGGTGCACAACCTCCTCATC-ATTGACCAGCACACCTTTGAAG ctcgaattgacttatccagattttttgacatagcccctccccctccccagGCTCTGTCTAGCAGTATCAGTTCCAGCAAACTTTTCTCCATCAGTACAGCCCCTCATGAAATGTCCTTTGGAGAAGAAGACGAGGTCCACAATCTCCTTATCAATCGACCAACATACATTTGAGTgtaaacaatgaccctttggggttaaaggcttggttgtagatctacaggtg #### Ddb1_ID2935_20 --> 2 - 1 Original Alignment tgCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAG-GGTCGTATTGTGGTCTTCCAGTATTCAGATg acagccagaacttaggagatagcagatccctgacctctgcttctgtgcagtgCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTACAGCCATGGTGTATCCAGAAGAGGCAGAGCCCAAGCAACGGTCATATTGTGGTTTTCCAATATTCTGATggtaagttgatgaatttgaggctccttttttatttttagagacctgtttgt Alignment from CESAR tgCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAG-GGTCGTATTGTGGTCTTCCAGTATTCAGATg acagccagaacttaggagatagcagatccctgacctctgcttctgtgcagtgCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTACAGCCATGGTGTATCCAGAAGAGGCAGAGCCCAAGCAACGGTCATATTGTGGTTTTCCAATATTCTGATggtaagttgatgaatttgaggctccttttttatttttagagacctgtttgt Alignment from Spaln_aa2Genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAG-GGTCGTATTGTGGTCTTCCAGTATTCAGATG acagccagaacttaggagatagcagatccctgacctctgcttctgtgcagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTACAGCCATGGTGTATCCAGAAGAGGCAGAGCCCAAGCAAcGGTCATATTGTGGTTTTCCAATATTCTGATGgtaagttgatgaatttgaggctccttttttatttttagagacctgtttgt Alignment from Spaln_nt2Genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAG-GGTCGTATTGTGGTCTTCCAGTATTCAGATG acagccagaacttaggagatagcagatccctgacctctgcttctgtgcagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTACAGCCATGGTGTATCCAGAAGAGGCAGAGCCCAAGCAACGGTCATATTGTGGTTTTCCAATATTCTGATGgtaagttgatgaatttgaggctccttttttatttttagagacctgtttgt Alignment from Pairagon TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAG-GGTCGTATTGTGGTCTTCCAGTATTCAGATG acagccagaacttaggagatagcagatccctgacctctgcttctgtgcagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTACAGCCATGGTGTATCCAGAAGAGGCAGAGCCCAAGCAACGGTCATATTGTGGTTTTCCAATATTCTGATGgtaagttgatgaatttgaggctccttttttatttttagagacctgtttgt Alignment from Exonerate_protein2genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAG-GGTCGTATTGTGGTCTTCCAGTATTCAGATG acagccagaacttaggagatagcagatccctgacctctgcttctgtgcagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTACAGCCATGGTGTATCCAGAAGAGGCAGAGCCCAAGCAACGGTCATATTGTGGTTTTCCAATATTCTGATGgtaagttgatgaatttgaggctccttttttatttttagagacctgtttgt Alignment from Exonerate_coding2genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAG-GGTCGTATTGTGGTCTTCCAGTATTCAGATG acagccagaacttaggagatagcagatccctgacctctgcttctgtgcagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTACAGCCATGGTGTATCCAGAAGAGGCAGAGCCCAAGCAACGGTCATATTGTGGTTTTCCAATATTCTGATGgtaagttgatgaatttgaggctccttttttatttttagagacctgtttgt Alignment from GeneWise TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAG-CAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG acagccagaacttaggagatagcagatccctgacctctgcttctgtgcagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTACAGCCATGGTGTATCCAGAAGAGGCAGAGCCCAAGCAACGGTCATATTGTGGTTTTCCAATATTCTGATGgtaagttgatgaatttgaggctccttttttatttttagagacctgtttgt #### Dnajc4_ID1965_3 --> 0 - 2 Original Alignment CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAAT-GAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACag acgtggctgggcagtacttgagtcatatccttccattgttctctcctcagCTACGCCCTGATCGAGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATCGAG------CGGGTACTCAGCCATGAGGAAAGCTGTCGTAATTATGACCGTCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATACACAGCACACCCACaggtacttagtatagatggcacgacttgagcttgttctccctatctactcag Alignment from CESAR CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAAT-GAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACag acgtggctgggcagtacttgagtcatatccttccattgttctctcctcagCTACGCCCTGATCGAGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATCGAG------CGGGTACTCAGCCATGAGGAAAGCTGTCGTAATTATGACCGTCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATACACAGCACACCCACaggtacttagtatagatggcacgacttgagcttgttctccctatctactcag Alignment from Spaln_aa2Genome CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG acgtggctgggcagtacttgagtcatatccttccattgttctctcctcagCTACGCCCTGATCGAGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATCGAG-----CGGGTACTCAGCCATGAGGAAAGCTGTCGTAATTATGACCGTCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATACACAGCACACCCACAGgtacttagtatagatggcacgacttgagcttgttctccctatctactcag Alignment from Spaln_nt2Genome CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG acgtggctgggcagtacttgagtcatatccttccattgttctctcctcagCTACGCCCTGATCGAGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAAT-----CGAGCGGGTACTCAGCCATGAGGAAAGCTGTCGTAATTATGACCGTCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATACACAGCACACCCACAGgtacttagtatagatggcacgacttgagcttgttctccctatctactcag Alignment from Pairagon CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAAT-GAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG acgtggctgggcagtacttgagtcatatccttccattgttctctcctcagCTACGCCCTGATCGAGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATCGAG------CGGGTACTCAGCCATGAGGAAAGCTGTCGTAATTATGACCGTCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATACACAGCACACCCACAGgtacttagtatagatggcacgacttgagcttgttctccctatctactcag Alignment from Exonerate_protein2genome CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAAT-GAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG acgtggctgggcagtacttgagtcatatccttccattgttctctcctcagCTACGCCCTGATCGAGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATCGAG------CGGGTACTCAGCCATGAGGAAAGCTGTCGTAATTATGACCGTCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATACACAGCACACCCACAGgtacttagtatagatggcacgacttgagcttgttctccctatctactcag Alignment from Exonerate_coding2genome TCAAAAGAGCTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAAT-GAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG acgtggctgggcagtacttgagtcatatccttccattgttcTCTCCTCAGCTACGCCCTGATCGAGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATCGAG------CGGGTACTCAGCCATGAGGAAAGCTGTCGTAATTATGACCGTCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATACACAGCACACCCACAGgtacttagtatagatggcacgacttgagcttgttctccctatctactcag Alignment from GeneWise CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG acgtggctgggcagtacttgagtcatatccttccattgttctctcctcagCTACGCCCTGATCGAGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATCGAG-----CGGGTACTCAGCCATGAGGAAAGCTGTCGTAATTATGACCGTCAGCTGCATCCAGCCTCT---------------GGCAGCACTGCTGAGCCTAAGTATACACAGCACACCCACAGgtacttagtatagatggcacgacttgagcttgttctccctatctactcag #### Dpp3_ID740_13 --> 0 - 2 Original Alignment ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATT-GCCTCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGga ttgggtccatggtcaagttctaatttagtttcgcctcctcctctctgcagATCAAGAGCTGGTACCGGAGTGGAGAGACATGGGACAGTGAATCTAGCACAATTCGCCTCACGGTATCAAGAGTGTCATGCCAAGAGTATAGGCCTGTATCTCTGT---ACCCCCCAAGTGTTAgagtaaggaaactcttcaacttcatgggattctattgatcttttctttttta Alignment from CESAR ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATT-GCCTCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGga ttgggtccatggtcaagttctaatttagtttcgcctcctcctctctgcagATCAAGAGCTGGTACCGGAGTGGAGAGACATGGGACAGTGAATCTAGCACAATTCGCCTCACGGTATCAAGAGTGTCATGCCAAGAGTATAGGCCTGTATCTCTGT---ACCCCCCAAGTGTTAgagtaaggaaactcttcaacttcatgggattgttatttcttttttcttttta Alignment from Spaln_aa2Genome ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATT-GCCTCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA ttgggtccatggtcaagttctaatttagtttcgcctcctcctctctgcagATCAAGAGCTGGTACCGGAGTGGAGAGACATGGGACAGTGAATCTAGCACAATTcGCCTCACGGTATCAAGAGTGTCATGCCAAGAGTATAGGCCTGTATCTCTGT---ACCCCCCAAGTGTTAGAgtaaggaaactcttcaacttcatgggattctattgatcttttctttttta Alignment from Spaln_nt2Genome ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATT-GCCTCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA ttgggtccatggtcaagttctaatttagtttcgcctcctcctctctgcagATCAAGAGCTGGTACCGGAGTGGAGAGACATGGGACAGTGAATCTAGCACAATTCGCCTCACGGTATCAAGAGTGTCATGCCAAGAGTATAGGCCTGTATCTCTGT---ACCCCCCAAGTGTTAGAgtaaggaaactcttcaacttcatgggattctattgatcttttctttttta Alignment from Pairagon ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATT-GCCTCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA ttgggtccatggtcaagttctaatttagtttcgcctcctcctctctgcagATCAAGAGCTGGTACCGGAGTGGAGAGACATGGGACAGTGAATCTAGCACAATTCGCCTCACGGTATCAAGAGTGTCATGCCAAGAGTATAGGCCTGTATCTCTGT---ACCCCCCAAGTGTTAGAgtaaggaaactcttcaacttcatgggattctattgatcttttctttttta Alignment from Exonerate_protein2genome ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATT-GCCTCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA ttgggtccatggtcaagttctaatttagtttcgcctcctcctctctgcagATCAAGAGCTGGTACCGGAGTGGAGAGACATGGGACAGTGAATCTAGCACAATTCGCCTCACGGTATCAAGAGTGTCATGCCAAGAGTATAGGCCTGTATCTCTGT---ACCCCCCAAGTGTTAGAgtaaggaaactcttcaacttcatgggattctattgatcttttctttttta Alignment from Exonerate_coding2genome ttgggtccatggtcaagttctaatttagtttcgcctcctcctctctgcagatcaagagctggtaccggagtggagagacatgggacagtgaatctagcacaattcgcctcacggtatcaagagtgtcatgccaagagtataggcctgtatctctgtaccccccaagtgttagagtaaggaaactcttcaacttcatgggattctattgatcttttctttttta Alignment from GeneWise ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATT-GCCTCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA ttgggtccatggtcaagttctaatttagtttcgcctcctcctctctgcagATCAAGAGCTGGTACCGGAGTGGAGAGACATGGGACAGTGAATCTAGCACAATTCGCCTCACGGTATCAAGAGTGTCATGCCAAGAGTATAGGCCTGTATCTCTGT---ACCCCCCAAGTGTTAGAgtaaggaaactcttcaacttcatgggattctattgatcttttctttttta #### Dpp3_ID743_10 --> 2 - 0 Original Alignment acGATGACCTGAGACAGACA-GAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcactacaaatatagtccactcctgccagcctggtttctgtctccagacGATGACCTGAGGCAGACACGAAGGCTTTAAGAATGTATCACTGGGGAATGTGCTGGCTGTTGCCTATGCTGCAAAGCGAGAGAAGCTAACATTTCTGGAGGAGGAAGACAAAgtaagtatggccccccaagcttatggtgtggtacttggcaaaataggcta Alignment from CESAR acGATGACCTGAGACAGACA-GAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcactacaaatatagtccactcctgccagcctggtttctgtctccagacGATGACCTGAGGCAGACACGAAGGCTTTAAGAATGTATCACTGGGGAATGTGCTGGCTGTTGCCTATGCTGCAAAGCGAGAGAAGCTAACATTTCTGGAGGAGGAAGACAAAgtaagtatggccccccaagcttatggtgtggtacttggcaaaataggcta Alignment from Spaln_aa2Genome ACGATGACCTGAGACAGACA-GAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcactacaaatatagtccactcctgccagcctggtttctgtctccagACGATGACCTGAGGCAGACAcGAAGGCTTTAAGAATGTATCACTGGGGAATGTGCTGGCTGTTGCCTATGCTGCAAAGCGAGAGAAGCTAACATTTCTGGAGGAGGAAGACAAAgtaagtatggccccccaagcttatggtgtggtacttggcaaaataggcta Alignment from Spaln_nt2Genome ACGATGACCTGAGACAGACA-GAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcactacaaatatagtccactcctgccagcctggtttctgtctccagACGATGACCTGAGGCAGACACGAAGGCTTTAAGAATGTATCACTGGGGAATGTGCTGGCTGTTGCCTATGCTGCAAAGCGAGAGAAGCTAACATTTCTGGAGGAGGAAGACAAAgtaagtatggccccccaagcttatggtgtggtacttggcaaaataggcta Alignment from Pairagon ACGATGACCTGAGACAGACA-GAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcactacaaatatagtccactcctgccagcctggtttctgtctccagACGATGACCTGAGGCAGACACGAAGGCTTTAAGAATGTATCACTGGGGAATGTGCTGGCTGTTGCCTATGCTGCAAAGCGAGAGAAGCTAACATTTCTGGAGGAGGAAGACAAAgtaagtatggccccccaagcttatggtgtggtacttggcaaaataggcta Alignment from Exonerate_protein2genome ACGATGACCTGAGACAGACA-GAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcactacaaatatagtccactcctgccagcctggtttctgtctccagACGATGACCTGAGGCAGACACGAAGGCTTTAAGAATGTATCACTGGGGAATGTGCTGGCTGTTGCCTATGCTGCAAAGCGAGAGAAGCTAACATTTCTGGAGGAGGAAGACAAAgtaagtatggccccccaagcttatggtgtggtacttggcaaaataggcta Alignment from Exonerate_coding2genome ccttcactacaaatatagtccactcctgccagcctggtttctgtctccagacgatgacctgaggcagacacgaaggctttaagaatgtatcactggggaatgtgctggctgttgcctatgctgcaaagcgagagaagctaacatttctggaggaggaagacaaagtaagtatggccccccaagcttatggtgtggtacttggcaaaataggcta Alignment from GeneWise ACGATGACCTGAGACAG-ACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG ccttcactacaaatatagtccactcctgccagcctggtttctgtctccagACGATGACCTGAGGCAGACACGAAGGCTTTAAGAATGTATCACTGGGGAATGTGCTGGCTGTTGCCTATGCTGCAAAGCGAGAGAAGCTAACATTTCTGGAGGAGGAAGACAAAgtaagtatggccccccaagcttatggtgtggtacttggcaaaataggcta #### Dpp3_ID746_7 --> 0 - 2 Original Alignment GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGC-TCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGag gaatatgtggatggatcaaaatgaagatccccaccacccccataccccagGCGTATGCAGCCAACTGCTACCAGAAGCAGATGCTGTCCCAGTATGTGGAAAGCTTCACTGAAGGATCCATTGATGCCCATAAGAGGGGTCTCCCATTTCTGGATCCAGGACAAAGGCCCAGTTGTAAAGaggtaggtcatcactcaatctttccattcctggtttgttagcaagggtacaa Alignment from CESAR GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGC-TCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGag gaatatgtggatggatcaaaatgaagatccccaccacccccataccccagGCGTATGCAGCCAACTGCTACCAGAAGCAGATGCTGTCCCAGTATGTGGAAAGCTTCACTGAAGGATCCATTGATGCCCATAAGAGGGGTCTCCCATTTCTGGATCCAGGACAAAGGCCCAGTTGTAAAGaggtaggtcatcactcaatctttccattcctggtttgttagcaagggtacaa Alignment from Spaln_aa2Genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGC-TCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatatgtggatggatcaaaatgaagatccccaccacccccataccccagGCGTATGCAGCCAACTGCTACCAGAAGCAGATGCTGTCCCAGTATGTGGAAAGCTTCACTGAAGGATCCATTGATGCCCATAAGAGGGGTcTCCCATTTCTGGATCCAGGACAAAGGCCCAGTTGTAAAGAGgtaggtcatcactcaatctttccattcctggtttgttagcaagggtacaa Alignment from Spaln_nt2Genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGG-CTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatatgtggatggatcaaaatgaagatccccaccacccccataccccagGCGTATGCAGCCAACTGCTACCAGAAGCAGATGCTGTCCCAGTATGTGGAAAGCTTCACTGAAGGATCCATTGATGCCCATAAGAGGGGTCTCCCATTTCTGGATCCAGGACAAAGGCCCAGTTGTAAAGAGgtaggtcatcactcaatctttccattcctggtttgttagcaagggtacaa Alignment from Pairagon GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGG-CTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatatgtggatggatcaaaatgaagatccccaccacccccataccccagGCGTATGCAGCCAACTGCTACCAGAAGCAGATGCTGTCCCAGTATGTGGAAAGCTTCACTGAAGGATCCATTGATGCCCATAAGAGGGGTCTCCCATTTCTGGATCCAGGACAAAGGCCCAGTTGTAAAGAGgtaggtcatcactcaatctttccattcctggtttgttagcaagggtacaa Alignment from Exonerate_protein2genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGC-TCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatatgtggatggatcaaaatgaagatccccaccacccccataccccagGCGTATGCAGCCAACTGCTACCAGAAGCAGATGCTGTCCCAGTATGTGGAAAGCTTCACTGAAGGATCCATTGATGCCCATAAGAGGGGTCTCCCATTTCTGGATCCAGGACAAAGGCCCAGTTGTAAAGAGgtaggtcatcactcaatctttccattcctggtttgttagcaagggtacaa Alignment from Exonerate_coding2genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGC-TCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatatgtggatggatcaaaatgaagatccccaccacccccataccccagGCGTATGCAGCCAACTGCTACCAGAAGCAGATGCTGTCCCAGTATGTGGAAAGCTTCACTGAAGGATCCATTGATGCCCATAAGAGGGGTCTCCCATTTCTGGATCCAGGACAAAGGCCCAGTTGTAAAGAGgtaggtcatcactcaatctttccattcctggtttgttagcaagggtacaa Alignment from GeneWise GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGC-TCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatatgtggatggatcaaaatgaagatccccaccacccccataccccagGCGTATGCAGCCAACTGCTACCAGAAGCAGATGCTGTCCCAGTATGTGGAAAGCTTCACTGAAGGATCCATTGATGCCCATAAGAGGGGTCTCCCATTTCTGGATCCAGGACAAAGGCCCAGTTGTAAAGAGgtaggtcatcactcaatctttccattcctggtttgttagcaagggtacaa #### Drap1_ID985_5 --> 1 - 0 Original Alignment CCTCGAag gGGCCGGAAACCGGGCAGC-AGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCACGAaggtgagggacttgggacctacattgtacctctttgtgattcagaGGCTGTAAACCAGGTAGCCAGTGGAAAAAAAAATGGCGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTGGGACAGATTCTGAACAAGAGgtgagaggactatctagtggcaagttatcatttttgttgccaaactgatt Alignment from CESAR CCTCGAag gGGCCGGAAACCGGGCAGC-AGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCACGAaggtcagtgacttgggacctacattgtacctctttgtgattcagaGGCTGTAAACCAGGTAGCCAGTGGAAAAAAAAATGGCGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTGGGACAGATTCTGAACAAGAGgtgagaggactatctagtggcaagttatcatttttgttgccaaactgatt Alignment from Spaln_aa2Genome CCTCGAAG GGGCCGGAAACCGGGCAGC-AGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCACGAAGgtgagggacttgggacctacattgtacctctttgtgattcagAGGCTGTAAACCAGGTAGCcAGTGGAAAAAAAAATGGCGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTGGGACAGATTCTGAACAAGAGgtgagaggactatctagtggcaagttatcatttttgttgccaaactgatt Alignment from Spaln_nt2Genome CCTCGAAG GGGCCGGAAACCGGGCAGC-AGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCACGAAGgtgagggacttgggacctacattgtacctctttgtgattcagAGGCTGTAAACCAGGTAGCCAGTGGAAAAAAAAATGGCGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTGGGACAGATTCTGAACAAGAGgtgagaggactatctagtggcaagttatcatttttgttgccaaactgatt Alignment from Pairagon CCTCGAAG GGGCCGGAAACCGGGCAG-CAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCACGAAGgtgagggacttgggacctacattgtacctctttgtgattcagAGGCTGTAAACCAGGTAGCCAGTGGAAAAAAAAATGGCGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTGGGACAGATTCTGAACAAGAGgtgagaggactatctagtggcaagttatcatttttgttgccaaactgatt Alignment from Exonerate_protein2genome CCTCGAAG GGGCCGGAAACCGGGCAGC-AGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCACGAAGgtgagggacttgggacctacattgtacctctttgtgattcagAGGCTGTAAACCAGGTAGCCAGTGGAAAAAAAAATGGCGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTGGGACAGATTCTGAACAAGAGgtgagaggactatctagtggcaagttatcatttttgttgccaaactgatt Alignment from Exonerate_coding2genome CCTCGAAGG CCACGAAGGtgagggacttgggacctacattgtacctctttgtgattcagaggctgtaaaccaggtagccagtggaaaaaaaaatggcggcacaggaagcaagggtaaagataaaaagctctctgggacagattctgaacaagaggtgagaggactatctagtggcaagttatcatttttgttgccaaactgatt Alignment from GeneWise TCGAAGGGGCCGGAAACCGGGCAGC---------------------------------------------AGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG ACGAA--GGTGAGGGACTTGGGACCTACATTGTACCTCTTTGTGATTCAGAGGCTGTAAACCAGGTAGCCAGTGGAAAAAAAAATGGCGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTGGGACAGATTCTGAACAAGAGgtgagaggactatctagtggcaagttatcatttttgttgccaaactgatt #### Drap1_ID988_2 --> 0 - 1 Original Alignment GCGCGGATCAAAAAGATCATG-CAGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCt cttcctccatatcttgggggtacagtgtgaccttgcactgtcccttctagACGCGGATCACAAAGATCATGCCAGACCGATGAAGAAATTGGAAAAGTTGCAGCTGCTGTACCAGTCATTATTtgtatccacctcaaggttattctgaggtggagttattccacacaaactttt Alignment from CESAR GCGCGGATCAAAAAGATCATG-CAGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCt cttcctccatatcttgggggtacagtgtgaccttgcactgtcccttctagACGCGGATCACAAAGATCATGCCAGACCGATGAAGAAATTGGAAAAGTTGCAGCTGCTGTACCAGTCATTATTtgtatccacctcaaggttattctgaggtggagttattccacaccagtggtg Alignment from Spaln_aa2Genome GCGCGGATCAAAAAGATCATG-CAGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCT cttcctccatatcttgggggtacagtgtgaccttgcactgtcccttctagACGCGGATCACAAAGATCATGcCAGACCGATGAAGAAATTGGAAAAGTTGCAGCTGCTGTACCAGTCATTATTTgtatccacctcaaggttattctgaggtggagttattccacacaaactttt Alignment from Spaln_nt2Genome GCGCGGATCAAAAAGATCATGC-AGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCT cttcctccatatcttgggggtacagtgtgaccttgcactgtcccttctagACGCGGATCACAAAGATCATGCCAGACCGATGAAGAAATTGGAAAAGTTGCAGCTGCTGTACCAGTCATTATTTgtatccacctcaaggttattctgaggtggagttattccacacaaactttt Alignment from Pairagon GCGCGGATCAAAAAGATCATGC-AGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCT-------------------------------------------------- cttcctccatatcttgggggtacagtgtgaccttgcactgtcccttctagACGCGGATCACAAAGATCATGCCAGACCGATGAAGAAATTGGAAAAGTTGCAGCTGCTGTACCAGTCATTATTTGTATCCACCTCAAGGTTATTCTGAGGTGGAGTTATTCCACACAAACTTTT Alignment from Exonerate_protein2genome GCGCGGATCAAAAAGATCATG-CAGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCT cttcctccatatcttgggggtacagtgtgaccttgcactgtcccttctagACGCGGATCACAAAGATCATGCCAGACCGATGAAGAAATTGGAAAAGTTGCAGCTGCTGTACCAGTCATTATTTgtatccacctcaaggttattctgaggtggagttattccacacaaactttt Alignment from Exonerate_coding2genome cttcctccatatcttgggggtacagtgtgaccttgcactgtcccttctagacgcggatcacaaagatcatgccagaccgatgaagaaattggaaaagttgcagctgctgtaccagtcattatttgtatccacctcaaggttattctgaggtggagttattccacacaaactttt Alignment from GeneWise CAGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCT cttcctccatatcttgggggtacagtgtgaccttgcactgtcccttctagacgcggatcacaaagatcatgcCAGACCGATGAAGAAATTGGAAAAGTTGCAGCTGCTGTACCAGTCATTATTTgtatccacctcaaggttattctgaggtggagttattccacacaaactttt #### Eef1g_ID2562_4 --> 2 - 0 Original Alignment taAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAG-GTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG cctgagactaagttgttatgtactaaatgactctgtgcttgtcttgtcagtgAGCAATGAGGAACTGCGAGGAAGCGCACCAGAGGCAGCAGCTCAGCATAGCACAGTGGGTTAGCTTTACAGACAGTGACATCGCTCCACCAGCAAGTACCTGGGTATTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgctaattatcagttgagaatggtaagtacacattttgtgagtcatt Alignment from CESAR taAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAG-GTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG cctgagactaagttgttatgtactaaatgactctgtgcttgtcttgtcagtgAGCAATGAGGAACTGCGAGGAAGCGCACCAGAGGCAGCAGCTCAGCATAGCACAGTGGGTTAGCTTTACAGACAGTGACATCGCTCCACCAGCAAGTACCTGGGTATTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgctaattatcagttgagaatggtaagtacacattttgtgagtcatt Alignment from Spaln_aa2Genome TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAG-GTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG cctgagactaagttgttatgtactaaatgactctgtgcttgtcttgtcagTGAGCAATGAGGAACTGCGAGGAAGCGCACCAGAGGCAGCAGCTCAGcATAGCACAGTGGGTTAGCTTTACAGACAGTGACATCGCTCCACCAGCAAGTACCTGGGTATTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgctaattatcagttgagaatggtaagtacacattttgtgagtcatt Alignment from Spaln_nt2Genome TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGG-TGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG cctgagactaagttgttatgtactaaatgactctgtgcttgtcttgtcagTGAGCAATGAGGAACTGCGAGGAAGCGCACCAGAGGCAGCAGCTCAGCATAGCACAGTGGGTTAGCTTTACAGACAGTGACATCGCTCCACCAGCAAGTACCTGGGTATTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgctaattatcagttgagaatggtaagtacacattttgtgagtcatt Alignment from Pairagon TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAG-GTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG cctgagactaagttgttatgtactaaatgactctgtgcttgtcttgtcagTGAGCAATGAGGAACTGCGAGGAAGCGCACCAGAGGCAGCAGCTCAGCATAGCACAGTGGGTTAGCTTTACAGACAGTGACATCGCTCCACCAGCAAGTACCTGGGTATTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgctaattatcagttgagaatggtaagtacacattttgtgagtcatt Alignment from Exonerate_protein2genome TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAG-GTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG cctgagactaagttgttatgtactaaatgactctgtgcttgtcttgtcagTGAGCAATGAGGAACTGCGAGGAAGCGCACCAGAGGCAGCAGCTCAGCATAGCACAGTGGGTTAGCTTTACAGACAGTGACATCGCTCCACCAGCAAGTACCTGGGTATTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgctaattatcagttgagaatggtaagtacacattttgtgagtcatt Alignment from Exonerate_coding2genome TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAG-GTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG cctgagactaagttgttatgtactaaatgactctgtgcttgtcttgtcagTGAGCAATGAGGAACTGCGAGGAAGCGCACCAGAGGCAGCAGCTCAGCATAGCACAGTGGGTTAGCTTTACAGACAGTGACATCGCTCCACCAGCAAGTACCTGGGTATTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgctaattatcagttgagaatggtaagtacacattttgtgagtcatt Alignment from GeneWise TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAG-GTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG cctgagactaagttgttatgtactaaatgactctgtgcttgtcttgtcagTGAGCAATGAGGAACTGCGAGGAAGCGCACCAGAGGCAGCAGCTCAGCATAGCACAGTGGGTTAGCTTTACAGACAGTGACATCGCTCCACCAGCAAGTACCTGGGTATTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgctaattatcagttgagaatggtaagtacacattttgtgagtcatt #### Efemp2_ID1032_5 --> 2 - 1 Original Alignment acATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGC-TCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGg gatacatccaagttggttggctaggctacaacctctgcctctcctcacagacATTGATGAGTGCCGTTACCACTATTGCCAGCATCGATGTGTGATCCTACCAGGCCTCGTTCCGATGTCAATGTGAGCCAGGTTTCCAATTAGGCCCTAACATTCGTTCTTGTGTGggtaaaacagcgtgtcccaaaggtctttaacctttgagtggaaccactatg Alignment from CESAR acATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGC-TCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGg gatacatccaagttggttggctaggctacaacctctgcctctcctcacagacATTGATGAGTGCCGTTACCACTATTGCCAGCATCGATGTGTGATCCTACCAGGCCTCGTTCCGATGTCAATGTGAGCCAGGTTTCCAATTAGGCCCTAACATTCGTTCTTGTGTGggtaaaacagcgtgtcccaaaggtctttaacctttgagtggaaccactatg Alignment from Spaln_aa2Genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGC-TCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttggttggctaggctacaacctctgcctctcctcacagACATTGATGAGTGCCGTTACCACTATTGCCAGCATCGATGTGTGATCCTACCAGGCcTCGTTCCGATGTCAATGTGAGCCAGGTTTCCAATTAGGCCCTAACATTCGTTCTTGTGTGGgtaaaacagcgtgtcccaaaggtctttaacctttgagtggaaccactatg Alignment from Spaln_nt2Genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGC-TCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttggttggctaggctacaacctctgcctctcctcacagACATTGATGAGTGCCGTTACCACTATTGCCAGCATCGATGTGTGATCCTACCAGGCCTCGTTCCGATGTCAATGTGAGCCAGGTTTCCAATTAGGCCCTAACATTCGTTCTTGTGTGGgtaaaacagcgtgtcccaaaggtctttaacctttgagtggaaccactatg Alignment from Pairagon ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGG-CTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttggttggctaggctacaacctctgcctctcctcacagACATTGATGAGTGCCGTTACCACTATTGCCAGCATCGATGTGTGATCCTACCAGGCCTCGTTCCGATGTCAATGTGAGCCAGGTTTCCAATTAGGCCCTAACATTCGTTCTTGTGTGGgtaaaacagcgtgtcccaaaggtctttaacctttgagtggaaccactatg Alignment from Exonerate_protein2genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGC-TCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttggttggctaggctacaacctctgcctctcctcacagACATTGATGAGTGCCGTTACCACTATTGCCAGCATCGATGTGTGATCCTACCAGGCCTCGTTCCGATGTCAATGTGAGCCAGGTTTCCAATTAGGCCCTAACATTCGTTCTTGTGTGGgtaaaacagcgtgtcccaaaggtctttaacctttgagtggaaccactatg Alignment from Exonerate_coding2genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGC-TCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttggttggctaggctacaacctctgcctctcctcacagACATTGATGAGTGCCGTTACCACTATTGCCAGCATCGATGTGTGATCCTACCAGGCCTCGTTCCGATGTCAATGTGAGCCAGGTTTCCAATTAGGCCCTAACATTCGTTCTTGTGTGGgtaaaacagcgtgtcccaaaggtctttaacctttgagtggaaccactatg Alignment from GeneWise ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGC-TCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttggttggctaggctacaacctctgcctctcctcacagACATTGATGAGTGCCGTTACCACTATTGCCAGCATCGATGTGTGATCCTACCAGGCCTCGTTCCGATGTCAATGTGAGCCAGGTTTCCAATTAGGCCCTAACATTCGTTCTTGTGTGGgtaaaacagcgtgtcccaaaggtctttaacctttgagtggaaccactatg #### Efemp2_ID1033_6 --> 2 - 1 Original Alignment atGTGAATGAGTGTGACATGGGAGCCCCA-TGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCg tgaaatccaaaactttcactttctatctctcttttgtgttgtctgtgtagatGTTAATGAATGTGACATGGGAGCACCTCTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTggtaccagtcaactgagatatcccctatatgctacacaacataaatttgtt Alignment from CESAR atGTGAATGAGTGTGACATGGGAGCCCCA-TGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCg tgaaatccaaaactttcactttctatctctcttttgtgttgtctgtgtagatGTTAATGAATGTGACATGGGAGCACCTCTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTggtaccagtcaactgagatatcccctatatgctacacaacataaatttgtt Alignment from Spaln_aa2Genome ATGTGAATGAGTGTGACATGGGAGCCCCA-TGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG tgaaatccaaaactttcactttctatctctcttttgtgttgtctgtgtagATGTTAATGAATGTGACATGGGAGCACCTcTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtaccagtcaactgagatatcccctatatgctacacaacataaatttgtt Alignment from Spaln_nt2Genome ATGTGAATGAGTGTGACATGGGAGC-CCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG tgaaatccaaaactttcactttctatctctcttttgtgttgtctgtgtagATGTTAATGAATGTGACATGGGAGCACCTCTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtaccagtcaactgagatatcccctatatgctacacaacataaatttgtt Alignment from Pairagon ATGTGAATGAGTGTGACATGGGAGC-CCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG tgaaatccaaaactttcactttctatctctcttttgtgttgtctgtgtagATGTTAATGAATGTGACATGGGAGCACCTCTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtaccagtcaactgagatatcccctatatgctacacaacataaatttgtt Alignment from Exonerate_protein2genome ATGTGAATGAGTGTGACATGGGAGCCCCA-TGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG tgaaatccaaaactttcactttctatctctcttttgtgttgtctgtgtagATGTTAATGAATGTGACATGGGAGCACCTCTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtaccagtcaactgagatatcccctatatgctacacaacataaatttgtt Alignment from Exonerate_coding2genome ATGTGAATGAGTGTGACATGGGAGCCCCA-TGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG tgaaatccaaaactttcactttctatctctcttttgtgttgtctgtgtagATGTTAATGAATGTGACATGGGAGCACCTCTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtaccagtcaactgagatatcccctatatgctacacaacataaatttgtt Alignment from GeneWise ATGTGAATGAGTGTGACATGGGAGCC-CCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG tgaaatccaaaactttcactttctatctctcttttgtgttgtctgtgtagATGTTAATGAATGTGACATGGGAGCACCTCTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTTTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCTGCAGTGgtaccagtcaactgagatatcccctatatgctacacaacataaatttgtt #### Efemp2_ID1034_7 --> 2 - 1 Original Alignment atATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGA-TTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAg tctcaaatttcctccatggccaatgactgactgtatggcctttctttcagatATTGATGAGTGTGGCTACTCCAGCTATCTTGGGCAATACCGCTGTATTAATGAACCAGGCCAACTTCTCCTGCCACTGTCCACAGGGCTACCAGCTGCTGGCAACTAGGCTCTGCCAAggtatttagcttgggccaacaaccaacagaattccagctctcactatgagt Alignment from CESAR atATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGA-TTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAg tctcaaatttcctccatggccaatgactgactgtatggcctttctttcagatATTGATGAGTGTGGCTACTCCAGCTATCTTGGGCAATACCGCTGTATTAATGAACCAGGCCAACTTCTCCTGCCACTGTCCACAGGGCTACCAGCTGCTGGCAACTAGGCTCTGCCAAggtatttagcttgggccaacaaccaacagaattccagctctcactatgagt Alignment from Spaln_aa2Genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGA-TTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaatttcctccatggccaatgactgactgtatggcctttctttcagATATTGATGAGTGTGGCTACTCCAGCTATCTTGGGCAATACCGCTGTATTAATGAACCAGGCCAAcTTCTCCTGCCACTGTCCACAGGGCTACCAGCTGCTGGCAACTAGGCTCTGCCAAGgtatttagcttgggccaacaaccaacagaattccagctctcactatgagt Alignment from Spaln_nt2Genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGA-TTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaatttcctccatggccaatgactgactgtatggcctttctttcagATATTGATGAGTGTGGCTACTCCAGCTATCTTGGGCAATACCGCTGTATTAATGAACCAGGCCAACTTCTCCTGCCACTGTCCACAGGGCTACCAGCTGCTGGCAACTAGGCTCTGCCAAGgtatttagcttgggccaacaaccaacagaattccagctctcactatgagt Alignment from Pairagon ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGA-TTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAGATATT--------------------------------------------- tctcaaatttcctccatggccaatgactgactgtatggcctttctttcagATATTGATGAGTGTGGCTACTCCAGCTATCTTGGGCAATACCGCTGTATTAATGAACCAGGCCAACTTCTCCTGCCACTGTCCACAGGGCTACCAGCTGCTGGCAACTAGGCTCTGCCAAGGTATTTAGCTTGGGCCAACAACCAACAGAATTCCAGCTCTCACTATGAGT Alignment from Exonerate_protein2genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGA-TTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaatttcctccatggccaatgactgactgtatggcctttctttcagATATTGATGAGTGTGGCTACTCCAGCTATCTTGGGCAATACCGCTGTATTAATGAACCAGGCCAACTTCTCCTGCCACTGTCCACAGGGCTACCAGCTGCTGGCAACTAGGCTCTGCCAAGgtatttagcttgggccaacaaccaacagaattccagctctcactatgagt Alignment from Exonerate_coding2genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGA-TTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaatttcctccatggccaatgactgactgtatggcctttctttcagATATTGATGAGTGTGGCTACTCCAGCTATCTTGGGCAATACCGCTGTATTAATGAACCAGGCCAACTTCTCCTGCCACTGTCCACAGGGCTACCAGCTGCTGGCAACTAGGCTCTGCCAAGgtatttagcttgggccaacaaccaacagaattccagctctcactatgagt Alignment from GeneWise ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGC-CGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaatttcctccatggccaatgactgactgtatggcctttctttcagATATTGATGAGTGTGGCTACTCCAGCTATCTTGGGCAATACCGCTGTATTAATGAACCAGGCCAACTTCTCCTGCCACTGTCCACAGGGCTACCAGCTGCTGGCAACTAGGCTCTGCCAAGgtatttagcttgggccaacaaccaacagaattccagctctcactatgagt #### Ehbp1l1_ID1217_18 --> 2 - 2 Original Alignment agTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGAC-CAGAAGGAACGGat tttttcatagtaggccagaaaggagcacttatttatttatttattcatagaaTGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCTCCTTGAGGGGCTTGTGTCTTTAGTGAACCAGAGGGAAGAGCTAGTTGGGGATTTAGATCCAGAAGGAGCAGgtgcaagtacatgcccaagtacaaaccttgaggatagcacctataaagaccc Alignment from CESAR agTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGAC-CAGAAGGAACGGat tttttcatagtaggccagaaaggagcacttatttatttatttattcatagaaTGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCTCCTTGAGGGGCTTGTGTCTTTAGTGAACCAGAGGGAAGAGCTAGTTGGGGATTTAGATCCAGAAGGAGCAGgtgcaagtacatgcccaagtacaaaccttgaggatagcacctataaagaccc Alignment from Spaln_aa2Genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGAC-CAGAAGGAACGGAT tttttcatagtaggccagaaaggagcacttatttatttatttattcatagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCTCCTTGAGGGGCTTGTGTCTTTAGTGAACCAGAGGGAAGAGCTAGTTGGGGATTTAGATcCAGAAGGAGCAGGTgcaagtacatgcccaagtacaaaccttgaggatagcacctataaagaccc Alignment from Spaln_nt2Genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGA-CCAGAAGGAACGGAT tttttcatagtaggccagaaaggagcacttatttatttatttattcatagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCTCCTTGAGGGGCTTGTGTCTTTAGTGAACCAGAGGGAAGAGCTAGTTGGGGATTTAGATCCAGAAGGAGCAGGTgcaagtacatgcccaagtacaaaccttgaggatagcacctataaagaccc Alignment from Pairagon AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGA-CCAGAAGGAACGGAT tttttcatagtaggccagaaaggagcacttatttatttatttattcatagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCTCCTTGAGGGGCTTGTGTCTTTAGTGAACCAGAGGGAAGAGCTAGTTGGGGATTTAGATCCAGAAGGAGCAGGTgcaagtacatgcccaagtacaaaccttgaggatagcacctataaagaccc Alignment from Exonerate_protein2genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGAC-CAGAAGGAACGGAT tttttcatagtaggccagaaaggagcacttatttatttatttattcatagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCTCCTTGAGGGGCTTGTGTCTTTAGTGAACCAGAGGGAAGAGCTAGTTGGGGATTTAGATCCAGAAGGAGCAGGTgcaagtacatgcccaagtacaaaccttgaggatagcacctataaagaccc Alignment from Exonerate_coding2genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGAC-CAGAAGGAACGGAT tttttcatagtaggccagaaaggagcacttatttatttatttattcatagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCTCCTTGAGGGGCTTGTGTCTTTAGTGAACCAGAGGGAAGAGCTAGTTGGGGATTTAGATCCAGAAGGAGCAGGTgcaagtacatgcccaagtacaaaccttgaggatagcacctataaagaccc Alignment from GeneWise AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGG- tttttcatagtaggccagaaaggagcacttatttatttatttattcatagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCTCCTTGAGGGGCTTGTGTCTTTAGTGAACCAGAGGGAAGAGCTAGTTGGGGATTTAGATCCAGAAGGAGCAGgtgcaagtacatgcccaagtacaaaccttgaggatagcacctataaagaccc #### Ehbp1l1_ID1220_15 --> 0 - 1 Original Alignment CAACGGTTCCAGGACACAAGTCAGTACGTG-TGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAg tgaggtttaggtgaggcaacctgtcctcccacctgcccacacctgcctagCATCGGTTACAGGACACAAGCCAGTATGTGCTGTGCAGAGCAACAAGCCCTTGAGCAGGAACAGGGACAGGTTGATGGCAGGGCCCCTGAAGTGCAGAGACAATTTCGGAGCCTGATGGAATCAggtatgcccccctagtttcatctgtgcttaaaacccaatacaattgagaca Alignment from CESAR CAACGGTTCCAGGACACAAGTCAGTACGTG-TGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAg tgaggtttaggtgaggcaacctgtcctcccacctgcccacacctgcctagCATCGGTTACAGGACACAAGCCAGTATGTGCTGTGCAGAGCAACAAGCCCTTGAGCAGGAACAGGGACAGGTTGATGGCAGGGCCCCTGAAGTGCAGAGACAATTTCGGAGCCTGATGGAATCAggtatgcccccctagtttcatctgtgcttaaaacccaatacaattgagaca Alignment from Spaln_aa2Genome CAACGGTTCCAGGACACAAGTCAGTACGTG-TGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG tgaggtttaggtgaggcaacctgtcctcccacctgcccacacctgcctagCATCGGTTACAGGACACAAGCCAGTATGTGcTGTGCAGAGCAACAAGCCCTTGAGCAGGAACAGGGACAGGTTGATGGCAGGGCCCCTGAAGTGCAGAGACAATTTCGGAGCCTGATGGAATCAGgtatgcccccctagtttcatctgtgcttaaaacccaatacaattgagaca Alignment from Spaln_nt2Genome CAACGGTTCCAGGACACAAGTCAGTACGTG-TGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG tgaggtttaggtgaggcaacctgtcctcccacctgcccacacctgcctagCATCGGTTACAGGACACAAGCCAGTATGTGCTGTGCAGAGCAACAAGCCCTTGAGCAGGAACAGGGACAGGTTGATGGCAGGGCCCCTGAAGTGCAGAGACAATTTCGGAGCCTGATGGAATCAGgtatgcccccctagtttcatctgtgcttaaaacccaatacaattgagaca Alignment from Pairagon CAACGGTTCCAGGACACAAGTCAGTACGTG-TGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG tgaggtttaggtgaggcaacctgtcctcccacctgcccacacctgcctagCATCGGTTACAGGACACAAGCCAGTATGTGCTGTGCAGAGCAACAAGCCCTTGAGCAGGAACAGGGACAGGTTGATGGCAGGGCCCCTGAAGTGCAGAGACAATTTCGGAGCCTGATGGAATCAGgtatgcccccctagtttcatctgtgcttaaaacccaatacaattgagaca Alignment from Exonerate_protein2genome CAACGGTTCCAGGACACAAGTCAGTACGTG-TGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG tgaggtttaggtgaggcaacctgtcctcccacctgcccacacctgcctagCATCGGTTACAGGACACAAGCCAGTATGTGCTGTGCAGAGCAACAAGCCCTTGAGCAGGAACAGGGACAGGTTGATGGCAGGGCCCCTGAAGTGCAGAGACAATTTCGGAGCCTGATGGAATCAGgtatgcccccctagtttcatctgtgcttaaaacccaatacaattgagaca Alignment from Exonerate_coding2genome CTGAGGAGTCATCACCCAGCCTGGGGGAAGAGACAGGCCTGCAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG tgaggtttagGTGAGGCAACCTGTCCTCCCACCTGCCCACACCTGCCTAGCATCGGTTACAGGACACAAGCCAGTATGTGCTGTGCAGAGCAACAAGCCCTTGAGCAGGAACAGGGACAGGTTGATGGCAGGGCCCCTGAAGTGCAGAGACAATTTCGGAGCCTGATGGAATCAGgtatgcccccctagtttcatctgtgcttaaaacccaatacaattgagaca Alignment from GeneWise CAACGGTTCCAGGACACAAGTCAGTAC-GTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG tgaggtttaggtgaggcaacctgtcctcccacctgcccacacctgcctagCATCGGTTACAGGACACAAGCCAGTATGTGCTGTGCAGAGCAACAAGCCCTTGAGCAGGAACAGGGACAGGTTGATGGCAGGGCCCCTGAAGTGCAGAGACAATTTCGGAGCCTGATGGAATCAGgtatgcccccctagtttcatctgtgcttaaaacccaatacaattgagaca #### Ehbp1l1_ID1221_14 --> 2 - 0 Original Alignment gtGGGCCCCCTCCTACT-GAGGAGTCATCACCCAGCCTGGGGGAAGAGACAGGCCTG tcagcagtggcaggatgggaatggtgatttgccactctttccttactcaggtGGGCCACCACCTACTCGAAAAGTCATCTCGTAGCTTGGAAGAAGAGACAGGGCTGgtgagtactgctacattgattggtggtccttgctttcctgaggtttaggt Alignment from CESAR gtGGGCCCCCTCCTACT-GAGGAGTCATCACCCAGCCTGGGGGAAGAGACAGGCCTG tcagcagtggcaggatgggaatggtgatttgccactctttccttactcaggtGGGCCACCACCTACTCGAAAAGTCATCTCGTAGCTTGGAAGAAGAGACAGGGCTGgtgagtactgctacattgattggtggtccttgctttcctgaggtttaggt Alignment from Spaln_aa2Genome GTGGGCCCCCTCCTACT-GAGGAGTCATCACCCAGCCTGGGGGAAGAGACAGGCCTG tcagcagtggcaggatgggaatggtgatttgccactctttccttactcagGTGGGCCACCACCTACTcGAAAAGTCATCTCGTAGCTTGGAAGAAGAGACAGGGCTGgtgagtactgctacattgattggtggtccttgctttcctgaggtttaggt Alignment from Spaln_nt2Genome GTGGGCCCCCTCCTACT-GAGGAGTCATCACCCAGCCTGGGGGAAGAGACAGGCCTG tcagcagtggcaggatgggaatggtgatttgccactctttccttactcagGTGGGCCACCACCTACTCGAAAAGTCATCTCGTAGCTTGGAAGAAGAGACAGGGCTGgtgagtactgctacattgattggtggtccttgctttcctgaggtttaggt Alignment from Pairagon GTGGGCCCCCTCCTACT-GAGGAGTCATCACCCAGCCTGGGGGAAGAGACAGGCCTG tcagcagtggcaggatgggaatggtgatttgccactctttccttactcagGTGGGCCACCACCTACTCGAAAAGTCATCTCGTAGCTTGGAAGAAGAGACAGGGCTGgtgagtactgctacattgattggtggtccttgctttcctgaggtttaggt Alignment from Exonerate_protein2genome GTGGGCCCCCTCCTACT-GAGGAGTCATCACCCAGCCTGGGGGAAGAGACAGGCCTG tcagcagtggcaggatgggaatggtgatttgccactctttccttactcagGTGGGCCACCACCTACTCGAAAAGTCATCTCGTAGCTTGGAAGAAGAGACAGGGCTGgtgagtactgctacattgattggtggtccttgctttcctgaggtttaggt Alignment from Exonerate_coding2genome tcagcagtggcaggatgggaatggtgatttgccactctttccttactcaggtgggccaccacctactcgaaaagtcatctcgtagcttggaagaagagacagggctggtgagtactgctacattgattggtggtccttgctttcctgaggtttaggt Alignment from GeneWise tcagcagtggcaggatgggaatggtgatttgccactctttccttactcaggtgggccaccacctactcgaaaagtcatctcgtagcttggaagaagagacagggctggtgagtactgctacattgattggtggtccttgctttcctgaggtttaggt #### Ehbp1l1_ID1229_6 --> 1 - 1 Original Alignment gGATGATGACATG-CAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAg ctagttcctcaatcatagatgataggctcggcctgtttcttcctctccagaGACGATGATATGCCAAAGTCTTGCCAGTCTCATGAGTGTGAGACCTAGTGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGAGGCCCCCAGTCAggtaaacatactcttattcaagttgcaggtacttgtggtggatacttgtgc Alignment from CESAR gGATGATGACATG-CAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAg ctagttcctcaatcatagatgataggctcggcctgtttcttcctctccagaGACGATGATATGCCAAAGTCTTGCCAGTCTCATGAGTGTGAGACCTAGTGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGAGGCCCCCAGTCAggtaaacatactcttattcaagttgcaggtacttgtggtggatacttgtgc Alignment from Spaln_aa2Genome GGATGATGACATG-CAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG ctagttcctcaatcatagatgataggctcggcctgtttcttcctctccagAGACGATGATATGcCAAAGTCTTGCCAGTCTCATGAGTGTGAGACCTAGTGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGAGGCCCCCAGTCAGgtaaacatactcttattcaagttgcaggtacttgtggtggatacttgtgc Alignment from Spaln_nt2Genome GGATGATGACATGC-AGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG ctagttcctcaatcatagatgataggctcggcctgtttcttcctctccagAGACGATGATATGCCAAAGTCTTGCCAGTCTCATGAGTGTGAGACCTAGTGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGAGGCCCCCAGTCAGgtaaacatactcttattcaagttgcaggtacttgtggtggatacttgtgc Alignment from Pairagon GGATGATGACATG-CAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG ctagttcctcaatcatagatgataggctcggcctgtttcttcctctccagAGACGATGATATGCCAAAGTCTTGCCAGTCTCATGAGTGTGAGACCTAGTGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGAGGCCCCCAGTCAGgtaaacatactcttattcaagttgcaggtacttgtggtggatacttgtgc Alignment from Exonerate_protein2genome ctagttcctcaatcatagatgataggctcggcctgtttcttcctctccagagacgatgatatgccaaagtcttgccagtctcatgagtgtgagacctagtgatgtgggaaacctggatgactttgctgagagtgatgaggaggaagctaatggccctggggctcctgaggttcagaccagaggcccccagtcaggtaaacatactcttattcaagttgcaggtacttgtggtggatacttgtgc Alignment from Exonerate_coding2genome ctagttcctcaatcatagatgataggctcggcctgtttcttcctctccagagacgatgatatgccaaagtcttgccagtctcatgagtgtgagacctagtgatgtgggaaacctggatgactttgctgagagtgatgaggaggaagctaatggccctggggctcctgaggttcagaccagaggcccccagtcaggtaaacatactcttattcaagttgcaggtacttgtggtggatacttgtgc Alignment from GeneWise GGATGATGACATG-CAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG ctagttcctcaatcatagatgataggctcggcctgtttcttcctctccagAGACGATGATATGCCAAAGTCTTGCCAGTCTCATGAGTGTGAGACCTAGTGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGAGGCCCCCAGTCAGgtaaacatactcttattcaagttgcaggtacttgtggtggatacttgtgc #### Ehbp1l1_ID1230_5 --> 0 - 2 Original Alignment GAGTCCAAGGGACAGCGGAAGGTACTGGCCACA-GTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCac tacaacagcccatcttcacatttctcccccctctctccgcccatcttcagGAGTCAAAAGGACAGCGGAAAGTTTTAGCTGCACGTGGGTGTCATT------CATCATGCAGGTCCCCTACCTGGCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTACACGCTGAGCTTACCCTCACACTCGCTGTC---CTTCTACAAGAAGGCCGTGCCatgcaagcgtacctttgtgcaggcagttttacagtgaggctgggcagcatgc Alignment from CESAR GAGTCCAAGGGACAGCGGAAGGTACTGGCCACA-GTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCac tacaacagcccatcttcacatttctcccccctctctccgcccatcttcagGAGTCAAAAGGACAGCGGAAAGTTTTAGCTGCACGTGGGTGTC------ATTCATCATGCAGGTCCCCTACCTGGCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTACACGCTGAGCTTACCCTCACACTCGCT---GTCCTTCTACAAGAAGGCCGTGCCatgcaagcgtacctttgtgcaggcagttttacagtgaggctgggcagcatgc Alignment from Spaln_aa2Genome GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC tacaacagcccatcttcacatttctcccccctctctccgcccatcttcagGAGTCAAAAGGACAGCGGAAAGTTTTAGCTGCAC-----GTGGGTGTCATTCATCATGCAGGTCCCCTACCTGGCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTACACGCTGAGCTTACCCTCACACTCGCT---GTCCTTCTACAAGAAGGCCGTGCCATgcaagcgtacctttgtgcaggcagttttacagtgaggctgggcagcatgc Alignment from Spaln_nt2Genome GAGTCCAAGGGACAGCGGAAGGTACTGGCCACA-GTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC tacaacagcccatcttcacatttctcccccctctctccgcccatcttcagGAGTCAAAAGGACAGCGGAAAGTTTTAGCTGCACGTGGGTGTCA------TTCATCATGCAGGTCCCCTACCTGGCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTACACGCTGAGCTTACCCTCACACTCGCT---GTCCTTCTACAAGAAGGCCGTGCCATgcaagcgtacctttgtgcaggcagttttacagtgaggctgggcagcatgc Alignment from Pairagon GAGTCCAAGGGACAGCGGAAGGT--------------------ACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC tacaacagcccatcttcacatttctcccccctctctccgcccatcttcagGAGTCAAAAGGACAGCGGAAAGTTTTAGCTGCACGTGGGTGTCATT-------------------------CATCATGCAGGTCCCCTACCTGGCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTACACGCTGAGCTTACCCTCACACTCGCT---GTCCTTCTACAAGAAGGCCGTGCCATgcaagcgtacctttgtgcaggcagttttacagtgaggctgggcagcatgc Alignment from Exonerate_protein2genome tacaacagcccatcttcacatttctcccccctctctccgcccatcttcaggagtcaaaaggacagcggaaagttttagctgcacgtgggtgtcattcatcatgcaggtcccctacctggccagatctcacttcaattgcggcagaagcccaagtccatcaaagttgtacacgctgagcttaccctcacactcgctgtccttctacaagaaggccgtgccatgcaagcgtacctttgtgcaggcagttttacagtgaggctgggcagcatgc Alignment from Exonerate_coding2genome tacaacagcccatcttcacatttctcccccctctctccgcccatcttcaggagtcaaaaggacagcggaaagttttagctgcacgtgggtgtcattcatcatgcaggtcccctacctggccagatctcacttcaattgcggcagaagcccaagtccatcaaagttgtacacgctgagcttaccctcacactcgctgtccttctacaagaaggccgtgccatgcaagcgtacctttgtgcaggcagttttacagtgaggctgggcagcatgc Alignment from GeneWise GAGTCCAAGGGACAGCGGAAGGTACTGGCC-ACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCC------AC tacaacagcccatcttcacatttctcccccctctctccgcccatcttcagGAGTCAAAAGGACAGCGGAAAGTTTTAGCTGCACGTGGGTGTC------ATTCATCATGCAGGTCCCCTACCTGGCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTACACGCTGAGCTTACCCTCACACTCGCT---GTCCTTCTACAAGAAGGCCGTGCCATGCAAGCgtacctttgtgcaggcagttttacagtgaggctgggcagcatgc #### Eif1ad_ID950_3 --> 2 - 2 Original Alignment ggGATTTCCTCATTGTT-GACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACtg aatgatgcatcatgctgctctacacaaaaagctcttgtaattgtttatagggGACTTTCTCATTGTTCGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGATTTTGTTTGTACTCTGCAAGAACCATGTCCACACCCTGCAAAAGGAGGGCCAAtggtgagccagtctccctgtgcccctgctcagtgaagtagttaggttgtcga Alignment from CESAR ggGATTTCCTCATTGTT-GACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACtg aatgatgcatcatgctgctctacacaaaaagctcttgtaattgtttatagggGACTTTCTCATTGTTCGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGATTTTGTTTGTACTCTGCAAGAACCATGTCCACACCCTGCAAAAGGAGGGCCAAtggtgagccagtctccctgtgcccctgctcagtgaagtagttaggttgtcga Alignment from Spaln_aa2Genome GGGATTTCCTCATTGTT-GACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aatgatgcatcatgctgctctacacaaaaagctcttgtaattgtttatagGGGACTTTCTCATTGTTcGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGATTTTGTTTGTACTCTGCAAGAACCATGTCCACACCCTGCAAAAGGAGGGCCAATGgtgagccagtctccctgtgcccctgctcagtgaagtagttaggttgtcga Alignment from Spaln_nt2Genome GGGATTTCCTCATTGTT-GACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aatgatgcatcatgctgctctacacaaaaagctcttgtaattgtttatagGGGACTTTCTCATTGTTCGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGATTTTGTTTGTACTCTGCAAGAACCATGTCCACACCCTGCAAAAGGAGGGCCAATGgtgagccagtctccctgtgcccctgctcagtgaagtagttaggttgtcga Alignment from Pairagon GGGATTTCCTCATTGTT-GACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aatgatgcatcatgctgctctacacaaaaagctcttgtaattgtttatagGGGACTTTCTCATTGTTCGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGATTTTGTTTGTACTCTGCAAGAACCATGTCCACACCCTGCAAAAGGAGGGCCAATGgtgagccagtctccctgtgcccctgctcagtgaagtagttaggttgtcga Alignment from Exonerate_protein2genome GGGATTTCCTCATTGTT-GACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aatgatgcatcatgctgctctacacaaaaagctcttgtaattgtttatagGGGACTTTCTCATTGTTCGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGATTTTGTTTGTACTCTGCAAGAACCATGTCCACACCCTGCAAAAGGAGGGCCAATGgtgagccagtctccctgtgcccctgctcagtgaagtagttaggttgtcga Alignment from Exonerate_coding2genome GGGATTTCCTCATTGTT-GACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aatgatgcatcatgctgctctacacaaaaagctcttgtaattgtttatagGGGACTTTCTCATTGTTCGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGATTTTGTTTGTACTCTGCAAGAACCATGTCCACACCCTGCAAAAGGAGGGCCAATGgtgagccagtctccctgtgcccctgctcagtgaagtagttaggttgtcga Alignment from GeneWise GGGATTTCCTCATTGTT-GACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aatgatgcatcatgctgctctacacaaaaagctcttgtaattgtttatagGGGACTTTCTCATTGTTCGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGATTTTGTTTGTACTCTGCAAGAACCATGTCCACACCCTGCAAAAGGAGGGCCAATGgtgagccagtctccctgtgcccctgctcagtgaagtagttaggttgtcga #### Eif3a_ID13320_10 --> 0 - 0 Original Alignment GTGGCACAGATTTATCAGAGCATTGAGTTT-TCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccttgttgctattttgttttctagGTGGCACAGATTTATCAGAGCATTGAGTTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTGATGCTTTTCAACTGGAGCGGGCAATAGTAGATGCAGCCCGGCACTGTGACCTGCAGgtaagatttacagatatggtttgcattgtatgacctgtaaaattagttct Alignment from CESAR GTGGCACAGATTTATCAGAGCATTGAGTTT-TCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccttgttgctattttgttttctagGTGGCACAGATTTATCAGAGCATTGAGTTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTGATGCTTTTCAACTGGAGCGGGCAATAGTAGATGCAGCCCGGCACTGTGACCTGCAGgtaagatttacagatatggtttgcattgtatgacctgtaaaattagttct Alignment from Spaln_aa2Genome GTGGCACAGATTTATCAGAGCATTGAG-TTTTCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccttgttgctattttgttttctagGTGGCACAGATTTATCAGAGCATTGAGtTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTGATGCTTTTCAACTGGAGCGGGCAATAGTAGATGCAGCCCGGCACTGTGACCTGCAGgtaagatttacagatatggtttgcattgtatgacctgtaaaattagttct Alignment from Spaln_nt2Genome GTGGCACAGATTTATCAGAGCATTGAGTTT-TCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccttgttgctattttgttttctagGTGGCACAGATTTATCAGAGCATTGAGTTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTGATGCTTTTCAACTGGAGCGGGCAATAGTAGATGCAGCCCGGCACTGTGACCTGCAGgtaagatttacagatatggtttgcattgtatgacctgtaaaattagttct Alignment from Pairagon GTGGCACAGATTTATCAGAGCATTGAGTTT-TCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccttgttgctattttgttttctagGTGGCACAGATTTATCAGAGCATTGAGTTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTGATGCTTTTCAACTGGAGCGGGCAATAGTAGATGCAGCCCGGCACTGTGACCTGCAGgtaagatttacagatatggtttgcattgtatgacctgtaaaattagttct Alignment from Exonerate_protein2genome GTGGCACAGATTTATCAGAGCATTGAG-TTTTCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccttgttgctattttgttttctagGTGGCACAGATTTATCAGAGCATTGAGTTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTGATGCTTTTCAACTGGAGCGGGCAATAGTAGATGCAGCCCGGCACTGTGACCTGCAGgtaagatttacagatatggtttgcattgtatgacctgtaaaattagttct Alignment from Exonerate_coding2genome GTGGCACAGATTTATCAGAGCATTGAG-TTTTCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccttgttgctattttgttttctagGTGGCACAGATTTATCAGAGCATTGAGTTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTGATGCTTTTCAACTGGAGCGGGCAATAGTAGATGCAGCCCGGCACTGTGACCTGCAGgtaagatttacagatatggtttgcattgtatgacctgtaaaattagttct Alignment from GeneWise GATTTATCAGAGCATTGAGTTTTCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccttgttgctattttgttttctaggtggcacagATTTATCAGAGCATTGAGTTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTGATGCTTTTCAACTGGAGCGGGCAATAGTAGATGCAGCCCGGCACTGTGACCTGCAGgtaagatttacagatatggtttgcattgtatgacctgtaaaattagttct #### Eml3_ID2503_3 --> 1 - 2 Original Alignment cAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTG-GAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACac gCCCCGAAGAAATTCTTCCTCCTCC gtacgttgagtaagtagaattatcccaatttgatgtgtttgtccctctagcAGCATAACAGTCCCACCGGGGCGGCCACCAATCAGTAGTCCTTCCCTGCTTACAAAAGGCACACAAACTAAAGAAGAGTTGCGAGATTGTTCCTTCCTCTGGACCACCTGGTCTAAGCAATGGCCCACCAGCTCTACAAGGGAGCAGCAAAGAACCTACTGGAATCCAATTACAAGGTGGTTGCCGCAGCAGTAGTGGATCAGGCTCACCAGGGCCTCCAGGAATCCTCAGGCCGGTGCAGCCGCTTGAATGTTCAGATacgtttcctgtcctcccaccccctcagaCCCCGAAGAAATTCTTTGTCCTCA Alignment from CESAR cAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTG-GAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACac gCCCCGAAGAAATTCTTCCTCCTCC gtaagatgagtaagtagaattatcccaatttgatgtgtttgtccctctagcAGCATAACAGTCCCACCGGGGCGGCCACCAATCAGTAGTCCTTCCCTGCTTACAAAAGGCACACAAACTAAAGAAGAGTTGCGAGATTGTTCCTTCCTCTGGACCACCTGGTCTAAGCAATGGCCCACCAGCTCTACAAGGGAGCAGCAAAGAACCTACTGGAATCCAATTACAAGGTGGTTGCCGCAGCAGTAGTGGATCAGGCTCACCAGGGCCTCCAGGAATCCTCAGGCCGGTGCAGCCGCTTGAATGTTCAGATacgtgaatgtccttttcctttgtatagaCCCCGAAGAAATTCTTTGTCCTCA Alignment from Spaln_aa2Genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTG-GAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACACG-------------------------CCCCGAAGAAATTCTTCCTCCTCC gtacgttgagtaagtagaattatcccaatttgatgtgtttgtccctctagCAGCATAACAGTCCCACCGGGGCGGCCACCAATCAGTAGTCCTTCCCTGCTTACAAAAGGCACACAAACTAAAGAAGAGTTGcGAGATTGTTCCTTCCTCTGGACCACCTGGTCTAAGCAATGGCCCACCAGCTCTACAAGGGAGCAGCAAAGAACCTACTGGAATCCAATTACAAGGTGGTTGCCGCAGCAGTAGTGGATCAGGCTCACCAGGGCCTCCAGGAATCCTCAGGCCGGTGCAGCCGCTTGAATGTTCAGATACGTTTCCTGTCCTCCCACCCCCTCAGaCCCCGAAGAAATTCTTTGTCCTCA Alignment from Spaln_nt2Genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTG-GAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGAC ACGCCCCGAAGAAATTCTTCCTCCT gtacgttgagtaagtagaattatcccaatttgatgtgtttgtccctctagCAGCATAACAGTCCCACCGGGGCGGCCACCAATCAGTAGTCCTTCCCTGCTTACAAAAGGCACACAAACTAAAGAAGAGTTGCGAGATTGTTCCTTCCTCTGGACCACCTGGTCTAAGCAATGGCCCACCAGCTCTACAAGGGAGCAGCAAAGAACCTACTGGAATCCAATTACAAGGTGGTTGCCGCAGCAGTAGTGGATCAGGCTCACCAGGGCCTCCAGGAATCCTCAGGCCGGTGCAGCCGCTTGA--------ATgttcagatacgtttcctgtcctcccaccccctcagA--CCCCGAAGAAATTCTTTGTCCT Alignment from Pairagon CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTG-GAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACACG-------------------------CCCCGAAGAAATTCTTCCTCCTCC gtacgttgagtaagtagaattatcccaatttgatgtgtttgtccctctagCAGCATAACAGTCCCACCGGGGCGGCCACCAATCAGTAGTCCTTCCCTGCTTACAAAAGGCACACAAACTAAAGAAGAGTTGCGAGATTGTTCCTTCCTCTGGACCACCTGGTCTAAGCAATGGCCCACCAGCTCTACAAGGGAGCAGCAAAGAACCTACTGGAATCCAATTACAAGGTGGTTGCCGCAGCAGTAGTGGATCAGGCTCACCAGGGCCTCCAGGAATCCTCAGGCCGGTGCAGCCGCTTGAATGTTCAGATACGTTTCCTGTCCTCCCACCCCCTCAGACCCCGAAGAAATTCTTTGTCCTCA Alignment from Exonerate_protein2genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTG-GAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACAC GCCCCGAAGAAATTCTTCC gtacgttgagtaagtagaattatcccaatttgatgtgtttgtccctctagCAGCATAACAGTCCCACCGGGGCGGCCACCAATCAGTAGTCCTTCCCTGCTTACAAAAGGCACACAAACTAAAGAAGAGTTGCGAGATTGTTCCTTCCTCTGGACCACCTGGTCTAAGCAATGGCCCACCAGCTCTACAAGGGAGCAGCAAAGAACCTACTGGAATCCAATTACAAGGTGGTTGCCGCAGCAGTAGTGGATCAGGCTCACCAGGGCCTCCAGGAATCCTCAGGCCGGTGCAGCCGCTTGAATGTTCAGATACgtttcctgtcctcccaccccctcagaccccgAAGAAATTCTTTGTCCTCA Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAA-TTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACACG---------------------------CCCCGAAGAAATTCTTCCTCCT gtacgttgagtaagtagaattatcccaatttgatgtgtttgtccctctagCAGCATAACAGTCCCACCGGGGCGGCCACCAATCAGTAGTCCTTCCCTGCTTACAAAAGGCACACAAACTAAAGAAGAGTTGCGAGATTGTTCCTTCCTCTGGACCACCTGGTCTAAGCAATGGCCCACCAGCTCTACAAGGGAGCAGCAAAGAACCTACTGGAATCCAATTACAAGGTGGTTGCCGCAGCAGTAGTGGATCAGGCTCACCAGGGCCTCCAGGAATCCTCAGGCCGGTGCAGCCGCTTGAATGTTCAGATACGTTTCCTGTCCTCCCACCCC--CTCAGACCCCGAAGAAATTCTTTGTCCT #### Eml3_ID2507_6 --> 2 - 2 Original Alignment aaGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAG-ACCCTGAGCCTCGACTGGgt gcgccaagtgctctcccaaaataagggtttccagttttctctcctctcagaaGGGATCTCAGTGAAGATCTTCCTTTGTGGCCGTCCCATTACAATGTACATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTACCTAGTGGCCCACCACCGGAGCACCTTGACCCTTGAATGGgtgtaaagggttgagactgtcacacacaacagaaaggcttgcatttttgtgg Alignment from CESAR aaGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAG-ACCCTGAGCCTCGACTGGgt gcgccaagtgctctcccaaaataagggtttccagttttctctcctctcagaaGGGATCTCAGTGAAGATCTTCCTTTGTGGCCGTCCCATTACAATGTACATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTACCTAGTGGCCCACCACCGGAGCACCTTGACCCTTGAATGGgtgtaaagggttgagactgtcacacacaacagaaaggcttgcatttttgtgg Alignment from Spaln_aa2Genome AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAG-ACCCTGAGCCTCGACTGGGT gcgccaagtgctctcccaaaataagggtttccagttttctctcctctcagAAGGGATCTCAGTGAAGATCTTCCTTTGTGGCCGTCCCATTACAATGTACATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTACCTAGTGGCCCACCACCGGAGcACCTTGACCCTTGAATGGGTgtaaagggttgagactgtcacacacaacagaaaggcttgcatttttgtgg Alignment from Spaln_nt2Genome AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAG-ACCCTGAGCCTCGACTGGGT gcgccaagtgctctcccaaaataagggtttccagttttctctcctctcagAAGGGATCTCAGTGAAGATCTTCCTTTGTGGCCGTCCCATTACAATGTACATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTACCTAGTGGCCCACCACCGGAGCACCTTGACCCTTGAATGGGTgtaaagggttgagactgtcacacacaacagaaaggcttgcatttttgtgg Alignment from Pairagon AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAG-ACCCTGAGCCTCGACTGGGT gcgccaagtgctctcccaaaataagggtttccagttttctctcctctcagAAGGGATCTCAGTGAAGATCTTCCTTTGTGGCCGTCCCATTACAATGTACATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTACCTAGTGGCCCACCACCGGAGCACCTTGACCCTTGAATGGGTgtaaagggttgagactgtcacacacaacagaaaggcttgcatttttgtgg Alignment from Exonerate_protein2genome AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAG-ACCCTGAGCCTCGACTGGGT gcgccaagtgctctcccaaaataagggtttccagttttctctcctctcagAAGGGATCTCAGTGAAGATCTTCCTTTGTGGCCGTCCCATTACAATGTACATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTACCTAGTGGCCCACCACCGGAGCACCTTGACCCTTGAATGGGTgtaaagggttgagactgtcacacacaacagaaaggcttgcatttttgtgg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAG-ACCCTGAGCCTCGACTGGGT gcgccaagtgctctcccaaaataagggtttccagttttctctcctctcagAAGGGATCTCAGTGAAGATCTTCCTTTGTGGCCGTCCCATTACAATGTACATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTACCTAGTGGCCCACCACCGGAGCACCTTGACCCTTGAATGGGTgtaaagggttgagactgtcacacacaacagaaaggcttgcatttttgtgg #### Eml3_ID2508_7 --> 1 - 2 Original Alignment tTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCT-GGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGAtg ttacttctgctaacccccccccatagcctcatgtgtgcttatgattgcagtTATGGATATAGAGGTCAGGATTCTTGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACTTTATTGCCTGTGTAGTCGTACTGTACCGGCCACGGAGGAGGTCCAGGCGGGCCAGGAGGTGGTAGCCAGAGACATTATCGGGGCCACACAGACTGTATTCGAtggtaaggaccgtcatagtggtaaacacttgattcatgttgacttcaaggaa Alignment from CESAR tTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCT-GGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGAtg ttacttctgctaacccccccccatagcctcatgtgtgcttatgattgcagtTATGGATATAGAGGTCAGGATTCTTGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACTTTATTGCCTGTGTAGTCGTACTGTACCGGCCACGGAGGAGGTCCAGGCGGGCCAGGAGGTGGTAGCCAGAGACATTATCGGGGCCACACAGACTGTATTCGAtggtaaggaccgtcatagtggtaaacacttgattcatgttgacttcaaggaa Alignment from Spaln_aa2Genome TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCT-GGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttacttctgctaacccccccccatagcctcatgtgtgcttatgattgcagTTATGGATATAGAGGTCAGGATTCTTGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACTTTATTGCCTGTGTAGTCGTACTGTACCGGCCAcGGAGGAGGTCCAGGCGGGCCAGGAGGTGGTAGCCAGAGACATTATCGGGGCCACACAGACTGTATTCGATGgtaaggaccgtcatagtggtaaacacttgattcatgttgacttcaaggaa Alignment from Spaln_nt2Genome TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGG-GGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttacttctgctaacccccccccatagcctcatgtgtgcttatgattgcagTTATGGATATAGAGGTCAGGATTCTTGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACTTTATTGCCTGTGTAGTCGTACTGTACCGGCCACGGAGGAGGTCCAGGCGGGCCAGGAGGTGGTAGCCAGAGACATTATCGGGGCCACACAGACTGTATTCGATGgtaaggaccgtcatagtggtaaacacttgattcatgttgacttcaaggaa Alignment from Pairagon TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCC-TGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttacttctgctaacccccccccatagcctcatgtgtgcttatgattgcagTTATGGATATAGAGGTCAGGATTCTTGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACTTTATTGCCTGTGTAGTCGTACTGTACCGGCCACGGAGGAGGTCCAGGCGGGCCAGGAGGTGGTAGCCAGAGACATTATCGGGGCCACACAGACTGTATTCGATGgtaaggaccgtcatagtggtaaacacttgattcatgttgacttcaaggaa Alignment from Exonerate_protein2genome TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCT-GGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttacttctgctaacccccccccatagcctcatgtgtgcttatgattgcagTTATGGATATAGAGGTCAGGATTCTTGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACTTTATTGCCTGTGTAGTCGTACTGTACCGGCCACGGAGGAGGTCCAGGCGGGCCAGGAGGTGGTAGCCAGAGACATTATCGGGGCCACACAGACTGTATTCGATGgtaaggaccgtcatagtggtaaacacttgattcatgttgacttcaaggaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCT-GGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttacttctgctaacccccccccatagcctcatgtgtgcttatgattgcagTTATGGATATAGAGGTCAGGATTCTTGCTCAAATTTATTTGTGCTACGCCCTGGTGATGTTGTCTACTTTATTGCCTGTGTAGTCGTACTGTACCGGCCACGGAGGAGGTCCAGGCGGGCCAGGAGGTGGTAGCCAGAGACATTATCGGGGCCACACAGACTGTATTCGATGgtaaggaccgtcatagtggtaaacacttgattcatgttgacttcaaggaa #### Eml3_ID2510_9 --> 0 - 0 Original Alignment CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGA-GGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagtttcctatcgttctagtggaattcttttctctacagCCCCTGCAGCCGGTGGTTCACACCTGGGACTCAGAAACACTCCTAAAACTGCAGGAAATTGGCCTGGGTGCATCTGAGCGGCGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtaaaccagggatggcaacatgtgtgtgaccccattgtcttgtttattaa Alignment from CESAR CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGA-GGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagtttcctatcgttctagtggaattcttttctctacagCCCCTGCAGCCGGTGGTTCACACCTGGGACTCAGAAACACTCCTAAAACTGCAGGAAATTGGCCTGGGTGCATCTGAGCGGCGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtaaaccagggatggcaacatgtgtgtgaccccattgtcttgtttattaa Alignment from Spaln_aa2Genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGA-GGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagtttcctatcgttctagtggaattcttttctctacagCCCCTGCAGCCGGTGGTTCACACCTGGGACTCAGAAACACTCCTAAAACTGCAGGAAATTGGCCTGGGTGCATCTGAGCGGcGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtaaaccagggatggcaacatgtgtgtgaccccattgtcttgtttattaa Alignment from Spaln_nt2Genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGA-GGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagtttcctatcgttctagtggaattcttttctctacagCCCCTGCAGCCGGTGGTTCACACCTGGGACTCAGAAACACTCCTAAAACTGCAGGAAATTGGCCTGGGTGCATCTGAGCGGCGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtaaaccagggatggcaacatgtgtgtgaccccattgtcttgtttattaa Alignment from Pairagon CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGA-GGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagtttcctatcgttctagtggaattcttttctctacagCCCCTGCAGCCGGTGGTTCACACCTGGGACTCAGAAACACTCCTAAAACTGCAGGAAATTGGCCTGGGTGCATCTGAGCGGCGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtaaaccagggatggcaacatgtgtgtgaccccattgtcttgtttattaa Alignment from Exonerate_protein2genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGA-GGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gatcattgatcaagtttcctatcgttctagtggaattcttttctctacagCCCCTGCAGCCGGTGGTTCACACCTGGGACTCAGAAACACTCCTAAAACTGCAGGAAATTGGCCTGGGTGCATCTGAGCGGCGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtaaaccagggatggcaacatgtgtgtgaccccattgtcttgtttattaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise --------------------------------------------------CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAG-CGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG GATCATTGATCAAGTTTCCTATCGTTCTAGTGGAATTCTTTTCTCTACAGCCCCTGCAGCCGGTGGTTCACACCTGGGACTCAGAAACACTCCTAAAACTGCAGGAAATTGGCCTGGGTGCATCTGAGCGGCGGTGTAGGGGCCTTGGCATTTTCAGCAGCAgtaaaccagggatggcaacatgtgtgtgaccccattgtcttgtttattaa #### Eml3_ID2513_12 --> 0 - 1 Original Alignment AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGG-AACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAg gtgttccatttattccacatgcctttaactgctcccctcatttcttccagAAGGACAAAAAACCTAAATTTAGCCCATGCTTTATATTCTTGCCTGATGGAGATATCCTAACTGGGGACTCTGAGGGACAATATACTTACCTGGGACCAGAGTATCTCAGATTTGAGGATGATAGGCAGGGGAGGAGCAAAAggtaagataaggcacccctaaactaatagtaactgatggcaatggaaaatg Alignment from CESAR AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGG-AACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAg gtgttccatttattccacatgcctttaactgctcccctcatttcttccagAAGGACAAAAAACCTAAATTTAGCCCATGCTTTATATTCTTGCCTGATGGAGATATCCTAACTGGGGACTCTGAGGGACAATATACTTACCTGGGACCAGAGTATCTCAGATTTGAGGATGATAGGCAGGGGAGGAGCAAAAggtaagataaggcacccctaaactaatagtaactgatggcaatggaaaatg Alignment from Spaln_aa2Genome AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGG-AACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAG gtgttccatttattccacatgcctttaactgctcccctcatttcttccagAAGGACAAAAAACCTAAATTTAGCCCATGCTTTATATTCTTGCCTGATGGAGATATCCTAACTGGGGACTCTGAGGGAcAATATACTTACCTGGGACCAGAGTATCTCAGATTTGAGGATGATAGGCAGGGGAGGAGCAAAAGgtaagataaggcacccctaaactaatagtaactgatggcaatggaaaatg Alignment from Spaln_nt2Genome AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGG-AACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAG gtgttccatttattccacatgcctttaactgctcccctcatttcttccagAAGGACAAAAAACCTAAATTTAGCCCATGCTTTATATTCTTGCCTGATGGAGATATCCTAACTGGGGACTCTGAGGGACAATATACTTACCTGGGACCAGAGTATCTCAGATTTGAGGATGATAGGCAGGGGAGGAGCAAAAGgtaagataaggcacccctaaactaatagtaactgatggcaatggaaaatg Alignment from Pairagon AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGG-AACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAG gtgttccatttattccacatgcctttaactgctcccctcatttcttccagAAGGACAAAAAACCTAAATTTAGCCCATGCTTTATATTCTTGCCTGATGGAGATATCCTAACTGGGGACTCTGAGGGACAATATACTTACCTGGGACCAGAGTATCTCAGATTTGAGGATGATAGGCAGGGGAGGAGCAAAAGgtaagataaggcacccctaaactaatagtaactgatggcaatggaaaatg Alignment from Exonerate_protein2genome AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGG-AACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAG gtgttccatttattccacatgcctttaactgctcccctcatttcttccagAAGGACAAAAAACCTAAATTTAGCCCATGCTTTATATTCTTGCCTGATGGAGATATCCTAACTGGGGACTCTGAGGGACAATATACTTACCTGGGACCAGAGTATCTCAGATTTGAGGATGATAGGCAGGGGAGGAGCAAAAGgtaagataaggcacccctaaactaatagtaactgatggcaatggaaaatg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAG-GGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAG gtgttccatttattccacatgcctttaactgctcccctcatttcttccagAAGGACAAAAAACCTAAATTTAGCCCATGCTTTATATTCTTGCCTGATGGAGATATCCTAACTGGGGACTCTGAGGGACAATATACTTACCTGGGACCAGAGTATCTCAGATTTGAGGATGATAGGCAGGGGAGGAGCAAAAGgtaagataaggcacccctaaactaatagtaactgatggcaatggaaaatg #### Eml3_ID2514_13 --> 2 - 0 Original Alignment agACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTC-CAGGAGGCAGAG actacaatccatgaaaccacaaatgctcgttttcatctttctcccatcagaaACCTACACAATTGTGGCCCAACCGCATGCTCATGAGGAGTGCTTCTTTGTACTCTGTCTTCATCAGGATGGAACAGTACTCACTGGTGGTGGGTGGCATAGACGTCTAGTGCAGTGGGGGCCTGGGCTGGTCGCACTCCCAGGAGGCAGAAgtagggcctgatctgggccccaacaacaggggtggatgtggagacatggg Alignment from CESAR agACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTC-CAGGAGGCAGAG actacaatccatgaaaccacaaatgctcgttttcatctttctcccatcagaaACCTACACAATTGTGGCCCAACCGCATGCTCATGAGGAGTGCTTCTTTGTACTCTGTCTTCATCAGGATGGAACAGTACTCACTGGTGGTGGGTGGCATAGACGTCTAGTGCAGTGGGGGCCTGGGCTGGTCGCACTCCCAGGAGGCAGAAgtagggcctgatctgggccccaacaacaggggtggatgtggagacatggg Alignment from Spaln_aa2Genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAG------GCAGAG actacaatccatgaaaccacaaatgctcgttttcatctttctcccatcagAAACCTACACAATTGTGGCCCAACCGCATGCTCATGAGGAGTGCTTCTTTGTACTCTGTCTTCATCAGGATGGAACAGTACTCACTGGTGGTGGGTGGCATAGACGTCTAGTGCAGTGGGGGCCTGGGCTGGTCGCACTCCCAGGAGGCAGAAGTAGGgcctgatctgggccccaacaacaggggtggatgtggagacatggg Alignment from Spaln_nt2Genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCC-AGGAGGCAGAG actacaatccatgaaaccacaaatgctcgttttcatctttctcccatcagAAACCTACACAATTGTGGCCCAACCGCATGCTCATGAGGAGTGCTTCTTTGTACTCTGTCTTCATCAGGATGGAACAGTACTCACTGGTGGTGGGTGGCATAGACGTCTAGTGCAGTGGGGGCCTGGGCTGGTCGCACTCCCAGGAGGCAGAAgtagggcctgatctgggccccaacaacaggggtggatgtggagacatggg Alignment from Pairagon AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCT-CCAGGAGGCAGAG actacaatccatgaaaccacaaatgctcgttttcatctttctcccatcagAAACCTACACAATTGTGGCCCAACCGCATGCTCATGAGGAGTGCTTCTTTGTACTCTGTCTTCATCAGGATGGAACAGTACTCACTGGTGGTGGGTGGCATAGACGTCTAGTGCAGTGGGGGCCTGGGCTGGTCGCACTCCCAGGAGGCAGAAgtagggcctgatctgggccccaacaacaggggtggatgtggagacatggg Alignment from Exonerate_protein2genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTC-CAGGAGGCAGAG actacaatccatgaaaccacaaatgctcgttttcatctttctcccatcagAAACCTACACAATTGTGGCCCAACCGCATGCTCATGAGGAGTGCTTCTTTGTACTCTGTCTTCATCAGGATGGAACAGTACTCACTGGTGGTGGGTGGCATAGACGTCTAGTGCAGTGGGGGCCTGGGCTGGTCGCACTCCCAGGAGGCAGAAgtagggcctgatctgggccccaacaacaggggtggatgtggagacatggg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG- actacaatccatgaaaccacaaatgctcgttttcatctttctcccatcagAAACCTACACAATTGTGGCCCAACCGCATGCTCATGAGGAGTGCTTCTTTGTACTCTGTCTTCATCAGGATGGAACAGTACTCACTGGTGGTGGGTGGCATAGACGTCTAGTGCAGTGGGGGCCTGGGCTGGTCGCACTCCCAGGAGGCAGAAgtagggcctgatctgggccccaacaacaggggtggatgtggagacatggg #### Eml3_ID2517_16 --> 0 - 2 Original Alignment GAGACGGGTTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTT-GTAGGACTGAACACAGGGag tcgaaatacataatcatccatatctagtttgatctctttctttttgaaagGAGACAGGTTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTCCATAGGACTGAACACTGGGaggtatgcgagtcaacaccatggaaactaaagagggtatccgtccagggata Alignment from CESAR GAGACGGGTTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTT-GTAGGACTGAACACAGGGag tcgaaatacataatcatccatatctagtttgatctctttctttttgaaagGAGACAGGTTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTCCATAGGACTGAACACTGGGaggtatgcgagtcaacaccatggaaactaaagagggtatccgtccagggata Alignment from Spaln_aa2Genome GAGACGGGTTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTT-GTAGGACTGAACACAGGGAG tcgaaatacataatcatccatatctagtttgatctctttctttttgaaagGAGACAGGTTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTCcATAGGACTGAACACTGGGAGgtatgcgagtcaacaccatggaaactaaagagggtatccgtccagggata Alignment from Spaln_nt2Genome GAGACGGGTTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTTG-TAGGACTGAACACAGGGAG tcgaaatacataatcatccatatctagtttgatctctttctttttgaaagGAGACAGGTTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTCCATAGGACTGAACACTGGGAGgtatgcgagtcaacaccatggaaactaaagagggtatccgtccagggata Alignment from Pairagon GAGACGGGTTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGT-TGTAGGACTGAACACAGGGAG tcgaaatacataatcatccatatctagtttgatctctttctttttgaaagGAGACAGGTTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTCCATAGGACTGAACACTGGGAGgtatgcgagtcaacaccatggaaactaaagagggtatccgtccagggata Alignment from Exonerate_protein2genome GAGACGGGTTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTT-GTAGGACTGAACACAGGGAG tcgaaatacataatcatccatatctagtttgatctctttctttttgaaagGAGACAGGTTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTCCATAGGACTGAACACTGGGAGgtatgcgagtcaacaccatggaaactaaagagggtatccgtccagggata Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GAGACGGGTTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTT-GTAGGACTGAACACAGGGAG tcgaaatacataatcatccatatctagtttgatctctttctttttgaaagGAGACAGGTTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTCCATAGGACTGAACACTGGGAGgtatgcgagtcaacaccatggaaactaaagagggtatccgtccagggata #### Eml3_ID2519_18 --> 2 - 0 Original Alignment atGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGT-GGCACTAAGTCCAGCCGCTTTGGCAGATGTATG gattcagtttaataaagatatgatagcagtaacaggtcttctgtccctagatGGGTTATACCTCGCACTAGGTTCACATGATAATATGATTTATATATACAGTATTTCCAGTTGTCGGTACCAAATCTACCCACTTTGGAAGGTGTATGgtaagacacgtgcggcctgaacatccacagaacttagaaacccactgtga Alignment from CESAR atGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGT-GGCACTAAGTCCAGCCGCTTTGGCAGATGTATG gattcagtttaataaagatatgatagcagtaacaggtcttctgtccctagatGGGTTATACCTCGCACTAGGTTCACATGATAATATGATTTATATATACAGTATTTCCAGTTGTCGGTACCAAATCTACCCACTTTGGAAGGTGTATGgtaagacacgtgcggcctgaacatccacagaacttagaaacccactgtga Alignment from Spaln_aa2Genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGT-GGCACTAAGTCCAGCCGCTTTGGCAGATGTATG gattcagtttaataaagatatgatagcagtaacaggtcttctgtccctagATGGGTTATACCTCGCACTAGGTTCACATGATAATATGATTTATATATACAGTATTTCCAGTTGTcGGTACCAAATCTACCCACTTTGGAAGGTGTATGgtaagacacgtgcggcctgaacatccacagaacttagaaacccactgtga Alignment from Spaln_nt2Genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGT-GGCACTAAGTCCAGCCGCTTTGGCAGATGTATG gattcagtttaataaagatatgatagcagtaacaggtcttctgtccctagATGGGTTATACCTCGCACTAGGTTCACATGATAATATGATTTATATATACAGTATTTCCAGTTGTCGGTACCAAATCTACCCACTTTGGAAGGTGTATGgtaagacacgtgcggcctgaacatccacagaacttagaaacccactgtga Alignment from Pairagon ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGT-GGCACTAAGTCCAGCCGCTTTGGCAGATGTATG gattcagtttaataaagatatgatagcagtaacaggtcttctgtccctagATGGGTTATACCTCGCACTAGGTTCACATGATAATATGATTTATATATACAGTATTTCCAGTTGTCGGTACCAAATCTACCCACTTTGGAAGGTGTATGgtaagacacgtgcggcctgaacatccacagaacttagaaacccactgtga Alignment from Exonerate_protein2genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGT-GGCACTAAGTCCAGCCGCTTTGGCAGATGTATG gattcagtttaataaagatatgatagcagtaacaggtcttctgtccctagATGGGTTATACCTCGCACTAGGTTCACATGATAATATGATTTATATATACAGTATTTCCAGTTGTCGGTACCAAATCTACCCACTTTGGAAGGTGTATGgtaagacacgtgcggcctgaacatccacagaacttagaaacccactgtga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGT-GGCACTAAGTCCAGCCGCTTTGGCAGATGTATG gattcagtttaataaagatatgatagcagtaacaggtcttctgtccctagATGGGTTATACCTCGCACTAGGTTCACATGATAATATGATTTATATATACAGTATTTCCAGTTGTCGGTACCAAATCTACCCACTTTGGAAGGTGTATGgtaagacacgtgcggcctgaacatccacagaacttagaaacccactgtga #### Eml3_ID2522_21 --> 2 - 0 Original Alignment gtGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTT-TGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG gaagaaactttaagtggaagctaaaggatatttcccttccatctgtgcaggtGTATGGCCTGGGGGCTGTGATGGTACTGGCATCAATTCCCTGCTGCCCATCACATAATGAACGAGTGGTAGCTGTGGCAGATGATTGTTGCAAAGTACATGTCTTTCAGTACCCCTGTGCCCGGGCCAAAgtaagactttaccagcttattcaactagtgacaatcatggttgattactg Alignment from CESAR gtGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTT-TGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG gaagaaactttaagtggaagctaaaggatatttcccttccatctgtgcaggtGTATGGCCTGGGGGCTGTGATGGTACTGGCATCAATTCCCTGCTGCCCATCACATAATGAACGAGTGGTAGCTGTGGCAGATGATTGTTGCAAAGTACATGTCTTTCAGTACCCCTGTGCCCGGGCCAAAgtaagactttaccagcttattcaactagtgacaatcatggttgattactg Alignment from Spaln_aa2Genome GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTT-TGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG gaagaaactttaagtggaagctaaaggatatttcccttccatctgtgcagGTGTATGGCCTGGGGGCTGTGATGGTACTGGCATCAATTCCCTGcTGCCCATCACATAATGAACGAGTGGTAGCTGTGGCAGATGATTGTTGCAAAGTACATGTCTTTCAGTACCCCTGTGCCCGGGCCAAAgtaagactttaccagcttattcaactagtgacaatcatggttgattactg Alignment from Spaln_nt2Genome GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTT-TGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG gaagaaactttaagtggaagctaaaggatatttcccttccatctgtgcagGTGTATGGCCTGGGGGCTGTGATGGTACTGGCATCAATTCCCTGCTGCCCATCACATAATGAACGAGTGGTAGCTGTGGCAGATGATTGTTGCAAAGTACATGTCTTTCAGTACCCCTGTGCCCGGGCCAAAgtaagactttaccagcttattcaactagtgacaatcatggttgattactg Alignment from Pairagon GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCT-TTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG gaagaaactttaagtggaagctaaaggatatttcccttccatctgtgcagGTGTATGGCCTGGGGGCTGTGATGGTACTGGCATCAATTCCCTGCTGCCCATCACATAATGAACGAGTGGTAGCTGTGGCAGATGATTGTTGCAAAGTACATGTCTTTCAGTACCCCTGTGCCCGGGCCAAAgtaagactttaccagcttattcaactagtgacaatcatggttgattactg Alignment from Exonerate_protein2genome GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTT-TGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG gaagaaactttaagtggaagctaaaggatatttcccttccatctgtgcagGTGTATGGCCTGGGGGCTGTGATGGTACTGGCATCAATTCCCTGCTGCCCATCACATAATGAACGAGTGGTAGCTGTGGCAGATGATTGTTGCAAAGTACATGTCTTTCAGTACCCCTGTGCCCGGGCCAAAgtaagactttaccagcttattcaactagtgacaatcatggttgattactg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCC-CTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG gaagaaactttaagtggaagctaaaggatatttcccttccatctgtgcagGTGTATGGCCTGGGGGCTGTGATGGTACTGGCATCAATTCCCTGCTGCCCATCACATAATGAACGAGTGGTAGCTGTGGCAGATGATTGTTGCAAAGTACATGTCTTTCAGTACCCCTGTGCCCGGGCCAAAgtaagactttaccagcttattcaactagtgacaatcatggttgattactg #### Exoc6_ID7364_3 --> 0 - 0 Original Alignment GTGCAGGTTACCGATACCAACCGA-AGGTTTCAAGATGCAGGAAAAGAG tgttacatcagagtgactccatgtgtatctgtgttgcttttatttttcagGTGAAATTTAATGATACCAAT---CCGCTTCCAAGATGCTGGAAAAGAGgttagtccctcattcatactcatgtccatttttgttttttatcattcaag Alignment from CESAR GTGCAGGTTACCGATACCAACCGAAGGTTTCAAGATGCAGGAAAAGAG tgttacatcagagtgactccatgtgtatctgtgttgcttttatttttcagGTGAAATTTAATGATACCAAT--CCGCTTCCAAGATGCTGGAAAAGAGgttagtccctcattcatactcatgtccaggctgttttgtctgttttttag Alignment from Spaln_aa2Genome GTGCAGGTTACCGATACCAACCGAAGGTTTCAAGATGCAGGAAAAGAG tgttacatcagagtgactccatgtgtatctgtgttgcttttatttttcagGTGAAATTTAATGATACCAATC--CGCTTCCAAGATGCTGGAAAAGAGgttagtccctcattcatactcatgtccatttttgttttttatcattcaag Alignment from Spaln_nt2Genome GTGCAGGTTACCGATACCAACCGAAGGTTTCAAGATGCAGGAAAAGAG tgttacatcagagtgactccatgtgtatctgtgttgcttttatttttcagGTGAAATTTAATGATACCAATC--CGCTTCCAAGATGCTGGAAAAGAGgttagtccctcattcatactcatgtccatttttgttttttatcattcaag Alignment from Pairagon GTGCAGGTTACCGATACCAACCGAAGGTTTCAAGATGCAGGAAAAGAG tgttacatcagagtgactccatgtgtatctgtgttgcttttatttttcagGTGAAATTTAATGATACCAATC--CGCTTCCAAGATGCTGGAAAAGAGgttagtccctcattcatactcatgtccatttttgttttttatcattcaag Alignment from Exonerate_protein2genome GTGCAGGTTACCGATACCAAC-CGAAGGTTTCAAGATGCAGGAAAAGAG tgttacatcagagtgactccatgtgtatctgtgttgcttttatttttcagGTGAAATTTAATGATACCAATC---CGCTTCCAAGATGCTGGAAAAGAGgttagtccctcattcatactcatgtccatttttgttttttatcattcaag Alignment from Exonerate_coding2genome tgttacatcagagtgactccatgtgtatctgtgttgcttttatttttcaggtgaaatttaatgataccaatccgcttccaagatgctggaaaagaggttagtccctcattcatactcatgtccatttttgttttttatcattcaag Alignment from GeneWise GTGCAGGTTACCGATACCAACCGAAGGTTTCAAGATGCAGGAAAA tgttacatcagagtgactccatgtgtatctgtgttgcttttatttttcaggtgaaatttaatgataccaatccgcttccaagatgctggaaaagaggttagTCCCTCATT---CATACTCATGTCCATTTTTGTTTTTTATCATTC #### Exosc1_ID8332_7 --> 0 - 1 Original Alignment ATCTCCCTAGGCGATGCACAG-TCCAATTACCTGCTGACTACT---GCTGAAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAg taatggttatataagaaaggtcaaacactgattcacctttctttccccagATATCGCTAGGGGCTGCACAGCTCCAATTATCTGTTAACTACTGCTGCTGAAAATGAGCTGGGTGTTGTAGTGGCCCACAGTGAGGCAggtaggacagtaactaaacctgctgtcccagaaaggttgtctttgtttgtt Alignment from CESAR ATCTCCCTAGGCGATGCACAG-TCCAATTACCTGCTGACTACTGCT---GAAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAg taatggttatataagaaaggtcaaacactgattcacctttctttccccagATATCGCTAGGGGCTGCACAGCTCCAATTATCTGTTAACTACTGCTGCTGAAAATGAGCTGGGTGTTGTAGTGGCCCACAGTGAGGCAggtaggacagtaactaaacctgctgtcccagaaaggttgtcttgtctttct Alignment from Spaln_aa2Genome ATCTCCCTAGGCGATGCACAG-TCCAATTACCTGCTGACTACT---GCTGAAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAG taatggttatataagaaaggtcaaacactgattcacctttctttccccagATATCGCTAGGGGCTGCACAGcTCCAATTATCTGTTAACTACTGCTGCTGAAAATGAGCTGGGTGTTGTAGTGGCCCACAGTGAGGCAGgtaggacagtaactaaacctgctgtcccagaaaggttgtctttgtttgtt Alignment from Spaln_nt2Genome ATCTCCCTAGGCGATGCACAG-TCCAATTACCTGCTGACTACTGCTG---AAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAG taatggttatataagaaaggtcaaacactgattcacctttctttccccagATATCGCTAGGGGCTGCACAGCTCCAATTATCTGTTAACTACTGCTGCTGAAAATGAGCTGGGTGTTGTAGTGGCCCACAGTGAGGCAGgtaggacagtaactaaacctgctgtcccagaaaggttgtctttgtttgtt Alignment from Pairagon ATCTCCCTAGGCGATGCACAG-TCCAATTACCTGCTGACTA---CTGCTGAAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAGG------------------------------------------------- taatggttatataagaaaggtcaaacactgattcacctttctttccccagATATCGCTAGGGGCTGCACAGCTCCAATTATCTGTTAACTACTGCTGCTGAAAATGAGCTGGGTGTTGTAGTGGCCCACAGTGAGGCAGGTAGGACAGTAACTAAACCTGCTGTCCCAGAAAGGTTGTCTTTGTTTGTT Alignment from Exonerate_protein2genome ATCTCCCTAGGCGATGCACAG-TCCAATTACCTGCTGACTACT---GCTGAAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAG taatggttatataagaaaggtcaaacactgattcacctttctttccccagATATCGCTAGGGGCTGCACAGCTCCAATTATCTGTTAACTACTGCTGCTGAAAATGAGCTGGGTGTTGTAGTGGCCCACAGTGAGGCAGgtaggacagtaactaaacctgctgtcccagaaaggttgtctttgtttgtt Alignment from Exonerate_coding2genome ATCTCCCTAGGCGATGCACAG-TCCAATTACCTGCTGACTACT---GCTGAAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAG taatggttatataagaaaggtcaaacactgattcacctttctttccccagATATCGCTAGGGGCTGCACAGCTCCAATTATCTGTTAACTACTGCTGCTGAAAATGAGCTGGGTGTTGTAGTGGCCCACAGTGAGGCAGgtaggacagtaactaaacctgctgtcccagaaaggttgtctttgtttgtt Alignment from GeneWise GGCGATGCACAGTCCAATTACCTGCTGACTACTGCT---GAAAACGAGCTGGGCGTTGTGGTGGCCCACAGTGAGTCAG taatggttatataagaaaggtcaaacactgattcacctttctttccccagatatcgctagGGGCTGCACAGCTCCAATTATCTGTTAACTACTGCTGCTGAAAATGAGCTGGGTGTTGTAGTGGCCCACAGTGAGGCAGgtaggacagtaactaaacctgctgtcccagaaaggttgtctttgtttgtt #### Fads1_ID2689_3 --> 0 - 0 Original Alignment AAAGCGCTAACTGATGAATTC-CGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcttagttaggctgaagttcacaaatttcacgaccctttctcttctttagAAAGTAATATCTGATGAGTTTCCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCTCTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGCTCCGTTCAGgtgagtcccacctctcagcctaaaccacaaatattgaagagtgtttgtac Alignment from CESAR AAAGCGCTAACTGATGAA-TTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcttagttaggctgaagttcacaaatttcacgaccctttctcttctttagAAAGTAATATCTGATGAGTTTCCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCTCTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGCTCCGTTCAGgtgagtcccacctctcagcctaaaccacaaatattgaagagtgtttgtac Alignment from Spaln_aa2Genome AAAGCGCTAACTGATGAA-TTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcttagttaggctgaagttcacaaatttcacgaccctttctcttctttagAAAGTAATATCTGATGAGtTTCCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCTCTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGCTCCGTTCAGgtgagtcccacctctcagcctaaaccacaaatattgaagagtgtttgtac Alignment from Spaln_nt2Genome AAAGCGCTAACTGATGAATT-CCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcttagttaggctgaagttcacaaatttcacgaccctttctcttctttagAAAGTAATATCTGATGAGTTTCCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCTCTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCC---CATACTTTGTGCAGTATTACTCAGCTCCGTTCAGgtgagtcccacctctcagcctaaaccacaaatattgaagagtgtttgtac Alignment from Pairagon AAAGCGCTAACTGATGAA-TTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcttagttaggctgaagttcacaaatttcacgaccctttctcttctttagAAAGTAATATCTGATGAGTTTCCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCTCTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCC---CATACTTTGTGCAGTATTACTCAGCTCCGTTCAGgtgagtcccacctctcagcctaaaccacaaatattgaagagtgtttgtac Alignment from Exonerate_protein2genome AAAGCGCTAACTGATGAA-TTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcttagttaggctgaagttcacaaatttcacgaccctttctcttctttagAAAGTAATATCTGATGAGTTTCCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCTCTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGCTCCGTTCAGgtgagtcccacctctcagcctaaaccacaaatattgaagagtgtttgtac Alignment from Exonerate_coding2genome AAAGCGCTAACTGATGAA-TTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcttagttaggctgaagttcacaaatttcacgaccctttctcttctttagAAAGTAATATCTGATGAGTTTCCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCTCTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGCTCCGTTCAGgtgagtcccacctctcagcctaaaccacaaatattgaagagtgtttgtac Alignment from GeneWise AAAGCGCTAACTGAT-GAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gcttagttaggctgaagttcacaaatttcacgaccctttctcttctttagAAAGTAATATCTGATGAGTTTCCGAGAACTGCGGGCCACTGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTTTTGGTATACCTGCTTCGCATTCCTCTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGCTCCGTTCAGgtgagtcccacctctcagcctaaaccacaaatattgaagagtgtttgtac #### Fads1_ID2694_8 --> 0 - 2 Original Alignment GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTG-AAAGGCTTCCTGGGC---CTTTTCTTCATTGTCag gagtcccttgaaacaacaaaaactctgcaacagatcctctcctcttccagGATGTGCCCTGGATGGTTAGTTTCTATGCCCACATCTTTTTAGCCTATATATCACTCTCAGGGTTACAAGGGCTTCTTAGGGCTCATCTTCTTCATTGTTaggtaaagacaaacagtgagttagtaagtccgaaaaccaccagaaccttatt Alignment from CESAR GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTG-AAAGGCTTCCTGGGCCTT---TTCTTCATTGTCag gagtcccttgaaacaacaaaaactctgcaacagatcctctcctcttccagGATGTGCCCTGGATGGTTAGTTTCTATGCCCACATCTTTTTAGCCTATATATCACTCTCAGGGTTACAAGGGCTTCTTAGGGCTCATCTTCTTCATTGTTaggtaaagacaaacagtgagttagtaagtccgaaaaccaccagaaccttatt Alignment from Spaln_aa2Genome GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTG-AAAGGCTTCCTGGGCCTT---TTCTTCATTGTCAG gagtcccttgaaacaacaaaaactctgcaacagatcctctcctcttccagGATGTGCCCTGGATGGTTAGTTTCTATGCCCACATCTTTTTAGCCTATATATCACTCTCAGGGTTAcAAGGGCTTCTTAGGGCTCATCTTCTTCATTGTTAGgtaaagacaaacagtgagttagtaagtccgaaaaccaccagaaccttatt Alignment from Spaln_nt2Genome GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGG-CTTCCTGGGCCTT---TTCTTCATTGTCAG gagtcccttgaaacaacaaaaactctgcaacagatcctctcctcttccagGATGTGCCCTGGATGGTTAGTTTCTATGCCCACATCTTTTTAGCCTATATATCACTCTCAGGGTTACAAGGGCTTCTTAGGGCTCATCTTCTTCATTGTTAGgtaaagacaaacagtgagttagtaagtccgaaaaccaccagaaccttatt Alignment from Pairagon GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCT-------------------------------------------TCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG gagtcccttgaaacaacaaaaactctgcaacagatcctctcctcttccagGATGTGCCCTGGATGGTTAGTTTCTATGCCCACATCTTTTTAGCCTATATATCACTCTCAGGGTTACAAGGGCTTCTTAGGGCTCA---------------------------------------TCTTCTTCATTGTTAGgtaaagacaaacagtgagttagtaagtccgaaaaccaccagaaccttatt Alignment from Exonerate_protein2genome GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTG-AAAGGCTTCCTGGGCCTT---TTCTTCATTGTCAG gagtcccttgaaacaacaaaaactctgcaacagatcctctcctcttccagGATGTGCCCTGGATGGTTAGTTTCTATGCCCACATCTTTTTAGCCTATATATCACTCTCAGGGTTACAAGGGCTTCTTAGGGCTCATCTTCTTCATTGTTAGgtaaagacaaacagtgagttagtaagtccgaaaaccaccagaaccttatt Alignment from Exonerate_coding2genome gagtcccttgaaacaacaaaaactctgcaacagatcctctcctcttccaggatgtgccctggatggttagtttctatgcccacatctttttagcctatatatcactctcagggttacaagggcttcttagggctcatcttcttcattgttaggtaaagacaaacagtgagttagtaagtccgaaaaccaccagaaccttatt Alignment from GeneWise GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTG-CTGGGGCTGAAAGGCTTCCTGGGCCTT---TTCTTCATTGTCAG gagtcccttgaaacaacaaaaactctgcaacagatcctctcctcttccagGATGTGCCCTGGATGGTTAGTTTCTATGCCCACATCTTTTTAGCCTATATATCACTCTCAGGGTTACAAGGGCTTCTTAGGGCTCATCTTCTTCATTGTTAGgtaaagacaaacagtgagttagtaagtccgaaaaccaccagaaccttatt #### Fads1_ID2696_10 --> 0 - 2 Original Alignment CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAAC-TGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACca tagttcatacacagatacatggaaatttgcctttctccctttcttctaagCTGCAGGCAACATGCAATGTCCACCAATCTGCCTTCAACAACCTGGTTCAGTGGACATCTGAATTTCCAGATTGAACACcagtactctgatactgcaaggatacatgggatggcacagggtccgggcaggg Alignment from CESAR CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAAC-TGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACca tagttcatacacagatacatggaaatttgcctttctccctttcttctaagCTGCAGGCAACATGCAATGTCCACCAATCTGCCTTCAACAACCTGGTTCAGTGGACATCTGAATTTCCAGATTGAACACcagtactctgatactgcaaggatacatgggatggcacagggtccgggcaggg Alignment from Spaln_aa2Genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAAC-TGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tagttcatacacagatacatggaaatttgcctttctccctttcttctaagCTGCAGGCAACATGCAATGTCCACCAATCTGCCTTCAACAACcTGGTTCAGTGGACATCTGAATTTCCAGATTGAACACCAgtactctgatactgcaaggatacatgggatggcacagggtccgggcaggg Alignment from Spaln_nt2Genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAA-CTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tagttcatacacagatacatggaaatttgcctttctccctttcttctaagCTGCAGGCAACATGCAATGTCCACCAATCTGCCTTCAACAACCTGGTTCAGTGGACATCTGAATTTCCAGATTGAACACCAgtactctgatactgcaaggatacatgggatggcacagggtccgggcaggg Alignment from Pairagon CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAA-CTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tagttcatacacagatacatggaaatttgcctttctccctttcttctaagCTGCAGGCAACATGCAATGTCCACCAATCTGCCTTCAACAACCTGGTTCAGTGGACATCTGAATTTCCAGATTGAACACCAgtactctgatactgcaaggatacatgggatggcacagggtccgggcaggg Alignment from Exonerate_protein2genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAAC-TGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tagttcatacacagatacatggaaatttgcctttctccctttcttctaagCTGCAGGCAACATGCAATGTCCACCAATCTGCCTTCAACAACCTGGTTCAGTGGACATCTGAATTTCCAGATTGAACACCAgtactctgatactgcaaggatacatgggatggcacagggtccgggcaggg Alignment from Exonerate_coding2genome tagttcatacacagatacatggaaatttgcctttctccctttcttctaagctgcaggcaacatgcaatgtccaccaatctgccttcaacaacctggttcagtggacatctgaatttccagattgaacaccagtactctgatactgcaaggatacatgggatggcacagggtccgggcaggg Alignment from GeneWise CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAAC-AACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tagttcatacacagatacatggaaatttgcctttctccctttcttctaagCTGCAGGCAACATGCAATGTCCACCAATCTGCCTTCAACAACCTGGTTCAGTGGACATCTGAATTTCCAGATTGAACACCAgtactctgatactgcaaggatacatgggatggcacagggtccgggcaggg #### Fads3_ID2663_6 --> 0 - 1 Original Alignment TATGGCAAGAAGAAACGCAGATACCTGCCCTAC-AACCACCAGCATCTATACTTCTTCCTGa caatctacaggatgtttctttcccctggatttcgtaacttcatcttttagTATGGCAAGAAGAAACAACGATACCTGCCATACCAATCATCAACATCTATACTTTTTCCTTggtagggggtgccagcacgatttattggtggcagttggcagccctaacaga Alignment from CESAR TATGGCAAGAAGAAACGCAGATACCTGCCCTAC-AACCACCAGCATCTATACTTCTTCCTGa caatctacaggatgtttctttcccctggatttcgtaacttcatcttttagTATGGCAAGAAGAAACAACGATACCTGCCATACCAATCATCAACATCTATACTTTTTCCTTggtagggggtgccagcacgatttattggtggcagttggcagccctaacaga Alignment from Spaln_aa2Genome TATGGCAAGAAGAAACGCAGATACCTGCCCTAC-AACCACCAGCATCTATACTTCTTCCTGA caatctacaggatgtttctttcccctggatttcgtaacttcatcttttagTATGGCAAGAAGAAACAACGATACCTGCCATACcAATCATCAACATCTATACTTTTTCCTTGgtagggggtgccagcacgatttattggtggcagttggcagccctaacaga Alignment from Spaln_nt2Genome TATGGCAAGAAGAAACGCAGATACCTGCCCTAC-AACCACCAGCATCTATACTTCTTCCTGA caatctacaggatgtttctttcccctggatttcgtaacttcatcttttagTATGGCAAGAAGAAACAACGATACCTGCCATACCAATCATCAACATCTATACTTTTTCCTTGgtagggggtgccagcacgatttattggtggcagttggcagccctaacaga Alignment from Pairagon TATGGCAAGAAGAAACGCAGATACCTGCCCTA-CAACCACCAGCATCTATACTTCTTCCTGA caatctacaggatgtttctttcccctggatttcgtaacttcatcttttagTATGGCAAGAAGAAACAACGATACCTGCCATACCAATCATCAACATCTATACTTTTTCCTTGgtagggggtgccagcacgatttattggtggcagttggcagccctaacaga Alignment from Exonerate_protein2genome TATGGCAAGAAGAAACGCAGATACCTGCCCTAC-AACCACCAGCATCTATACTTCTTCCTGA caatctacaggatgtttctttcccctggatttcgtaacttcatcttttagTATGGCAAGAAGAAACAACGATACCTGCCATACCAATCATCAACATCTATACTTTTTCCTTGgtagggggtgccagcacgatttattggtggcagttggcagccctaacaga Alignment from Exonerate_coding2genome TATGGCAAGAAGAAACGCAGATACCTGCCCTAC-AACCACCAGCATCTATACTTCTTCCTGA caatctacaggatgtttctttcccctggatttcgtaacttcatcttttagTATGGCAAGAAGAAACAACGATACCTGCCATACCAATCATCAACATCTATACTTTTTCCTTGgtagggggtgccagcacgatttattggtggcagttggcagccctaacaga Alignment from GeneWise TATGGCAAGAAGAAACGCAGATACCTGCCCTAC-AACCACCAGCATCTATACTTCTTCCTGA caatctacaggatgtttctttcccctggatttcgtaacttcatcttttagTATGGCAAGAAGAAACAACGATACCTGCCATACCAATCATCAACATCTATACTTTTTCCTTGgtagggggtgccagcacgatttattggtggcagttggcagccctaacaga #### Fads3_ID2665_8 --> 0 - 2 Original Alignment GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGG-ACACTGCTCCTCTTTGTTGCTGTCag ttggacaggcaaagtgattccagtttagccccctaccctgtcacctgcagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGAGTCACCGGCCACACTAATCCTCTTTGTCATTGTGcggtacggtgctacttgctgagcaccagatctatttaacttggccatagata Alignment from CESAR GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGG-ACACTGCTCCTCTTTGTTGCTGTCag ttggacaggcaaagtgattccagtttagccccctaccctgtcacctgcagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGAGTCACCGGCCACACTAATCCTCTTTGTCATTGTGcggtacggtgctacttgctgagcaccagatctatttaacttggccatagata Alignment from Spaln_aa2Genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGG-ACACTGCTCCTCTTTGTTGCTGTCAG ttggacaggcaaagtgattccagtttagccccctaccctgtcacctgcagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGAGTCACCGGCcACACTAATCCTCTTTGTCATTGTGCGgtacggtgctacttgctgagcaccagatctatttaacttggccatagata Alignment from Spaln_nt2Genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGG-ACACTGCTCCTCTTTGTTGCTGTCAG ttggacaggcaaagtgattccagtttagccccctaccctgtcacctgcagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGAGTCACCGGCCACACTAATCCTCTTTGTCATTGTGCGgtacggtgctacttgctgagcaccagatctatttaacttggccatagata Alignment from Pairagon GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGG-GACACTGCTCCTCTTTGTTGCTGTCAG ttggacaggcaaagtgattccagtttagccccctaccctgtcacctgcagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGAGTCACCGGCCACACTAATCCTCTTTGTCATTGTGCGgtacggtgctacttgctgagcaccagatctatttaacttggccatagata Alignment from Exonerate_protein2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGG-ACACTGCTCCTCTTTGTTGCTGTCAG ttggacaggcaaagtgattccagtttagccccctaccctgtcacctgcagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGAGTCACCGGCCACACTAATCCTCTTTGTCATTGTGCGgtacggtgctacttgctgagcaccagatctatttaacttggccatagata Alignment from Exonerate_coding2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGG-ACACTGCTCCTCTTTGTTGCTGTCAG ttggacaggcaaagtgattccagtttagccccctaccctgtcacctgcagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGAGTCACCGGCCACACTAATCCTCTTTGTCATTGTGCGgtacggtgctacttgctgagcaccagatctatttaacttggccatagata Alignment from GeneWise GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTG------CTCCTCTTTGTTGCTGTCAG ttggacaggcaaagtgattccagtttagccccctaccctgtcacctgcagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGAGTCACCGGCCACACTAATCCTCTTTGTCATTGTGCGGTACGgtgctacttgctgagcaccagatctatttaacttggccatagata #### Fam160b1_ID12356_7 --> 0 - 2 Original Alignment GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAG-TCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGgg agaagaagaaatgcggctatagcccttcaccattttttttttccttgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCCATGCTCTTAGCAAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGACTCACTTCCTTGTACAAGTCATTACCACAGCTCAGTAGACCCTCTAGACATTGAAACAGTGGAGGCAGTGAACTGGgggtgagcatcaattcgatagacttcttggacaatcgactgcttagactgtg Alignment from CESAR GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAG-TCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGgg agaagaagaaatgcggctatagcccttcaccattttttttttccttgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCCATGCTCTTAGCAAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGACTCACTTCCTTGTACAAGTCATTACCACAGCTCAGTAGACCCTCTAGACATTGAAACAGTGGAGGCAGTGAACTGGgggtgagcatcaattcgatagacttcttggacaatcgactgcttagactgtg Alignment from Spaln_aa2Genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAG-TCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgcggctatagcccttcaccattttttttttccttgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCCATGCTCTTAGCAAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGACTCACTTCCTTGTACAAGTCATTACCACAGcTCAGTAGACCCTCTAGACATTGAAACAGTGGAGGCAGTGAACTGGGGgtgagcatcaattcgatagacttcttggacaatcgactgcttagactgtg Alignment from Spaln_nt2Genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAG-TCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgcggctatagcccttcaccattttttttttccttgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCCATGCTCTTAGCAAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGACTCACTTCCTTGTACAAGTCATTACCACAGCTCAGTAGACCCTCTAGACATTGAAACAGTGGAGGCAGTGAACTGGGGgtgagcatcaattcgatagacttcttggacaatcgactgcttagactgtg Alignment from Pairagon GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAG-TCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgcggctatagcccttcaccattttttttttccttgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCCATGCTCTTAGCAAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGACTCACTTCCTTGTACAAGTCATTACCACAGCTCAGTAGACCCTCTAGACATTGAAACAGTGGAGGCAGTGAACTGGGGgtgagcatcaattcgatagacttcttggacaatcgactgcttagactgtg Alignment from Exonerate_protein2genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAG-TCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgcggctatagcccttcaccattttttttttccttgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCCATGCTCTTAGCAAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGACTCACTTCCTTGTACAAGTCATTACCACAGCTCAGTAGACCCTCTAGACATTGAAACAGTGGAGGCAGTGAACTGGGGgtgagcatcaattcgatagacttcttggacaatcgactgcttagactgtg Alignment from Exonerate_coding2genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAG-TCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgcggctatagcccttcaccattttttttttccttgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCCATGCTCTTAGCAAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGACTCACTTCCTTGTACAAGTCATTACCACAGCTCAGTAGACCCTCTAGACATTGAAACAGTGGAGGCAGTGAACTGGGGgtgagcatcaattcgatagacttcttggacaatcgactgcttagactgtg Alignment from GeneWise GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAG-TCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgcggctatagcccttcaccattttttttttccttgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCCATGCTCTTAGCAAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGACTCACTTCCTTGTACAAGTCATTACCACAGCTCAGTAGACCCTCTAGACATTGAAACAGTGGAGGCAGTGAACTGGGGgtgagcatcaattcgatagacttcttggacaatcgactgcttagactgtg #### Fam160b1_ID12358_9 --> 0 - 2 Original Alignment ACTGCTGCTGTTGCTCTCGCC-AAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGac gacatggtcataatgtcatatgtcttctctaaaatgactttgtgttctagACAGCTGCTGTAGCTCTTGCCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTACTGAACCCCAACTAATGCAAacgtaggcgtttactaaccttgtagaagacaaaacgttgataaatccttttc Alignment from CESAR ACTGCTGCTGTTGCTCTCGCC-AAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGac gacatggtcataatgtcatatgtcttctctaaaatgactttgtgttctagACAGCTGCTGTAGCTCTTGCCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTACTGAACCCCAACTAATGCAAacgtaggcgtttactaaccttgtagaagacaaaacgttgataaatccttttc Alignment from Spaln_aa2Genome CCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gacatggtcataatgtcatatgtcttctctaaaatgactttgtgttctagacagctgctgtagctcttgcccaaagCTATCCACAAAAGGTTCTTTGTTGGTGTTACTGAACCCCAACTAATGCAAACgtaggcgtttactaaccttgtagaagacaaaacgttgataaatccttttc Alignment from Spaln_nt2Genome ACTGCTGCTGTTGCTCTCGCC-AAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gacatggtcataatgtcatatgtcttctctaaaatgactttgtgttctagACAGCTGCTGTAGCTCTTGCCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTACTGAACCCCAACTAATGCAAACgtaggcgtttactaaccttgtagaagacaaaacgttgataaatccttttc Alignment from Pairagon ACTGCTGCTGTTGCTCTCG-CCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gacatggtcataatgtcatatgtcttctctaaaatgactttgtgttctagACAGCTGCTGTAGCTCTTGCCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTACTGAACCCCAACTAATGCAAACgtaggcgtttactaaccttgtagaagacaaaacgttgataaatccttttc Alignment from Exonerate_protein2genome ACTGCTGCTGTTGCTCTCGCC-AAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gacatggtcataatgtcatatgtcttctctaaaatgactttgtgttctagACAGCTGCTGTAGCTCTTGCCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTACTGAACCCCAACTAATGCAAACgtaggcgtttactaaccttgtagaagacaaaacgttgataaatccttttc Alignment from Exonerate_coding2genome ACTGCTGCTGTTGCTCTCGCC-AAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gacatggtcataatgtcatatgtcttctctaaaatgactttgtgttctagACAGCTGCTGTAGCTCTTGCCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTACTGAACCCCAACTAATGCAAACgtaggcgtttactaaccttgtagaagacaaaacgttgataaatccttttc Alignment from GeneWise ACTGCTGCTGTTGCTCTC-GCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gacatggtcataatgtcatatgtcttctctaaaatgactttgtgttctagACAGCTGCTGTAGCTCTTGCCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTACTGAACCCCAACTAATGCAAACgtaggcgtttactaaccttgtagaagacaaaacgttgataaatccttttc #### Fas_ID6925_6 --> 2 - 1 Original Alignment gtCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTG-TTAATTCCACTTg atagttgagaatactagccacctgtcctttattttatttcttgatcttagctCCCAGAAATTGCCTGTGGTTGTTGACCATCCTTGTTTTGCCTGATTCCACTTggtgagtaggaatgttcagagattattacagtagtgtgaggaggcaagtcc Alignment from CESAR gtCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTG-TTAATTCCACTTg atagttgagaatactagccacctgtcctttattttatttcttgatcttagctCCCAGAAATTGCCTGTGGTTGTTGACCATCCTTGTTTTGCCTGATTCCACTTggtgagtaggaatgttcagagattattacagtagtgtgaggaggcaagtcc Alignment from Spaln_aa2Genome GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTG-TTAATTCCACTTG atagttgagaatactagccacctgtcctttattttatttcttgatcttagCTCCCAGAAATTGCCTGTGGTTGTTGACCATCCTTGTTTTGcCTGATTCCACTTGgtgagtaggaatgttcagagattattacagtagtgtgaggaggcaagtcc Alignment from Spaln_nt2Genome GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGT-TAATTCCACTTG atagttgagaatactagccacctgtcctttattttatttcttgatcttagCTCCCAGAAATTGCCTGTGGTTGTTGACCATCCTTGTTTTGCCTGATTCCACTTGgtgagtaggaatgttcagagattattacagtagtgtgaggaggcaagtcc Alignment from Pairagon GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTG-TTAATTCCACTTG atagttgagaatactagccacctgtcctttattttatttcttgatcttagCTCCCAGAAATTGCCTGTGGTTGTTGACCATCCTTGTTTTGCCTGATTCCACTTGgtgagtaggaatgttcagagattattacagtagtgtgaggaggcaagtcc Alignment from Exonerate_protein2genome GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTG-TTAATTCCACTTG atagttgagaatactagccacctgtcctttattttatttcttgatcttagCTCCCAGAAATTGCCTGTGGTTGTTGACCATCCTTGTTTTGCCTGATTCCACTTGgtgagtaggaatgttcagagattattacagtagtgtgaggaggcaagtcc Alignment from Exonerate_coding2genome GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTG-TTAATTCCACTTG atagttgagaatactagccacctgtcctttattttatttcttgatcttagCTCCCAGAAATTGCCTGTGGTTGTTGACCATCCTTGTTTTGCCTGATTCCACTTGgtgagtaggaatgttcagagattattacagtagtgtgaggaggcaagtcc Alignment from GeneWise atagttgagaatactagccacctgtcctttattttatttcttgatcttagctcccagaaattgcctgtggttgttgaccatccttgttttgcctgattccacttggtgagtaggaatgttcagagattattacagtagtgtgaggaggcaagtcc #### Fas_ID6926_7 --> 2 - 0 Original Alignment taTTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGACAG-GATGACCCTGAATCTAGAACCTCCAGTCGT atcgtcaactattcacagcaatatgacatcggctgagtttgcacccttagtaTTTATATATAGAAAGTACCGAAAAAGAAAGTGCTGGAAAAGGAGACAACGATGACCCCGAATCCAGAACCTCAAGTCGTgtgagcatctagtgcaatacagtgattctctttccaatactcccaatcaa Alignment from CESAR taTTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGACAG-GATGACCCTGAATCTAGAACCTCCAGTCGT atcgtcaactattcacagcaatatgacatcggctgagtttgcacccttagtaTTTATATATAGAAAGTACCGAAAAAGAAAGTGCTGGAAAAGGAGACAACGATGACCCCGAATCCAGAACCTCAAGTCGTgtgagcatctagtgcaatacagtgattctctttccaatactcccaatcaa Alignment from Spaln_aa2Genome TATTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGACAG-GATGACCCTGAATCTAGAACCTCCAGTCGT atcgtcaactattcacagcaatatgacatcggctgagtttgcacccttagTATTTATATATAGAAAGTACCGAAAAAGAAAGTGCTGGAAAAGGAGACAAcGATGACCCCGAATCCAGAACCTCAAGTCGTgtgagcatctagtgcaatacagtgattctctttccaatactcccaatcaa Alignment from Spaln_nt2Genome TATTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGACAG-GATGACCCTGAATCTAGAACCTCCAGTCGT atcgtcaactattcacagcaatatgacatcggctgagtttgcacccttagTATTTATATATAGAAAGTACCGAAAAAGAAAGTGCTGGAAAAGGAGACAACGATGACCCCGAATCCAGAACCTCAAGTCGTgtgagcatctagtgcaatacagtgattctctttccaatactcccaatcaa Alignment from Pairagon TATTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGACAG-GATGACCCTGAATCTAGAACCTCCAGTCGT atcgtcaactattcacagcaatatgacatcggctgagtttgcacccttagTATTTATATATAGAAAGTACCGAAAAAGAAAGTGCTGGAAAAGGAGACAACGATGACCCCGAATCCAGAACCTCAAGTCGTgtgagcatctagtgcaatacagtgattctctttccaatactcccaatcaa Alignment from Exonerate_protein2genome TATTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGACAG-GATGACCCTGAATCTAGAACCTCCAGTCGTGAAACCATACCAATGAATGCCTCAA atcgtcaactattcacagcaatatgacatcggctgagtttgcacccttagTATTTATATATAGAAAGTACCGAAAAAGAAAGTGCTGGAAAAGGAGACAACGATGACCCCGAATCCAGAACCTCAAGTCGTGTGAGCATCTAGTGCAATACAGTGAttctctttccaatactcccaatcaa Alignment from Exonerate_coding2genome TATTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGACAG-GATGACCCTGAATCTAGAACCTCCAGTCGTGAAACCATACCAATGAATGCCTCAA atcgtcaactattcacagcaatatgacatcggctgagtttgcacccttagTATTTATATATAGAAAGTACCGAAAAAGAAAGTGCTGGAAAAGGAGACAACGATGACCCCGAATCCAGAACCTCAAGTCGTGTGAGCATCTAGTGCAATACAGTGAttctctttccaatactcccaatcaa Alignment from GeneWise TATTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGA-CAGGATGACCCTGAATCTAGAACCTCCAGTCGTGAAACCATA-- atcgtcaactattcacagcaatatgacatcggctgagtttgcacccttagTATTTATATATAGAAAGTACCGAAAAAGAAAGTGCTGGAAAAGGAGACAACGATGACCCCGAATCCAGAACCTCAAGTCGTGTGAGCATCTAgtgcaatacagtgattctctttccaatactcccaatcaa #### Fau_ID1403_3 --> 2 - 0 Original Alignment gtAAAGTTCACGGTTCCCTGGCT-CGGGCTGGAAAAGTGAGAGGTCAGACTCCCAAG tttcaagaggagaagaggagttcgactaattacttttaatctttaaacaggcATAGTTCATGGCTCCTTGGCCCCGGGCTGGAAAAGTCAGAGGCCAGACTCCCAAAgtaaggagcaggggtaaatcttcctttaagtcagaatgatcattgacagc Alignment from CESAR gtAAAGTTCACGGTTCCCTGGCT-CGGGCTGGAAAAGTGAGAGGTCAGACTCCCAAG tttcaagaggagaagaggagttcgactaattacttttaatctttaaacaggcATAGTTCATGGCTCCTTGGCCCCGGGCTGGAAAAGTCAGAGGCCAGACTCCCAAAgtaaggagcaggggtaaatcttcctttaagtcagaatgatcattgacagc Alignment from Spaln_aa2Genome GTAAAGTTCACGGTTCCCTGGCT-CGGGCTGGAAAAGTGAGAGGTCAGACTCCCAAG tttcaagaggagaagaggagttcgactaattacttttaatctttaaacagGCATAGTTCATGGCTCCTTGGCCcCGGGCTGGAAAAGTCAGAGGCCAGACTCCCAAAgtaaggagcaggggtaaatcttcctttaagtcagaatgatcattgacagc Alignment from Spaln_nt2Genome GTAAAGTTCACGGTTCCCTGGCTC-GGGCTGGAAAAGTGAGAGGTCAGACTCCCAAG tttcaagaggagaagaggagttcgactaattacttttaatctttaaacagGCATAGTTCATGGCTCCTTGGCCCCGGGCTGGAAAAGTCAGAGGCCAGACTCCCAAAgtaaggagcaggggtaaatcttcctttaagtcagaatgatcattgacagc Alignment from Pairagon GTAAAGTTCACGGTTCCCTGG-CTCGGGCTGGAAAAGTGAGAGGTCAGACTCCCAAG tttcaagaggagaagaggagttcgactaattacttttaatctttaaacagGCATAGTTCATGGCTCCTTGGCCCCGGGCTGGAAAAGTCAGAGGCCAGACTCCCAAAgtaaggagcaggggtaaatcttcctttaagtcagaatgatcattgacagc Alignment from Exonerate_protein2genome GTAAAGTTCACGGTTCCCTGGCT-CGGGCTGGAAAAGTGAGAGGTCAGACTCCCAAG tttcaagaggagaagaggagttcgactaattacttttaatctttaaacagGCATAGTTCATGGCTCCTTGGCCCCGGGCTGGAAAAGTCAGAGGCCAGACTCCCAAAgtaaggagcaggggtaaatcttcctttaagtcagaatgatcattgacagc Alignment from Exonerate_coding2genome GTAAAGTTCACGGTTCCCTGGCT-CGGGCTGGAAAAGTGAGAGGTCAGACTCCCAAG tttcaagaggagaagaggagttcgactaattacttttaatctttaaacagGCATAGTTCATGGCTCCTTGGCCCCGGGCTGGAAAAGTCAGAGGCCAGACTCCCAAAgtaaggagcaggggtaaatcttcctttaagtcagaatgatcattgacagc Alignment from GeneWise tttcaagaggagaagaggagttcgactaattacttttaatctttaaacaggcatagttcatggctccttggccccgggctggaaaagtcagaggccagactcccaaagtaaggagcaggggtaaatcttcctttaagtcagaatgatcattgacagc #### Fbxl15_ID9850_2 --> 1 - 0 Original Alignment gCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTC-CGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tattttgttggtacttgttcccttactgtgtctggtctctgtcttcccagaTTCCTGGACCTGCCTTGGGAAGAATTGCTGCTCGTTCATGTTGTAAACTGGGTCCCACTTCACCAG---CTTCGACTGCAGCAGGTGAGTAGAACTTTTCGGGGCACTTGTTCAGTTGCATTTGGCCAGATTACGCCGCTTTGATGCTGCTCAAgtgagtatagcatcaaacagggaccataattatgaggtggtaagcagggg Alignment from CESAR gCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGG-GCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tattttgttggtacttgttcccttactgtgtctggtctctgtcttcccagaTTCCTGGACCTGCCTTGGGAAGAATTGCTGCTCGTTCATGTTGTAAACTGGGTCCCACTTCACCAG---CTTCGACTGCAGCAGGTGAGTAGAACTTTTCGGGGCACTTGTTCAGTTGCATTTGGCCAGATTACGCCGCTTTGATGCTGCTCAAgtgagtatagcatcaaacagggaccataattatgaggtggtaagcagggg Alignment from Spaln_aa2Genome GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGG-GCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tattttgttggtacttgttcccttactgtgtctggtctctgtcttcccagATTCCTGGACCTGCCTTGGGAAGAATTGCTGCTCGTTCATGTTGTAAACTGGGTCCCACTTCACCAG---CTTCGACTGCAGCAGGTGAGTAGAACTTTTCGGgGCACTTGTTCAGTTGCATTTGGCCAGATTACGCCGCTTTGATGCTGCTCAAgtgagtatagcatcaaacagggaccataattatgaggtggtaagcagggg Alignment from Spaln_nt2Genome GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGG-CGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tattttgttggtacttgttcccttactgtgtctggtctctgtcttcccagATTCCTGGACCTGCCTTGGGAAGAATTGCTGCTCGTTCATGTTGTAAACTGGGTCCCACTTCACCA---GCTTCGACTGCAGCAGGTGAGTAGAACTTTTCGGGGCACTTGTTCAGTTGCATTTGGCCAGATTACGCCGCTTTGATGCTGCTCAAgtgagtatagcatcaaacagggaccataattatgaggtggtaagcagggg Alignment from Pairagon GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCC-GGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tattttgttggtacttgttcccttactgtgtctggtctctgtcttcccagATTCCTGGACCTGCCTTGGGAAGAATTGCTGCTCGTTCATGTTGTAAACTGGGTCCCACTTCACCA---GCTTCGACTGCAGCAGGTGAGTAGAACTTTTCGGGGCACTTGTTCAGTTGCATTTGGCCAGATTACGCCGCTTTGATGCTGCTCAAgtgagtatagcatcaaacagggaccataattatgaggtggtaagcagggg Alignment from Exonerate_protein2genome GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGG-GCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tattttgttggtacttgttcccttactgtgtctggtctctgtcttcccagATTCCTGGACCTGCCTTGGGAAGAATTGCTGCTCGTTCATGTTGTAAACTGGGTCCCACTTCACCAG---CTTCGACTGCAGCAGGTGAGTAGAACTTTTCGGGGCACTTGTTCAGTTGCATTTGGCCAGATTACGCCGCTTTGATGCTGCTCAAgtgagtatagcatcaaacagggaccataattatgaggtggtaagcagggg Alignment from Exonerate_coding2genome GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGG-GCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tattttgttggtacttgttcccttactgtgtctggtctctgtcttcccagATTCCTGGACCTGCCTTGGGAAGAATTGCTGCTCGTTCATGTTGTAAACTGGGTCCCACTTCACCAG---CTTCGACTGCAGCAGGTGAGTAGAACTTTTCGGGGCACTTGTTCAGTTGCATTTGGCCAGATTACGCCGCTTTGATGCTGCTCAAgtgagtatagcatcaaacagggaccataattatgaggtggtaagcagggg Alignment from GeneWise GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGG-GCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tattttgttggtacttgttcccttactgtgtctggtctctgtcttcccagATTCCTGGACCTGCCTTGGGAAGAATTGCTGCTCGTTCATGTTGTAAACTGGGTCCCACTTCACCAGCTT---CGACTGCAGCAGGTGAGTAGAACTTTTCGGGGCACTTGTTCAGTTGCATTTGGCCAGATTACGCCGCTTTGATGCTGCTCAAgtgagtatagcatcaaacagggaccataattatgaggtggtaagcagggg #### Fgf8_ID9566_3 --> 0 - 0 Original Alignment GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAG-CCCCAGGGTGTTTCCCAACAG gcctgcgcttggtagggagccaacatccgtcttgttgcttttcttttcagGGAGGCCCTGGTGGGGGGCCTGCGCTTGGCAGGGAGCCGACCTCCCTGCTCCGAGCTGGTCGGGAACCCTCAAGGGGTTTCCCAACAAgtgagcagttagagagatggggaagattcctccattttaggccctgggtt Alignment from CESAR GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCC-CAGGGTGTTTCCCAACAG gcctgcgcttggtagggagccaacatccgtcttgttgcttttcttttcagGGAGGCCCTGGTGGGGGGCCTGCGCTTGGCAGGGAGCCGACCTCCCTGCTCCGAGCTGGTCGGGAACCCTCAAGGGGTTTCCCAACAAgtgagcagttagagagatggggaagattcctccattttaggccctgggtt Alignment from Spaln_aa2Genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAG-CCCCAGGGTGTTTCCCAACAG gcctgcgcttggtagggagccaacatccgtcttgttgcttttcttttcagGGAGGCCCTGGTGGGGGGCCTGCGCTTGGCAGGGAGCCGACCTCCCTGCTCCGAGCTGGTCGGGAAcCCTCAAGGGGTTTCCCAACAAgtgagcagttagagagatggggaagattcctccattttaggccctgggtt Alignment from Spaln_nt2Genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCC-CAGGGTGTTTCCCAACAG gcctgcgcttggtagggagccaacatccgtcttgttgcttttcttttcagGGAGGCCCTGGTGGGGGGCCTGCGCTTGGCAGGGAGCCGACCTCCCTGCTCCGAGCTGGTCGGGAACCCTCAAGGGGTTTCCCAACAAgtgagcagttagagagatggggaagattcctccattttaggccctgggtt Alignment from Pairagon CAGGAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCC-CAGGGTGTTTCCCAACAG gcctgcgcttggtagggagccaacatccgtcttgttgcttttcttttCAGGGAGGCCCTGGTGGGGGGCCTGCGCTTGGCAGGGAGCCGACCTCCCTGCTCCGAGCTGGTCGGGAACCCTCAAGGGGTTTCCCAACAAgtgagcagttagagagatggggaagattcctccattttaggccctgggtt Alignment from Exonerate_protein2genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAG-CCCCAGGGTGTTTCCCAACAG gcctgcgcttggtagggagccaacatccgtcttgttgcttttcttttcagGGAGGCCCTGGTGGGGGGCCTGCGCTTGGCAGGGAGCCGACCTCCCTGCTCCGAGCTGGTCGGGAACCCTCAAGGGGTTTCCCAACAAgtgagcagttagagagatggggaagattcctccattttaggccctgggtt Alignment from Exonerate_coding2genome TGCCTCCAAGCCCAGGAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAG-CCCCAGGGTGTTTCCCAACAG gcctgcgcttggtagggagccaacatccgtcttgtTGCTTTTCTTTTCAGGGAGGCCCTGGTGGGGGGCCTGCGCTTGGCAGGGAGCCGACCTCCCTGCTCCGAGCTGGTCGGGAACCCTCAAGGGGTTTCCCAACAAgtgagcagttagagagatggggaagattcctccattttaggccctgggtt Alignment from GeneWise TGCCTCCAAGCCCAGGAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGG-GAGCCCCAGGGTGTTTCCCAACAG gcctgcgcttggtagggagccaacatccgtcttgtTGCTTTTCTTTTCAGGGAGGCCCTGGTGGGGGGCCTGCGCTTGGCAGGGAGCCGACCTCCCTGCTCCGAGCTGGTCGGGAACCCTCAAGGGGTTTCCCAACAAgtgagcagttagagagatggggaagattcctccattttaggccctgggtt #### Fibp_ID1011_8 --> 0 - 0 Original Alignment AATCTGTCTCGGGGGCTG-GTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG TTTGTGG cacatacagaatctggaggaaatcggggacgtcttcccctctctccacagAATCTTTCTAGAGGCCTGCATAAACGTGGCTGCCAAG------TGCAACAAAGATGTTAGAGTCTTGTTTGTTGAGCTTTTCAAGAGGgtgagtagcagttagaatttgtaaacattattgtaattgacagTTTGTAG Alignment from CESAR AATCTGTCTCGGGGGCTG-GTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG TTTGTGG cacatacagaatctggaggaaatcggggacgtcttcccctctctccacagAATCTTTCTAGAGGCCTGCATAAACGTGGCTGCCAAG------TGCAACAAAGATGTTAGAGTCTTGTTTGTTGAGCTTTTCAAGAGGgtgagtagcagttagaatttgccccctccttatgccctttcagTTTGTAG Alignment from Spaln_aa2Genome AATCTGTCTCGGGGGCTG-GTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG TTTGTGG cacatacagaatctggaggaaatcggggacgtcttcccctctctccacagAATCTTTCTAGAGGCCTGcATAAACGTGGCTGCCAAG------TGCAACAAAGATGTTAGAGTCTTGTTTGTTGAGCTTTTCAAGAGGgtgagtagcagttagaatttgtaaacattattgtaattgacagTTTGTAG Alignment from Spaln_nt2Genome AATCTGTCTCGGGGGCTGG-TGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG TTTGTGG cacatacagaatctggaggaaatcggggacgtcttcccctctctccacagAATCTTTCTAGAGGCCTGCATAAACGTGGCTGCCAAG-TG-----CAACAAAGATGTTAGAGTCTTGTTTGTTGAGCTTTTCAAGAGGgtgagtagcagttagaatttgtaaacattattgtaattgacagTTTGTAG Alignment from Pairagon AATCTGTCTCGGGGGCTG-GTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG TTTGTGG cacatacagaatctggaggaaatcggggacgtcttcccctctctccacagAATCTTTCTAGAGGCCTGCATAAACGTGGCTGCCAAG------TGCAACAAAGATGTTAGAGTCTTGTTTGTTGAGCTTTTCAAGAGGgtgagtagcagttagaatttgtaaacattattgtaattgacagTTTGTAG Alignment from Exonerate_protein2genome AATCTGTCTCGGGGGCTG-GTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG TTTGTGG cacatacagaatctggaggaaatcggggacgtcttcccctctctccacagAATCTTTCTAGAGGCCTGCATAAACGTGGCTGCCAAGTGC------AACAAAGATGTTAGAGTCTTGTTTGTTGAGCTTTTCAAGAGGgtgagtagcagttagaatttgtaaacattattgtaattgacagTTTGTAG Alignment from Exonerate_coding2genome cacatacagaatctggaggaaatcggggacgtcttcccctctctccacagaatctttctagaggcctgcataaacgtggctgccaagtgcaacaaagatgttagagtcttgtttgttgagcttttcaagagggtgagtagcagttagaatttgtaaacattattgtaattgacagtttgtag Alignment from GeneWise ----CTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG TTTGTGG cacatacagaatctggaggaaatcggggacgtcttcccctctctccacagAATCTTTCTAGAGGCCTGCATAAACGTGGCTGCCAAGTGC------AACAAAGATGTTAGAGTCTTGTTTGTTGAGCTTTTCAAGAGGgtgagtagcagttagaatttgtaaacattattgtaattgacagTTTGTAG #### Fibp_ID1012_9 --> 0 - 2 Original Alignment GGAGAAG TTTGTGGAACCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGG-CTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCcg CAAGAGGgtaggtagcagttagaatttgccccctccttatgccctttcagTTTGTAGAACCATGCCGGTCTGACCACTGGCCACTGAGTGATGTCCAGCCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCTTGCATGGATTCcggtaacgaaaagagagggacatatatttgtttggtctagtttaatatcaca Alignment from CESAR GGAGAAG TTTGTGGAACCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGG-CTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCcg CAAGAGGgtgagtagcagttagaatttgccccctccttatgccctttcagTTTGTAGAACCATGCCGGTCTGACCACTGGCCACTGAGTGATGTCCAGCCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCTTGCATGGATTCcggtaacgaaaagagagggacatatatttgtttggtctagtttaatatcaca Alignment from Spaln_aa2Genome GGAGAAG TTTGTGGAACCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGG-CTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG CAAGAGGgtaggtagcagttagaatttgccccctccttatgccctttcagTTTGTAGAACCATGCCGGTCTGACCACTGGCCACTGAGTGATGTCCAGcCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCTTGCATGGATTCCGgtaacgaaaagagagggacatatatttgtttggtctagtttaatatcaca Alignment from Spaln_nt2Genome GGAGAAG TTTGTGGAACCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGGC-TCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG CAAGAGGgtaggtagcagttagaatttgccccctccttatgccctttcagTTTGTAGAACCATGCCGGTCTGACCACTGGCCACTGAGTGATGTCCAGCCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCTTGCATGGATTCCGgtaacgaaaagagagggacatatatttgtttggtctagtttaatatcaca Alignment from Pairagon GGAGAAG TTTGTGGAACCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGG-CTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG CAAGAGGgtaggtagcagttagaatttgccccctccttatgccctttcagTTTGTAGAACCATGCCGGTCTGACCACTGGCCACTGAGTGATGTCCAGCCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCTTGCATGGATTCCGgtaacgaaaagagagggacatatatttgtttggtctagtttaatatcaca Alignment from Exonerate_protein2genome GGAGAAG TTTGTGGAACCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGG-CTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG CAAGAGGgtaggtagcagttagaatttgccccctccttatgccctttcagTTTGTAGAACCATGCCGGTCTGACCACTGGCCACTGAGTGATGTCCAGCCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCTTGCATGGATTCCGgtaacgaaaagagagggacatatatttgtttggtctagtttaatatcaca Alignment from Exonerate_coding2genome GGAGAAG TTTGTGGAACCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGG-CTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG CAAGAGGgtaggtagcagttagaatttgccccctccttatgccctttcagTTTGTAGAACCATGCCGGTCTGACCACTGGCCACTGAGTGATGTCCAGCCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCTTGCATGGATTCCGgtaacgaaaagagagggacatatatttgtttggtctagtttaatatcaca Alignment from GeneWise GGAGAAG TTTGTGGAACCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTG-CGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG CAAGAGGgtaggtagcagttagaatttgccccctccttatgccctttcagTTTGTAGAACCATGCCGGTCTGACCACTGGCCACTGAGTGATGTCCAGCCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCTTGCATGGATTCCGgtaacgaaaagagagggacatatatttgtttggtctagtttaatatcaca #### Fkbp2_ID1946_3 --> 1 - 1 Original Alignment gATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATC-CCATCCGAGCTGg tgttacttttggctagctttttttatacgctcacactcatctccccacagaATGTGTGAAGGAGAGAGGCAGAAGTTGTTCATCCCTGTCAGAGTTAggtaagttaacataatatccagaacaagtttagacagtttaatggttgggg Alignment from CESAR gATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCA-TCCGAGCTGg tgttacttttggctagctttttttatacgctcacactcatctccccacagaATGTGTGAAGGAGAGAGGCAGAAGTTGTTCATCCCTGTCAGAGTTAggtaagttaacataatatccagaacaagtttagacagtttaatggttgggg Alignment from Spaln_aa2Genome GATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCA-TCCGAGCTGG tgttacttttggctagctttttttatacgctcacactcatctccccacagAATGTGTGAAGGAGAGAGGCAGAAGTTGTTCATCCCTgTCAGAGTTAGgtaagttaacataatatccagaacaagtttagacagtttaatggttgggg Alignment from Spaln_nt2Genome GATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCA-TCCGAGCTGG tgttacttttggctagctttttttatacgctcacactcatctccccacagAATGTGTGAAGGAGAGAGGCAGAAGTTGTTCATCCCTGTCAGAGTTAGgtaagttaacataatatccagaacaagtttagacagtttaatggttgggg Alignment from Pairagon GATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCC-ATCCGAGCTGG tgttacttttggctagctttttttatacgctcacactcatctccccacagAATGTGTGAAGGAGAGAGGCAGAAGTTGTTCATCCCTGTCAGAGTTAGgtaagttaacataatatccagaacaagtttagacagtttaatggttgggg Alignment from Exonerate_protein2genome GATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCA-TCCGAGCTGG tgttacttttggctagctttttttatacgctcacactcatctccccacagAATGTGTGAAGGAGAGAGGCAGAAGTTGTTCATCCCTGTCAGAGTTAGgtaagttaacataatatccagaacaagtttagacagtttaatggttgggg Alignment from Exonerate_coding2genome tgttacttttggctagctttttttatacgctcacactcatctccccacagaatgtgtgaaggagagaggcagaagttgttcatccctgtcagagttaggtaagttaacataatatccagaacaagtttagacagtttaatggttgggg Alignment from GeneWise GATGTGTGAAGGGG tgttacttttggctagctttttttatacgctcacactcatctccccacagaatgtgtgaaggagagaggcagaagttgttcatccctgtcagagttaggtaagttaacataatatccagaacaagtttagacagTTTAATGGTTGGGG #### Fkbp2_ID1947_2 --> 0 - 2 Original Alignment GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTT-ATCAAGGGCTGGGACCAGGGGCTGCTGgg acattctttcctcatcgttgatgttttgtcaccgcagctgccttgtctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTCATCAAGGGTTGGGACCAGGGTCTACTAgggtatggttggcatacaatctaagttgcaattgctgtagtaaaggtatttt Alignment from CESAR GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTT-ATCAAGGGCTGGGACCAGGGGCTGCTGgg acattctttcctcatcgttgatgttttgtcaccgcagctgccttgtctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTCATCAAGGGTTGGGACCAGGGTCTACTAgggtatggttggcatacaatctaagttgcaattgctgtagtaaaggtatttt Alignment from Spaln_aa2Genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTT-ATCAAGGGCTGGGACCAGGGGCTGCTGGG acattctttcctcatcgttgatgttttgtcaccgcagctgccttgtctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTcATCAAGGGTTGGGACCAGGGTCTACTAGGgtatggttggcatacaatctaagttgcaattgctgtagtaaaggtatttt Alignment from Spaln_nt2Genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTT-ATCAAGGGCTGGGACCAGGGGCTGCTGGG acattctttcctcatcgttgatgttttgtcaccgcagctgccttgtctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTCATCAAGGGTTGGGACCAGGGTCTACTAGGgtatggttggcatacaatctaagttgcaattgctgtagtaaaggtatttt Alignment from Pairagon GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTT-ATCAAGGGCTGGGACCAGGGGCTGCTGGG acattctttcctcatcgttgatgttttgtcaccgcagctgccttgtctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTCATCAAGGGTTGGGACCAGGGTCTACTAGGgtatggttggcatacaatctaagttgcaattgctgtagtaaaggtatttt Alignment from Exonerate_protein2genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTT-ATCAAGGGCTGGGACCAGGGGCTGCTGGG acattctttcctcatcgttgatgttttgtcaccgcagctgccttgtctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTCATCAAGGGTTGGGACCAGGGTCTACTAGGgtatggttggcatacaatctaagttgcaattgctgtagtaaaggtatttt Alignment from Exonerate_coding2genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTT-ATCAAGGGCTGGGACCAGGGGCTGCTGGGGATGT acattctttcctcatcgttgatgttttgtcaccgcagctgccttgtctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTCATCAAGGGTTGGGACCAGGGTCTACTAGGGTATGgttggcatacaatctaagttgcaattgctgtagtaaaggtatttt Alignment from GeneWise GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAG-GTTATCAAGGGCTGGGACCAGGGGCTGCTGGGGATGT acattctttcctcatcgttgatgttttgtcaccgcagctgccttgtctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTCATCAAGGGTTGGGACCAGGGTCTACTAGGGTATGgttggcatacaatctaagttgcaattgctgtagtaaaggtatttt #### Frmd8_ID1284_4 --> 2 - 0 Original Alignment atGAGCCTTCCCTTCAG-TTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tatctttgaaggctcgggaaacaatgaaatttacgcctgtttctctctagatGAACCTTCCCTTCACCTTCCGAAGGAATGTCTTTTTCCCCAGACAGCGTGAGCTCCAGgtagggcaggacctatctcaggtcacactattttagtatgcccatgtctg Alignment from CESAR atGAGCCTTCCCTTCAG-TTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tatctttgaaggctcgggaaacaatgaaatttacgcctgtttctctctagatGAACCTTCCCTTCACCTTCCGAAGGAATGTCTTTTTCCCCAGACAGCGTGAGCTCCAGgtagggcaggacctatctcaggtcacactattttagtatgcccatgtctg Alignment from Spaln_aa2Genome ---GAGCCTTCCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tatctttgaaggctcgggaaacaatgaaatttacgcctgtttctctctagATGAACCTTCCCTTCACCTTCCGAAGGAATGTCTTTTTCCCCAGACAGCGTGAGCTCCAGgtagggcaggacctatctcaggtcacactattttagtatgcccatgtctg Alignment from Spaln_nt2Genome ATGAGCCTTCCCTTCAG-TTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tatctttgaaggctcgggaaacaatgaaatttacgcctgtttctctctagATGAACCTTCCCTTCACCTTCCGAAGGAATGTCTTTTTCCCCAGACAGCGTGAGCTCCAGgtagggcaggacctatctcaggtcacactattttagtatgcccatgtctg Alignment from Pairagon ATGAGCCTTCCCTTCA-GTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tatctttgaaggctcgggaaacaatgaaatttacgcctgtttctctctagATGAACCTTCCCTTCACCTTCCGAAGGAATGTCTTTTTCCCCAGACAGCGTGAGCTCCAGgtagggcaggacctatctcaggtcacactattttagtatgcccatgtctg Alignment from Exonerate_protein2genome ATGAGCCTTCCCTTCAG-TTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tatctttgaaggctcgggaaacaatgaaatttacgcctgtttctctctagATGAACCTTCCCTTCACCTTCCGAAGGAATGTCTTTTTCCCCAGACAGCGTGAGCTCCAGgtagggcaggacctatctcaggtcacactattttagtatgcccatgtctg Alignment from Exonerate_coding2genome ATGAGCCTTCCCTTCAG-TTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tatctttgaaggctcgggaaacaatgaaatttacgcctgtttctctctagATGAACCTTCCCTTCACCTTCCGAAGGAATGTCTTTTTCCCCAGACAGCGTGAGCTCCAGgtagggcaggacctatctcaggtcacactattttagtatgcccatgtctg Alignment from GeneWise ---------TCCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tatctttgaaggctcgggaaacaatgaaatttacgcctgtttctctctagATGAACCTTCCCTTCACCTTCCGAAGGAATGTCTTTTTCCCCAGACAGCGTGAGCTCCAGgtagggcaggacctatctcaggtcacactattttagtatgcccatgtctg #### Fth1_ID2624_3 --> 0 - 0 Original Alignment AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTG-GCTACTGACAAGAATGATCCCCAC tgtattgggggtttaatgattatgacacccatggattattgtttccacagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGCGCACTCCACTTGGAAAAGAGTGTAAACCAGTCCCTACTGGAGCTGCATGAACTACGCAACTGATAAGAATGACCTCCATgtaagcttcaataggctgcatatagatgggttgccatcatgaggagaaaa Alignment from CESAR AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTG-GCTACTGACAAGAATGATCCCCAC tgtattgggggtttaatgattatgacacccatggattattgtttccacagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGCGCACTCCACTTGGAAAAGAGTGTAAACCAGTCCCTACTGGAGCTGCATGAACTACGCAACTGATAAGAATGACCTCCATgtaagcttcaataggctgcatatagatgggttgccatcatgaggagaaaa Alignment from Spaln_aa2Genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTG-GCTACTGACAAGAATGATCCCCAC tgtattgggggtttaatgattatgacacccatggattattgtttccacagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGCGCACTCCACTTGGAAAAGAGTGTAAACCAGTCCCTACTGGAGCTGCATGAACTAcGCAACTGATAAGAATGACCTCCATgtaagcttcaataggctgcatatagatgggttgccatcatgaggagaaaa Alignment from Spaln_nt2Genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTG-GCTACTGACAAGAATGATCCCCAC tgtattgggggtttaatgattatgacacccatggattattgtttccacagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGCGCACTCCACTTGGAAAAGAGTGTAAACCAGTCCCTACTGGAGCTGCATGAACTACGCAACTGATAAGAATGACCTCCATgtaagcttcaataggctgcatatagatgggttgccatcatgaggagaaaa Alignment from Pairagon AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTG-GCTACTGACAAGAATGATCCCCAC tgtattgggggtttaatgattatgacacccatggattattgtttccacagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGCGCACTCCACTTGGAAAAGAGTGTAAACCAGTCCCTACTGGAGCTGCATGAACTACGCAACTGATAAGAATGACCTCCATgtaagcttcaataggctgcatatagatgggttgccatcatgaggagaaaa Alignment from Exonerate_protein2genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTG-GCTACTGACAAGAATGATCCCCAC tgtattgggggtttaatgattatgacacccatggattattgtttccacagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGCGCACTCCACTTGGAAAAGAGTGTAAACCAGTCCCTACTGGAGCTGCATGAACTACGCAACTGATAAGAATGACCTCCATgtaagcttcaataggctgcatatagatgggttgccatcatgaggagaaaa Alignment from Exonerate_coding2genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTG-GCTACTGACAAGAATGATCCCCAC tgtattgggggtttaatgattatgacacccatggattattgtttccacagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGCGCACTCCACTTGGAAAAGAGTGTAAACCAGTCCCTACTGGAGCTGCATGAACTACGCAACTGATAAGAATGACCTCCATgtaagcttcaataggctgcatatagatgggttgccatcatgaggagaaaa Alignment from GeneWise ---------------------------------------------------AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTG-GCTACTGACAAGAATGATCCCCAC TGTATTGGGGGTTTAATGATTATGACACCCATGGATTATTGTTTCCACAG-AAGCCTGAACGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGCGCACTCCACTTGGAAAAGAGTGTAAACCAGTCCCTACTGGAGCTGCATGAACTACGCAACTGATAAGAATGACCTCCATgtaagcttcaataggctgcatatagatgggttgccatcatgaggagaaaa #### Ganab_ID2467_6 --> 1 - 2 Original Alignment tTTCTCGGATAAAGTTAGTCTCGCGCTC-GGTAGCGTGTGGGATAAGATCAAGAACCTTTTCTCTag ccacggtagtaagacaagggttcagaaagctttctgcctttcttccatagtTTCTCTGATAAAGTTAGCGTGACACTCCAGCAGTGTGTGGGATAAGATCAAGAACCTTTTTTCCaggtatttgcctcggtatatacctattgagttttgcgctggccaacaacctc Alignment from CESAR tTTCTCGGATAAAGTTAGTCTCGCGCTC-GGTAGCGTGTGGGATAAGATCAAGAACCTTTTCTCTag ccacggtagtaagacaagggttcagaaagctttctgcctttcttccatagtTTCTCTGATAAAGTTAGCGTGACACTCCAGCAGTGTGTGGGATAAGATCAAGAACCTTTTTTCCaggtatttgcctcggtatatacctattgagttttgcgctggccaacaacctc Alignment from Spaln_aa2Genome TTTCTCGGATAAAGTTAGTCTCGCGCTC-GGTAGCGTGTGGGATAAGATCAAGAACCTTTTCTCTAG ccacggtagtaagacaagggttcagaaagctttctgcctttcttccatagTTTCTCTGATAAAGTTAGCGTGACACTCcAGCAGTGTGTGGGATAAGATCAAGAACCTTTTTTCCAGgtatttgcctcggtatatacctattgagttttgcgctggccaacaacctc Alignment from Spaln_nt2Genome TTTCTCGGATAAAGTTAGTCTCGCGCTCG-GTAGCGTGTGGGATAAGATCAAGAACCTTTTCTCTAG ccacggtagtaagacaagggttcagaaagctttctgcctttcttccatagTTTCTCTGATAAAGTTAGCGTGACACTCCAGCAGTGTGTGGGATAAGATCAAGAACCTTTTTTCCAGgtatttgcctcggtatatacctattgagttttgcgctggccaacaacctc Alignment from Pairagon TTTCTCGGATAAAGTTAGTCTCGCGCTCG----------GTAGCGTGTGGGATAAGATCAAGAACCTTTTCTCTAG ccacggtagtaagacaagggttcagaaagctttctgcctttcttccatagTTTCTCTGATAAAGTTAG---------CGTGACACTCCAGCAGTGTGTGGGATAAGATCAAGAACCTTTTTTCCAGgtatttgcctcggtatatacctattgagttttgcgctggccaacaacctc Alignment from Exonerate_protein2genome TTTCTCGGATAAAGTTAGTCTCGCGCTC-GGTAGCGTGTGGGATAAGATCAAGAACCTTTTCTCTAG ccacggtagtaagacaagggttcagaaagctttctgcctttcttccatagTTTCTCTGATAAAGTTAGCGTGACACTCCAGCAGTGTGTGGGATAAGATCAAGAACCTTTTTTCCAGgtatttgcctcggtatatacctattgagttttgcgctggccaacaacctc Alignment from Exonerate_coding2genome TTTCTCGGATAAAGTTAGTCTCGCGCTC-GGTAGCGTGTGGGATAAGATCAAGAACCTTTTCTCTAG ccacggtagtaagacaagggttcagaaagctttctgcctttcttccatagTTTCTCTGATAAAGTTAGCGTGACACTCCAGCAGTGTGTGGGATAAGATCAAGAACCTTTTTTCCAGgtatttgcctcggtatatacctattgagttttgcgctggccaacaacctc Alignment from GeneWise TTTCTCGGATAAAGTTAGTCTCGCGCTC-GGTAGCGTGTGGGATAAGATCAAGAACCTTTTCTCTAG ccacggtagtaagacaagggttcagaaagctttctgcctttcttccatagTTTCTCTGATAAAGTTAGCGTGACACTCCAGCAGTGTGTGGGATAAGATCAAGAACCTTTTTTCCAGgtatttgcctcggtatatacctattgagttttgcgctggccaacaacctc #### Ganab_ID2469_8 --> 0 - 1 Original Alignment CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGAT-GAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATg ctttaggaggcggcaagtgggtatgaataggccccttgctccctccacagCCAGAGGAGACCCAAGAAAAGGCTGAGAAAGATCGAGCCAGGAGCTTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATggtactgaagtagccttgatgctaattttggaattgacatgtcttagatcc Alignment from CESAR CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGAT-GAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATg ctttaggaggcggcaagtgggtatgaataggccccttgctccctccacagCCAGAGGAGACCCAAGAAAAGGCTGAGAAAGATCGAGCCAGGAGCTTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATggtactgaagtagccttgatgctaattttggaattgacatgtcttagatcc Alignment from Spaln_aa2Genome CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGAT-GAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ctttaggaggcggcaagtgggtatgaataggccccttgctccctccacagCCAGAGGAGACCCAAGAAAAGGCTGAGAAAGATcGAGCCAGGAGCTTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtactgaagtagccttgatgctaattttggaattgacatgtcttagatcc Alignment from Spaln_nt2Genome CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGAT-GAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ctttaggaggcggcaagtgggtatgaataggccccttgctccctccacagCCAGAGGAGACCCAAGAAAAGGCTGAGAAAGATCGAGCCAGGAGCTTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtactgaagtagccttgatgctaattttggaattgacatgtcttagatcc Alignment from Pairagon CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGAT-GAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ctttaggaggcggcaagtgggtatgaataggccccttgctccctccacagCCAGAGGAGACCCAAGAAAAGGCTGAGAAAGATCGAGCCAGGAGCTTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtactgaagtagccttgatgctaattttggaattgacatgtcttagatcc Alignment from Exonerate_protein2genome CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGAT-GAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ctttaggaggcggcaagtgggtatgaataggccccttgctccctccacagCCAGAGGAGACCCAAGAAAAGGCTGAGAAAGATCGAGCCAGGAGCTTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtactgaagtagccttgatgctaattttggaattgacatgtcttagatcc Alignment from Exonerate_coding2genome CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGAT-GAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ctttaggaggcggcaagtgggtatgaataggccccttgctccctccacagCCAGAGGAGACCCAAGAAAAGGCTGAGAAAGATCGAGCCAGGAGCTTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtactgaagtagccttgatgctaattttggaattgacatgtcttagatcc Alignment from GeneWise CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGAT-GAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ctttaggaggcggcaagtgggtatgaataggccccttgctccctccacagCCAGAGGAGACCCAAGAAAAGGCTGAGAAAGATCGAGCCAGGAGCTTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtactgaagtagccttgatgctaattttggaattgacatgtcttagatcc #### Ganab_ID2470_9 --> 2 - 2 Original Alignment gcCCCACGTCTGTAGGT-TTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTga atgctacatgcataatgccttaatactagaagtttcccatatcccactaggtCCCATGTCTGTTGGTCTTAGACTTTTCTCTACCGTGGATGGAACATGCATACGGGATCCCTGAACATGCTGACAGCTTAAGACTGAAGGTTACTgagtgagcccttgtgatgacagtaaacagcattttcaggaagacaatctttg Alignment from CESAR gcCCCACGTCTGTAGGT-TTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTga atgctacatgcataatgccttaatactagaagtttcccatatcccactaggtCCCATGTCTGTTGGTCTTAGACTTTTCTCTACCGTGGATGGAACATGCATACGGGATCCCTGAACATGCTGACAGCTTAAGACTGAAGGTTACTgagtgagcccttgtgatgacagtaaacagcattttcaggaagacaatctttg Alignment from Spaln_aa2Genome GCCCCACGTCTGTAGGT-TTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA atgctacatgcataatgccttaatactagaagtttcccatatcccactagGTCCCATGTCTGTTGGTcTTAGACTTTTCTCTACCGTGGATGGAACATGCATACGGGATCCCTGAACATGCTGACAGCTTAAGACTGAAGGTTACTGAgtgagcccttgtgatgacagtaaacagcattttcaggaagacaatctttg Alignment from Spaln_nt2Genome GCCCCACGTCTGTAGGT-TTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA atgctacatgcataatgccttaatactagaagtttcccatatcccactagGTCCCATGTCTGTTGGTCTTAGACTTTTCTCTACCGTGGATGGAACATGCATACGGGATCCCTGAACATGCTGACAGCTTAAGACTGAAGGTTACTGAgtgagcccttgtgatgacagtaaacagcattttcaggaagacaatctttg Alignment from Pairagon GCCCCACGTCTGTAGGT-TTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA atgctacatgcataatgccttaatactagaagtttcccatatcccactagGTCCCATGTCTGTTGGTCTTAGACTTTTCTCTACCGTGGATGGAACATGCATACGGGATCCCTGAACATGCTGACAGCTTAAGACTGAAGGTTACTGAgtgagcccttgtgatgacagtaaacagcattttcaggaagacaatctttg Alignment from Exonerate_protein2genome GCCCCACGTCTGTAGGT-TTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA atgctacatgcataatgccttaatactagaagtttcccatatcccactagGTCCCATGTCTGTTGGTCTTAGACTTTTCTCTACCGTGGATGGAACATGCATACGGGATCCCTGAACATGCTGACAGCTTAAGACTGAAGGTTACTGAgtgagcccttgtgatgacagtaaacagcattttcaggaagacaatctttg Alignment from Exonerate_coding2genome GCCCCACGTCTGTAGGT-TTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA atgctacatgcataatgccttaatactagaagtttcccatatcccactagGTCCCATGTCTGTTGGTCTTAGACTTTTCTCTACCGTGGATGGAACATGCATACGGGATCCCTGAACATGCTGACAGCTTAAGACTGAAGGTTACTGAgtgagcccttgtgatgacagtaaacagcattttcaggaagacaatctttg Alignment from GeneWise GCCCCACGTCTGTAGGT-TTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA atgctacatgcataatgccttaatactagaagtttcccatatcccactagGTCCCATGTCTGTTGGTCTTAGACTTTTCTCTACCGTGGATGGAACATGCATACGGGATCCCTGAACATGCTGACAGCTTAAGACTGAAGGTTACTGAgtgagcccttgtgatgacagtaaacagcattttcaggaagacaatctttg #### Ganab_ID2471_10 --> 1 - 0 Original Alignment gGGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTG-TTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG atttttttcagataagaaatcttcatgtccctgtggcgcaccccttccagaGGTGGTGAGCCATATCGTTTGTACAACTTAGATGTACTTACAGTACGAGCTAAATAACCCAACAGCACTCTATGGGTCGGTACCTGTT---CTGGCACACAGCTTCCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCTAACACA------AAGgtaatccgtagatatgtgagatatgaggtctgccttaaacatctcatcag Alignment from CESAR gGGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTGTTC-CAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG atttttttcagataagaaatcttcatgtccctgtggcgcaccccttccagaGGTGGTGAGCCATATCGTTTGTACAACTTAGATGTACTTACAGTACGAGCTAAATAACCCAACAGCACTCTATGGGTCGGTACCTGTT---CTGGCACACAGCTTCCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCTAACACA------AAGgtaatccgtagatatgtgagatatgaggtctgccttaaacatctcatcag Alignment from Spaln_aa2Genome GGGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTGTTC-CAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG atttttttcagataagaaatcttcatgtccctgtggcgcaccccttccagAGGTGGTGAGCCATATCGTTTGTACAACTTAGATGTACTTaCAGTACGAGCTAAATAACCCAACAGCACTCTATGGGTCGGTACCTGTT---CTGGCACACAGCTTCCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCTAACACA------AAGgtaatccgtagatatgtgagatatgaggtctgccttaaacatctcatcag Alignment from Spaln_nt2Genome GGGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTG-TTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG atttttttcagataagaaatcttcatgtccctgtggcgcaccccttccagAGGTGGTGAGCCATATCGTTTGTACAACTTAGATGTACTTACAGTACGAGCTAAATAACCCAACAGCACTCTATGGGTCGGTACCTG---TTCTGGCACACAGCTTCCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCTAACAC------AAAGgtaatccgtagatatgtgagatatgaggtctgccttaaacatctcatcag Alignment from Pairagon GGGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTG-TTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG atttttttcagataagaaatcttcatgtccctgtggcgcaccccttccagAGGTGGTGAGCCATATCGTTTGTACAACTTAGATGTACTTACAGTACGAGCTAAATAACCCAACAGCACTCTATGGGTCGGTACCTG---TTCTGGCACACAGCTTCCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCTAACAC------AAAGgtaatccgtagatatgtgagatatgaggtctgccttaaacatctcatcag Alignment from Exonerate_protein2genome GGGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTG-TTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG atttttttcagataagaaatcttcatgtccctgtggcgcaccccttccagAGGTGGTGAGCCATATCGTTTGTACAACTTAGATGTACTTACAGTACGAGCTAAATAACCCAACAGCACTCTATGGGTCGGTACCTGTT---CTGGCACACAGCTTCCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCTAACACA------AAGgtaatccgtagatatgtgagatatgaggtctgccttaaacatctcatcag Alignment from Exonerate_coding2genome GGGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTG-TTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG atttttttcagataagaaatcttcatgtccctgtggcgcaccccttccagAGGTGGTGAGCCATATCGTTTGTACAACTTAGATGTACTTACAGTACGAGCTAAATAACCCAACAGCACTCTATGGGTCGGTACCTGTT---CTGGCACACAGCTTCCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCTAACACA------AAGgtaatccgtagatatgtgagatatgaggtctgccttaaacatctcatcag Alignment from GeneWise GGGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTG-TTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACG----------------------------------------------------- atttttttcagataagaaatcttcatgtccctgtggcgcaccccttccagAGGTGGTGAGCCATATCGTTTGTACAACTTAGATGTACTTACAGTACGAGCTAAATAACCCAACAGCACTCTATGGGTCGGTACCTGTTCTG---GCACACAGCTTCCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCTAACACAAAGGTAATCCGTAGATATGTGAGATATGAGGTCTGCCTTAAACATCTCATCAG #### Ganab_ID2481_20 --> 2 - 0 Original Alignment gtGATGCACTCCTTATTCACCCTGTATCG-GATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggaacaggctgctcagatgtgtccaaagtgctctcttctcattgatctaggtGACACACTCCTTATTCACCCTGTATCACGATGCCGGGGCCCATGGTGTGCAGGTTTATTTGCCCGGCCAAGAAGAAgtaagttgccaaatggcaatacataggtgtgtcaggagccaaatcttttt Alignment from CESAR gtGATGCACTCCTTATTCACCCTGTATCG-GATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggaacaggctgctcagatgtgtccaaagtgctctcttctcattgatctaggtGACACACTCCTTATTCACCCTGTATCACGATGCCGGGGCCCATGGTGTGCAGGTTTATTTGCCCGGCCAAGAAGAAgtaagttgccaaatggcaatacataggtgtgtcaggagccagcatgctga Alignment from Spaln_aa2Genome GTGATGCACTCCTTATTCACCCTGTATCG-GATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggaacaggctgctcagatgtgtccaaagtgctctcttctcattgatctagGTGACACACTCCTTATTCACCCTGTATCAcGATGCCGGGGCCCATGGTGTGCAGGTTTATTTGCCCGGCCAAGAAGAAgtaagttgccaaatggcaatacataggtgtgtcaggagccaaatcttttt Alignment from Spaln_nt2Genome GTGATGCACTCCTTATTCACCCTGTATCG-GATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggaacaggctgctcagatgtgtccaaagtgctctcttctcattgatctagGTGACACACTCCTTATTCACCCTGTATCACGATGCCGGGGCCCATGGTGTGCAGGTTTATTTGCCCGGCCAAGAAGAAgtaagttgccaaatggcaatacataggtgtgtcaggagccaaatcttttt Alignment from Pairagon GTGATGCACTCCTTATTCACCCTGTATCG-GATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggaacaggctgctcagatgtgtccaaagtgctctcttctcattgatctagGTGACACACTCCTTATTCACCCTGTATCACGATGCCGGGGCCCATGGTGTGCAGGTTTATTTGCCCGGCCAAGAAGAAgtaagttgccaaatggcaatacataggtgtgtcaggagccaaatcttttt Alignment from Exonerate_protein2genome GTGATGCACTCCTTATTCACCCTGTATCG-GATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggaacaggctgctcagatgtgtccaaagtgctctcttctcattgatctagGTGACACACTCCTTATTCACCCTGTATCACGATGCCGGGGCCCATGGTGTGCAGGTTTATTTGCCCGGCCAAGAAGAAgtaagttgccaaatggcaatacataggtgtgtcaggagccaaatcttttt Alignment from Exonerate_coding2genome GTGATGCACTCCTTATTCACCCTGTATCG-GATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggaacaggctgctcagatgtgtccaaagtgctctcttctcattgatctagGTGACACACTCCTTATTCACCCTGTATCACGATGCCGGGGCCCATGGTGTGCAGGTTTATTTGCCCGGCCAAGAAGAAgtaagttgccaaatggcaatacataggtgtgtcaggagccaaatcttttt Alignment from GeneWise ----------------------------------------------CTTGGTGATGCACTCCTTATTCACCCTGTA-TCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA GGAACAGGCTGCTCAGATGTGTCCAAAGTGCTCTCTTCTCATTGATCTAGGTGACACACTCCTTATTCACCCTGTATCACGATGCCGGGGCCCATGGTGTGCAGGTTTATTTGCCCGGCCAAGAAGAAgtaagttgccaaatggcaatacataggtgtgtcaggagccaaatcttttt #### Ganab_ID2482_21 --> 0 - 0 Original Alignment GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGG-CCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT tggcaatacataggtgtgtcaggagccagcatgctgacttctctccccagGTGTGGTATGATATCCAGAGCTATCAGAAACATCATGGGCCCCCAAACCTTGTATCTACCAGTAACCTTAAGCAGCgtgagggggagatttgtaagggtatccatgcctgtttgtcgggattggaa Alignment from CESAR GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCC-CAGACCTTGTATCTGCCAGTAACTTTGAGCAGT tggcaatacataggtgtgtcaggagccagcatgctgacttctctccccagGTGTGGTATGATATCCAGAGCTATCAGAAACATCATGGGCCCCCAAACCTTGTATCTACCAGTAACCTTAAGCAGCgtgagggggagatttgtaagggtatccatgcctgtttgtcgggattggaa Alignment from Spaln_aa2Genome GTGTGGTATGACATTCAGAGCTATCAGAAGCATCAT-GGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT tggcaatacataggtgtgtcaggagccagcatgctgacttctctccccagGTGTGGTATGATATCCAGAGCTATCAGAAACATCATgGGCCCCCAAACCTTGTATCTACCAGTAACCTTAAGCAGCgtgagggggagatttgtaagggtatccatgcctgtttgtcgggattggaa Alignment from Spaln_nt2Genome GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGG-CCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT tggcaatacataggtgtgtcaggagccagcatgctgacttctctccccagGTGTGGTATGATATCCAGAGCTATCAGAAACATCATGGGCCCCCAAACCTTGTATCTACCAGTAACCTTAAGCAGCgtgagggggagatttgtaagggtatccatgcctgtttgtcgggattggaa Alignment from Pairagon GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGG-CCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT tggcaatacataggtgtgtcaggagccagcatgctgacttctctccccagGTGTGGTATGATATCCAGAGCTATCAGAAACATCATGGGCCCCCAAACCTTGTATCTACCAGTAACCTTAAGCAGCgtgagggggagatttgtaagggtatccatgcctgtttgtcgggattggaa Alignment from Exonerate_protein2genome GTGTGGTATGACATTCAGAGCTATCAGAAGCATCAT-GGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT tggcaatacataggtgtgtcaggagccagcatgctgacttctctccccagGTGTGGTATGATATCCAGAGCTATCAGAAACATCATGGGCCCCCAAACCTTGTATCTACCAGTAACCTTAAGCAGCgtgagggggagatttgtaagggtatccatgcctgtttgtcgggattggaa Alignment from Exonerate_coding2genome GTGTGGTATGACATTCAGAGCTATCAGAAGCATCAT-GGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT tggcaatacataggtgtgtcaggagccagcatgctgacttctctccccagGTGTGGTATGATATCCAGAGCTATCAGAAACATCATGGGCCCCCAAACCTTGTATCTACCAGTAACCTTAAGCAGCgtgagggggagatttgtaagggtatccatgcctgtttgtcgggattggaa Alignment from GeneWise --------------------------------------------------GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCC-CAGACCTTGTATCTGCCAGTAACTTTGAGCAGT TGGCAATACATAGGTGTGTCAGGAGCCAGCATGCTGACTTCTCTCCCCAGGTGTGGTATGATATCCAGAGCTATCAGAAACATCATGGGCCCCCAAACCTTGTATCTACCAGTAACCTTAAGCAGCgtgagggggagatttgtaagggtatccatgcctgtttgtcgggattggaa #### Ganab_ID2484_23 --> 0 - 2 Original Alignment GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACC-TTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCTag ataggtagacagaccacactgtctgttggcatgtctggtgacctccctagGGTACTGCACAGGGAGAGCTATTCCTGGATGATGGCCACACCCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTTTCTGGTAGCACACTGGTATCTaggtactctttatgccctgcctccattttctggacctgtgacctgattcatt Alignment from CESAR GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACC-TTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCTag ataggtagacagaccacactgtctgttggcatgtctggtgacctccctagGGTACTGCACAGGGAGAGCTATTCCTGGATGATGGCCACACCCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTTTCTGGTAGCACACTGGTATCTaggtactctttatgccctgcctccattttctggacctgtgttctgctctcct Alignment from Spaln_aa2Genome GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACC-TTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCTAG ataggtagacagaccacactgtctgttggcatgtctggtgacctccctagGGTACTGCACAGGGAGAGCTATTCCTGGATGATGGCCACACCcTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTTTCTGGTAGCACACTGGTATCTAGgtactctttatgccctgcctccattttctggacctgtgacctgattcatt Alignment from Spaln_nt2Genome GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACC-TTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCTAG ataggtagacagaccacactgtctgttggcatgtctggtgacctccctagGGTACTGCACAGGGAGAGCTATTCCTGGATGATGGCCACACCCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTTTCTGGTAGCACACTGGTATCTAGgtactctttatgccctgcctccattttctggacctgtgacctgattcatt Alignment from Pairagon GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACA-CCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCTAGTT------------------------------------------------ ataggtagacagaccacactgtctgttggcatgtctggtgacctccctagGGTACTGCACAGGGAGAGCTATTCCTGGATGATGGCCACACCCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTTTCTGGTAGCACACTGGTATCTAGGTACTCTTTATGCCCTGCCTCCATTTTCTGGACCTGTGACCTGATTCATT Alignment from Exonerate_protein2genome GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACC-TTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCTAG ataggtagacagaccacactgtctgttggcatgtctggtgacctccctagGGTACTGCACAGGGAGAGCTATTCCTGGATGATGGCCACACCCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTTTCTGGTAGCACACTGGTATCTAGgtactctttatgccctgcctccattttctggacctgtgacctgattcatt Alignment from Exonerate_coding2genome GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACC-TTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCTAG ataggtagacagaccacactgtctgttggcatgtctggtgacctccctagGGTACTGCACAGGGAGAGCTATTCCTGGATGATGGCCACACCCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTTTCTGGTAGCACACTGGTATCTAGgtactctttatgccctgcctccattttctggacctgtgacctgattcatt Alignment from GeneWise GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACAC-ACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCTAG ataggtagacagaccacactgtctgttggcatgtctggtgacctccctagGGTACTGCACAGGGAGAGCTATTCCTGGATGATGGCCACACCCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTTTCTGGTAGCACACTGGTATCTAGgtactctttatgccctgcctccattttctggacctgtgacctgattcatt #### Ganab_ID2485_24 --> 1 - 1 Original Alignment tTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGG-ATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAg atgccctgcctccattttctggacctgtgttctgctctcctttcttccagcCTAGCCGACCCTGAAGGCCATCAGGAGACTCCTATCTGGCGTGGAGCAAGTTATCATAATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCACCAAGCAATGggtaagtagatgcaatatggattgatagaaacagtcccagggatgaccagc Alignment from CESAR tTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGG-ATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAg atgccctgcctccattttctggacctgtgttctgctctcctttcttccagcCTAGCCGACCCTGAAGGCCATCAGGAGACTCCTATCTGGCGTGGAGCAAGTTATCATAATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCACCAAGCAATGggtaagtagatgcaatatggattgatagaaacagtcccagggatgaccagc Alignment from Spaln_aa2Genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGG-ATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG atgccctgcctccattttctggacctgtgttctgctctcctttcttccagCCTAGCCGACCCTGAAGGCCATCAGGAGACTCCTATCTGGcGTGGAGCAAGTTATCATAATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCACCAAGCAATGGgtaagtagatgcaatatggattgatagaaacagtcccagggatgaccagc Alignment from Spaln_nt2Genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTG-AGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG atgccctgcctccattttctggacctgtgttctgctctcctttcttccagCCTAGCCGACCCTGAAGGCCATCAGGAGACTCCTATCTGGCGTGGAGCAAGTTATCATAATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCACCAAGCAATGGgtaagtagatgcaatatggattgatagaaacagtcccagggatgaccagc Alignment from Pairagon TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGG-ATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG atgccctgcctccattttctggacctgtgttctgctctcctttcttccagCCTAGCCGACCCTGAAGGCCATCAGGAGACTCCTATCTGGCGTGGAGCAAGTTATCATAATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCACCAAGCAATGGgtaagtagatgcaatatggattgatagaaacagtcccagggatgaccagc Alignment from Exonerate_protein2genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGG-ATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG atgccctgcctccattttctggacctgtgttctgctctcctttcttccagCCTAGCCGACCCTGAAGGCCATCAGGAGACTCCTATCTGGCGTGGAGCAAGTTATCATAATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCACCAAGCAATGGgtaagtagatgcaatatggattgatagaaacagtcccagggatgaccagc Alignment from Exonerate_coding2genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGG-ATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG atgccctgcctccattttctggacctgtgttctgctctcctttcttccagCCTAGCCGACCCTGAAGGCCATCAGGAGACTCCTATCTGGCGTGGAGCAAGTTATCATAATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCACCAAGCAATGGgtaagtagatgcaatatggattgatagaaacagtcccagggatgaccagc Alignment from GeneWise TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGG-ATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG atgccctgcctccattttctggacctgtgttctgctctcctttcttccagCCTAGCCGACCCTGAAGGCCATCAGGAGACTCCTATCTGGCGTGGAGCAAGTTATCATAATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCACCAAGCAATGGgtaagtagatgcaatatggattgatagaaacagtcccagggatgaccagc #### Gbf1_ID9795_14 --> 0 - 1 Original Alignment AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCC-CTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGt ccccacttgacagtatagaggttgaatatatcctgtttctctgtccccagAATGTATTTCCTGCATCTGGCCAGCTTGATACTACACATCTTCTGTCCCTTGATGCCCCTATTAACTTCTATTGACAGTAATGAGCTTCATTCCCAAGCCAAGGTTCTCAATGCCCTTAACCAGCAAGAGAATAAGGAGACATCCAGGCCTGGGTTTGAAGCTGTTGAT---AACCCAGATGCTAACAAGtgtgagtaactcaattatttcattattaccactcataaaaccactactctg Alignment from CESAR AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCC-CTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGt ccccacttgacagtatagaggttgaatatatcctgtttctctgtccccagAATGTATTTCCTGCATCTGGCCAGCTTGATACTACACATCTTCTGTCCCTTGATGCCCCTATTAACTTCTATTGACAGTAATGAGCTTCATTCCCAAGCCAAGGTTCTCAATGCCCTTAACCAGCAAGAGAATAAGGAGACATCCAGGCCTGGGTTTGAAGCTGTTGAT---AACCCAGATGCTAACAAGtgtgagtaactcaattatttcattattaccactcataaaaccactactctg Alignment from Spaln_aa2Genome AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCC-CTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT ccccacttgacagtatagaggttgaatatatcctgtttctctgtccccagAATGTATTTCCTGCATCTGGCCAGCTTGATACTACACATCTTCTGTCCCTTGATGCCcCTATTAACTTCTATTGACAGTAATGAGCTTCATTCCCAAGCCAAGGTTCTCAATGCCCTTAACCAGCAAGAGAATAAGGAGACATCCAGGCCTGGGTTTGAAGCTGTTGAT---AACCCAGATGCTAACAAGTgtgagtaactcaattatttcattattaccactcataaaaccactactctg Alignment from Spaln_nt2Genome AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTT-TTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT ccccacttgacagtatagaggttgaatatatcctgtttctctgtccccagAATGTATTTCCTGCATCTGGCCAGCTTGATACTACACATCTTCTGTCCCTTGATGCCCCTATTAACTTCTATTGACAGTAATGAGCTTCATTCCCAAGCCAAGGTTCTCAATGCCCTTAACCAGCAAGAGAATAAGGAGACATCCAGGCCTGGGTTTGAAGCTGTTGAT---AACCCAGATGCTAACAAGTgtgagtaactcaattatttcattattaccactcataaaaccactactctg Alignment from Pairagon AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTT-TTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT ccccacttgacagtatagaggttgaatatatcctgtttctctgtccccagAATGTATTTCCTGCATCTGGCCAGCTTGATACTACACATCTTCTGTCCCTTGATGCCCCTATTAACTTCTATTGACAGTAATGAGCTTCATTCCCAAGCCAAGGTTCTCAATGCCCTTAACCAGCAAGAGAATAAGGAGACATCCAGGCCTGGGTTTGAAGCTGTTGAT---AACCCAGATGCTAACAAGTgtgagtaactcaattatttcattattaccactcataaaaccactactctg Alignment from Exonerate_protein2genome AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCC-CTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT ccccacttgacagtatagaggttgaatatatcctgtttctctgtccccagAATGTATTTCCTGCATCTGGCCAGCTTGATACTACACATCTTCTGTCCCTTGATGCCCCTATTAACTTCTATTGACAGTAATGAGCTTCATTCCCAAGCCAAGGTTCTCAATGCCCTTAACCAGCAAGAGAATAAGGAGACATCCAGGCCTGGGTTTGAAGCTGTTGAT---AACCCAGATGCTAACAAGTgtgagtaactcaattatttcattattaccactcataaaaccactactctg Alignment from Exonerate_coding2genome AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCC-CTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT ccccacttgacagtatagaggttgaatatatcctgtttctctgtccccagAATGTATTTCCTGCATCTGGCCAGCTTGATACTACACATCTTCTGTCCCTTGATGCCCCTATTAACTTCTATTGACAGTAATGAGCTTCATTCCCAAGCCAAGGTTCTCAATGCCCTTAACCAGCAAGAGAATAAGGAGACATCCAGGCCTGGGTTTGAAGCTGTTGAT---AACCCAGATGCTAACAAGTgtgagtaactcaattatttcattattaccactcataaaaccactactctg Alignment from GeneWise --------------------------------------------------AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGAT-GCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT CCCCACTTGACAGTATAGAGGTTGAATATATCCTGTTTCTCTGTCCCCAGAATGTATTTCCTGCATCTGGCCAGCTTGATACTACACATCTTCTGTCCCTTGATGCCCCTATTAACTTCTATTGACAGTAATGAGCTTCATTCCCAAGCCAAGGTTCTCAATGCCCTTAACCAGCAAGAGAATAAGGAGACATCCAGGCCTGGGTTTGAAGCTGTTGAT---AACCCAGATGCTAACAAGTgtgagtaactcaattatttcattattaccactcataaaaccactactctg #### Gbf1_ID9796_15 --> 2 - 1 Original Alignment ctGAGAGAGCAACCAGTGATGGGAAATCCACAGGT-GTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGg acccagctgcaagcatggggagaatgatataaatttctgtatccatttagctGAAGGAGCAACCATTGATGGGAAATCCACAGGGCGTTGCCTTGGATTCTCGCGGGCTTTACTTTCCCACTGGAGGGTGGTTG---ACAGATTATGGCAAACCAGGATGCAGAGATCTAGAAGAATCAGGTGATTCTAGTcgtaattaacacaatacattcaactggcttgaactaccagtcaacgtttta Alignment from CESAR ctGAGAGAGCAACCAGTGATGGGAAATCCACA-GGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGg acccagctgcaagcatggggagaatgatataaatttctgtatccatttagctGAAGGAGCAACCATTGATGGGAAATCCACAGGGCGTTGCCTTGGATTCTCGCGGGCTTTACTTTCCCACTGGAGGGTGGTTG---ACAGATTATGGCAAACCAGGATGCAGAGATCTAGAAGAATCAGGTGATTCTAGTcgtaattaacacaatacattcaactggcttgaactaccagtcaacgtttta Alignment from Spaln_aa2Genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGT-GTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG acccagctgcaagcatggggagaatgatataaatttctgtatccatttagCTGAAGGAGCAACCATTGATGGGAAATCCACAGGGcGTTGCCTTGGATTCTCGCGGGCTTTACTTTCCCACTGGAGGGTGGTTG---ACAGATTATGGCAAACCAGGATGCAGAGATCTAGAAGAATCAGGTGATTCTAGTCgtaattaacacaatacattcaactggcttgaactaccagtcaacgtttta Alignment from Spaln_nt2Genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGT-GTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG acccagctgcaagcatggggagaatgatataaatttctgtatccatttagCTGAAGGAGCAACCATTGATGGGAAATCCACAGGGCGTTGCCTTGGATTCTCGCGGGCTTTACTTTCCCACTGGAGGGTGGTTG---ACAGATTATGGCAAACCAGGATGCAGAGATCTAGAAGAATCAGGTGATTCTAGTCgtaattaacacaatacattcaactggcttgaactaccagtcaacgtttta Alignment from Pairagon CTGAGAGAGCAACCAGTGATGGGAAATCCACA-GGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG acccagctgcaagcatggggagaatgatataaatttctgtatccatttagCTGAAGGAGCAACCATTGATGGGAAATCCACAGGGCGTTGCCTTGGATTCTCGCGGGCTTTACTTTCCCACTGGAGGGTGGTTG---ACAGATTATGGCAAACCAGGATGCAGAGATCTAGAAGAATCAGGTGATTCTAGTCgtaattaacacaatacattcaactggcttgaactaccagtcaacgtttta Alignment from Exonerate_protein2genome CTGAGAGAGCAACCAGTGATGGGAAATCCACA-GGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG acccagctgcaagcatggggagaatgatataaatttctgtatccatttagCTGAAGGAGCAACCATTGATGGGAAATCCACAGGGCGTTGCCTTGGATTCTCGCGGGCTTTACTTTCCCACTGGAGGGTGGTTG---ACAGATTATGGCAAACCAGGATGCAGAGATCTAGAAGAATCAGGTGATTCTAGTCgtaattaacacaatacattcaactggcttgaactaccagtcaacgtttta Alignment from Exonerate_coding2genome CTGAGAGAGCAACCAGTGATGGGAAATCCACA-GGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG acccagctgcaagcatggggagaatgatataaatttctgtatccatttagCTGAAGGAGCAACCATTGATGGGAAATCCACAGGGCGTTGCCTTGGATTCTCGCGGGCTTTACTTTCCCACTGGAGGGTGGTTG---ACAGATTATGGCAAACCAGGATGCAGAGATCTAGAAGAATCAGGTGATTCTAGTCgtaattaacacaatacattcaactggcttgaactaccagtcaacgtttta Alignment from GeneWise CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGT-GTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG acccagctgcaagcatggggagaatgatataaatttctgtatccatttagCTGAAGGAGCAACCATTGATGGGAAATCCACAGGGCGTTGCCTTGGATTCTCGCGGGCTTTACTTTCCCACTGGAGGGTGGTTG---ACAGATTATGGCAAACCAGGATGCAGAGATCTAGAAGAATCAGGTGATTCTAGTCgtaattaacacaatacattcaactggcttgaactaccagtcaacgtttta #### Gbf1_ID9797_16 --> 2 - 0 Original Alignment ctGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTA-ATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtattttctttttttgttccccatggcagccGACAAAAAGTTCACCAGGAAGCCACCTCGTTATTCCTGCCTCCTGCCAGATCCGTGGGAATTACATTGAAATTAAAAACAAAAAAAAGgtaagtgtagtgaacctgttcaactatttccaatactcacctgtcacagc Alignment from CESAR ctGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTA-ATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtattttctttttttgttccccatggcagccGACAAAAAGTTCACCAGGAAGCCACCTCGTTATTCCTGCCTCCTGCCAGATCCGTGGGAATTACATTGAAATTAAAAACAAAAAAAAGgtaagtgtagtgaacctgttcaactatttccaatactcacctgtcacagc Alignment from Spaln_aa2Genome CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTA-ATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtattttctttttttgttccccatggcagCCGACAAAAAGTTCACCAGGAAGCCACCTCGTTATTCCTGCCTCCTGCCAGATCCGTGGGAATTAcATTGAAATTAAAAACAAAAAAAAGgtaagtgtagtgaacctgttcaactatttccaatactcacctgtcacagc Alignment from Spaln_nt2Genome CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTA-ATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtattttctttttttgttccccatggcagCCGACAAAAAGTTCACCAGGAAGCCACCTCGTTATTCCTGCCTCCTGCCAGATCCGTGGGAATTACATTGAAATTAAAAACAAAAAAAAGgtaagtgtagtgaacctgttcaactatttccaatactcacctgtcacagc Alignment from Pairagon CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTA-ATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtattttctttttttgttccccatggcagCCGACAAAAAGTTCACCAGGAAGCCACCTCGTTATTCCTGCCTCCTGCCAGATCCGTGGGAATTACATTGAAATTAAAAACAAAAAAAAGgtaagtgtagtgaacctgttcaactatttccaatactcacctgtcacagc Alignment from Exonerate_protein2genome CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTA-ATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtattttctttttttgttccccatggcagCCGACAAAAAGTTCACCAGGAAGCCACCTCGTTATTCCTGCCTCCTGCCAGATCCGTGGGAATTACATTGAAATTAAAAACAAAAAAAAGgtaagtgtagtgaacctgttcaactatttccaatactcacctgtcacagc Alignment from Exonerate_coding2genome CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTA-ATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtattttctttttttgttccccatggcagCCGACAAAAAGTTCACCAGGAAGCCACCTCGTTATTCCTGCCTCCTGCCAGATCCGTGGGAATTACATTGAAATTAAAAACAAAAAAAAGgtaagtgtagtgaacctgttcaactatttccaatactcacctgtcacagc Alignment from GeneWise CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAA-CTAATTGAAATTAAAAACAAAAAAAAG gagtcctttacattgtgccctgtattttctttttttgttccccatggcagCCGACAAAAAGTTCACCAGGAAGCCACCTCGTTATTCCTGCCTCCTGCCAGATCCGTGGGAATTACATTGAAATTAAAAACAAAAAAAAGgtaagtgtagtgaacctgttcaactatttccaatactcacctgtcacagc #### Gbf1_ID9804_23 --> 0 - 0 Original Alignment TCTATTGAGAACCTTCCCAGTGTA-TTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG ctgcttttccagtggtgactgggcaatctgaagccatgtgctttttgcagTCTATAGAAAACCTTCCCAGTGTTCTTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGAGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCTCAACTTTTACCTAAAGCTATGGTTGAGgtgagtgcaaatcaaggctccttgtcatactatagccttgtgtcccacta Alignment from CESAR TCTATTGAGAACCTTCCCAGTGTA-TTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG ctgcttttccagtggtgactgggcaatctgaagccatgtgctttttgcagTCTATAGAAAACCTTCCCAGTGTTCTTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGAGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCTCAACTTTTACCTAAAGCTATGGTTGAGgtgagtgcaaatcaaggctccttgtcatactatagccttgtgtcccacta Alignment from Spaln_aa2Genome TCTATTGAGAACCTTCCCAGTGTA-TTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG ctgcttttccagtggtgactgggcaatctgaagccatgtgctttttgcagTCTATAGAAAACCTTCCCAGTGTTcTTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGAGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCTCAACTTTTACCTAAAGCTATGGTTGAGgtgagtgcaaatcaaggctccttgtcatactatagccttgtgtcccacta Alignment from Spaln_nt2Genome TCTATTGAGAACCTTCCCAGTGTA-TTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG ctgcttttccagtggtgactgggcaatctgaagccatgtgctttttgcagTCTATAGAAAACCTTCCCAGTGTTCTTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGAGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCTCAACTTTTACCTAAAGCTATGGTTGAGgtgagtgcaaatcaaggctccttgtcatactatagccttgtgtcccacta Alignment from Pairagon TCTATTGAGAACCTTCCCAGTG-TATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG ctgcttttccagtggtgactgggcaatctgaagccatgtgctttttgcagTCTATAGAAAACCTTCCCAGTGTTCTTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGAGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCTCAACTTTTACCTAAAGCTATGGTTGAGgtgagtgcaaatcaaggctccttgtcatactatagccttgtgtcccacta Alignment from Exonerate_protein2genome TCTATTGAGAACCTTCCCAGTGTA-TTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG ctgcttttccagtggtgactgggcaatctgaagccatgtgctttttgcagTCTATAGAAAACCTTCCCAGTGTTCTTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGAGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCTCAACTTTTACCTAAAGCTATGGTTGAGgtgagtgcaaatcaaggctccttgtcatactatagccttgtgtcccacta Alignment from Exonerate_coding2genome TCTATTGAGAACCTTCCCAGTGTA-TTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG ctgcttttccagtggtgactgggcaatctgaagccatgtgctttttgcagTCTATAGAAAACCTTCCCAGTGTTCTTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGAGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCTCAACTTTTACCTAAAGCTATGGTTGAGgtgagtgcaaatcaaggctccttgtcatactatagccttgtgtcccacta Alignment from GeneWise TCTATTGAGAACCTTCCCAGT-GTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG ctgcttttccagtggtgactgggcaatctgaagccatgtgctttttgcagTCTATAGAAAACCTTCCCAGTGTTCTTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGAGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCTCAACTTTTACCTAAAGCTATGGTTGAGgtgagtgcaaatcaaggctccttgtcatactatagccttgtgtcccacta #### Gbf1_ID9806_25 --> 1 - 0 Original Alignment aGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGG-CTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG cagaggaagcagatactatcagtagtgtaaattatttcattctttccaagaGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCCGGACCTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGTCCTTCTACAGAGAACCAGGAGGCCAAAAGGGTGGCTTTAGATTGTATTAAGgtaacgtgatgacccaatggcaccgattttatagccaagatacctattca Alignment from CESAR aGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTG-ACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG cagaggaagcagatactatcagtagtgtaaattatttcattctttccaagaGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCCGGACCTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGTCCTTCTACAGAGAACCAGGAGGCCAAAAGGGTGGCTTTAGATTGTATTAAGgtaacgtgatgacccaatggcaccgattttatagccaagatacctattca Alignment from Spaln_aa2Genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTG-ACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG cagaggaagcagatactatcagtagtgtaaattatttcattctttccaagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCCGgACCTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGTCCTTCTACAGAGAACCAGGAGGCCAAAAGGGTGGCTTTAGATTGTATTAAGgtaacgtgatgacccaatggcaccgattttatagccaagatacctattca Alignment from Spaln_nt2Genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCT-GACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG cagaggaagcagatactatcagtagtgtaaattatttcattctttccaagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCCGGACCTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGTCCTTCTACAGAGAACCAGGAGGCCAAAAGGGTGGCTTTAGATTGTATTAAGgtaacgtgatgacccaatggcaccgattttatagccaagatacctattca Alignment from Pairagon -------------------------------------------------GAGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCT-GACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG CAGAGGAAGCAGATACTATCAGTAGTGTAAATTATTTCATTCTTTCCAAGAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCCGGACCTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGTCCTTCTACAGAGAACCAGGAGGCCAAAAGGGTGGCTTTAGATTGTATTAAGgtaacgtgatgacccaatggcaccgattttatagccaagatacctattca Alignment from Exonerate_protein2genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGG-CTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG cagaggaagcagatactatcagtagtgtaaattatttcattctttccaagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCCGGACCTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGTCCTTCTACAGAGAACCAGGAGGCCAAAAGGGTGGCTTTAGATTGTATTAAGgtaacgtgatgacccaatggcaccgattttatagccaagatacctattca Alignment from Exonerate_coding2genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGG-CTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG cagaggaagcagatactatcagtagtgtaaattatttcattctttccaagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCCGGACCTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGTCCTTCTACAGAGAACCAGGAGGCCAAAAGGGTGGCTTTAGATTGTATTAAGgtaacgtgatgacccaatggcaccgattttatagccaagatacctattca Alignment from GeneWise AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGG-CTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG cagaggaagcagatactatcagtagtgtaaattatttcattctttccaagAGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCCGGACCTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGTCCTTCTACAGAGAACCAGGAGGCCAAAAGGGTGGCTTTAGATTGTATTAAGgtaacgtgatgacccaatggcaccgattttatagccaagatacctattca #### Gbf1_ID9819_38 --> 2 - 1 Original Alignment acCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCT-GCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTg acatagtgttttgcagctatgagtagtcttccctcccaccccccacaaagacCCAATGCCTGCTGAAACACGCAGTCAGGAGCCT---GCATCCACTCACCTGATCCCTCGCAGCTGGTGAGCCCAGGATGCCTGGCCATGCGCCCCTCCCAGAGATACCCTCAGAAATGGGTGTTTGTggtgagttccccccagcccattacatgtgtaaataagtgcattcacacata Alignment from CESAR acCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCT-GCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTg acatagtgttttgcagctatgagtagtcttccctcccaccccccacaaagacCCAATGCCTGCTGAAACACGCAGTCAGGAGCCT---GCATCCACTCACCTGATCCCTCGCAGCTGGTGAGCCCAGGATGCCTGGCCATGCGCCCCTCCCAGAGATACCCTCAGAAATGGGTGTTTGTggtgagttccccccagcccattacatgtgtaaataagtgcattcacacata Alignment from Spaln_aa2Genome ACCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCT-GCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTG acatagtgttttgcagctatgagtagtcttccctcccaccccccacaaagACCCAATGCCTGCTGAAACACGCAGTCAGGAGCCT---GCATCCACTCACCTGATCCCTcGCAGCTGGTGAGCCCAGGATGCCTGGCCATGCGCCCCTCCCAGAGATACCCTCAGAAATGGGTGTTTGTGgtgagttccccccagcccattacatgtgtaaataagtgcattcacacata Alignment from Spaln_nt2Genome ACCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCT-GCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTG acatagtgttttgcagctatgagtagtcttccctcccaccccccacaaagACCCAATGCCTGCTGAAACACGCAGTCAGGAGCCT---GCATCCACTCACCTGATCCCTCGCAGCTGGTGAGCCCAGGATGCCTGGCCATGCGCCCCTCCCAGAGATACCCTCAGAAATGGGTGTTTGTGgtgagttccccccagcccattacatgtgtaaataagtgcattcacacata Alignment from Pairagon ACCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCT-GCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTG acatagtgttttgcagctatgagtagtcttccctcccaccccccacaaagACCCAATGCCTGCTGAAACACGCAGTCAGGAGCCT---GCATCCACTCACCTGATCCCTCGCAGCTGGTGAGCCCAGGATGCCTGGCCATGCGCCCCTCCCAGAGATACCCTCAGAAATGGGTGTTTGTGgtgagttccccccagcccattacatgtgtaaataagtgcattcacacata Alignment from Exonerate_protein2genome ACCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTG-ACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTG acatagtgttttgcagctatgagtagtcttccctcccaccccccacaaagACCCAATGCCTGCTGAAACACGCAGTCAGGAGCCT---GCATCCACTCACCTGATCCCTCGCAGCTGGTGAGCCCAGGATGCCTGGCCATGCGCCCCTCCCAGAGATACCCTCAGAAATGGGTGTTTGTGgtgagttccccccagcccattacatgtgtaaataagtgcattcacacata Alignment from Exonerate_coding2genome acatagtgttttgcagctatgagtagtcttccctcccaccccccacaaagacccaatgcctgctgaaacacgcagtcaggagcctgcatccactcacctgatccctcgcagctggtgagcccaggatgcctggccatgcgcccctcccagagataccctcagaaatgggtgtttgtggtgagttccccccagcccattacatgtgtaaataagtgcattcacacata Alignment from GeneWise ACCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACT-TCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTG acatagtgttttgcagctatgagtagtcttccctcccaccccccacaaagACCCAATGCCTGCTGAAACACGCAGTCAGGAGCCT---GCATCCACTCACCTGATCCCTCGCAGCTGGTGAGCCCAGGATGCCTGGCCATGCGCCCCTCCCAGAGATACCCTCAGAAATGGGTGTTTGTGgtgagttccccccagcccattacatgtgtaaataagtgcattcacacata #### Gif_ID3278_2 --> 2 - 1 Original Alignment ctGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTG-GAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAg agtcattctgtggagctgcacacagtagaatgtcctgggtcttcccacagctGTTCCCCTAGATCAACATCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAACTCAGTAACTGACTCCGACTTCCCTAACCCAACCATG---ATTGCCAAGAACCTGGCTGGTGCATACATTGTGCGGGCCTCAAAAACTCCTGACTTACCAACTAATGGCCAGTGAAAGTGCAggtgagacactaagggtacatttttaccatgagtcttttatgttcgcccaa Alignment from CESAR ctGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCC-CAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAg agtcattctgtggagctgcacacagtagaatgtcctgggtcttcccacagctGTTCCCCTAGATCAACATCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAACTCAGTAACTGACTCCGACTTCCCTAACCCAACC---ATGATTGCCAAGAACCTGGCTGGTGCATACATTGTGCGGGCCTCAAAAACTCCTGACTTACCAACTAATGGCCAGTGAAAGTGCAggtgagacactaagggtacatttttaccatgagtcttttatgttcgcccaa Alignment from Spaln_aa2Genome CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCC-CAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG agtcattctgtggagctgcacacagtagaatgtcctgggtcttcccacagCTGTTCCCCTAGATCAACATCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAACTCAGTAACTGACTCCGACTTCCCTAACCCAACC---ATGATTGCCAAGAACCTGGCTGGTGCATACATTGTGCGGGCCtCAAAAACTCCTGACTTACCAACTAATGGCCAGTGAAAGTGCAGgtgagacactaagggtacatttttaccatgagtcttttatgttcgcccaa Alignment from Spaln_nt2Genome CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCC-CAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG agtcattctgtggagctgcacacagtagaatgtcctgggtcttcccacagCTGTTCCCCTAGATCAACATCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAACTCAGTAACTGACTCCGACTTCCCTAACCCAACCA---TGATTGCCAAGAACCTGGCTGGTGCATACATTGTGCGGGCCTCAAAAACTCCTGACTTACCAACTAATGGCCAGTGAAAGTGCAGgtgagacactaagggtacatttttaccatgagtcttttatgttcgcccaa Alignment from Pairagon CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCC-CAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG agtcattctgtggagctgcacacagtagaatgtcctgggtcttcccacagCTGTTCCCCTAGATCAACATCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAACTCAGTAACTGACTCCGACTTCCCTAACCCAACCA---TGATTGCCAAGAACCTGGCTGGTGCATACATTGTGCGGGCCTCAAAAACTCCTGACTTACCAACTAATGGCCAGTGAAAGTGCAGgtgagacactaagggtacatttttaccatgagtcttttatgttcgcccaa Alignment from Exonerate_protein2genome CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCC-CAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG agtcattctgtggagctgcacacagtagaatgtcctgggtcttcccacagCTGTTCCCCTAGATCAACATCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAACTCAGTAACTGACTCCGACTTCCCTAACCCAACC---ATGATTGCCAAGAACCTGGCTGGTGCATACATTGTGCGGGCCTCAAAAACTCCTGACTTACCAACTAATGGCCAGTGAAAGTGCAGgtgagacactaagggtacatttttaccatgagtcttttatgttcgcccaa Alignment from Exonerate_coding2genome CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCC-CAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG agtcattctgtggagctgcacacagtagaatgtcctgggtcttcccacagCTGTTCCCCTAGATCAACATCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAACTCAGTAACTGACTCCGACTTCCCTAACCCAACC---ATGATTGCCAAGAACCTGGCTGGTGCATACATTGTGCGGGCCTCAAAAACTCCTGACTTACCAACTAATGGCCAGTGAAAGTGCAGgtgagacactaagggtacatttttaccatgagtcttttatgttcgcccaa Alignment from GeneWise CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAG-GCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG agtcattctgtggagctgcacacagtagaatgtcctgggtcttcccacagCTGTTCCCCTAGATCAACATCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAACTCAGTAACTGACTCCGACTTCCCTAACCCAACC---ATGATTGCCAAGAACCTGGCTGGTGCATACATTGTGCGGGCCTCAAAAACTCCTGACTTACCAACTAATGGCCAGTGAAAGTGCAGgtgagacactaagggtacatttttaccatgagtcttttatgttcgcccaa #### Gldc_ID6401_14 --> 0 - 0 Original Alignment GGATCCTGCACCATGAAG-CTCAATAGCTCCTCCGAACTTGCA gtatgcctatagcagtgctgactatgtctttgaacttgtgaatttctcagGGATCTTGCACCATGAAGCCTTAATAGCTCAGCCGAGCTTGGTgtctgtccagtaattaccatacgatgtcatgcttcacttcataagttcaa Alignment from CESAR GGATCCTGCACCATGAAG-CTCAATAGCTCCTCCGAACTTGCA gtatgcctatagcagtgctgactatgtctttgaacttgtgaatttctcagGGATCTTGCACCATGAAGCCTTAATAGCTCAGCCGAGCTTGGTgtctgtccagtaattaccatacgatgtcatgcttcacttcataagttcaa Alignment from Spaln_aa2Genome GGGATCCTGCACCATGAAG-CTCAATAGCTCCTCCGAACTTGC gtatgcctatagcagtgctgactatgtctttgaacttgtgaatttctcagGGATCTTGCACCATGAAGcCTTAATAGCTCAGCCGAGCTTGGTgtctgtccagtaattaccatacgatgtcatgcttcacttcataagttcaa Alignment from Spaln_nt2Genome GGATCCTGCACCATGAAGC-TCAATAGCTCCTCCGAACTTG gtatgcctatagcagtgctgactatgtctttgaacttgtgaatttctcagGGATCTTGCACCATGAAGCCTTAATAGCTCAGCCGAGCTTGgtgtctgtccagtaattaccatacgatgtcatgcttcacttcataagttcaa Alignment from Pairagon GGATCCTGCACCATGAAG-CTCAATAGCTCCTCCGAACTTG---------CA gtatgcctatagcagtgctgactatgtctttgaacttgtgaatttctcagGGATCTTGCACCATGAAGCCTTAATAGCTCAGCCGAGCTTGGTGTCTGTCCAgtaattaccatacgatgtcatgcttcacttcataagttcaa Alignment from Exonerate_protein2genome GGATCCTGCACCATGAAG-CTCAATAGCTCCTCCGAACTTGCA gtatgcctatagcagtgctgactatgtctttgaacttgtgaatttctcagGGATCTTGCACCATGAAGCCTTAATAGCTCAGCCGAGCTTGGTgtctgtccagtaattaccatacgatgtcatgcttcacttcataagttcaa Alignment from Exonerate_coding2genome gtatgcctatagcagtgctgactatgtctttgaacttgtgaatttctcagggatcttgcaccatgaagccttaatagctcagccgagcttggtgtctgtccagtaattaccatacgatgtcatgcttcacttcataagttcaa Alignment from GeneWise gtatgcctatagcagtgctgactatgtctttgaacttgtgaatttctcagggatcttgcaccatgaagccttaatagctcagccgagcttggtgtctgtccagtaattaccatacgatgtcatgcttcacttcataagttcaa #### Gldc_ID6402_13 --> 1 - 0 Original Alignment cTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGAC-ATCTCCCTCGTTCACAGCATGATCCCACTG cctgtggagtggctaatctctgtgtttaccatcgacccccacttccccagtTACCACTTAGAAACTAACCTTGTCCCATACATGAAGAGATTGGAAAACCGAGATCATTTCCCTCTTACACAGTATGATCCCTCTAgtaagtgcagtctgacttgttaccatgtacattggtatctatcaggtgtg Alignment from CESAR cTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGAC-ATCTCCCTCGTTCACAGCATGATCCCACTG cctgtggagtggctaatctctgtgtttaccatcgacccccacttccccagtTACCACTTAGAAACTAACCTTGTCCCATACATGAAGAGATTGGAAAACCGAGATCATTTCCCTCTTACACAGTATGATCCCTCTAgtaagtgcagtctgacttgttaccatgtacattggtatctatcaggtgtg Alignment from Spaln_aa2Genome GCTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGAC-ATCTCCCTCGTTCACAGCATGATCCCACT cctgtggagtggctaatctctgtgtttaccatcgacccccacttccccagTTACCACTTAGAAACTAACCTTGTCCCATACATGAAGAGATTGGAAAACCGAGATcATTTCCCTCTTACACAGTATGATCCCTCTAgtaagtgcagtctgacttgttaccatgtacattggtatctatcaggtgtg Alignment from Spaln_nt2Genome CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGA-CATCTCCCTCGTTCACAGCATGATCCCACTG cctgtggagtggctaatctctgtgtttaccatcgacccccacttccccagTTACCACTTAGAAACTAACCTTGTCCCATACATGAAGAGATTGGAAAACCGAGATCATTTCCCTCTTACACAGTATGATCCCTCTAgtaagtgcagtctgacttgttaccatgtacattggtatctatcaggtgtg Alignment from Pairagon CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGA-CATCTCCCTCGTTCACAGCATGATCCCACTG cctgtggagtggctaatctctgtgtttaccatcgacccccacttccccagTTACCACTTAGAAACTAACCTTGTCCCATACATGAAGAGATTGGAAAACCGAGATCATTTCCCTCTTACACAGTATGATCCCTCTAgtaagtgcagtctgacttgttaccatgtacattggtatctatcaggtgtg Alignment from Exonerate_protein2genome CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGAC-ATCTCCCTCGTTCACAGCATGATCCCACTG cctgtggagtggctaatctctgtgtttaccatcgacccccacttccccagTTACCACTTAGAAACTAACCTTGTCCCATACATGAAGAGATTGGAAAACCGAGATCATTTCCCTCTTACACAGTATGATCCCTCTAgtaagtgcagtctgacttgttaccatgtacattggtatctatcaggtgtg Alignment from Exonerate_coding2genome cctgtggagtggctaatctctgtgtttaccatcgacccccacttccccagttaccacttagaaactaaccttgtcccatacatgaagagattggaaaaccgagatcatttccctcttacacagtatgatccctctagtaagtgcagtctgacttgttaccatgtacattggtatctatcaggtgtg Alignment from GeneWise CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGAC-ATCTCCCTCGTTCACAGCATGATCCCACTG cctgtggagtggctaatctctgtgtttaccatcgacccccacttccccagTTACCACTTAGAAACTAACCTTGTCCCATACATGAAGAGATTGGAAAACCGAGATCATTTCCCTCTTACACAGTATGATCCCTCTAgtaagtgcagtctgacttgttaccatgtacattggtatctatcaggtgtg #### Gm815_ID5778_2 --> 0 - 1 Original Alignment TCCTTAGGAACGATGCTTCTGTGCTGCGTAGAAGCCCATGCCATGGGATTCCAGAACACTTCCTTCTCTACGTTTAGAACTGCTTCCCAT-ACTTTTTTCCCCCACt tacagcttttttatacaccacaccttatgtttctctcacttccatttcagTCCTTAGGTACCATGCTTCTATGT------------------------------------------------------------TCACAGCAGC------CACCACtgtaattaaaaaaaaagacaagcccgtaatcttagtaaagttgatgcatta Alignment from CESAR TCCTTAGGAACGATGCTTCTGTGCTGCGTAGAAGCCCATGCCATGGGATTCCAGAACACTTCCTTCTCTACGTTTAGAACTGCTTCCCATACTTTTTTCCCCCACt tacagcttttttatacaccacaccttatgtttctctcacttccatttcagTCCTTAGGTACCATGCTTCTATGTTCA------------------------C--AGCAGC---------------------------CAC------------CACtgtaattaaaaaaaaagacaagcccgtaatcttagtaaagttgatgcatta Alignment from Spaln_aa2Genome TCCTTAGGAACGATGCTTCTGTGCTGCGTAGAAGCCCATGC tacagcttttttatacaccacaccttatgtttctctcacttccatttcagTCCTTAGGTACCATGCTTCTATGTTCACAGCAGCCACCACTgtaattaaaaaaaaagacaagcccgtaatcttagtaaagttgatgcatta Alignment from Spaln_nt2Genome TCCTTAGGAACGATGCTTCTGTGCTGCGTAGAAGCCCATGCC tacagcttttttatacaccacaccttatgtttctctcacttccatttcagTCCTTAGGTACCATGCTTCTATG-TTCACAGCAGCCACCACTgtaattaaaaaaaaagacaagcccgtaatcttagtaaagttgatgcatta Alignment from Pairagon TCCTTAGGAACGATGCTTCTGTGCTGCGTAGAAGCCCATGCCATGGGATTCCAGAACACTTCCTTCTCTACGTTTAGAACTGCTTCCCATACTTTTTTC--------CCCCACT tacagcttttttatacaccacaccttatgtttctctcacttccatttcagTCCTTAGGTACCATGCTTCTATG-------------------------------------------------------------------------TTCACAGCAGCCACCACTgtaattaaaaaaaaagacaagcccgtaatcttagtaaagttgatgcatta Alignment from Exonerate_protein2genome tacagcttttttatacaccacaccttatgtttctctcacttccatttcagtccttaggtaccatgcttctatgttcacagcagccaccactgtaattaaaaaaaaagacaagcccgtaatcttagtaaagttgatgcatta Alignment from Exonerate_coding2genome tacagcttttttatacaccacaccttatgtttctctcacttccatttcagtccttaggtaccatgcttctatgttcacagcagccaccactgtaattaaaaaaaaagacaagcccgtaatcttagtaaagttgatgcatta Alignment from GeneWise tacagcttttttatacaccacaccttatgtttctctcacttccatttcagtccttaggtaccatgcttctatgttcacagcagccaccactgtaattaaaaaaaaagacaagcccgtaatcttagtaaagttgatgcatta #### Gm815_ID5779_3 --> 2 - 0 Original Alignment gtGCCTCAAGAGAGGAAGGACAAAGTGATACCCACTGGGGTCCA-GCCAGCCCATCATTCCTGCATATTGACCCCGGAGGCCGGTGCCAGTGGAATAGCAGT catcatgatattctatttcacagatattgttgtttcatctcatttcttaggtGCCTCAAGGGAGGAAGGCCAAAGTGACACCCACTGGGGTCCACGCCTGCCCATCATTCCTACATATTGACCCTGGAGGCCGGTGCCAGTGGAATAGCAGTgtaagagttgcatgtccatttatggctcatggtcccaaaaagtggaaact Alignment from CESAR gtGCCTCAAGAGAGGAAGGACAAAGTGATACCCACTGGGGTCCA-GCCAGCCCATCATTCCTGCATATTGACCCCGGAGGCCGGTGCCAGTGGAATAGCAGT catcatgatattctatttcacagatattgttgtttcatctcatttcttaggtGCCTCAAGGGAGGAAGGCCAAAGTGACACCCACTGGGGTCCACGCCTGCCCATCATTCCTACATATTGACCCTGGAGGCCGGTGCCAGTGGAATAGCAGTgtaagagttgcatgtccatttatggctcatggtcccaaaaagtggaaact Alignment from Spaln_aa2Genome CACTTCCTTCTCTACGTTTAGAACTGCTTCCCATACTTTTTTCCCCCACTGTGCCTCAAGAGAGGAAGGACAAAGTGATACCCACTGGGGTCCA-GCCAGCCCATCATTCCTGCATATTGACCCCGGAGGCCGGTGCCAGTGGAATAGCAGT CATGATATTCTATTTCACAGATATTGTTGTTTCATCTCATTTCTTA---GGTGCCTCAAGGGAGGAAGGCCAAAGTGACACCCACTGGGGTCCAcGCCTGCCCATCATTCCTACATATTGACCCTGGAGGCCGGTGCCAGTGGAATAGCAGTgtaagagttgcatgtccatttatggctcatggtcccaaaaagtggaaact Alignment from Spaln_nt2Genome GTGCCTCAAGAGAGGAAGGACAAAGTGATACCCACTGGGGTCCA-GCCAGCCCATCATTCCTGCATATTGACCCCGGAGGCCGGTGCCAGTGGAATAGCAGT catcatgatattctatttcacagatattgttgtttcatctcatttcttagGTGCCTCAAGGGAGGAAGGCCAAAGTGACACCCACTGGGGTCCACGCCTGCCCATCATTCCTACATATTGACCCTGGAGGCCGGTGCCAGTGGAATAGCAGTgtaagagttgcatgtccatttatggctcatggtcccaaaaagtggaaact Alignment from Pairagon GTGCCTCAAGAGAGGAAGGACAAAGTGATACCCACTGGGGTCCA-GCCAGCCCATCATTCCTGCATATTGACCCCGGAGGCCGGTGCCAGTGGAATAGCAGT catcatgatattctatttcacagatattgttgtttcatctcatttcttagGTGCCTCAAGGGAGGAAGGCCAAAGTGACACCCACTGGGGTCCACGCCTGCCCATCATTCCTACATATTGACCCTGGAGGCCGGTGCCAGTGGAATAGCAGTgtaagagttgcatgtccatttatggctcatggtcccaaaaagtggaaact Alignment from Exonerate_protein2genome CTGCTTCCCATACTTTTTTCCCCCACTGTGCCTCAAGAGAGGAAGGACAAAGTGATACCCACTGGGGTCCA-GCCAGCCCATCATTCCTGCATATTGACCCCGGAGGCCGGTGCCAGTGGAATAGCAGT catcatgatattctatttcacagATATTGTTGTTTCATCTCATTTCTTAGGTGCCTCAAGGGAGGAAGGCCAAAGTGACACCCACTGGGGTCCACGCCTGCCCATCATTCCTACATATTGACCCTGGAGGCCGGTGCCAGTGGAATAGCAGTgtaagagttgcatgtccatttatggctcatggtcccaaaaagtggaaact Alignment from Exonerate_coding2genome GCCTCAAGAGAGGAAGGACAAAGTGATACCCACTGGGGTCCA-GCCAGCCCATCATTCCTGCATATTGACCCCGGAGGCCGGTGCCAGTGGAATAGCAGT catcatgatattctatttcacagatattgttgtttcatctcatttcttaggtGCCTCAAGGGAGGAAGGCCAAAGTGACACCCACTGGGGTCCACGCCTGCCCATCATTCCTACATATTGACCCTGGAGGCCGGTGCCAGTGGAATAGCAGTgtaagagttgcatgtccatttatggctcatggtcccaaaaagtggaaact Alignment from GeneWise GCCTCAAGAGAGGAAGGACAAAGTGATACCCACTGGGGTCCAGCC-AGCCCATCATTCCTGCATATTGACCCCGGAGGCCGGTGCCAGTGGAATAGCAGT catcatgatattctatttcacagatattgttgtttcatctcatttcttaggtGCCTCAAGGGAGGAAGGCCAAAGTGACACCCACTGGGGTCCACGCCTGCCCATCATTCCTACATATTGACCCTGGAGGCCGGTGCCAGTGGAATAGCAGTgtaagagttgcatgtccatttatggctcatggtcccaaaaagtggaaact #### Gpam_ID11532_17 --> 0 - 0 Original Alignment CAAGATGACCAGGAAGATGTCAGT-CCTGGCCTTGCAGAACAGCAGTGGGACAAGAAGCTTCCGGAACTGAACTGGAGAAGTGACGAGGAAGATGAAGACAGTGACTTTGGTGAGGAGCAGCGAGATTGCTATCTCAAG actagattctcatataccaacaagtgtctgtaacctcatcaattttacagCAAGATGATCAG---GATGTTAGTCCCAAGTCTTGCAGAACAGCAGTGGGACAAAAAGCTTCCAGAGCTCAACTGGAGAAGTGATGAGGACGATGAGGATAGTGATTATGGTGAAGAGCACCAAGATTGTTATCTAAAAgtaaggggtagtggacatgcaagaactgctaataatcttaagagagaatc Alignment from CESAR CAAGATGACCAGGAAGATGTCAGT-CCTGGCCTTGCAGAACAGCAGTGGGACAAGAAGCTTCCGGAACTGAACTGGAGAAGTGACGAGGAAGATGAAGACAGTGACTTTGGTGAGGAGCAGCGAGATTGCTATCTCAAG actagattctcatataccaacaagtgtctgtaacctcatcaattttacagCAAGATGATCAG---GATGTTAGTCCCAAGTCTTGCAGAACAGCAGTGGGACAAAAAGCTTCCAGAGCTCAACTGGAGAAGTGATGAGGACGATGAGGATAGTGATTATGGTGAAGAGCACCAAGATTGTTATCTAAAAgtaaggggtagtggacatgcaagaactgctaataatcttaagagagaatc Alignment from Spaln_aa2Genome CAAGATGACCAGGAAGATGTCAGT-CCTGGCCTTGCAGAACAGCAGTGGGACAAGAAGCTTCCGGAACTGAACTGGAGAAGTGACGAGGAAGATGAAGACAGTGACTTTGGTGAGGAGCAGCGAGATTGCTATCTCAAG actagattctcatataccaacaagtgtctgtaacctcatcaattttacagCAAGATGATCAG---GATGTTAGTcCCAAGTCTTGCAGAACAGCAGTGGGACAAAAAGCTTCCAGAGCTCAACTGGAGAAGTGATGAGGACGATGAGGATAGTGATTATGGTGAAGAGCACCAAGATTGTTATCTAAAAgtaaggggtagtggacatgcaagaactgctaataatcttaagagagaatc Alignment from Spaln_nt2Genome CAAGATGACCAGGAAGATGTCAGTCCTG-GCCTTGCAGAACAGCAGTGGGACAAGAAGCTTCCGGAACTGAACTGGAGAAGTGACGAGGAAGATGAAGACAGTGACTTTGGTGAGGAGCAGCGAGATTGCTATCTCAAG actagattctcatataccaacaagtgtctgtaacctcatcaattttacagCAAGATGATCAG---GATGTTAGTCCCAAGTCTTGCAGAACAGCAGTGGGACAAAAAGCTTCCAGAGCTCAACTGGAGAAGTGATGAGGACGATGAGGATAGTGATTATGGTGAAGAGCACCAAGATTGTTATCTAAAAgtaaggggtagtggacatgcaagaactgctaataatcttaagagagaatc Alignment from Pairagon CAAGATGACCAGGAAGATGTCAGTCCT-GGCCTTGCAGAACAGCAGTGGGACAAGAAGCTTCCGGAACTGAACTGGAGAAGTGACGAGGAAGATGAAGACAGTGACTTTGGTGAGGAGCAGCGAGATTGCTATCTCAAG actagattctcatataccaacaagtgtctgtaacctcatcaattttacagCAAGATGATCAG---GATGTTAGTCCCAAGTCTTGCAGAACAGCAGTGGGACAAAAAGCTTCCAGAGCTCAACTGGAGAAGTGATGAGGACGATGAGGATAGTGATTATGGTGAAGAGCACCAAGATTGTTATCTAAAAgtaaggggtagtggacatgcaagaactgctaataatcttaagagagaatc Alignment from Exonerate_protein2genome CAAGATGACCAGGAAGATGTCAGT-CCTGGCCTTGCAGAACAGCAGTGGGACAAGAAGCTTCCGGAACTGAACTGGAGAAGTGACGAGGAAGATGAAGACAGTGACTTTGGTGAGGAGCAGCGAGATTGCTATCTCAAG actagattctcatataccaacaagtgtctgtaacctcatcaattttacagCAAGATGATCAG---GATGTTAGTCCCAAGTCTTGCAGAACAGCAGTGGGACAAAAAGCTTCCAGAGCTCAACTGGAGAAGTGATGAGGACGATGAGGATAGTGATTATGGTGAAGAGCACCAAGATTGTTATCTAAAAgtaaggggtagtggacatgcaagaactgctaataatcttaagagagaatc Alignment from Exonerate_coding2genome actagattctcatataccaacaagtgtctgtaacctcatcaattttacagcaagatgatcaggatgttagtcccaagtcttgcagaacagcagtgggacaaaaagcttccagagctcaactggagaagtgatgaggacgatgaggatagtgattatggtgaagagcaccaagattgttatctaaaagtaaggggtagtggacatgcaagaactgctaataatcttaagagagaatc Alignment from GeneWise CAAGATGACCAGGAAGATGTCAGTCCT-GGCCTTGCAGAACAGCAGTGGGACAAGAAGCTTCCGGAACTGAACTGGAGAAGTGACGAGGAAGATGAAGACAGTGACTTTGGTGAGGAGCAGCGAGATTGCTATCTCAAG actagattctcatataccaacaagtgtctgtaacctcatcaattttacagCAAGATGATCAG---GATGTTAGTCCCAAGTCTTGCAGAACAGCAGTGGGACAAAAAGCTTCCAGAGCTCAACTGGAGAAGTGATGAGGACGATGAGGATAGTGATTATGGTGAAGAGCACCAAGATTGTTATCTAAAAgtaaggggtagtggacatgcaagaactgctaataatcttaagagagaatc #### Gpr137_ID1888_3 --> 1 - 0 Original Alignment gCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTC-TTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggttggctatagctgctgcaaggtgtcccctgacctcatttgtgttccaggCTGGCTGTTCAAGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTTAATGTACTGTGTGCAGTTTTATCATGCCAGCGTCAGCAACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCCTTTGTCATCTGT------GCTCTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACGACCAGCATCTACTTAGATGCAAAGgtgagtgtgtaatatagatgtggcattgttggatttgtggacagaattct Alignment from CESAR gCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTC-TTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggttggctatagctgctgcaaggtgtcccctgacctcatttgtgttccaggCTGGCTGTTCAAGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTTAATGTACTGTGTGCAGTTTTATCATGCCAGCGTCAGCAACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCCTTTGTCATCTGTGCT------CTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACGACCAGCATCTACTTAGATGCAAAGgtgagtgtgtaatatagatgtggcattgttggatttgtggacagaattct Alignment from Spaln_aa2Genome GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTC-TTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggttggctatagctgctgcaaggtgtcccctgacctcatttgtgttccagGCTGGCTGTTCAAGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTTAATGTACTGTGTGCAGTTTTATCATGCCAGCGTCAGCAACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCcTTTGTCATCTGTGCT------CTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACGACCAGCATCTACTTAGATGCAAAGgtgagtgtgtaatatagatgtggcattgttggatttgtggacagaattct Alignment from Spaln_nt2Genome GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTC-TTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggttggctatagctgctgcaaggtgtcccctgacctcatttgtgttccagGCTGGCTGTTCAAGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTTAATGTACTGTGTGCAGTTTTATCATGCCAGCGTCAGCAACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCCTTTGTCATCTGTG------CTCTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACGACCAGCATCTACTTAGATGCAAAGgtgagtgtgtaatatagatgtggcattgttggatttgtggacagaattct Alignment from Pairagon GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCT-CTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggttggctatagctgctgcaaggtgtcccctgacctcatttgtgttccagGCTGGCTGTTCAAGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTTAATGTACTGTGTGCAGTTTTATCATGCCAGCGTCAGCAACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCCTTTGTCATCTGTGCT------CTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACGACCAGCATCTACTTAGATGCAAAGgtgagtgtgtaatatagatgtggcattgttggatttgtggacagaattct Alignment from Exonerate_protein2genome GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTC-TTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggttggctatagctgctgcaaggtgtcccctgacctcatttgtgttccagGCTGGCTGTTCAAGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTTAATGTACTGTGTGCAGTTTTATCATGCCAGCGTCAGCAACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCCTTTGTCATCTGTGCT------CTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACGACCAGCATCTACTTAGATGCAAAGgtgagtgtgtaatatagatgtggcattgttggatttgtggacagaattct Alignment from Exonerate_coding2genome GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTC-TTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggttggctatagctgctgcaaggtgtcccctgacctcatttgtgttccagGCTGGCTGTTCAAGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTTAATGTACTGTGTGCAGTTTTATCATGCCAGCGTCAGCAACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCCTTTGTCATCTGTGCT------CTTGCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACGACCAGCATCTACTTAGATGCAAAGgtgagtgtgtaatatagatgtggcattgttggatttgtggacagaattct Alignment from GeneWise GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCT-CTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG ggttggctatagctgctgcaaggtgtcccctgacctcatttgtgttccagGCTGGCTGTTCAAGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTTAATGTACTGTGTGCAGTTTTATCATGCCAGCGTCAGCAACAACCCTGGATACTTTCACTGGAACATGTCTTGGTAAGTGACTCTCTCCTTTGTCATCTGTGCTCTT------GCTGGATGCCTCTGCCTAGTAGCCCGTCGTGCCCCAACGACCAGCATCTACTTAGATGCAAAGgtgagtgtgtaatatagatgtggcattgttggatttgtggacagaattct #### Gucy2g_ID11571_20 --> 2 - 0 Original Alignment ctCTCCGGATTCACGTTTCCCAGAGC-ACCGCAGGAGCTCTTCTAGCAGCAGGGGGGTACCATCTGCAAAAGAGA---GGCACCATT------TCAGTCAAG ggattgaaaatattgggttgatacaacgccttgctttacttcccgttcagctCTCCGTATTCATATTTCACACAGTCACTTCTGGTGCTCTTCTGGCAGCAGGGGGGTACCCACTGCAAGAGAGAGGCAGCACTGTTTCTGTATCTGTGAAAgtaagactgggcctgtttgtgctcagcattaaaaaaatctaaaccttgaa Alignment from CESAR ctCTCCGGATTCACGTTTCCCAGAGC-ACCGCAGGAGCTCTTCTAGCAGCAGGGGGGTACCATCTGCAAAAGAGAGGCACC---------ATTTCAGTCAAG ggattgaaaatattgggttgatacaacgccttgctttacttcccgttcagctCTCCGTATTCATATTTCACACAGTCACTTCTGGTGCTCTTCTGGCAGCAGGGGGGTACCCACTGCAAGAGAGAGGCAGCACTGTTTCTGTATCTGTGAAAgtaagactgggcctgtttgtgctcagcattaaaaaaatctaaaccttgaa Alignment from Spaln_aa2Genome CTCTCCGGATTCACGTTTCCCAGAGC-ACCGCAGGAGCTCTTCTAGCAGCAGGGGGGTACCATCTGCAAAAGAGAGGC---------ACCATTTCAGTCAAG ggattgaaaatattgggttgatacaacgccttgctttacttcccgttcagCTCTCCGTATTCATATTTCACACAGTcACTTCTGGTGCTCTTCTGGCAGCAGGGGGGTACCCACTGCAAGAGAGAGGCAGCACTGTTTCTGTATCTGTGAAAgtaagactgggcctgtttgtgctcagcattaaaaaaatctaaaccttgaa Alignment from Spaln_nt2Genome CTCTCCGGATTCACGTTTCCCAGAG-CACCGCAGGAGCTCTTCTAGCAGCAGGGGGGTACCATCTGCAAAAGAGAGGCACCATT---------TCAGTCAAG ggattgaaaatattgggttgatacaacgccttgctttacttcccgttcagCTCTCCGTATTCATATTTCACACAGTCACTTCTGGTGCTCTTCTGGCAGCAGGGGGGTACCCACTGCAAGAGAGAGGCAGCACTGTTTCTGTATCTGTGAAAgtaagactgggcctgtttgtgctcagcattaaaaaaatctaaaccttgaa Alignment from Pairagon CTCTCCGGATTCACGTTTCCCAGAG-CACCGCAGGAGCTCTTCTAGCAGCAGGGGGGTACCATCTGCAAAAGAGAGGCACCATT---------TCAGTCAAG ggattgaaaatattgggttgatacaacgccttgctttacttcccgttcagCTCTCCGTATTCATATTTCACACAGTCACTTCTGGTGCTCTTCTGGCAGCAGGGGGGTACCCACTGCAAGAGAGAGGCAGCACTGTTTCTGTATCTGTGAAAgtaagactgggcctgtttgtgctcagcattaaaaaaatctaaaccttgaa Alignment from Exonerate_protein2genome ggattgaaaatattgggttgatacaacgccttgctttacttcccgttcagctctccgtattcatatttcacacagtcacttctggtgctcttctggcagcaggggggtacccactgcaagagagaggcagcactgtttctgtatctgtgaaagtaagactgggcctgtttgtgctcagcattaaaaaaatctaaaccttgaa Alignment from Exonerate_coding2genome ggattgaaaatattgggttgatacaacgccttgctttacttcccgttcagctctccgtattcatatttcacacagtcacttctggtgctcttctggcagcaggggggtacccactgcaagagagaggcagcactgtttctgtatctgtgaaagtaagactgggcctgtttgtgctcagcattaaaaaaatctaaaccttgaa Alignment from GeneWise CTCTCCGGATTCACGTTTCCCAG-AGCACCGCAGGAGCTCTTCTAGCAGCAGGGGGGTACCATCTGCAAAAGAGAGGC---ACCATTTCAGTCAAG ggattgaaaatattgggttgatacaacgccttgctttacttcccgttcagCTCTCCGTATTCATATTTCACACAGTCACTTCTGGTGCTCTTCTGGCAGCAGGGGGGTACCCACTGCAAGAGAGAGGCAGCACTGTTTCTGTATCTgtgaaagtaagactgggcctgtttgtgctcagcattaaaaaaatctaaaccttgaa #### Hectd2_ID7155_13 --> 0 - 1 Original Alignment TTAACCCGGAAGAGAGCTGACTTGAAGAAGAAGTTGAAA-GTTACATTTGTAGGTGAAGCTGGTTTGGATATGGGCGGCTTGACTAAAGAATGGTTCCTTCTTCTAATTCGCCAGATTTTCCATCCAGATTATg tcaggttgcatatgaatgctttccctgacctccactctcacaccctgcagTTAACCCGGAAGAGAGCTGACTTGAAGAAGAAGTTGAAACGTTACATTTGTAGGTGAAGCTGGTTTGGATATGGGCAGCTTGACTAAAGAATGGTTCCTTCTTCTAATTCGCCAGATTTTCCATCCAGATTATggtaaaatctgctgcattgcttcataattggaggggtgattgttctttgaa Alignment from CESAR TTAACCCGGAAGAGAGCTGACTTGAAGAAGAAGTTGAAA-GTTACATTTGTAGGTGAAGCTGGTTTGGATATGGGCGGCTTGACTAAAGAATGGTTCCTTCTTCTAATTCGCCAGATTTTCCATCCAGATTATg tcaggttgcatatgaatgctttccctgacctccactctcacaccctgcagTTAACCCGGAAGAGAGCTGACTTGAAGAAGAAGTTGAAACGTTACATTTGTAGGTGAAGCTGGTTTGGATATGGGCAGCTTGACTAAAGAATGGTTCCTTCTTCTAATTCGCCAGATTTTCCATCCAGATTATggtaaaatctgctgcattgcttcataattggaggggtgattgttctttgaa Alignment from Spaln_aa2Genome TTAACCCGGAAGAGAGCTGACTTGAAGAAGAAGTTGAAA-GTTACATTTGTAGGTGAAGCTGGTTTGGATATGGGCGGCTTGACTAAAGAATGGTTCCTTCTTCTAATTCGCCAGATTTTCCATCCAGATTATG tcaggttgcatatgaatgctttccctgacctccactctcacaccctgcagTTAACCCGGAAGAGAGCTGACTTGAAGAAGAAGTTGAAAcGTTACATTTGTAGGTGAAGCTGGTTTGGATATGGGCAGCTTGACTAAAGAATGGTTCCTTCTTCTAATTCGCCAGATTTTCCATCCAGATTATGgtaaaatctgctgcattgcttcataattggaggggtgattgttctttgaa Alignment from Spaln_nt2Genome TTAACCCGGAAGAGAGCTGACTTGAAGAAGAAGTTG-AAAGTTACATTTGTAGGTGAAGCTGGTTTGGATATGGGCGGCTTGACTAAAGAATGGTTCCTTCTTCTAATTCGCCAGATTTTCCATCCAGATTATG tcaggttgcatatgaatgctttccctgacctccactctcacaccctgcagTTAACCCGGAAGAGAGCTGACTTGAAGAAGAAGTTGAAACGTTACATTTGTAGGTGAAGCTGGTTTGGATATGGGCAGCTTGACTAAAGAATGGTTCCTTCTTCTAATTCGCCAGATTTTCCATCCAGATTATGgtaaaatctgctgcattgcttcataattggaggggtgattgttctttgaa Alignment from Pairagon TTAACCCGGAAGAGAGCTGACTTGAAGAAGAAGTTGAAA-GTTACATTTGTAGGTGAAGCTGGTTTGGATATGGGCGGCTTGACTAAAGAATGGTTCCTTCTTCTAATTCGCCAGATTTTCCATCCAGATTATG tcaggttgcatatgaatgctttccctgacctccactctcacaccctgcagTTAACCCGGAAGAGAGCTGACTTGAAGAAGAAGTTGAAACGTTACATTTGTAGGTGAAGCTGGTTTGGATATGGGCAGCTTGACTAAAGAATGGTTCCTTCTTCTAATTCGCCAGATTTTCCATCCAGATTATGgtaaaatctgctgcattgcttcataattggaggggtgattgttctttgaa Alignment from Exonerate_protein2genome TTAACCCGGAAGAGAGCTGACTTGAAGAAGAAGTTGAAA-GTTACATTTGTAGGTGAAGCTGGTTTGGATATGGGCGGCTTGACTAAAGAATGGTTCCTTCTTCTAATTCGCCAGATTTTCCATCCAGATTATG tcaggttgcatatgaatgctttccctgacctccactctcacaccctgcagTTAACCCGGAAGAGAGCTGACTTGAAGAAGAAGTTGAAACGTTACATTTGTAGGTGAAGCTGGTTTGGATATGGGCAGCTTGACTAAAGAATGGTTCCTTCTTCTAATTCGCCAGATTTTCCATCCAGATTATGgtaaaatctgctgcattgcttcataattggaggggtgattgttctttgaa Alignment from Exonerate_coding2genome TTAACCCGGAAGAGAGCTGACTTGAAGAAGAAGTTGAAA-GTTACATTTGTAGGTGAAGCTGGTTTGGATATGGGCGGCTTGACTAAAGAATGGTTCCTTCTTCTAATTCGCCAGATTTTCCATCCAGATTATG tcaggttgcatatgaatgctttccctgacctccactctcacaccctgcagTTAACCCGGAAGAGAGCTGACTTGAAGAAGAAGTTGAAACGTTACATTTGTAGGTGAAGCTGGTTTGGATATGGGCAGCTTGACTAAAGAATGGTTCCTTCTTCTAATTCGCCAGATTTTCCATCCAGATTATGgtaaaatctgctgcattgcttcataattggaggggtgattgttctttgaa Alignment from GeneWise TTAACCCGGAAGAGAGCTGACTTGAAGAAGAAGTTGAAA-GTTACATTTGTAGGTGAAGCTGGTTTGGATATGGGCGGCTTGACTAAAGAATGGTTCCTTCTTCTAATTCGCCAGATTTTCCATCCAGATTATG tcaggttgcatatgaatgctttccctgacctccactctcacaccctgcagTTAACCCGGAAGAGAGCTGACTTGAAGAAGAAGTTGAAACGTTACATTTGTAGGTGAAGCTGGTTTGGATATGGGCAGCTTGACTAAAGAATGGTTCCTTCTTCTAATTCGCCAGATTTTCCATCCAGATTATGgtaaaatctgctgcattgcttcataattggaggggtgattgttctttgaa #### Hells_ID7708_15 --> 0 - 0 Original Alignment ATTGATGAAGAGTTGGTAACAAATTCTGGGAAG-TTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gttacattcaaatctacaagctgtcattgacttgccttctttcttattagAATGATGAAGAGTTTGTAACAAACTCTGGGAGGCTTCCTAATTTCAGATCGAATGCTGCCAGAACTCAAGAAAAGAGGTCATAAGgtgagttcaactaaaatttatgctgtctgtccagtgtatttggcatcagc Alignment from CESAR ATTGATGAAGAGTTGGTAACAAATTCTGGGAAG-TTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gttacattcaaatctacaagctgtcattgacttgccttctttcttattagAATGATGAAGAGTTTGTAACAAACTCTGGGAGGCTTCCTAATTTCAGATCGAATGCTGCCAGAACTCAAGAAAAGAGGTCATAAGgtgagttcaactaaaatttatgctgtctgtccagtgtatttggcatcagc Alignment from Spaln_aa2Genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAG-TTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gttacattcaaatctacaagctgtcattgacttgccttctttcttattagAATGATGAAGAGTTTGTAACAAACTCTGGGAGGcTTCCTAATTTCAGATCGAATGCTGCCAGAACTCAAGAAAAGAGGTCATAAGgtgagttcaactaaaatttatgctgtctgtccagtgtatttggcatcagc Alignment from Spaln_nt2Genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAG-TTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gttacattcaaatctacaagctgtcattgacttgccttctttcttattagAATGATGAAGAGTTTGTAACAAACTCTGGGAGGCTTCCTAATTTCAGATCGAATGCTGCCAGAACTCAAGAAAAGAGGTCATAAGgtgagttcaactaaaatttatgctgtctgtccagtgtatttggcatcagc Alignment from Pairagon ATTGATGAAGAGTTGGTAACAAATTCTGGGAAG-TTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gttacattcaaatctacaagctgtcattgacttgccttctttcttattagAATGATGAAGAGTTTGTAACAAACTCTGGGAGGCTTCCTAATTTCAGATCGAATGCTGCCAGAACTCAAGAAAAGAGGTCATAAGgtgagttcaactaaaatttatgctgtctgtccagtgtatttggcatcagc Alignment from Exonerate_protein2genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAG-TTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gttacattcaaatctacaagctgtcattgacttgccttctttcttattagAATGATGAAGAGTTTGTAACAAACTCTGGGAGGCTTCCTAATTTCAGATCGAATGCTGCCAGAACTCAAGAAAAGAGGTCATAAGgtgagttcaactaaaatttatgctgtctgtccagtgtatttggcatcagc Alignment from Exonerate_coding2genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAG-TTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gttacattcaaatctacaagctgtcattgacttgccttctttcttattagAATGATGAAGAGTTTGTAACAAACTCTGGGAGGCTTCCTAATTTCAGATCGAATGCTGCCAGAACTCAAGAAAAGAGGTCATAAGgtgagttcaactaaaatttatgctgtctgtccagtgtatttggcatcagc Alignment from GeneWise ATTGATGAAGAGTTGGTAACAAATTCTGGG-AAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gttacattcaaatctacaagctgtcattgacttgccttctttcttattagAATGATGAAGAGTTTGTAACAAACTCTGGGAGGCTTCCTAATTTCAGATCGAATGCTGCCAGAACTCAAGAAAAGAGGTCATAAGgtgagttcaactaaaatttatgctgtctgtccagtgtatttggcatcagc #### Hnrnpul2_ID2400_4 --> 2 - 0 Original Alignment atACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCG-CTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gcttcagcactggatgtcacgctaaatcatgtgtttgttttctacttaaggtACATCCGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACCTGTTCTCAGAAAAATTCCCCACCCTTTGGTCCGGAGCAAGAAGTACCTATAGTGTAACAGAGGGTAAAGTCTGCTTTGAAGCTCAGgtgagatgccacctttaaactaaatatattttaccactccaaactttact Alignment from CESAR atACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCG-CTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gcttcagcactggatgtcacgctaaatcatgtgtttgttttctacttaaggtACATCCGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACCTGTTCTCAGAAAAATTCCCCACCCTTTGGTCCGGAGCAAGAAGTACCTATAGTGTAACAGAGGGTAAAGTCTGCTTTGAAGCTCAGgtgagatgccacctttaaactaaatatattttaccactccaaactttact Alignment from Spaln_aa2Genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCG-CTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gcttcagcactggatgtcacgctaaatcatgtgtttgttttctacttaagGTACATCCGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCAcCTGTTCTCAGAAAAATTCCCCACCCTTTGGTCCGGAGCAAGAAGTACCTATAGTGTAACAGAGGGTAAAGTCTGCTTTGAAGCTCAGgtgagatgccacctttaaactaaatatattttaccactccaaactttact Alignment from Spaln_nt2Genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGC-TCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gcttcagcactggatgtcacgctaaatcatgtgtttgttttctacttaagGTACATCCGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACCTGTTCTCAGAAAAATTCCCCACCCTTTGGTCCGGAGCAAGAAGTACCTATAGTGTAACAGAGGGTAAAGTCTGCTTTGAAGCTCAGgtgagatgccacctttaaactaaatatattttaccactccaaactttact Alignment from Pairagon ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCG-CTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gcttcagcactggatgtcacgctaaatcatgtgtttgttttctacttaagGTACATCCGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACCTGTTCTCAGAAAAATTCCCCACCCTTTGGTCCGGAGCAAGAAGTACCTATAGTGTAACAGAGGGTAAAGTCTGCTTTGAAGCTCAGgtgagatgccacctttaaactaaatatattttaccactccaaactttact Alignment from Exonerate_protein2genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCG-CTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gcttcagcactggatgtcacgctaaatcatgtgtttgttttctacttaagGTACATCCGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACCTGTTCTCAGAAAAATTCCCCACCCTTTGGTCCGGAGCAAGAAGTACCTATAGTGTAACAGAGGGTAAAGTCTGCTTTGAAGCTCAGgtgagatgccacctttaaactaaatatattttaccactccaaactttact Alignment from Exonerate_coding2genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCG-CTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gcttcagcactggatgtcacgctaaatcatgtgtttgttttctacttaagGTACATCCGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACCTGTTCTCAGAAAAATTCCCCACCCTTTGGTCCGGAGCAAGAAGTACCTATAGTGTAACAGAGGGTAAAGTCTGCTTTGAAGCTCAGgtgagatgccacctttaaactaaatatattttaccactccaaactttact Alignment from GeneWise ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCG-CTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gcttcagcactggatgtcacgctaaatcatgtgtttgttttctacttaagGTACATCCGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACCTGTTCTCAGAAAAATTCCCCACCCTTTGGTCCGGAGCAAGAAGTACCTATAGTGTAACAGAGGGTAAAGTCTGCTTTGAAGCTCAGgtgagatgccacctttaaactaaatatattttaccactccaaactttact #### Hnrnpul2_ID2404_8 --> 0 - 0 Original Alignment GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAAC-CCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtagttaacctaataatgctcataatctgtgcctgcctttgtgttcagGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTAAAATACGCAAAAGACAACCCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtaagaaatttatcaggttttatgagcagaattggtaaaagtcataatct Alignment from CESAR GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAAC-CCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtagttaacctaataatgctcataatctgtgcctgcctttgtgttcagGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTAAAATACGCAAAAGACAACCCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtaagaaatttatcaggttttatgagcagaattggtaaaagtcataatct Alignment from Spaln_aa2Genome GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAAC-CCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtagttaacctaataatgctcataatctgtgcctgcctttgtgttcagGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTAAAATACGCAAAAGACAACcCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtaagaaatttatcaggttttatgagcagaattggtaaaagtcataatct Alignment from Spaln_nt2Genome GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAA-CCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtagttaacctaataatgctcataatctgtgcctgcctttgtgttcagGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTAAAATACGCAAAAGACAACCCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtaagaaatttatcaggttttatgagcagaattggtaaaagtcataatct Alignment from Pairagon GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAA-CCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtagttaacctaataatgctcataatctgtgcctgcctttgtgttcagGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTAAAATACGCAAAAGACAACCCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtaagaaatttatcaggttttatgagcagaattggtaaaagtcataatct Alignment from Exonerate_protein2genome GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAAC-CCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtagttaacctaataatgctcataatctgtgcctgcctttgtgttcagGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTAAAATACGCAAAAGACAACCCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtaagaaatttatcaggttttatgagcagaattggtaaaagtcataatct Alignment from Exonerate_coding2genome GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAAC-CCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtagttaacctaataatgctcataatctgtgcctgcctttgtgttcagGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTAAAATACGCAAAAGACAACCCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtaagaaatttatcaggttttatgagcagaattggtaaaagtcataatct Alignment from GeneWise GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCT-GAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtagttaacctaataatgctcataatctgtgcctgcctttgtgttcagGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTAAAATACGCAAAAGACAACCCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtaagaaatttatcaggttttatgagcagaattggtaaaagtcataatct #### Hnrnpul2_ID2408_12 --> 2 - 0 Original Alignment tgGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGG-GGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgggtttgtaacaatttcatttcatgtttttcagtgGGCGGACAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGCGGGGAGCCTGGAACCAGAGGAgtaagtgcacatcctacataactcatccttccacctgttcctctaactgt Alignment from CESAR tgGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGG-GGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgggtttgtaacaatttcatttcatgtttttcagtgGGCGGACAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGCGGGGAGCCTGGAACCAGAGGAgtaagtgcacatcctacataactcatccttccacctgttcctctaactgt Alignment from Spaln_aa2Genome TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGG-GGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgggtttgtaacaatttcatttcatgtttttcagTGGGCGGACAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGcGGGGAGCCTGGAACCAGAGGAgtaagtgcacatcctacataactcatccttccacctgttcctctaactgt Alignment from Spaln_nt2Genome TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGG-GGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgggtttgtaacaatttcatttcatgtttttcagTGGGCGGACAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGCGGGGAGCCTGGAACCAGAGGAgtaagtgcacatcctacataactcatccttccacctgttcctctaactgt Alignment from Pairagon TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGG-GGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgggtttgtaacaatttcatttcatgtttttcagTGGGCGGACAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGCGGGGAGCCTGGAACCAGAGGAgtaagtgcacatcctacataactcatccttccacctgttcctctaactgt Alignment from Exonerate_protein2genome TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGG-GGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgggtttgtaacaatttcatttcatgtttttcagTGGGCGGACAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGCGGGGAGCCTGGAACCAGAGGAgtaagtgcacatcctacataactcatccttccacctgttcctctaactgt Alignment from Exonerate_coding2genome TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGG-GGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgggtttgtaacaatttcatttcatgtttttcagTGGGCGGACAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGCGGGGAGCCTGGAACCAGAGGAgtaagtgcacatcctacataactcatccttccacctgttcctctaactgt Alignment from GeneWise TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGG-GGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgggtttgtaacaatttcatttcatgtttttcagTGGGCGGACAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGCGGGGAGCCTGGAACCAGAGGAgtaagtgcacatcctacataactcatccttccacctgttcctctaactgt #### Hnrnpul2_ID2409_13 --> 0 - 0 Original Alignment GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGA-GACTATTACAGACAATACAACCGGGAT tcttaaatgcctataatggattgagcttgggtgtcatcccctccctccagGGCTACCGCAATTTCTATGATCGATACAAGGGTGACTATGAACGATTCTATAGTCGGGATTACAAATACAATAGATATAGGCGGATATTCTAGAGAATACAACCAAGATgtaggtatgaaacagggatcagaagaaagagataggggatagaagaaaag Alignment from CESAR GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGA-GACTATTACAGACAATACAACCGGGAT tcttaaatgcctataatggattgagcttgggtgtcatcccctccctccagGGCTACCGCAATTTCTATGATCGATACAAGGGTGACTATGAACGATTCTATAGTCGGGATTACAAATACAATAGATATAGGCGGATATTCTAGAGAATACAACCAAGATgtaggtatgaaacagggatcagaagaaagagataggggatagaagaaaag Alignment from Spaln_aa2Genome GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGA-GACTATTACAGACAATACAACCGGGAT tcttaaatgcctataatggattgagcttgggtgtcatcccctccctccagGGCTACCGCAATTTCTATGATCGATACAAGGGTGACTATGAACGATTCTATAGTCGGGATTACAAATACAATAGATATAGGcGGATATTCTAGAGAATACAACCAAGATgtaggtatgaaacagggatcagaagaaagagataggggatagaagaaaag Alignment from Spaln_nt2Genome GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGA-GACTATTACAGACAATACAACCGGGAT tcttaaatgcctataatggattgagcttgggtgtcatcccctccctccagGGCTACCGCAATTTCTATGATCGATACAAGGGTGACTATGAACGATTCTATAGTCGGGATTACAAATACAATAGATATAGGCGGATATTCTAGAGAATACAACCAAGATgtaggtatgaaacagggatcagaagaaagagataggggatagaagaaaag Alignment from Pairagon GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGA-GACTATTACAGACAATACAACCGGGAT tcttaaatgcctataatggattgagcttgggtgtcatcccctccctccagGGCTACCGCAATTTCTATGATCGATACAAGGGTGACTATGAACGATTCTATAGTCGGGATTACAAATACAATAGATATAGGCGGATATTCTAGAGAATACAACCAAGATgtaggtatgaaacagggatcagaagaaagagataggggatagaagaaaag Alignment from Exonerate_protein2genome GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGA-GACTATTACAGACAATACAACCGGGAT tcttaaatgcctataatggattgagcttgggtgtcatcccctccctccagGGCTACCGCAATTTCTATGATCGATACAAGGGTGACTATGAACGATTCTATAGTCGGGATTACAAATACAATAGATATAGGCGGATATTCTAGAGAATACAACCAAGATgtaggtatgaaacagggatcagaagaaagagataggggatagaagaaaag Alignment from Exonerate_coding2genome GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGA-GACTATTACAGACAATACAACCGGGAT tcttaaatgcctataatggattgagcttgggtgtcatcccctccctccagGGCTACCGCAATTTCTATGATCGATACAAGGGTGACTATGAACGATTCTATAGTCGGGATTACAAATACAATAGATATAGGCGGATATTCTAGAGAATACAACCAAGATgtaggtatgaaacagggatcagaagaaagagataggggatagaagaaaag Alignment from GeneWise GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGA-GACTATTACAGACAATACAACCGGGAT tcttaaatgcctataatggattgagcttgggtgtcatcccctccctccagGGCTACCGCAATTTCTATGATCGATACAAGGGTGACTATGAACGATTCTATAGTCGGGATTACAAATACAATAGATATAGGCGGATATTCTAGAGAATACAACCAAGATgtaggtatgaaacagggatcagaagaaagagataggggatagaagaaaag #### Hoga1_ID8381_4 --> 0 - 0 Original Alignment GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAG-CTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT taaacaggggttgacatggtaaatgcctcctcctctgactttgcttccagATTGCTGATGTTCCCCCAATCCCCGTAGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAACATTATTGGCCTGAAGGTCAGTGGTGGAGGTgtactgtgctatagggtccgatttgctcaagcaacctcaacctcaggtca Alignment from CESAR GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAG-CTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT taaacaggggttgacatggtaaatgcctcctcctctgactttgcttccagATTGCTGATGTTCCCCCAATCCCCGTAGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAACATTATTGGCCTGAAGGTCAGTGGTGGAGGTgtactgtgctatagggtccgatttgctcaagcaacctcaacctcaggtca Alignment from Spaln_aa2Genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAG-CTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT taaacaggggttgacatggtaaatgcctcctcctctgactttgcttccagATTGCTGATGTTCCCCCAATCCCCGTAGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGcCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAACATTATTGGCCTGAAGGTCAGTGGTGGAGGTgtactgtgctatagggtccgatttgctcaagcaacctcaacctcaggtca Alignment from Spaln_nt2Genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGC-TACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT taaacaggggttgacatggtaaatgcctcctcctctgactttgcttccagATTGCTGATGTTCCCCCAATCCCCGTAGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAACATTATTGGCCTGAAGGTCAGTGGTGGAGGTgtactgtgctatagggtccgatttgctcaagcaacctcaacctcaggtca Alignment from Pairagon GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAG-CTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT taaacaggggttgacatggtaaatgcctcctcctctgactttgcttccagATTGCTGATGTTCCCCCAATCCCCGTAGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAACATTATTGGCCTGAAGGTCAGTGGTGGAGGTgtactgtgctatagggtccgatttgctcaagcaacctcaacctcaggtca Alignment from Exonerate_protein2genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAG-CTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT taaacaggggttgacatggtaaatgcctcctcctctgactttgcttccagATTGCTGATGTTCCCCCAATCCCCGTAGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAACATTATTGGCCTGAAGGTCAGTGGTGGAGGTgtactgtgctatagggtccgatttgctcaagcaacctcaacctcaggtca Alignment from Exonerate_coding2genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAG-CTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT taaacaggggttgacatggtaaatgcctcctcctctgactttgcttccagATTGCTGATGTTCCCCCAATCCCCGTAGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAACATTATTGGCCTGAAGGTCAGTGGTGGAGGTgtactgtgctatagggtccgatttgctcaagcaacctcaacctcaggtca Alignment from GeneWise GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAG-CTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT taaacaggggttgacatggtaaatgcctcctcctctgactttgcttccagATTGCTGATGTTCCCCCAATCCCCGTAGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAACATTATTGGCCTGAAGGTCAGTGGTGGAGGTgtactgtgctatagggtccgatttgctcaagcaacctcaacctcaggtca #### Hps1_ID8614_14 --> 1 - 2 Original Alignment gGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGC-CGGAGA---AATGTCACCATGGTGtc aattgttagaggatccaactaattagtgattggaatcttttcttttctaggGAGAGACTTTTGTACTGGAAGGACTTTTCCTTGGTAAATAGCCTGGAGAAGAAATGTCACCATGGTAgcgtgaactattgattgtatgttcatgagattattcaagctattgaagatcc Alignment from CESAR gGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGC----CGGAGAAATGTCACCATGGTGtc aattgttagaggatccaactaattagtgattggaatcttttcttttctaggGAGAGACTTTTGTACTGGAAGGACTTTTCCTTGGTAAATAGCCTGGAGAAGAAATGTCACCATGGTAgcgtgaactattgattgtatgttcatgagattattcaagctattgaagatcc Alignment from Spaln_aa2Genome GGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGC----CGGAGAAATGTCACCATGGTGTC aattgttagaggatccaactaattagtgattggaatcttttcttttctagGGAGAGACTTTTGTACTGGAAGGACTTTTCCTTGGTAAATAGCCTGgAGAAGAAATGTCACCATGGTAGCgtgaactattgattgtatgttcatgagattattcaagctattgaagatcc Alignment from Spaln_nt2Genome GGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGG----AGAAATGTCACCATGGTGTC aattgttagaggatccaactaattagtgattggaatcttttcttttctagGGAGAGACTTTTGTACTGGAAGGACTTTTCCTTGGTAAATAGCCTGGAGAAGAAATGTCACCATGGTAGCgtgaactattgattgtatgttcatgagattattcaagctattgaagatcc Alignment from Pairagon GGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCC----GGAGAAATGTCACCATGGTGTC aattgttagaggatccaactaattagtgattggaatcttttcttttctagGGAGAGACTTTTGTACTGGAAGGACTTTTCCTTGGTAAATAGCCTGGAGAAGAAATGTCACCATGGTAGCgtgaactattgattgtatgttcatgagattattcaagctattgaagatcc Alignment from Exonerate_protein2genome GGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGC----CGGAGAAATGTCACCATGGTGTC aattgttagaggatccaactaattagtgattggaatcttttcttttctagGGAGAGACTTTTGTACTGGAAGGACTTTTCCTTGGTAAATAGCCTGGAGAAGAAATGTCACCATGGTAGCgtgaactattgattgtatgttcatgagattattcaagctattgaagatcc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGC------CGGAGAAATGTCACCATGGTGTC aattgttagaggatccaactaattagtgattggaatcttttcttttctagGGAGAGACTTTTGTACTGGAAGGACTTTTCCTTGGTAAATAGCCTGG--AGAAGAAATGTCACCATGGTAGCgtgaactattgattgtatgttcatgagattattcaagctattgaagatcc #### Hps1_ID8615_13 --> 1 - 2 Original Alignment gCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGT-GTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGaa gccaatatattttccatggagtacatcttctgtctttgcactcttcgtaggTTTCTCCAAGTCTGTGGGAAGTTAAAGCGACAGTTGTGTCATAATGTACCAGCTCAGCTACCTGGTCACAGCACCCAGCAGAGGAGGACCA------CCCGAGCATATACAGGAC---TCCCAAAAA---ATGaagtgagtgggccatgccccaaagcttgtcaagctaggtcattacgtcggtg Alignment from CESAR gCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGT-GTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGaa gccaatatattttccatggagtacatcttctgtctttgcactcttcgtaggTTTCTCCAAGTCTGTGGGAAGTTAAAGCGACAGTTGTGTCATAATGTACCAGCTCAGCTACCTGGTCACAGCACCCAGCAGAGGAGGACCA------CCCGAGCATATACAGGAC---TCCCAAAAA---ATGaagtgagtgggccatgccccaaagcttgtcaagctaggtcattacgtcggtg Alignment from Spaln_aa2Genome GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGT-GTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA gccaatatattttccatggagtacatcttctgtctttgcactcttcgtagGTTTCTCCAAGTCTGTGGGAAGTTAAAGCGACAGTTGTGTcATAATGTACCAGCTCAGCTACCTGGTCACAGCACCCAGCAGAGGAGGACCA------CCCGAGCATATACAGGAC---TCCCAAAAA---ATGAAgtgagtgggccatgccccaaagcttgtcaagctaggtcattacgtcggtg Alignment from Spaln_nt2Genome GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTG-TCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA gccaatatattttccatggagtacatcttctgtctttgcactcttcgtagGTTTCTCCAAGTCTGTGGGAAGTTAAAGCGACAGTTGTGTCATAATGTACCAGCTCAGCTACCTGGTCACAGCACCCAGCAGAGGAGGACC------ACCCGAGCATATACAGGAC---TCCCAAAAA---ATGAAgtgagtgggccatgccccaaagcttgtcaagctaggtcattacgtcggtg Alignment from Pairagon GCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGGAGCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGT-GTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAG-------------CCCAGAAACTCATGAA gccaatatattttccatggagtacatcttctgtctttgcactcttcgtag----------------------------------------GTTTCTCCAAGTCTGTGGGAAGTTAAAGCGACAGTTGTGTCATAATGTACCAGCTCAGCTACCTGGTCACAGCACCCAGCAGAGGAGGACCAC----------------------CCGAGCATATACAGGACTCCCAAAAA---ATGAAgtgagtgggccatgccccaaagcttgtcaagctaggtcattacgtcggtg Alignment from Exonerate_protein2genome GTCCTGGGAGCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGT-GTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA gccaatatattttccatggagtacatcttctgtctttgcacTCTTCGTAGGTTTCTCCAAGTCTGTGGGAAGTTAAAGCGACAGTTGTGTCATAATGTACCAGCTCAGCTACCTGGTCACAGCACCCAGCAGAGGAGGACCA------CCCGAGCATATACAGGAC---TCCCAAAAA---ATGAAgtgagtgggccatgccccaaagcttgtcaagctaggtcattacgtcggtg Alignment from Exonerate_coding2genome gccaatatattttccatggagtacatcttctgtctttgcactcttcgtaggtttctccaagtctgtgggaagttaaagcgacagttgtgtcataatgtaccagctcagctacctggtcacagcacccagcagaggaggaccacccgagcatatacaggactcccaaaaaatgaagtgagtgggccatgccccaaagcttgtcaagctaggtcattacgtcggtg Alignment from GeneWise -CTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGT-GTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA gccaatatattttccatggagtacatcttctgtctttgcactcttcgtagGTTTCTCCAAGTCTGTGGGAAGTTAAAGCGACAGTTGTGTCATAATGTACCAGCTCAGCTACCTGGTCACAGCACCCAGCAGAGGAGGACCA------CCCGAGCATATACAGGAC---TCCCAAAAA---ATGAAgtgagtgggccatgccccaaagcttgtcaagctaggtcattacgtcggtg #### Hps1_ID8620_8 --> 0 - 1 Original Alignment GACACAGACAGCATCTCCCTCCCT-GAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAg tggtaagcaaactacggtgtattctctgcacatgcagtgtccttccttagGATACTGAT---AATTCC---CCGCGAAGAGTATTTCACTCCCTCTCCTCCCCCAAGT------GGTCCAggtgagaggagtgggtgtggcaccttactatgtcacttagttaagtacaga Alignment from CESAR GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAg tggtaagcaaactacggtgtattctctgcacatgcagtgtccttccttagGATACTGATA--ATTCCCCGC---GAAGAGTATTTCACTCCCTCTCCTCCCCCAAGT------GGTCCAggtgagaggagtgggtgtggcaccttactatgtcacttagttaagtacaga Alignment from Spaln_aa2Genome -GACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAGGTA tggtaagcaaactacggtgtattctctgcacatgcagtgtccttccttagGATACTGATAATTCCCCGCGAAGAGTATTTCACTCCCTCTCCTCCCCCAAGTGGTCCAGGTGAGAGGAgtgggtgtggcaccttactatgtcacttagttaagtacaga Alignment from Spaln_nt2Genome GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAG tggtaagcaaactacggtgtattctctgcacatgcagtgtccttccttagGATACTGATA--ATTCCCCGC---GAAGAGTATTTCACTCCCTCTCCTCCCCCAAGTG------GTCCAGgtgagaggagtgggtgtggcaccttactatgtcacttagttaagtacaga Alignment from Pairagon GACACAGACAGCATCTCCCTCCCT---------------------GAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAG acggtgtattctctgcacatgcag-------------TGTCCTTCCTTAGGATACTGATAATTCCCCGCGAAGAGTATTTCACTCCCTCTCCTCCCCCAAGTG------GTCCAGgtgagaggagtgggtgtggcaccttactatgtcacttagttaagtacaga Alignment from Exonerate_protein2genome TC TCCCTCCCT---GAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAGGTA TGgtaagcaaactacggtgtattctctgcacatgcagtgtccttccttaggatactgATAATTCCCCGCGAAGAGTATTTCACTCCCTCTCCTCCCCCAAGTGGTCCAGGTGAGAGGAgtgggtgtggcaccttactatgtcacttagttaagtacaga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTT TGGTAAGCAAACTACGGTGTATTCTCTGCACATGCAgtgtccttccttaggatactgataattccccgcgaagagtatttcactccctctcctcccccaagtggtccaggtgagaggagtgggtgtggcaccttactatgtcacttagttaagtacaga #### Hps1_ID8621_7 --> 0 - 0 Original Alignment AGGAGACCCAAG-AGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tatgcgatgcatttctgcttgctcatgacaatctgctctcatttttatagAGGCATCCAAAGCAGA---------------------CAAACCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAAACAgtgaggcctaagctggtaagcaaactacggtgtattctctggcccccttt Alignment from CESAR AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAG-CAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tatgcgatgcatttctgcttgctcatgacaatctgctctcatttttatagAGGCATCCAAAG---------------------CAGACAAACCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAAACAgtgaggcctaagctggtaagcaaactacggtgtattctctgcacatgcag Alignment from Spaln_aa2Genome AAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tatgcgatgcatttctgcttgctcatgacaatctgctctcatttttatagAGGCATCCAAAGCAGACAAACCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAAACAgtgaggcctaagctggtaagcaaactacggtgtattctctggcccccttt Alignment from Spaln_nt2Genome A--CATCCCAGTGCAG-CAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tatgcgatgcatttctgcttgctcatgacaatctgctctcatttttatagAGGCAT-CCAAAGCAGACAAACCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAAACAgtgaggcctaagctggtaagcaaactacggtgtattctctggcccccttt Alignment from Pairagon CCCTCAGAGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCA-----------------AGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACAGACACAGACAGCATCTCCCT------------------------------ tatgcgatgcatttctgcttgctcatgacaatctgctctcatttttatag--------------------------------------------AGGCATCCAAAGCAGACAAACCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAAACAG------------------TGAGGCCTAAGCTGGTAAGCAAACTACGGTG Alignment from Exonerate_protein2genome CAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tatgcgatgcatttctgcttgctcatgacaatctgctctcatttttatAGAGGCATCCAAAGCAGACAAACCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAAACAgtgaggcctaagctggtaagcaaactacggtgtattctctggcccccttt Alignment from Exonerate_coding2genome tatgcgatgcatttctgcttgctcatgacaatctgctctcatttttatagaggcatccaaagcagacaaaccaggagccagagtacctcagtacctgccaggggttgtaaggaaacagtgaggcctaagctggtaagcaaactacggtgtattctctggcccccttt Alignment from GeneWise --ATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tatgcgatgcatttctgcttgctcatgacaatctgctctcatttttatagagGCATCCAAAGCAGACAAACCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAAACAgtgaggcctaagctggtaagcaaactacggtgtattctctggcccccttt #### Hps1_ID8622_6 --> 1 - 0 Original Alignment cCATGGTGCGAGCACCCTGCGCCCCGCA-GACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGC---CCTCAG ccaccctaacaacccaagctcctattctgttctttctttttctttttcagcCAAGGTGCAAGCACTCTATGTCCAGAACGATTTTCTT---------CTCCTAGTTCATGACCCACAGCCTTCACCAGCCATGACAGAGGAAGAGGGGGAGCAAGAAGATGGTCCCAGCAGTCCACAGgtaaatgcaaagcccagaattgtgattgactacctatcagaaggagctgg Alignment from CESAR cCATGGTGCGAGCACCCTGCGCCCCGCA-GACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGC---GACAGCCCTCAG ccaccctaacaacccaagctcctattctgttctttctttttctttttcagcCAAGGTGCAAGCACTCTATGTCCAGAACGATTTTCTT---------CTCCTAGTTCATGACCCACAGCCTTCACCAGCCATGACAGAGGAAGAGGGGGAGCAAGAAGATGGTCCCAGCAGTCCACAGgtaaatgcaaagcccagaattgtgattgactacctatcagaaggagctgg Alignment from Spaln_aa2Genome CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGAT---AGCGACAGCCCTCAGAGGAGACCCAAGAGCAGCCAA ccaccctaacaacccaagctcctattctgttctttctttttctttttcagCCAAGGTGCAAGCACTCTATGTCCAGAAC--------GATTTTCTTCTCCTAGTTCATGACCCACAGCCTTCACCAGCCATGACAGAGGAAGAGGGGGAGCAAGAAGATGGTCCCAGCAGTCCACAGGTAAATGCAAAGCCCAGAATTgtgattgactacctatcagaaggagctgg Alignment from Spaln_nt2Genome CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGCCCTCAGAGGAG ccaccctaacaacccaagctcctattctgttctttctttttctttttcagCCAAGGTGCAAGCACTCTATGTC---CAGAAC-----GATTTTCTTCTCCTAGTTCATGACCCACAGCCTTCACCAGCCATGACAGAGGAAGAGGGGGAGCAAGAAGATGGTCCCAGCAGTC--CACAGgtaaatgcaaagcccagaattgtgattgactacctatcagaaggagctgg Alignment from Pairagon CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATC---------------------CTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGA ccaccctaacaacccaagctcctattctgttctttctttttctttttcagCCAAGGTGCAAGCAC-----------------------------TCTATGTCCAGAACGATTTTCTTCTCCTAGTTCATGACCCACAGCCTTCACCAGCCATGACAGAGGAAGAGGGGGAgcaagaagatggtcccagcagtccacaggtaaatgcaaagcccagaattgtgattgactacctatcagaaggagctgg Alignment from Exonerate_protein2genome ccaccctaacaacccaagctcctattctgttctttctttttctttttcagccaaggtgcaagcactctatgtccagaacgattttcttctcctagttcatgacccacagccttcaccagccatgacagaggaagagggggagcaagaagatggtcccagcagtccacaggtaaatgcaaagcccagaattgtgattgactacctatcagaaggagctgg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCATGGTGCGAGCACCCTGCGCCCC-GCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGC---GACAGCCCTCAGAGGAGACCCAAGAGCAGCCAA ccaccctaacaacccaagctcctattctgttctttctttttctttttcagCCAAGGTGCAAGCACTCTATGTCCAGAACGATTTTCTT---------CTCCTAGTTCATGACCCACAGCCTTCACCAGCCATGACAGAGGAAGAGGGGGAGCAAGAAGATGGTCCCAGCAGTCCACAGGTAAATGCAAAGCCCAGAATTgtgattgactacctatcagaaggagctgg #### Il33_ID6361_4 --> 2 - 1 Original Alignment gaACTTCACTTTTAACA-CAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAg ctagttgggctgatagacacataatatgtcactcactgccaggcctacaggaACTGCGCTTTTAACTCCAAACACCAGCTTCCCTAAGTGCATACAACGACCAGTCTGAGAGTTTTGTGTTAGAAAATGGATGTTATGTGCTAAATATTGATGATTCTGGTAAAGACCAGGAACATggtaatgcttaaccatgccacaagtccttggggtaatgcttaatgagaacg Alignment from CESAR gaACTTCACTTTTAACA-CAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAg ctagttgggctgatagacacataatatgtcactcactgccaggcctacaggaACTGCGCTTTTAACTCCAAACACCAGCTTCCCTAAGTGCATACAACGACCAGTCTGAGAGTTTTGTGTTAGAAAATGGATGTTATGTGCTAAATATTGATGATTCTGGTAAAGACCAGGAACATggtaatgcttaaccatgccacaagtccttggggtaatgcttaatgagaacg Alignment from Spaln_aa2Genome GAACTTCACTTTTAACA-CAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG ctagttgggctgatagacacataatatgtcactcactgccaggcctacagGAACTGCGCTTTTAACTcCAAACACCAGCTTCCCTAAGTGCATACAACGACCAGTCTGAGAGTTTTGTGTTAGAAAATGGATGTTATGTGCTAAATATTGATGATTCTGGTAAAGACCAGGAACATGgtaatgcttaaccatgccacaagtccttggggtaatgcttaatgagaacg Alignment from Spaln_nt2Genome GAACTTCACTTTTAACAC-AGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG ctagttgggctgatagacacataatatgtcactcactgccaggcctacagGAACTGCGCTTTTAACTCCAAACACCAGCTTCCCTAAGTGCATACAACGACCAGTCTGAGAGTTTTGTGTTAGAAAATGGATGTTATGTGCTAAATATTGATGATTCTGGTAAAGACCAGGAACATGgtaatgcttaaccatgccacaagtccttggggtaatgcttaatgagaacg Alignment from Pairagon GAACTTCACTTTTAAC-----ACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG ctagttgggctgatagacacataatatgtcactcactgccaggcctacagGAACTGCGCTTTTAACTCCAAACA----CCAGCTTCCCTAAGTGCATACAACGACCAGTCTGAGAGTTTTGTGTTAGAAAATGGATGTTATGTGCTAAATATTGATGATTCTGGTAAAGACCAGGAACATGgtaatgcttaaccatgccacaagtccttggggtaatgcttaatgagaacg Alignment from Exonerate_protein2genome GAACTTCACTTTTAACA-CAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG ctagttgggctgatagacacataatatgtcactcactgccaggcctacagGAACTGCGCTTTTAACTCCAAACACCAGCTTCCCTAAGTGCATACAACGACCAGTCTGAGAGTTTTGTGTTAGAAAATGGATGTTATGTGCTAAATATTGATGATTCTGGTAAAGACCAGGAACATGgtaatgcttaaccatgccacaagtccttggggtaatgcttaatgagaacg Alignment from Exonerate_coding2genome GAACTTCACTTTTAACA-CAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG ctagttgggctgatagacacataatatgtcactcactgccaggcctacagGAACTGCGCTTTTAACTCCAAACACCAGCTTCCCTAAGTGCATACAACGACCAGTCTGAGAGTTTTGTGTTAGAAAATGGATGTTATGTGCTAAATATTGATGATTCTGGTAAAGACCAGGAACATGgtaatgcttaaccatgccacaagtccttggggtaatgcttaatgagaacg Alignment from GeneWise GAACTTCACTTTTA-ACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG ctagttgggctgatagacacataatatgtcactcactgccaggcctacagGAACTGCGCTTTTAACTCCAAACACCAGCTTCCCTAAGTGCATACAACGACCAGTCTGAGAGTTTTGTGTTAGAAAATGGATGTTATGTGCTAAATATTGATGATTCTGGTAAAGACCAGGAACATGgtaatgcttaaccatgccacaagtccttggggtaatgcttaatgagaacg #### Incenp_ID2605_14 --> 1 - 0 Original Alignment gGAGATGCAGGAGAGAGAGAAA-GCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tttattggtaactagcagactactacttctgacatcaccacttgctgtaggGAGATGCAAGAGAGAGAAAAGCGCCTTGAGACTCCAGAAAGAACGGCTCCAAAAGGAACTTGGGGAAAAGAAGCAGAAGgtgagggcggccctgcagacatatattctgcagagtaaagtctgatctgg Alignment from CESAR gGAGATGCAGGAGAGAGAGAAA-GCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tttattggtaactagcagactactacttctgacatcaccacttgctgtaggGAGATGCAAGAGAGAGAAAAGCGCCTTGAGACTCCAGAAAGAACGGCTCCAAAAGGAACTTGGGGAAAAGAAGCAGAAGgtgagggcggccctgcagacatatattctgcagagtaaagtctgatctgg Alignment from Spaln_aa2Genome GGAGATGCAGGAGAGAGAGAAA-GCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tttattggtaactagcagactactacttctgacatcaccacttgctgtagGGAGATGCAAGAGAGAGAAAAGcGCCTTGAGACTCCAGAAAGAACGGCTCCAAAAGGAACTTGGGGAAAAGAAGCAGAAGgtgagggcggccctgcagacatatattctgcagagtaaagtctgatctgg Alignment from Spaln_nt2Genome GGAGATGCAGGAGAGAGAGAAA-GCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tttattggtaactagcagactactacttctgacatcaccacttgctgtagGGAGATGCAAGAGAGAGAAAAGCGCCTTGAGACTCCAGAAAGAACGGCTCCAAAAGGAACTTGGGGAAAAGAAGCAGAAGgtgagggcggccctgcagacatatattctgcagagtaaagtctgatctgg Alignment from Pairagon GGAGATGCAGGAGAGAGAGAAA-GCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tttattggtaactagcagactactacttctgacatcaccacttgctgtagGGAGATGCAAGAGAGAGAAAAGCGCCTTGAGACTCCAGAAAGAACGGCTCCAAAAGGAACTTGGGGAAAAGAAGCAGAAGgtgagggcggccctgcagacatatattctgcagagtaaagtctgatctgg Alignment from Exonerate_protein2genome GGAGATGCAGGAGAGAGAGAAA-GCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tttattggtaactagcagactactacttctgacatcaccacttgctgtagGGAGATGCAAGAGAGAGAAAAGCGCCTTGAGACTCCAGAAAGAACGGCTCCAAAAGGAACTTGGGGAAAAGAAGCAGAAGgtgagggcggccctgcagacatatattctgcagagtaaagtctgatctgg Alignment from Exonerate_coding2genome tttattggtaactagcagactactacttctgacatcaccacttgctgtagggagatgcaagagagagaaaagcgccttgagactccagaaagaacggctccaaaaggaacttggggaaaagaagcagaaggtgagggcggccctgcagacatatattctgcagagtaaagtctgatctgg Alignment from GeneWise GCAGGAGAGAGAGAAA---GCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tttattggtaactagcagactactacttctgacatcaccacttgctgtagggagATGCAAGAGAGAGAAAAGCGCCTTGAGACTCCAGAAAGAACGGCTCCAAAAGGAACTTGGGGAAAAGAAGCAGAAGgtgagggcggccctgcagacatatattctgcagagtaaagtctgatctgg #### Incenp_ID2611_8 --> 1 - 0 Original Alignment gAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAG-CAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG atggcagtgatgacgagtaatattctagctcttttctgttttttttacagaAGGAAGCGTAGTTACAAAAAGGCTACAGGCAAGCCTGATGAGGATCCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTTCAGCC------CCACCCAACAAAgtaagtgtctgctcatcttttatgcccttattctggattctatccaagca Alignment from CESAR gAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAG-CAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG atggcagtgatgacgagtaatattctagctcttttctgttttttttacagaAGGAAGCGTAGTTACAAAAAGGCTACAGGCAAGCCTGATGAGGATCCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTTCAGCC------CCACCCAACAAAgtaagtgtctgctcatcttttatgcccttattctggattctatccaagca Alignment from Spaln_aa2Genome GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAG-CAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG atggcagtgatgacgagtaatattctagctcttttctgttttttttacagAAGGAAGCGTAGTTACAAAAAGGCTACAGGCAAGCCTGATGAGGATcCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTTCAGCC------CCACCCAACAAAgtaagtgtctgctcatcttttatgcccttattctggattctatccaagca Alignment from Spaln_nt2Genome GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCA-ACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG atggcagtgatgacgagtaatattctagctcttttctgttttttttacagAAGGAAGCGTAGTTACAAAAAGGCTACAGGCAAGCCTGATGAGGATCCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTT---CAGCC---CCACCCAACAAAgtaagtgtctgctcatcttttatgcccttattctggattctatccaagca Alignment from Pairagon GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGA-GCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTT---CCCCACCCTGTCCAGCCAACAAG atggcagtgatgacgagtaatattctagctcttttctgttttttttacagAAGGAAGCGTAGTTACAAAAAGGCTACAGGCAAGCCTGATGAGGATCCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTTCAGCCCCAC---------CCAACAAAgtaagtgtctgctcatcttttatgcccttattctggattctatccaagca Alignment from Exonerate_protein2genome GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAG-CAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG atggcagtgatgacgagtaatattctagctcttttctgttttttttacagAAGGAAGCGTAGTTACAAAAAGGCTACAGGCAAGCCTGATGAGGATCCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTTCA------GCCCCACCCAACAAAgtaagtgtctgctcatcttttatgcccttattctggattctatccaagca Alignment from Exonerate_coding2genome GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAG-CAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG atggcagtgatgacgagtaatattctagctcttttctgttttttttacagAAGGAAGCGTAGTTACAAAAAGGCTACAGGCAAGCCTGATGAGGATCCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTTCA------GCCCCACCCAACAAAgtaagtgtctgctcatcttttatgcccttattctggattctatccaagca Alignment from GeneWise GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAG-GAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAGGTG----------------------------------------------- atggcagtgatgacgagtaatattctagctcttttctgttttttttacagAAGGAAGCGTAGTTACAAAAAGGCTACAGGCAAGCCTGATGAGGATCCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTTCA------GCCCCACCCAACAAAGTAAGTGTCTGCTCATCTTTTATGCCCTTATTCTGGATTCTATCCAAGCA #### Jak2_ID6240_16 --> 0 - 1 Original Alignment AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCA-AACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAg atagatccaaccttcccagatgtgtgcatctaaattggctggttttgcagAAACTGCAGTTCTATGAAGACAAGCATCAGCTGCCTGCCCCTGGGTGGACAGAGTTAGCACAACCTTATAAAC---AGTATGGACTATGAACCAGATTTCAGACCTGCTTTCAGAGCTCTTGTACGTGATCTTAACAGTCTTTTTACACCTggttggacaggttttttacctctgatggatttgatttgtctaacttgagaa Alignment from CESAR AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCA-AACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAg atagatccaaccttcccagatgtgtgcatctaaattggctggttttgcagAAACTGCAGTTCTATGAAGACAAGCATCAGCTGCCTGCCCCTGGGTGGACAGAGTTAGCACAACCTTATAAACAGT---ATGGACTATGAACCAGATTTCAGACCTGCTTTCAGAGCTCTTGTACGTGATCTTAACAGTCTTTTTACACCTggttggacaggttttttacctctgatggatttgatttgtctaacttgagaa Alignment from Spaln_aa2Genome AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCA-AACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAG atagatccaaccttcccagatgtgtgcatctaaattggctggttttgcagAAACTGCAGTTCTATGAAGACAAGCATCAGCTGCCTGCCCCTGGGTGGACAGAGTTAGCAcAACCTTATAAACAGT---ATGGACTATGAACCAGATTTCAGACCTGCTTTCAGAGCTCTTGTACGTGATCTTAACAGTCTTTTTACACCTGgttggacaggttttttacctctgatggatttgatttgtctaacttgagaa Alignment from Spaln_nt2Genome AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCA-AACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAG atagatccaaccttcccagatgtgtgcatctaaattggctggttttgcagAAACTGCAGTTCTATGAAGACAAGCATCAGCTGCCTGCCCCTGGGTGGACAGAGTTAGCACAACCTTATAAACA---GTATGGACTATGAACCAGATTTCAGACCTGCTTTCAGAGCTCTTGTACGTGATCTTAACAGTCTTTTTACACCTGgttggacaggttttttacctctgatggatttgatttgtctaacttgagaa Alignment from Pairagon AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCA-AACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAG atagatccaaccttcccagatgtgtgcatctaaattggctggttttgcagAAACTGCAGTTCTATGAAGACAAGCATCAGCTGCCTGCCCCTGGGTGGACAGAGTTAGCACAACCTTATAAACA---GTATGGACTATGAACCAGATTTCAGACCTGCTTTCAGAGCTCTTGTACGTGATCTTAACAGTCTTTTTACACCTGgttggacaggttttttacctctgatggatttgatttgtctaacttgagaa Alignment from Exonerate_protein2genome AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCA-AACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAG atagatccaaccttcccagatgtgtgcatctaaattggctggttttgcagAAACTGCAGTTCTATGAAGACAAGCATCAGCTGCCTGCCCCTGGGTGGACAGAGTTAGCACAACCTTATAAACAGT---ATGGACTATGAACCAGATTTCAGACCTGCTTTCAGAGCTCTTGTACGTGATCTTAACAGTCTTTTTACACCTGgttggacaggttttttacctctgatggatttgatttgtctaacttgagaa Alignment from Exonerate_coding2genome AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCA-AACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAG atagatccaaccttcccagatgtgtgcatctaaattggctggttttgcagAAACTGCAGTTCTATGAAGACAAGCATCAGCTGCCTGCCCCTGGGTGGACAGAGTTAGCACAACCTTATAAACAGT---ATGGACTATGAACCAGATTTCAGACCTGCTTTCAGAGCTCTTGTACGTGATCTTAACAGTCTTTTTACACCTGgttggacaggttttttacctctgatggatttgatttgtctaacttgagaa Alignment from GeneWise AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTA-GCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAG atagatccaaccttcccagatgtgtgcatctaaattggctggttttgcagAAACTGCAGTTCTATGAAGACAAGCATCAGCTGCCTGCCCCTGGGTGGACAGAGTTAGCACAACCTTATAAACAGT---ATGGACTATGAACCAGATTTCAGACCTGCTTTCAGAGCTCTTGTACGTGATCTTAACAGTCTTTTTACACCTGgttggacaggttttttacctctgatggatttgatttgtctaacttgagaa #### Kat5_ID1114_8 --> 0 - 0 Original Alignment GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGC-CTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG tccccccagtgtactcacccgctgacacttcatcattaccatcttgacagGATCCTCAGGATAGCTCAGATGGTATACCAACAGCTCCACAAATGACAGGTAGCCTAGTGTCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCCTTAAGCCATGGTATTTCTCCCCATAC---CAGGTGCTCACCATCATACCTATCCTCTATCTGTGTGAATCTTGTCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTgtgaggggtgatttagacatcagagtggcttagtgcgagtaatgggtgga Alignment from CESAR GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGC-CTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG tccccccagtgtactcacccgctgacacttcatcattaccatcttgacagGATCCTCAGGATAGCTCAGATGGTATACCAACAGCTCCACAAATGACAGGTAGCCTAGTGTCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCCTTAAGCCATGGTATTTCTCCCCATAC---CAGGTGCTCACCATCATACCTATCCTCTATCTGTGTGAATCTTGTCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTgtgaggggtgatttagacatcagagtggcttagtgcgagtaatgggtgga Alignment from Spaln_aa2Genome GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGC-CTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG tccccccagtgtactcacccgctgacacttcatcattaccatcttgacagGATCCTCAGGATAGCTCAGATGGTATACCAACAGCTCCACAAATGACAGGTAGCCTAGTGTCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACcCTTAAGCCATGGTATTTCTCCCCATAC---CAGGTGCTCACCATCATACCTATCCTCTATCTGTGTGAATCTTGTCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTgtgaggggtgatttagacatcagagtggcttagtgcgagtaatgggtgga Alignment from Spaln_nt2Genome GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCC-TCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG tccccccagtgtactcacccgctgacacttcatcattaccatcttgacagGATCCTCAGGATAGCTCAGATGGTATACCAACAGCTCCACAAATGACAGGTAGCCTAGTGTCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCCTTAAGCCATGGTATTTCTCCCCATAC---CAGGTGCTCACCATCATACCTATCCTCTATCTGTGTGAATCTTGTCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTgtgaggggtgatttagacatcagagtggcttagtgcgagtaatgggtgga Alignment from Pairagon GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCG-CCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG tccccccagtgtactcacccgctgacacttcatcattaccatcttgacagGATCCTCAGGATAGCTCAGATGGTATACCAACAGCTCCACAAATGACAGGTAGCCTAGTGTCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCCTTAAGCCATGGTATTTCTCCCCATAC---CAGGTGCTCACCATCATACCTATCCTCTATCTGTGTGAATCTTGTCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTgtgaggggtgatttagacatcagagtggcttagtgcgagtaatgggtgga Alignment from Exonerate_protein2genome GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGC-CTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG tccccccagtgtactcacccgctgacacttcatcattaccatcttgacagGATCCTCAGGATAGCTCAGATGGTATACCAACAGCTCCACAAATGACAGGTAGCCTAGTGTCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCCTTAAGCCATGGTATTTCTCCCCATAC---CAGGTGCTCACCATCATACCTATCCTCTATCTGTGTGAATCTTGTCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTgtgaggggtgatttagacatcagagtggcttagtgcgagtaatgggtgga Alignment from Exonerate_coding2genome GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGC-CTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG tccccccagtgtactcacccgctgacacttcatcattaccatcttgacagGATCCTCAGGATAGCTCAGATGGTATACCAACAGCTCCACAAATGACAGGTAGCCTAGTGTCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCCTTAAGCCATGGTATTTCTCCCCATAC---CAGGTGCTCACCATCATACCTATCCTCTATCTGTGTGAATCTTGTCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTgtgaggggtgatttagacatcagagtggcttagtgcgagtaatgggtgga Alignment from GeneWise GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCAC-CGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG tccccccagtgtactcacccgctgacacttcatcattaccatcttgacagGATCCTCAGGATAGCTCAGATGGTATACCAACAGCTCCACAAATGACAGGTAGCCTAGTGTCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCCTTAAGCCATGGTATTTCTCCCCATAC---CAGGTGCTCACCATCATACCTATCCTCTATCTGTGTGAATCTTGTCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTgtgaggggtgatttagacatcagagtggcttagtgcgagtaatgggtgga #### Kat5_ID1115_7 --> 0 - 0 Original Alignment AATGGGTCAGCCCGTAGG---GCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTG-GGCACTGATGAG cctgtaaagtcgcatgcatgctgtatgtagccaggctgtttctcttccagAATGGGTCAACTTGTCGAGCGGCTGTAGCAGCTCAGGCTGGATGGAAATGTAAGTCAAACTGCTTGCGGCACTGATGAGgtgaggcaaggcacccaagcagggttggatgtagatttgatttctgattg Alignment from CESAR AATGGGTCAGCCCGTAGG---GCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTG-GGCACTGATGAG cctgtaaagtcgcatgcatgctgtatgtagccaggctgtttctcttccagAATGGGTCAACTTGTCGAGCGGCTGTAGCAGCTCAGGCTGGATGGAAATGTAAGTCAAACTGCTTGCGGCACTGATGAGgtgaggcaaggcacccaagcagggttggatgtagatttgatttctgattg Alignment from Spaln_aa2Genome AATGGGTCAGCCCGTAGG---GCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTG-GGCACTGATGAG cctgtaaagtcgcatgcatgctgtatgtagccaggctgtttctcttccagAATGGGTCAACTTGTCGAGCGGCTGTAGCAGCTCAGGCTGGATGGAAATGTAAGTCAAACTGCTTGcGGCACTGATGAGgtgaggcaaggcacccaagcagggttggatgtagatttgatttctgattg Alignment from Spaln_nt2Genome AATGGGTCAGCCCGTAG---GGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTG-GGCACTGATGAG cctgtaaagtcgcatgcatgctgtatgtagccaggctgtttctcttccagAATGGGTCAACTTGTCGAGCGGCTGTAGCAGCTCAGGCTGGATGGAAATGTAAGTCAAACTGCTTGCGGCACTGATGAGgtgaggcaaggcacccaagcagggttggatgtagatttgatttctgattg Alignment from Pairagon AATGGGTCAGCCCGTAG---GGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTG-GGCACTGATGAG cctgtaaagtcgcatgcatgctgtatgtagccaggctgtttctcttccagAATGGGTCAACTTGTCGAGCGGCTGTAGCAGCTCAGGCTGGATGGAAATGTAAGTCAAACTGCTTGCGGCACTGATGAGgtgaggcaaggcacccaagcagggttggatgtagatttgatttctgattg Alignment from Exonerate_protein2genome cctgtaaagtcgcatgcatgctgtatgtagccaggctgtttctcttccagaatgggtcaacttgtcgagcggctgtagcagctcaggctggatggaaatgtaagtcaaactgcttgcggcactgatgaggtgaggcaaggcacccaagcagggttggatgtagatttgatttctgattg Alignment from Exonerate_coding2genome cctgtaaagtcgcatgcatgctgtatgtagccaggctgtttctcttccagaatgggtcaacttgtcgagcggctgtagcagctcaggctggatggaaatgtaagtcaaactgcttgcggcactgatgaggtgaggcaaggcacccaagcagggttggatgtagatttgatttctgattg Alignment from GeneWise AATGGGTCAGCC---CGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGC-TTGGGCACTGATGAG cctgtaaagtcgcatgcatgctgtatgtagccaggctgtttctcttccagAATGGGTCAACTTGTCGAGCGGCTGTAGCAGCTCAGGCTGGATGGAAATGTAAGTCAAACTGCTTGCGGCACTGATGAGgtgaggcaaggcacccaagcagggttggatgtagatttgatttctgattg #### Kat5_ID1116_6 --> 0 - 0 Original Alignment AAACGGAAGGTGGAGGTGGTTTCA-CCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG tcatcttcataccagctgttgtgtcttctatggcacccttccccttacagAAACGGAAAATTGAGGTAGTTTCACCCAACTGGTTTGGTGCCTAGGGAGACAGCTGCAGTCTCTGTTTTCCCTCAGgtaggacttcaactgcttccttagagttatttcagtttggtttttgcctt Alignment from CESAR AAACGGAAGGTGGAGGTGGTTTCA-CCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG tcatcttcataccagctgttgtgtcttctatggcacccttccccttacagAAACGGAAAATTGAGGTAGTTTCACCCAACTGGTTTGGTGCCTAGGGAGACAGCTGCAGTCTCTGTTTTCCCTCAGgtaggacttcaactgcttccttagagttatttcagtttggtttttgcctt Alignment from Spaln_aa2Genome AAACGGAAGGTGGAGGTGGTTTCA-CCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG tcatcttcataccagctgttgtgtcttctatggcacccttccccttacagAAACGGAAAATTGAGGTAGTTTCAcCCAACTGGTTTGGTGCCTAGGGAGACAGCTGCAGTCTCTGTTTTCCCTCAGgtaggacttcaactgcttccttagagttatttcagtttggtttttgcctt Alignment from Spaln_nt2Genome AAACGGAAGGTGGAGGTGGTTTCACC-AGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG tcatcttcataccagctgttgtgtcttctatggcacccttccccttacagAAACGGAAAATTGAGGTAGTTTCACCCAACTGGTTTGGTGCCTAGGGAGACAGCTGCAGTCTCTGTTTTCCCTCAGgtaggacttcaactgcttccttagagttatttcagtttggtttttgcctt Alignment from Pairagon AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCA---------GTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG tcatcttcataccagctgttgtgtcttctatggcacccttccccttacagAAACGGAAAATTGAGGTAGTTTCA--------CCCAACTGGTTTGGTGCCTAGGGAGACAGCTGCAGTCTCTGTTTTCCCTCAGgtaggacttcaactgcttccttagagttatttcagtttggtttttgcctt Alignment from Exonerate_protein2genome AAACGGAAGGTGGAGGTGGTTTCA-CCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG tcatcttcataccagctgttgtgtcttctatggcacccttccccttacagAAACGGAAAATTGAGGTAGTTTCACCCAACTGGTTTGGTGCCTAGGGAGACAGCTGCAGTCTCTGTTTTCCCTCAGgtaggacttcaactgcttccttagagttatttcagtttggtttttgcctt Alignment from Exonerate_coding2genome AAACGGAAGGTGGAGGTGGTTTCA-CCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG tcatcttcataccagctgttgtgtcttctatggcacccttccccttacagAAACGGAAAATTGAGGTAGTTTCACCCAACTGGTTTGGTGCCTAGGGAGACAGCTGCAGTCTCTGTTTTCCCTCAGgtaggacttcaactgcttccttagagttatttcagtttggtttttgcctt Alignment from GeneWise AAACGGAAGGTGGAGGTGGTTTCACCAGCAACC-CCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG tcatcttcataccagctgttgtgtcttctatggcacccttccccttacagAAACGGAAAATTGAGGTAGTTTCACCCAACTGGTTTGGTGCCTAGGGAGACAGCTGCAGTCTCTGTTTTCCCTCAGgtaggacttcaactgcttccttagagttatttcagtttggtttttgcctt #### Kat5_ID1118_4 --> 2 - 0 Original Alignment tcAACAAACGTCTGGATGAATGGGTGACTCACGAGCGGCTGGACTTAAAGAAGATCCAATTTCCCAAGAAAGAGGCCAAGACACCTACCAAGAACGGA-CTTCCTGGGTCCCGCCCCGGCTCTCCCGAAAGAGAGGTG agattagaagatagacaccatccccctcgagatctctgtgctgtatgtagtcAATAAACGTCTGGATGAG---TTAACCCATGAAAGGCTTGACCTACCTAAAATACAACTGCCTAAAAAAGAGGCACAGACACCCACCAAGAATGGACCTCCCTGGGTCCCACCCAGGCTCCTCTAAAAGGGAGGTTgtacaggctaagattgaacaccaactctcccattggtgctatcattaact Alignment from CESAR tcAACAAACGTCTGGATGAATGGGTGACTCACGAGCGGCTGGACTTAAAGAAGATCCAATTTCCCAAGAAAGAGGCCAAGACACCTACCAAGAACGGA-CTTCCTGGGTCCCGCCCCGGCTCTCCCGAAAGAGAGGTG agattagaagatagacaccatccccctcgagatctctgtgctgtatgtagtcAATAAACGTCTGGATGAG---TTAACCCATGAAAGGCTTGACCTACCTAAAATACAACTGCCTAAAAAAGAGGCACAGACACCCACCAAGAATGGACCTCCCTGGGTCCCACCCAGGCTCCTCTAAAAGGGAGGTTgtacaggctaagattgaacaccaactctcccattggtgctatcattaact Alignment from Spaln_aa2Genome TCAACAAACGTCTGGATGAATGGGTGACTCACGAGCGGCTGGACTTAAAGAAGATCCAATTTCCCAAGAAAGAGGCCAAGACACCTACCAAGAACGGA-CTTCCTGGGTCCCGCCCCGGCTCTCCCGAAAGAGAGGTG agattagaagatagacaccatccccctcgagatctctgtgctgtatgtagTCAATAAACGTCTGGATGAG---TTAACCCATGAAAGGCTTGACCTACCTAAAATACAACTGCCTAAAAAAGAGGCACAGACACCCACCAAGAATGGAcCTCCCTGGGTCCCACCCAGGCTCCTCTAAAAGGGAGGTTgtacaggctaagattgaacaccaactctcccattggtgctatcattaact Alignment from Spaln_nt2Genome TCAACAAACGTCTGGATGAATGGGTGACTCACGAGCGGCTGGACTTAAAGAAGATCCAATTTCCCAAGAAAGAGGCCAAGACACCTACCAAGAACGGACTTCC-TGGGTCCCGCCCCGGCTCTCCCGAAAGAGAGGTG agattagaagatagacaccatccccctcgagatctctgtgctgtatgtagTCAATAAACGTCTGGATGA---GTTAACCCATGAAAGGCTTGACCTACCTAAAATACAACTGCCTAAAAAAGAGGCACAGACACCCACCAAGAATGGACCTCCCTGGGTCCCACCCAGGCTCCTCTAAAAGGGAGGTTgtacaggctaagattgaacaccaactctcccattggtgctatcattaact Alignment from Pairagon TCAACAAACGTCTGGATGAATGGGTGACTCACGAGCGGCTGGACTTAAAGAAGATCCAATTTCCCAAGAAAGAGGCCAAGACACCTACCAAGAACGGA-CTTCCTGGGTCCCGCCCCGGCTCTCCCGAAAGAGAGGTG agattagaagatagacaccatccccctcgagatctctgtgctgtatgtagTCAATAAACGTCTGGATGAGT---TAACCCATGAAAGGCTTGACCTACCTAAAATACAACTGCCTAAAAAAGAGGCACAGACACCCACCAAGAATGGACCTCCCTGGGTCCCACCCAGGCTCCTCTAAAAGGGAGGTTgtacaggctaagattgaacaccaactctcccattggtgctatcattaact Alignment from Exonerate_protein2genome TCAACAAACGTCTGGATGAATGGGTGACTCACGAGCGGCTGGACTTAAAGAAGATCCAATTTCCCAAGAAAGAGGCCAAGACACCTACCAAGAACGGA-CTTCCTGGGTCCCGCCCCGGCTCTCCCGAAAGAGAGGTG agattagaagatagacaccatccccctcgagatctctgtgctgtatgtagTCAATAAACGTCTGGATGAG---TTAACCCATGAAAGGCTTGACCTACCTAAAATACAACTGCCTAAAAAAGAGGCACAGACACCCACCAAGAATGGACCTCCCTGGGTCCCACCCAGGCTCCTCTAAAAGGGAGGTTgtacaggctaagattgaacaccaactctcccattggtgctatcattaact Alignment from Exonerate_coding2genome agattagaagatagacaccatccccctcgagatctctgtgctgtatgtagtcaataaacgtctggatgagttaacccatgaaaggcttgacctacctaaaatacaactgcctaaaaaagaggcacagacacccaccaagaatggacctccctgggtcccacccaggctcctctaaaagggaggttgtacaggctaagattgaacaccaactctcccattggtgctatcattaact Alignment from GeneWise TCAACAAACGTCTGGATGAATGGGTGACTCACGAGCGGCTGGACTTAAAGAAGATCCAATTTCCCAAGAAAGAGGCCAAGACACCTACCAAGAACGGA-CTTCCTGGGTCCCGCCCCGGCTCTCCCGAAAGAGAGGTG agattagaagatagacaccatccccctcgagatctctgtgctgtatgtagTCAATAAACGTCTGGATGAG---TTAACCCATGAAAGGCTTGACCTACCTAAAATACAACTGCCTAAAAAAGAGGCACAGACACCCACCAAGAATGGACCTCCCTGGGTCCCACCCAGGCTCCTCTAAAAGGGAGGTTgtacaggctaagattgaacaccaactctcccattggtgctatcattaact #### Kat5_ID1120_2 --> 0 - 1 Original Alignment GGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGAC-AACGAAGATGAGTGGc atacaccaatggctatcaatacacatcctttttttcccctctccccgcagGGTGAGATAAGTGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCAAGATCAATGAAGATGAGTGGcgtaagggtgtcctgagggtactctgaaggaactaaaggcaaagtcccagg Alignment from CESAR GGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGAC-AACGAAGATGAGTGGc atacaccaatggctatcaatacacatcctttttttcccctctccccgcagGGTGAGATAAGTGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCAAGATCAATGAAGATGAGTGGcgtaagggtgtcctgagggtactctgaaggaactaaaggcaaagtcccagg Alignment from Spaln_aa2Genome GGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGAC-AACGAAGATGAGTGGC atacaccaatggctatcaatacacatcctttttttcccctctccccgcagGGTGAGATAAGTGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCAAGATcAATGAAGATGAGTGGCgtaagggtgtcctgagggtactctgaaggaactaaaggcaaagtcccagg Alignment from Spaln_nt2Genome GGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGA-CAACGAAGATGAGTGGC atacaccaatggctatcaatacacatcctttttttcccctctccccgcagGGTGAGATAAGTGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCAAGATCAATGAAGATGAGTGGCgtaagggtgtcctgagggtactctgaaggaactaaaggcaaagtcccagg Alignment from Pairagon GGGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGA-CAACGAAGATGAGTGGC atacaccaatggctatcaatacacatcctttttttcccctctccccgcaGGGTGAGATAAGTGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCAAGATCAATGAAGATGAGTGGCgtaagggtgtcctgagggtactctgaaggaactaaaggcaaagtcccagg Alignment from Exonerate_protein2genome GGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGAC-AACGAAGATGAGTGGC atacaccaatggctatcaatacacatcctttttttcccctctccccgcagGGTGAGATAAGTGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCAAGATCAATGAAGATGAGTGGCgtaagggtgtcctgagggtactctgaaggaactaaaggcaaagtcccagg Alignment from Exonerate_coding2genome atacaccaatggctatcaatacacatcctttttttcccctctccccgcagggtgagataagtgagggctgctgcctacctgtccttcggcgcaatcaagatcaatgaagatgagtggcgtaagggtgtcctgagggtactctgaaggaactaaaggcaaagtcccagg Alignment from GeneWise GCGGAGGTGGGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGAC-AACGAAGATGAGTGGC atacaccaatggctatcaatacacatcctttttttcccctcTCCCCGCAGGGTGAGATAAGTGAGGGCTGCTGCCTACCTGTCCTTCGGCGCAATCAAGATCAATGAAGATGAGTGGCgtaagggtgtcctgagggtactctgaaggaactaaaggcaaagtcccagg #### Kcnip2_ID9607_5 --> 0 - 1 Original Alignment GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAG-TTCTTTCCCCAAGGAg agagtaaaagtgcctctaggttatattgatgtcattcaacatttctttagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTCTATTCTCAGCTTCTTTCCACAAGAAggtaagccacaggcatagtgggaagatgtaagcatggaatagccaagagaa Alignment from CESAR GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAG-TTCTTTCCCCAAGGAg agagtaaaagtgcctctaggttatattgatgtcattcaacatttctttagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTCTATTCTCAGCTTCTTTCCACAAGAAggtaagccacaggcatagtgggaagatgtaagcatggaatagccaagagaa Alignment from Spaln_aa2Genome GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAG-TTCTTTCCCCAAGGAG agagtaaaagtgcctctaggttatattgatgtcattcaacatttctttagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTCTATTCTCAGcTTCTTTCCACAAGAAGgtaagccacaggcatagtgggaagatgtaagcatggaatagccaagagaa Alignment from Spaln_nt2Genome GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAG-TTCTTTCCCCAAGGAG agagtaaaagtgcctctaggttatattgatgtcattcaacatttctttagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTCTATTCTCAGCTTCTTTCCACAAGAAGgtaagccacaggcatagtgggaagatgtaagcatggaatagccaagagaa Alignment from Pairagon GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAG-TTCTTTCCCCAAGGAG agagtaaaagtgcctctaggttatattgatgtcattcaacatttctttagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTCTATTCTCAGCTTCTTTCCACAAGAAGgtaagccacaggcatagtgggaagatgtaagcatggaatagccaagagaa Alignment from Exonerate_protein2genome GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAG-TTCTTTCCCCAAGGAG agagtaaaagtgcctctaggttatattgatgtcattcaacatttctttagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTCTATTCTCAGCTTCTTTCCACAAGAAGgtaagccacaggcatagtgggaagatgtaagcatggaatagccaagagaa Alignment from Exonerate_coding2genome GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAG-TTCTTTCCCCAAGGAG agagtaaaagtgcctctaggttatattgatgtcattcaacatttctttagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTCTATTCTCAGCTTCTTTCCACAAGAAGgtaagccacaggcatagtgggaagatgtaagcatggaatagccaagagaa Alignment from GeneWise GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCCAAGGA-- agagtaaaagtgcctctaggttatattgatgtcattcaacatttctttagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTCTATTCTCAGCTTCTTTCCACAAGAAGgtaagccacaggcatagtgggaagatgtaagcatggaatagccaagagaa #### Kif11_ID7322_12 --> 0 - 0 Original Alignment GCTACAGAGTTATTTATGGATAGTAAGAACGAACTTGACCAGTGTAAATCTGACCTGCAAACCAAGACACAGGAA-CTTGAAACCACTCAGAAACATTTGCAAGAAACAAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGAACCGAGAAGACACTGCATGACACGGCCAGCAAG aatgcccatctattttgcagtagatgaaggacctctcctttgtgtcacagGCTACAGAGTTATTTATGGATAGTAAGAATGAACTTGACCAGTGTAAGTCCGACCTACAAACAAAGACACAGGAACCTTGAAACCACTCAGAAACATTTGCAAGAAACTAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGGACCGAGAAGACACTGCATGACACAGCCAGCAAGgtgagatttgaaaatttttagattgagttccttgacatgtgtcatgatac Alignment from CESAR GCTACAGAGTTATTTATGGATAGTAAGAACGAACTTGACCAGTGTAAATCTGACCTGCAAACCAAGACACAGGAA-CTTGAAACCACTCAGAAACATTTGCAAGAAACAAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGAACCGAGAAGACACTGCATGACACGGCCAGCAAG aatgcccatctattttgcagtagatgaaggacctctcctttgtgtcacagGCTACAGAGTTATTTATGGATAGTAAGAATGAACTTGACCAGTGTAAGTCCGACCTACAAACAAAGACACAGGAACCTTGAAACCACTCAGAAACATTTGCAAGAAACTAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGGACCGAGAAGACACTGCATGACACAGCCAGCAAGgtgagatttgaaaatttttagattgagttccttgacatgtgtcatgatac Alignment from Spaln_aa2Genome GCTACAGAGTTATTTATGGATAGTAAGAACGAACTTGACCAGTGTAAATCTGACCTGCAAACCAAGACACAGGAA-CTTGAAACCACTCAGAAACATTTGCAAGAAACAAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGAACCGAGAAGACACTGCATGACACGGCCAGCAAG aatgcccatctattttgcagtagatgaaggacctctcctttgtgtcacagGCTACAGAGTTATTTATGGATAGTAAGAATGAACTTGACCAGTGTAAGTCCGACCTACAAACAAAGACACAGGAAcCTTGAAACCACTCAGAAACATTTGCAAGAAACTAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGGACCGAGAAGACACTGCATGACACAGCCAGCAAGgtgagatttgaaaatttttagattgagttccttgacatgtgtcatgatac Alignment from Spaln_nt2Genome GCTACAGAGTTATTTATGGATAGTAAGAACGAACTTGACCAGTGTAAATCTGACCTGCAAACCAAGACACAGGAA-CTTGAAACCACTCAGAAACATTTGCAAGAAACAAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGAACCGAGAAGACACTGCATGACACGGCCAGCAAG aatgcccatctattttgcagtagatgaaggacctctcctttgtgtcacagGCTACAGAGTTATTTATGGATAGTAAGAATGAACTTGACCAGTGTAAGTCCGACCTACAAACAAAGACACAGGAACCTTGAAACCACTCAGAAACATTTGCAAGAAACTAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGGACCGAGAAGACACTGCATGACACAGCCAGCAAGgtgagatttgaaaatttttagattgagttccttgacatgtgtcatgatac Alignment from Pairagon GCTACAGAGTTATTTATGGATAGTAAGAACGAACTTGACCAGTGTAAATCTGACCTGCAAACCAAGACACAGGAA-CTTGAAACCACTCAGAAACATTTGCAAGAAACAAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGAACCGAGAAGACACTGCATGACACGGCCAGCAAG aatgcccatctattttgcagtagatgaaggacctctcctttgtgtcacagGCTACAGAGTTATTTATGGATAGTAAGAATGAACTTGACCAGTGTAAGTCCGACCTACAAACAAAGACACAGGAACCTTGAAACCACTCAGAAACATTTGCAAGAAACTAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGGACCGAGAAGACACTGCATGACACAGCCAGCAAGgtgagatttgaaaatttttagattgagttccttgacatgtgtcatgatac Alignment from Exonerate_protein2genome GCTACAGAGTTATTTATGGATAGTAAGAACGAACTTGACCAGTGTAAATCTGACCTGCAAACCAAGACACAGGAA-CTTGAAACCACTCAGAAACATTTGCAAGAAACAAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGAACCGAGAAGACACTGCATGACACGGCCAGCAAG aatgcccatctattttgcagtagatgaaggacctctcctttgtgtcacagGCTACAGAGTTATTTATGGATAGTAAGAATGAACTTGACCAGTGTAAGTCCGACCTACAAACAAAGACACAGGAACCTTGAAACCACTCAGAAACATTTGCAAGAAACTAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGGACCGAGAAGACACTGCATGACACAGCCAGCAAGgtgagatttgaaaatttttagattgagttccttgacatgtgtcatgatac Alignment from Exonerate_coding2genome GCTACAGAGTTATTTATGGATAGTAAGAACGAACTTGACCAGTGTAAATCTGACCTGCAAACCAAGACACAGGAA-CTTGAAACCACTCAGAAACATTTGCAAGAAACAAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGAACCGAGAAGACACTGCATGACACGGCCAGCAAG aatgcccatctattttgcagtagatgaaggacctctcctttgtgtcacagGCTACAGAGTTATTTATGGATAGTAAGAATGAACTTGACCAGTGTAAGTCCGACCTACAAACAAAGACACAGGAACCTTGAAACCACTCAGAAACATTTGCAAGAAACTAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGGACCGAGAAGACACTGCATGACACAGCCAGCAAGgtgagatttgaaaatttttagattgagttccttgacatgtgtcatgatac Alignment from GeneWise GCTACAGAGTTATTTATGGATAGTAAGAACGAACTTGACCAGTGTAAATCTGACCTGCAAACCAAGACACAGGAA-CTTGAAACCACTCAGAAACATTTGCAAGAAACAAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGAACCGAGAAGACACTGCATGACACGGCCAGCAAG aatgcccatctattttgcagtagatgaaggacctctcctttgtgtcacagGCTACAGAGTTATTTATGGATAGTAAGAATGAACTTGACCAGTGTAAGTCCGACCTACAAACAAAGACACAGGAACCTTGAAACCACTCAGAAACATTTGCAAGAAACTAAATTACAACTGGTTAAAGAGGAATATGTCTCTTCAGCCTTGGAAAGGACCGAGAAGACACTGCATGACACAGCCAGCAAGgtgagatttgaaaatttttagattgagttccttgacatgtgtcatgatac #### Kif11_ID7326_16 --> 0 - 0 Original Alignment GTAGAAGATCAAAAAAGAGAAATAGACAGTTTTCTCAGCATATTGTGTAACAATTTACATGAACTCCGAGAAAACACAGTTTCTTCCTTGGTTGAATCACAAAAGCTTTGTGGAGAC-CTAACTGAAGACCTGAAGACAATAAAGGAAACCCATTCACAG ctggtttcatttaatgaggaacacccaaaccagggcctctctgtgcctagGTAGAAGATCAAAAGAGAGAGATAGACAGCTTCCTGAGTATACTATGTAACAATCTACATGAGCTCCAAGACAACACGGTCTCTTTCCTGACTGAATCACAAAAACTTTGTGGAGAGCCTAACCGAAGACCTTAGGACAATAAAGGAGGCCCATTCCCAGgtaggtagagggggtgctacattgagtgacaccagttaattaacttgggg Alignment from CESAR GTAGAAGATCAAAAAAGAGAAATAGACAGTTTTCTCAGCATATTGTGTAACAATTTACATGAACTCCGAGAAAACACAGTTTCTTCCTTGGTTGAATCACAAAAGCTTTGTGGAGAC-CTAACTGAAGACCTGAAGACAATAAAGGAAACCCATTCACAG ctggtttcatttaatgaggaacacccaaaccagggcctctctgtgcctagGTAGAAGATCAAAAGAGAGAGATAGACAGCTTCCTGAGTATACTATGTAACAATCTACATGAGCTCCAAGACAACACGGTCTCTTTCCTGACTGAATCACAAAAACTTTGTGGAGAGCCTAACCGAAGACCTTAGGACAATAAAGGAGGCCCATTCCCAGgtaggtagagggggtgctacattgagtgacaccagttaattaacttgggg Alignment from Spaln_aa2Genome GTAGAAGATCAAAAAAGAGAAATAGACAGTTTTCTCAGCATATTGTGTAACAATTTACATGAACTCCGAGAAAACACAGTTTCTTCCTTGGTTGAATCACAAAAGCTTTGTGGAGAC-CTAACTGAAGACCTGAAGACAATAAAGGAAACCCATTCACAG ctggtttcatttaatgaggaacacccaaaccagggcctctctgtgcctagGTAGAAGATCAAAAGAGAGAGATAGACAGCTTCCTGAGTATACTATGTAACAATCTACATGAGCTCCAAGACAACACGGTCTCTTTCCTGACTGAATCACAAAAACTTTGTGGAGAGcCTAACCGAAGACCTTAGGACAATAAAGGAGGCCCATTCCCAGgtaggtagagggggtgctacattgagtgacaccagttaattaacttgggg Alignment from Spaln_nt2Genome GTAGAAGATCAAAAAAGAGAAATAGACAGTTTTCTCAGCATATTGTGTAACAATTTACATGAACTCCGAGAAAACACAGTTTCTTCCTTGGTTGAATCACAAAAGCTTTGTGGAGA-CCTAACTGAAGACCTGAAGACAATAAAGGAAACCCATTCACAG ctggtttcatttaatgaggaacacccaaaccagggcctctctgtgcctagGTAGAAGATCAAAAGAGAGAGATAGACAGCTTCCTGAGTATACTATGTAACAATCTACATGAGCTCCAAGACAACACGGTCTCTTTCCTGACTGAATCACAAAAACTTTGTGGAGAGCCTAACCGAAGACCTTAGGACAATAAAGGAGGCCCATTCCCAGgtaggtagagggggtgctacattgagtgacaccagttaattaacttgggg Alignment from Pairagon GTAGAAGATCAAAAAAGAGAAATAGACAGTTTTCTCAGCATATTGTGTAACAATTTACATGAACTCCGAGAAAACACAGTTTCTTCCTTGGTTGAATCACAAAAGCTTTGTGGAGA-CCTAACTGAAGACCTGAAGACAATAAAGGAAACCCATTCACAG ctggtttcatttaatgaggaacacccaaaccagggcctctctgtgcctagGTAGAAGATCAAAAGAGAGAGATAGACAGCTTCCTGAGTATACTATGTAACAATCTACATGAGCTCCAAGACAACACGGTCTCTTTCCTGACTGAATCACAAAAACTTTGTGGAGAGCCTAACCGAAGACCTTAGGACAATAAAGGAGGCCCATTCCCAGgtaggtagagggggtgctacattgagtgacaccagttaattaacttgggg Alignment from Exonerate_protein2genome GTAGAAGATCAAAAAAGAGAAATAGACAGTTTTCTCAGCATATTGTGTAACAATTTACATGAACTCCGAGAAAACACAGTTTCTTCCTTGGTTGAATCACAAAAGCTTTGTGGAGAC-CTAACTGAAGACCTGAAGACAATAAAGGAAACCCATTCACAG ctggtttcatttaatgaggaacacccaaaccagggcctctctgtgcctagGTAGAAGATCAAAAGAGAGAGATAGACAGCTTCCTGAGTATACTATGTAACAATCTACATGAGCTCCAAGACAACACGGTCTCTTTCCTGACTGAATCACAAAAACTTTGTGGAGAGCCTAACCGAAGACCTTAGGACAATAAAGGAGGCCCATTCCCAGgtaggtagagggggtgctacattgagtgacaccagttaattaacttgggg Alignment from Exonerate_coding2genome GTAGAAGATCAAAAAAGAGAAATAGACAGTTTTCTCAGCATATTGTGTAACAATTTACATGAACTCCGAGAAAACACAGTTTCTTCCTTGGTTGAATCACAAAAGCTTTGTGGAGAC-CTAACTGAAGACCTGAAGACAATAAAGGAAACCCATTCACAG ctggtttcatttaatgaggaacacccaaaccagggcctctctgtgcctagGTAGAAGATCAAAAGAGAGAGATAGACAGCTTCCTGAGTATACTATGTAACAATCTACATGAGCTCCAAGACAACACGGTCTCTTTCCTGACTGAATCACAAAAACTTTGTGGAGAGCCTAACCGAAGACCTTAGGACAATAAAGGAGGCCCATTCCCAGgtaggtagagggggtgctacattgagtgacaccagttaattaacttgggg Alignment from GeneWise GTAGAAGATCAAAAAAGAGAAATAGACAGTTTTCTCAGCATATTGTGTAACAATTTACATGAACTCCGAGAAAACACAGTTTCTTCCTTGGTTGAATCACAAAAGCTTTGTGGA-GACCTAACTGAAGACCTGAAGACAATAAAGGAAACCCATTCACAG ctggtttcatttaatgaggaacacccaaaccagggcctctctgtgcctagGTAGAAGATCAAAAGAGAGAGATAGACAGCTTCCTGAGTATACTATGTAACAATCTACATGAGCTCCAAGACAACACGGTCTCTTTCCTGACTGAATCACAAAAACTTTGTGGAGAGCCTAACCGAAGACCTTAGGACAATAAAGGAGGCCCATTCCCAGgtaggtagagggggtgctacattgagtgacaccagttaattaacttgggg #### Kif20b_ID6998_3 --> 0 - 0 Original Alignment GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCT-CAAAGCATCCTTGGCCACTTA---AGTGAGAAGAGCTCTGGACAGGTGGCA---------CAGAAATTCAGTTTTTCTAAG ctggctataaacacagtgtctcttgagattgtccccaattatcattccag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGATCCACCAGAGTATGCTAGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTA---CGCCATGTACAGGAATTTAGCTTTTCTAAAgtgagcgtaagtatggtggattgaccacactgaatgctctatcaagagga Alignment from CESAR GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCT-CAAAGCATCCTTGGCCACTTA---AGTGAGAAGAGCTCTGGACAGGTG------GCACAGAAATTCAGTTTTTCTAAG ctggctataaacacagtgtctcttgagattgtccccaattatcattccag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGATCCACCAGAGTATGCTAGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGCCATGTACAGGAATTTAGCTTTTCTAAAgtgagcgtaagtatggtggattgaccacactgaatgctctatcaagagga Alignment from Spaln_aa2Genome GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCT-CAAAGCATCCTTGGCCAC---TTAAGTGAGAAGAGCTCTGGACAGGTG------GCACAGAAATTCAGTTTTTCTAAG ctggctataaacacagtgtctcttgagattgtccccaattatcattccag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGATCCAcCAGAGTATGCTAGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGCCATGTACAGGAATTTAGCTTTTCTAAAgtgagcgtaagtatggtggattgaccacactgaatgctctatcaagagga Alignment from Spaln_nt2Genome GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAA-AGCATCCTTGGCCACTTA---AGTGAGAAGAGCTCTGGACAGGTG------GCACAGAAATTCAGTTTTTCTAAG ctggctataaacacagtgtctcttgagattgtccccaattatcattccag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGATCCACCAGAGTATGCTAGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGCCATGTACAGGAATTTAGCTTTTCTAAAgtgagcgtaagtatggtggattgaccacactgaatgctctatcaagagga Alignment from Pairagon GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCC-TCAAAGCATCCTTGGCCAC---TTAAGTGAGAAGAGCTCTGGACAGGTG------GCACAGAAATTCAGTTTTTCTAAG ctggctataaacacagtgtctcttgagattgtccccaattatcattccag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGATCCACCAGAGTATGCTAGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGCCATGTACAGGAATTTAGCTTTTCTAAAgtgagcgtaagtatggtggattgaccacactgaatgctctatcaagagga Alignment from Exonerate_protein2genome GTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCT-CAAAGCATCCTTGGCCAC---TTAAGTGAGAAGAGCTCTGGACAGGTG------GCACAGAAATTCAGTTTTTCTAAG ctggctataaacacagtgtctcttgagattgtccccaattatcattccagGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGATCCACCAGAGTATGCTAGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGCCATGTACAGGAATTTAGCTTTTCTAAAgtgagcgtaagtatggtggattgaccacactgaatgctctatcaagagga Alignment from Exonerate_coding2genome GTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCT-CAAAGCATCCTTGGCCAC---TTAAGTGAGAAGAGCTCTGGACAGGTG------GCACAGAAATTCAGTTTTTCTAAG ctggctataaacacagtgtctcttgagattgtccccaattatcattccagGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGATCCACCAGAGTATGCTAGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGCCATGTACAGGAATTTAGCTTTTCTAAAgtgagcgtaagtatggtggattgaccacactgaatgctctatcaagagga Alignment from GeneWise ---CAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCT-CAAAGCATCCTTGGCCACTTA---AGTGAGAAGAGCTCTGGACAGGTG------GCACAGAAATTCAGTTTTTCTAAG ctggctataaacacagtgtctcttgagattgtccccaattatcattccagGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGATCCACCAGAGTATGCTAGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGCCATGTACAGGAATTTAGCTTTTCTAAAgtgagcgtaagtatggtggattgaccacactgaatgctctatcaagagga #### Kif20b_ID7001_6 --> 0 - 1 Original Alignment GTTACCATACATAATGACAGT-TATGACGTTCTTTGTg cggagggcccaaagagcactcaatattaacttaagccttggtttccccagGTTCCAATACATAATGAAAGTCTATGATATACTCTGCggtaagttctttcccctacttatgttcttttacttctttggagattttctg Alignment from CESAR GTTACCATACATAATGACAGT-TATGACGTTCTTTGTg cggagggcccaaagagcactcaatattaacttaagccttggtttccccagGTTCCAATACATAATGAAAGTCTATGATATACTCTGCggtaagttctttcccctacttatgttcttttacttctttggagattttctg Alignment from Spaln_aa2Genome GTTACCATACATAATGACAGT-TATGACGTTCTTTGTG cggagggcccaaagagcactcaatattaacttaagccttggtttccccagGTTCCAATACATAATGAAAGTcTATGATATACTCTGCGgtaagttctttcccctacttatgttcttttacttctttggagattttctg Alignment from Spaln_nt2Genome GTTACCATACATAATGACAGT-TATGACGTTCTTTGTG cggagggcccaaagagcactcaatattaacttaagccttggtttccccagGTTCCAATACATAATGAAAGTCTATGATATACTCTGCGgtaagttctttcccctacttatgttcttttacttctttggagattttctg Alignment from Pairagon GTTACCATACATAATGACAGT-TATGACGTTCTTTGTG cggagggcccaaagagcactcaatattaacttaagccttggtttccccagGTTCCAATACATAATGAAAGTCTATGATATACTCTGCGgtaagttctttcccctacttatgttcttttacttctttggagattttctg Alignment from Exonerate_protein2genome GTTACCATACATAATGACAGT-TATGACGTTCTTTGTG cggagggcccaaagagcactcaatattaacttaagccttggtttccccagGTTCCAATACATAATGAAAGTCTATGATATACTCTGCGgtaagttctttcccctacttatgttcttttacttctttggagattttctg Alignment from Exonerate_coding2genome cggagggcccaaagagcactcaatattaacttaagccttggtttccccaggttccaatacataatgaaagtctatgatatactctgcggtaagttctttcccctacttatgttcttttacttctttggagattttctg Alignment from GeneWise cggagggcccaaagagcactcaatattaacttaagccttggtttccccaggttccaatacataatgaaagtctatgatatactctgcggtaagttctttcccctacttatgttcttttacttctttggagattttctg #### Kif20b_ID7005_10 --> 1 - 2 Original Alignment aTTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCT-GGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAaa tgttttggaagaaaagtatctgcagcacaccacgtctgtgttcgtttcaggTTCTCACCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACACAAAATGAAGGTGAGAGGCCAAGAGAAGCACGGAAATGTCAACATGCCCTTGTTGACCTTGGGAATGTGTGTCAATGTATTAAAGAATAGTGAGAAGTCAaagtaagaaccagttgtgtcatagaatctactgttctgagtactttcggaga Alignment from CESAR aTTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCT-GGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAaa tgttttggaagaaaagtatctgcagcacaccacgtctgtgttcgtttcaggTTCTCACCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACACAAAATGAAGGTGAGAGGCCAAGAGAAGCACGGAAATGTCAACATGCCCTTGTTGACCTTGGGAATGTGTGTCAATGTATTAAAGAATAGTGAGAAGTCAaagtaagaaccagttgtgtcatagaatctactgttctgagtactttcggaga Alignment from Spaln_aa2Genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCT-GGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA tgttttggaagaaaagtatctgcagcacaccacgtctgtgttcgtttcagGTTCTCACCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACACAAAATGAAGGTGAGAGGCCAAGAGAAGCAcGGAAATGTCAACATGCCCTTGTTGACCTTGGGAATGTGTGTCAATGTATTAAAGAATAGTGAGAAGTCAAAgtaagaaccagttgtgtcatagaatctactgttctgagtactttcggaga Alignment from Spaln_nt2Genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAA-TATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA tgttttggaagaaaagtatctgcagcacaccacgtctgtgttcgtttcagGTTCTCACCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACACAAAATGAAGGTGAGAGGCCAAGAGAAGCACGGAAATGTCAACATGCCCTTGTTGACCTTGGGAATGTGTGTCAATGTATTAAAGAATAGTGAGAAGTCAAAgtaagaaccagttgtgtcatagaatctactgttctgagtactttcggaga Alignment from Pairagon ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGC-TGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA tgttttggaagaaaagtatctgcagcacaccacgtctgtgttcgtttcagGTTCTCACCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACACAAAATGAAGGTGAGAGGCCAAGAGAAGCACGGAAATGTCAACATGCCCTTGTTGACCTTGGGAATGTGTGTCAATGTATTAAAGAATAGTGAGAAGTCAAAgtaagaaccagttgtgtcatagaatctactgttctgagtactttcggaga Alignment from Exonerate_protein2genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCT-GGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA tgttttggaagaaaagtatctgcagcacaccacgtctgtgttcgtttcagGTTCTCACCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACACAAAATGAAGGTGAGAGGCCAAGAGAAGCACGGAAATGTCAACATGCCCTTGTTGACCTTGGGAATGTGTGTCAATGTATTAAAGAATAGTGAGAAGTCAAAgtaagaaccagttgtgtcatagaatctactgttctgagtactttcggaga Alignment from Exonerate_coding2genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCT-GGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA tgttttggaagaaaagtatctgcagcacaccacgtctgtgttcgtttcagGTTCTCACCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACACAAAATGAAGGTGAGAGGCCAAGAGAAGCACGGAAATGTCAACATGCCCTTGTTGACCTTGGGAATGTGTGTCAATGTATTAAAGAATAGTGAGAAGTCAAAgtaagaaccagttgtgtcatagaatctactgttctgagtactttcggaga Alignment from GeneWise ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAG-GCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA tgttttggaagaaaagtatctgcagcacaccacgtctgtgttcgtttcagGTTCTCACCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACACAAAATGAAGGTGAGAGGCCAAGAGAAGCACGGAAATGTCAACATGCCCTTGTTGACCTTGGGAATGTGTGTCAATGTATTAAAGAATAGTGAGAAGTCAAAgtaagaaccagttgtgtcatagaatctactgttctgagtactttcggaga #### Kif20b_ID7008_13 --> 0 - 2 Original Alignment GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTA-ACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTaa tacaaggcttggttataaagtgtaagcatggttttcatgttctctcttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGCTCATTGGAGCTTAAGATCCGGGAAGATGTTACACAAAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGACTATaagtaagctactgctaagttcttgtcatgacaggacaaactgtgtaaacttc Alignment from CESAR GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTA-ACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTaa tacaaggcttggttataaagtgtaagcatggttttcatgttctctcttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGCTCATTGGAGCTTAAGATCCGGGAAGATGTTACACAAAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGACTATaagtaagctactgctaagttcttgtcatgacaggacaaactgtgtaaacttc Alignment from Spaln_aa2Genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTA-ACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA tacaaggcttggttataaagtgtaagcatggttttcatgttctctcttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGcTCATTGGAGCTTAAGATCCGGGAAGATGTTACACAAAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGACTATAAgtaagctactgctaagttcttgtcatgacaggacaaactgtgtaaacttc Alignment from Spaln_nt2Genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAA-CATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA tacaaggcttggttataaagtgtaagcatggttttcatgttctctcttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGCTCATTGGAGCTTAAGATCCGGGAAGATGTTACACAAAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGACTATAAgtaagctactgctaagttcttgtcatgacaggacaaactgtgtaaacttc Alignment from Pairagon GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAA-CATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA tacaaggcttggttataaagtgtaagcatggttttcatgttctctcttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGCTCATTGGAGCTTAAGATCCGGGAAGATGTTACACAAAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGACTATAAgtaagctactgctaagttcttgtcatgacaggacaaactgtgtaaacttc Alignment from Exonerate_protein2genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTA-ACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA tacaaggcttggttataaagtgtaagcatggttttcatgttctctcttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGCTCATTGGAGCTTAAGATCCGGGAAGATGTTACACAAAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGACTATAAgtaagctactgctaagttcttgtcatgacaggacaaactgtgtaaacttc Alignment from Exonerate_coding2genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTA-ACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA tacaaggcttggttataaagtgtaagcatggttttcatgttctctcttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGCTCATTGGAGCTTAAGATCCGGGAAGATGTTACACAAAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGACTATAAgtaagctactgctaagttcttgtcatgacaggacaaactgtgtaaacttc Alignment from GeneWise GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTA-ACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA tacaaggcttggttataaagtgtaagcatggttttcatgttctctcttagGAGCTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAAAATCAAGAAAAATTGCTCATTGGAGCTTAAGATCCGGGAAGATGTTACACAAAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGACTATAAgtaagctactgctaagttcttgtcatgacaggacaaactgtgtaaacttc #### Klc2_ID853_13 --> 0 - 2 Original Alignment GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGA-GGGGGCCCACAGGAGCCCCCTAACTCTag tgtgcataacaaatctcttttgagcctgcccacttcttcttggtacacagGATGGAAGCGGTTCCCTGCAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCAGCAGTGAAATGCTCGTAAGGAAATCGCAGGGGCGGTGGGCCACAGGAGCCCTCTAATTCTaggtaagcgctcacctcctacatccatatcattaatgataacttgcggggcc Alignment from CESAR GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGA-GGGGGCCCACAGGAGCCCCCTAACTCTag ttcgcataacaaatctcttttgagcctgcccacttcttcttggtacacagGATGGAAGCGGTTCCCTGCAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCAGCAGTGAAATGCTCGTAAGGAAATCGCAGGGGCGGTGGGCCACAGGAGCCCTCTAATTCTaggtaagcgctcacctcctacatccatatcattaatgataacttgcggggcc Alignment from Spaln_aa2Genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGA-GGGGGCCCACAGGAGCCCCCTAACTCTAG tgtgcataacaaatctcttttgagcctgcccacttcttcttggtacacagGATGGAAGCGGTTCCCTGCAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCAGCAGTGAAATGCTCGTAAGGAAATCGCAGGGGcGGTGGGCCACAGGAGCCCTCTAATTCTAGgtaagcgctcacctcctacatccatatcattaatgataacttgcggggcc Alignment from Spaln_nt2Genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGG-GGCCCACAGGAGCCCCCTAACTCTAG tgtgcataacaaatctcttttgagcctgcccacttcttcttggtacacagGATGGAAGCGGTTCCCTGCAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCAGCAGTGAAATGCTCGTAAGGAAATCGCAGGGGCGGTGGGCCACAGGAGCCCTCTAATTCTAGgtaagcgctcacctcctacatccatatcattaatgataacttgcggggcc Alignment from Pairagon -------------------------------------------------GGACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGG-GGCCCACAGGAGCCCCCTAACTCTAG TGTGCATAACAAATCTCTTTTGAGCCTGCCCACTTCTTCTTGGTACACAGGATGGAAGCGGTTCCCTGCAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCAGCAGTGAAATGCTCGTAAGGAAATCGCAGGGGCGGTGGGCCACAGGAGCCCTCTAATTCTAGgtaagcgctcacctcctacatccatatcattaatgataacttgcggggcc Alignment from Exonerate_protein2genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAG-GGAGGGGGCCCACAGGAGCCCCCTAACTCTAG tgtgcataacaaatctcttttgagcctgcccacttcttcttggtacacagGATGGAAGCGGTTCCCTGCAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCAGCAGTGAAATGCTCGTAAGGAAATCGCAGGGGCGGTGGGCCACAGGAGCCCTCTAATTCTAGgtaagcgctcacctcctacatccatatcattaatgataacttgcggggcc Alignment from Exonerate_coding2genome tgtgcataacaaatctcttttgagcctgcccacttcttcttggtacacaggatggaagcggttccctgcagtgcagtggttcttttgggaaactccgagatgctctaagacgcagcagtgaaatgctcgtaaggaaatcgcaggggcggtgggccacaggagccctctaattctaggtaagcgctcacctcctacatccatatcattaatgataacttgcggggcc Alignment from GeneWise GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGG tgtgcataacaaatctcttttgagcctgcccacttcttcttggtacacagGATGGAAGCGGTTCCCTGCAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCAGCAGTGAAATGCTCGTAAGGAAATCGCAGGGGCGgtgggccacaggagccctctaattctaggtaagcgctcacctcctacatccatatcattaatgataacttgcggggcc #### Klc2_ID855_11 --> 1 - 0 Original Alignment tCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCA---CACACACTGGAAGACTGTGCC-AGCCGCAGCCGCAAACAG tagcactaaaaggccaagttacttaacacctcaaaattttctttccaaagtCCTACAGTCAATACCAGATTGCGAAGCTGGGGTACACTGTACTGGCATGAAGGCAAACTGGATGCTACGCAACACACACTGAAAGACTGTTCACAGCCATAGTTGTAAACAGgtagaattttttttcatccccggggataaatggggccacattcttgtgta Alignment from CESAR tCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCA---CACACACTGGAAGACTGTGCC-AGCCGCAGCCGCAAACAG tagcactaaaaggccaagttacttaacacctcaaaattttctttccaaagtCCTACAGTCAATACCAGATTGCGAAGCTGGGGTACACTGTACTGGCATGAAGGCAAACTGGATGCTACGCAACACACACTGAAAGACTGTTCACAGCCATAGTTGTAAACAGgtagaattttttttcatccccggggataaatggggccacattcttgtgta Alignment from Spaln_aa2Genome TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCA---CACACACTGGAAGACTGTGCC-AGCCGCAGCCGCAAACAG tagcactaaaaggccaagttacttaacacctcaaaattttctttccaaagTCCTACAGTCAATACCAGATTGCGAAGCTGGGGTACACTGTACTGGCATGAAGGCAAACTGGATGCTACGCAACACACACTGAAAGACTGTTCAcAGCCATAGTTGTAAACAGgtagaattttttttcatccccggggataaatggggccacattcttgtgta Alignment from Spaln_nt2Genome TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGC--CGCA-CACACACTGGAAGACTGTGC-CAGCCGCAGCCGCAAACAG tagcactaaaaggccaagttacttaacacctcaaaattttctttccaaagTCCTACAGTCAATACCAGATTGCGAAGCTGGGGTACACTGTACTGGCATGAAGGCAAACTGGATGCTACGCAACACACACTGAAAGACTGTTCACAGCCATAGTTGTAAACAGgtagaattttttttcatccccggggataaatggggccacattcttgtgta Alignment from Pairagon TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGC---ACACACACTGGAAGACTGTGC-CAGCCGCAGCCGCAAACAG tagcactaaaaggccaagttacttaacacctcaaaattttctttccaaagTCCTACAGTCAATACCAGATTGCGAAGCTGGGGTACACTGTACTGGCATGAAGGCAAACTGGATGCTACGCAACACACACTGAAAGACTGTTCACAGCCATAGTTGTAAACAGgtagaattttttttcatccccggggataaatggggccacattcttgtgta Alignment from Exonerate_protein2genome TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCA---CACACACTGGAAGACTGTGCC-AGCCGCAGCCGCAAACAG tagcactaaaaggccaagttacttaacacctcaaaattttctttccaaagTCCTACAGTCAATACCAGATTGCGAAGCTGGGGTACACTGTACTGGCATGAAGGCAAACTGGATGCTACGCAACACACACTGAAAGACTGTTCACAGCCATAGTTGTAAACAGgtagaattttttttcatccccggggataaatggggccacattcttgtgta Alignment from Exonerate_coding2genome tagcactaaaaggccaagttacttaacacctcaaaattttctttccaaagtcctacagtcaataccagattgcgaagctggggtacactgtactggcatgaaggcaaactggatgctacgcaacacacactgaaagactgttcacagccatagttgtaaacaggtagaattttttttcatccccggggataaatggggccacattcttgtgta Alignment from GeneWise TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCA---CACACACTGGAAGAC- tagcactaaaaggccaagttacttaacacctcaaaattttctttccaaagTCCTACAGTCAATACCAGATTGCGAAGCTGGGGTACACTGTACTGGCATGAAGGCAAACTGGATGCTACGCAACACACACTGAAAGACTgttcacagccatagttgtaaacaggtagaattttttttcatccccggggataaatggggccacattcttgtgta #### Klc2_ID859_7 --> 0 - 0 Original Alignment GTCCTGGGCAAGTTTCACCCA-GATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG atgttatacagcaccaaaactaggaacttgaacttttttcttcattccagGTCCTTGGAAAGTTT------CGATGTGGCTGAGCCACTTAGCAACCTGGTTTTGTTATGCCAGAACCAGGACAGAGCTGAAGAGGTGGAATACTATTACCCACGGGGCTTGAAGATATATGCCAAACGCCTTAGTCCTGAAGATCCCAATGCAGCAAAAACTAAGAACAACTTGgtgagttgtaatgtgatgaattctaaaagatgacaccacccattttgaat Alignment from CESAR GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG atgttatacagcaccaaaactaggaacttgaacttttttcttcattccagGTCCTTGGAAAGTTT-----CGATGTGGCTGAGCCACTTAGCAACCTGGTTTTGTTATGCCAGAACCAGGACAGAGCTGAAGAGGTGGAATACTATTACCCACGGGGCTTGAAGATATATGCCAAACGCCTTAGTCCTGAAGATCCCAATGCAGCAAAAACTAAGAACAACTTGgtgagttgtaatgtgatgaattctaaaagatgacaccacccattttgaat Alignment from Spaln_aa2Genome CCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG atgttatacagcaccaaaactaggaacttgaacttttttcttcattccaggtccttggaaagTTTCGATGTGGCTGAGCCACTTAGCAACCTGGTTTTGTTATGCCAGAACCAGGACAGAGCTGAAGAGGTGGAATACTATTACCCACGGGGCTTGAAGATATATGCCAAACGCCTTAGTCCTGAAGATCCCAATGCAGCAAAAACTAAGAACAACTTGgtgagttgtaatgtgatgaattctaaaagatgacaccacccattttgaat Alignment from Spaln_nt2Genome AAGGTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG atgttatacagcaccaaaactaggaacttgaacttttttcttcattccag---GTCCTTGGAAAGTTTC-----GATGTGGCTGAGCCACTTAGCAACCTGGTTTTGTTATGCCAGAACCAGGACAGAGCTGAAGAGGTGGAATACTATTACCCACGGGGCTTGAAGATATATGCCAAACGCCTTAGTCCTGAAGATCCCAATGCAGCAAAAACTAAGAACAACTTGgtgagttgtaatgtgatgaattctaaaagatgacaccacccattttgaat Alignment from Pairagon AAGGTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG atgttatacagcaccaaaactaggaacttgaacttttttcttcattccag---GTCCTTGGAAAGTTTC-----GATGTGGCTGAGCCACTTAGCAACCTGGTTTTGTTATGCCAGAACCAGGACAGAGCTGAAGAGGTGGAATACTATTACCCACGGGGCTTGAAGATATATGCCAAACGCCTTAGTCCTGAAGATCCCAATGCAGCAAAAACTAAGAACAACTTGgtgagttgtaatgtgatgaattctaaaagatgacaccacccattttgaat Alignment from Exonerate_protein2genome GGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG atgttatacagcaccaaaactaggaacttgaacttttttcttcattccagGTCCTTGGAAAGTTTCGATGTGGCTGAGCCACTTAGCAACCTGGTTTTGTTATGCCAGAACCAGGACAGAGCTGAAGAGGTGGAATACTATTACCCACGGGGCTTGAAGATATATGCCAAACGCCTTAGTCCTGAAGATCCCAATGCAGCAAAAACTAAGAACAACTTGgtgagttgtaatgtgatgaattctaaaagatgacaccacccattttgaat Alignment from Exonerate_coding2genome GGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG atgttatacagcaccaaaactaggaacttgaacttttttcttcattccagGTCCTTGGAAAGTTTCGATGTGGCTGAGCCACTTAGCAACCTGGTTTTGTTATGCCAGAACCAGGACAGAGCTGAAGAGGTGGAATACTATTACCCACGGGGCTTGAAGATATATGCCAAACGCCTTAGTCCTGAAGATCCCAATGCAGCAAAAACTAAGAACAACTTGgtgagttgtaatgtgatgaattctaaaagatgacaccacccattttgaat Alignment from GeneWise ------------------------------------------------------------------GATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG TGTTATAC-AGCACCAAAACTAGGAACTTGAACTTTTTTCTTCATTCCAGGTCCTTGGAAAGTTTCGATGTGGCTGAGCCACTTAGCAACCTGGTTTTGTTATGCCAGAACCAGGACAGAGCTGAAGAGGTGGAATACTATTACCCACGGGGCTTGAAGATATATGCCAAACGCCTTAGTCCTGAAGATCCCAATGCAGCAAAAACTAAGAACAACTTGgtgagttgtaatgtgatgaattctaaaagatgacaccacccattttgaat #### Klc2_ID861_5 --> 1 - 0 Original Alignment gGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGG-GAAAAGACACTGGGCAAGGACCACCCAGCT catatatagttgaggagtagtatttgtctgtcatgttttgccctcggcagaGACCAGAACAAATACAGGGATGCTGCTCACTTACTCAATGAAGCCCTGGCCATCCAACGAAAAGACATTAGGCAAGGATCAACCTGCTgtaagttacctaggtagtctccctgtccttgtaaccaagctccccattag Alignment from CESAR gGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGG-GAAAAGACACTGGGCAAGGACCACCCAGCT catatatagttgaggagtagtatttgtctgtcatgttttgccctcggcagaGACCAGAACAAATACAGGGATGCTGCTCACTTACTCAATGAAGCCCTGGCCATCCAACGAAAAGACATTAGGCAAGGATCAACCTGCTgtaagttacctaggtagtctccctgtccttgtaaccaagctccccattag Alignment from Spaln_aa2Genome GGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGG-GAAAAGACACTGGGCAAGGACCACCCAGCT catatatagttgaggagtagtatttgtctgtcatgttttgccctcggcagAGACCAGAACAAATACAGGGATGCTGCTCACTTACTCAATGAAGCCCTGGCCATCCAAcGAAAAGACATTAGGCAAGGATCAACCTGCTgtaagttacctaggtagtctccctgtccttgtaaccaagctccccattag Alignment from Spaln_nt2Genome GGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGG-GAAAAGACACTGGGCAAGGACCACCCAGCT catatatagttgaggagtagtatttgtctgtcatgttttgccctcggcagAGACCAGAACAAATACAGGGATGCTGCTCACTTACTCAATGAAGCCCTGGCCATCCAACGAAAAGACATTAGGCAAGGATCAACCTGCTgtaagttacctaggtagtctccctgtccttgtaaccaagctccccattag Alignment from Pairagon GGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGG-GAAAAGACACTGGGCAAGGACCACCCAGCT catatatagttgaggagtagtatttgtctgtcatgttttgccctcggcagAGACCAGAACAAATACAGGGATGCTGCTCACTTACTCAATGAAGCCCTGGCCATCCAACGAAAAGACATTAGGCAAGGATCAACCTGCTgtaagttacctaggtagtctccctgtccttgtaaccaagctccccattag Alignment from Exonerate_protein2genome GGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGG-GAAAAGACACTGGGCAAGGACCACCCAGCT catatatagttgaggagtagtatttgtctgtcatgttttgccctcggcagAGACCAGAACAAATACAGGGATGCTGCTCACTTACTCAATGAAGCCCTGGCCATCCAACGAAAAGACATTAGGCAAGGATCAACCTGCTgtaagttacctaggtagtctccctgtccttgtaaccaagctccccattag Alignment from Exonerate_coding2genome GGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGG-GAAAAGACACTGGGCAAGGACCACCCAGCT catatatagttgaggagtagtatttgtctgtcatgttttgccctcggcagAGACCAGAACAAATACAGGGATGCTGCTCACTTACTCAATGAAGCCCTGGCCATCCAACGAAAAGACATTAGGCAAGGATCAACCTGCTgtaagttacctaggtagtctccctgtccttgtaaccaagctccccattag Alignment from GeneWise GGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATC-CGGGAAAAGACACTGGGCAAGGACCACCCAGCTGTGGCT-------------------------------------------- catatatagttgaggagtagtatttgtctgtcatgttttgccctcggcagAGACCAGAACAAATACAGGGATGCTGCTCACTTACTCAATGAAGCCCTGGCCATCCAACGAAAAGACATTAGGCAAGGATCAACCTGCTGTAAGTTACCTAGGTAGTCTCCCTGTCCTTGTAACCAAGCTCCCCATTAG #### Klc2_ID863_3 --> 0 - 1 Original Alignment GAGGAGAAGGGTGATGTCCCCAAA-GACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAg agcaatcaacattcaacactagatggtgctctttcctcgattcactgaagAAAGAGAAA------GTCCCCAAACGACTTTCTTGATGACCTATTTCCAAATGAAGATGAAGAGAGGTCAggtaagaagggtgaattaatcgaggtaagcaccagctagttaggagtctag Alignment from CESAR GAGGAGAAGGGTGATGTCCCCAAA-GACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAg agcaatcaacattcaacactagatggtgctctttcctcgattcactgaagAAAGAGAAA------GTCCCCAAACGACTTTCTTGATGACCTATTTCCAAATGAAGATGAAGAGAGGTCAggtaagaagggtgaattaatcgaggtaagcaccagctagttaggagtctag Alignment from Spaln_aa2Genome GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG agcaatcaacattcaacactagatggtgctctttcctcgattcactgaagaaagAGAAAG---------TCCCCAAACGACTTTCTTGATGACCTATTTCCAAATGAAGATGAAGAGAGGTCAGgtaagaagggtgaattaatcgaggtaagcaccagctagttaggagtctag Alignment from Spaln_nt2Genome GAGGAGAAGGGTGATGTCCCCAAA-GACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG agcaatcaacattcaacactagatggtgctctttcctcgattcactgaagAAAGAGA------AAGTCCCCAAACGACTTTCTTGATGACCTATTTCCAAATGAAGATGAAGAGAGGTCAGgtaagaagggtgaattaatcgaggtaagcaccagctagttaggagtctag Alignment from Pairagon GAGGAGAAGGGTGATGTCCCCAAA-GACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG agcaatcaacattcaacactagatggtgctctttcctcgattcactgaagAAAGAGAAA------GTCCCCAAACGACTTTCTTGATGACCTATTTCCAAATGAAGATGAAGAGAGGTCAGgtaagaagggtgaattaatcgaggtaagcaccagctagttaggagtctag Alignment from Exonerate_protein2genome GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG agcaatcaacattcaacactagatggtgctctttcctcgattcacTGAAGAAAGAGAAAGTCCCCAAACGACTTTCTTGATGACCTATTTCCAAATGAAGATGAAGAGAGGTCAGgtaagaagggtgaattaatcgaggtaagcaccagctagttaggagtctag Alignment from Exonerate_coding2genome GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG agcaatcaacattcaacactagatggtgctctttcctcgattcacTGAAGAAAGAGAAAGTCCCCAAACGACTTTCTTGATGACCTATTTCCAAATGAAGATGAAGAGAGGTCAGgtaagaagggtgaattaatcgaggtaagcaccagctagttaggagtctag Alignment from GeneWise GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG agcaatcaacattcaacactagatggtgctctttcctcgattcactgaagaaagAGAAAGTCC---------CCAAACGACTTTCTTGATGACCTATTTCCAAATGAAGATGAAGAGAGGTCAGgtaagaagggtgaattaatcgaggtaagcaccagctagttaggagtctag #### Ldb1_ID9691_9 --> 0 - 1 Original Alignment CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAG-ACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCg tcattacaagccaatccaaacactgatttgtgtgttgttttttcttatagCTCTGTGTAATCCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGCACCTACAGCCTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAGGTGGCAGCGAATGGTTGCGCCTCCTggtaaggttcccttccctctaattaagtgaggtagttctgctacagtcaag Alignment from CESAR CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAG-ACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCg tcattacaagccaatccaaacactgatttgtgtgttgttttttcttatagCTCTGTGTAATCCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGCACCTACAGCCTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAGGTGGCAGCGAATGGTTGCGCCTCCTggtaaggttcccttccctctaattaagtgaggtagttctgctacagtcaag Alignment from Spaln_aa2Genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAG-ACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG tcattacaagccaatccaaacactgatttgtgtgttgttttttcttatagCTCTGTGTAATCCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGcACCTACAGCCTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAGGTGGCAGCGAATGGTTGCGCCTCCTGgtaaggttcccttccctctaattaagtgaggtagttctgctacagtcaag Alignment from Spaln_nt2Genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAG-ACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG tcattacaagccaatccaaacactgatttgtgtgttgttttttcttatagCTCTGTGTAATCCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGCACCTACAGCCTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAGGTGGCAGCGAATGGTTGCGCCTCCTGgtaaggttcccttccctctaattaagtgaggtagttctgctacagtcaag Alignment from Pairagon CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAG-ACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG tcattacaagccaatccaaacactgatttgtgtgttgttttttcttatagCTCTGTGTAATCCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGCACCTACAGCCTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAGGTGGCAGCGAATGGTTGCGCCTCCTGgtaaggttcccttccctctaattaagtgaggtagttctgctacagtcaag Alignment from Exonerate_protein2genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAG-ACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG tcattacaagccaatccaaacactgatttgtgtgttgttttttcttatagCTCTGTGTAATCCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGCACCTACAGCCTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAGGTGGCAGCGAATGGTTGCGCCTCCTGgtaaggttcccttccctctaattaagtgaggtagttctgctacagtcaag Alignment from Exonerate_coding2genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAG-ACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG tcattacaagccaatccaaacactgatttgtgtgttgttttttcttatagCTCTGTGTAATCCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGCACCTACAGCCTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAGGTGGCAGCGAATGGTTGCGCCTCCTGgtaaggttcccttccctctaattaagtgaggtagttctgctacagtcaag Alignment from GeneWise CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCAC-AAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG tcattacaagccaatccaaacactgatttgtgtgttgttttttcttatagCTCTGTGTAATCCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGCACCTACAGCCTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAGGTGGCAGCGAATGGTTGCGCCTCCTGgtaaggttcccttccctctaattaagtgaggtagttctgctacagtcaag #### Ldb1_ID9693_7 --> 0 - 0 Original Alignment GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGG-CAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tttgaggaaatcaccaaagcaagggtagctgatttttttctgtgttttagGTCTGTGTAGAAGGACGGCTGTACTTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCCAACACAGTGAACTTATTCCAAGAAGTATCCTGGCGATGCACgtagtatgatcccagccccacctgatctaagggctttggagtccacatct Alignment from CESAR GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGG-CAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tttgaggaaatcaccaaagcaagggtagctgatttttttctgtgttttagGTCTGTGTAGAAGGACGGCTGTACTTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCCAACACAGTGAACTTATTCCAAGAAGTATCCTGGCGATGCACgtagtatgatcccagccccacctgatctaagggctttggagtccacatct Alignment from Spaln_aa2Genome GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGG-CAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tttgaggaaatcaccaaagcaagggtagctgatttttttctgtgttttagGTCTGTGTAGAAGGACGGCTGTACTTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGcCAACACAGTGAACTTATTCCAAGAAGTATCCTGGCGATGCACgtagtatgatcccagccccacctgatctaagggctttggagtccacatct Alignment from Spaln_nt2Genome GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGC-AACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tttgaggaaatcaccaaagcaagggtagctgatttttttctgtgttttagGTCTGTGTAGAAGGACGGCTGTACTTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCCAACACAGTGAACTTATTCCAAGAAGTATCCTGGCGATGCACgtagtatgatcccagccccacctgatctaagggctttggagtccacatct Alignment from Pairagon GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGG-CAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tttgaggaaatcaccaaagcaagggtagctgatttttttctgtgttttagGTCTGTGTAGAAGGACGGCTGTACTTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCCAACACAGTGAACTTATTCCAAGAAGTATCCTGGCGATGCACgtagtatgatcccagccccacctgatctaagggctttggagtccacatct Alignment from Exonerate_protein2genome GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGG-CAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tttgaggaaatcaccaaagcaagggtagctgatttttttctgtgttttagGTCTGTGTAGAAGGACGGCTGTACTTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCCAACACAGTGAACTTATTCCAAGAAGTATCCTGGCGATGCACgtagtatgatcccagccccacctgatctaagggctttggagtccacatct Alignment from Exonerate_coding2genome GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGG-CAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tttgaggaaatcaccaaagcaagggtagctgatttttttctgtgttttagGTCTGTGTAGAAGGACGGCTGTACTTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCCAACACAGTGAACTTATTCCAAGAAGTATCCTGGCGATGCACgtagtatgatcccagccccacctgatctaagggctttggagtccacatct Alignment from GeneWise GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATC-CGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tttgaggaaatcaccaaagcaagggtagctgatttttttctgtgttttagGTCTGTGTAGAAGGACGGCTGTACTTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCCAACACAGTGAACTTATTCCAAGAAGTATCCTGGCGATGCACgtagtatgatcccagccccacctgatctaagggctttggagtccacatct #### Ldb1_ID9695_5 --> 0 - 1 Original Alignment GAGTGTGACAATCTC-TGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATa aggatgagaggttgatgggggtgtgtctcgtatgatttttcatattaaagGAGTGTGATAATCTTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCATGCTCACTTTAAACTTTTGTTTGAAAGATGGGCCAAACAGGTACagtgagttggttctgggtgagatgctttctctctttcctatttttctattt Alignment from CESAR GAGTGTGACAATCTC-TGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATa aggatgagaggttgatgggggtgtgtctcgtatgatttttcatattaaagGAGTGTGATAATCTTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCATGCTCACTTTAAACTTTTGTTTGAAAGATGGGCCAAACAGGTACagtgagttggttctgggtgagatgctttctctctttttccatgtttgtctc Alignment from Spaln_aa2Genome GAGTGTGACAATCTC-TGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA aggatgagaggttgatgggggtgtgtctcgtatgatttttcatattaaagGAGTGTGATAATCTTcTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCATGCTCACTTTAAACTTTTGTTTGAAAGATGGGCCAAACAGGTACAgtgagttggttctgggtgagatgctttctctctttcctatttttctattt Alignment from Spaln_nt2Genome GAGTGTGACAATCT-CTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA aggatgagaggttgatgggggtgtgtctcgtatgatttttcatattaaagGAGTGTGATAATCTTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCATGCTCACTTTAAACTTTTGTTTGAAAGATGGGCCAAACAGGTACAgtgagttggttctgggtgagatgctttctctctttcctatttttctattt Alignment from Pairagon GAGTGTGACAATC-TCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA aggatgagaggttgatgggggtgtgtctcgtatgatttttcatattaaagGAGTGTGATAATCTTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCATGCTCACTTTAAACTTTTGTTTGAAAGATGGGCCAAACAGGTACAgtgagttggttctgggtgagatgctttctctctttcctatttttctattt Alignment from Exonerate_protein2genome GAGTGTGACAATCTC-TGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA aggatgagaggttgatgggggtgtgtctcgtatgatttttcatattaaagGAGTGTGATAATCTTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCATGCTCACTTTAAACTTTTGTTTGAAAGATGGGCCAAACAGGTACAgtgagttggttctgggtgagatgctttctctctttcctatttttctattt Alignment from Exonerate_coding2genome GAGTGTGACAATCTC-TGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA aggatgagaggttgatgggggtgtgtctcgtatgatttttcatattaaagGAGTGTGATAATCTTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCATGCTCACTTTAAACTTTTGTTTGAAAGATGGGCCAAACAGGTACAgtgagttggttctgggtgagatgctttctctctttcctatttttctattt Alignment from GeneWise GAGTGTGACAAT-CTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATACC------------------------------------------------ aggatgagaggttgatgggggtgtgtctcgtatgatttttcatattaaagGAGTGTGATAATCTTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAGGATGATACCATGCTCACTTTAAACTTTTGTTTGAAAGATGGGCCAAACAGGTACAGTGAGTTGGTTCTGGGTGAGATGCTTTCTCTCTTTCCTATTTTTCTATTT #### Lipo1_ID6825_8 --> 0 - 0 Original Alignment GTAGGAAGAAGTGGT------------ATACTTCAGGCTTATGAT-TGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagctctaagtatggcctgtcagtctcactctggtctcctctatccctagGTAGGTAGAAGTGGGAGTAGGAGTGGGATTCTTCAAGCTTATGACCTGGGGAAGCCCCTCTCTGAATATGCAA---CTCAATCAAgtaactccttcagatctcctaacgaggtggcagcttctctgtacacatgg Alignment from CESAR GTAGGAAGA------------AGTGGTATACTTCAGGCTTATGAT-TGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagctctaagtatggcctgtcagtctcactctggtctcctctatccctagGTAGGTAGAAGTGGGAGTAGGAGTGGGATTCTTCAAGCTTATGACCTGGGGAAGCCCCTCTCTGAATATGCAACTC---AATCAAgtaactccttcagatctcctaacgaggtggcagcttctctgtacacatgg Alignment from Spaln_aa2Genome GTAGGAAGAAGTGGTATA------------CTTCAGGCTTATGATTGG-GGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagctctaagtatggcctgtcagtctcactctggtctcctctatccctagGTAGGTAGAAGTGGGAGTAGGAGTGGGATTCTTCAAGCTTATGACCTGgGGAAGCCCCTCTCTGAATATGCAA---CTCAATCAAgtaactccttcagatctcctaacgaggtggcagcttctctgtacacatgg Alignment from Spaln_nt2Genome GTAGGAAGAAGTGGTA------------TACTTCAGGCTTATGAT-TGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagctctaagtatggcctgtcagtctcactctggtctcctctatccctagGTAGGTAGAAGTGGGAGTAGGAGTGGGATTCTTCAAGCTTATGACCTGGGGAAGCCCCTCTCTGAATATGCAAC---TCAATCAAgtaactccttcagatctcctaacgaggtggcagcttctctgtacacatgg Alignment from Pairagon GTAGGAAGA------------AGTGGTATACTTCAGGCTTATGA-TTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagctctaagtatggcctgtcagtctcactctggtctcctctatccctagGTAGGTAGAAGTGGGAGTAGGAGTGGGATTCTTCAAGCTTATGACCTGGGGAAGCCCCTCTCTGAATATGCAAC---TCAATCAAgtaactccttcagatctcctaacgaggtggcagcttctctgtacacatgg Alignment from Exonerate_protein2genome GTAGGA------------AGAAGTGGTATACTTCAGGCTTATGAT-TGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagctctaagtatggcctgtcagtctcactctggtctcctctatccctagGTAGGTAGAAGTGGGAGTAGGAGTGGGATTCTTCAAGCTTATGACCTGGGGAAGCCCCTCTCTGAATATGCAA---CTCAATCAAgtaactccttcagatctcctaacgaggtggcagcttctctgtacacatgg Alignment from Exonerate_coding2genome GTAGGA------------AGAAGTGGTATACTTCAGGCTTATGAT-TGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagctctaagtatggcctgtcagtctcactctggtctcctctatccctagGTAGGTAGAAGTGGGAGTAGGAGTGGGATTCTTCAAGCTTATGACCTGGGGAAGCCCCTCTCTGAATATGCAA---CTCAATCAAgtaactccttcagatctcctaacgaggtggcagcttctctgtacacatgg Alignment from GeneWise GAAGAAGTGGTATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagctctaagtatggcctgtcagtctcactctggtctcctctatccctaggtaggtagaagtgggagTAGGAGTGGGATTCTTCAAGCTTATGACCTGGGGAAGCCCCTCTCTGAATATGCAA---CTCAATCAAgtaactccttcagatctcctaacgaggtggcagcttctctgtacacatgg #### Ltbp3_ID1252_4 --> 0 - 1 Original Alignment TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGC-AAGTGTCACAAGTGCCCACAGCTTCAGt ccattccaaccatcaagctggtgctgataccctgtcccttctgtccctagTGTGGCAGCAACCCTTTGCCTGGTCTTACCAAGCAGGAAGATTGCTGTGGTAGCATAGGTACTGCCTGGGGACCAAGCCAAGTGTCACAAGTGCCCACAGCTTCAGtgtaagagcataacatggacttacaatttttctgatcatgattagtagttg Alignment from CESAR TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGC-AAGTGTCACAAGTGCCCACAGCTTCAGt ccattccaaccatcaagctggtgctgataccctgtcccttctgtccctagTGTGGCAGCAACCCTTTGCCTGGTCTTACCAAGCAGGAAGATTGCTGTGGTAGCATAGGTACTGCCTGGGGACCAAGCCAAGTGTCACAAGTGCCCACAGCTTCAGtgtaagagcataacatggacttacaatttttctgatcatgattagtagttg Alignment from Spaln_aa2Genome TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGC-AAGTGTCACAAGTGCCCACAGCTTCAGT ccattccaaccatcaagctggtgctgataccctgtcccttctgtccctagTGTGGCAGCAACCCTTTGCCTGGTCTTACCAAGCAGGAAGATTGCTGTGGTAGCATAGGTACTGCCTGGGGACCAAGCcAAGTGTCACAAGTGCCCACAGCTTCAGTgtaagagcataacatggacttacaatttttctgatcatgattagtagttg Alignment from Spaln_nt2Genome TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACA-AAGCAAGTGTCACAAGTGCCCACAGCTTCAGT ccattccaaccatcaagctggtgctgataccctgtcccttctgtccctagTGTGGCAGCAACCCTTTGCCTGGTCTTACCAAGCAGGAAGATTGCTGTGGTAGCATAGGTACTGCCTGGGGACCAAGCCAAGTGTCACAAGTGCCCACAGCTTCAGTgtaagagcataacatggacttacaatttttctgatcatgattagtagttg Alignment from Pairagon TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAG-CAAGTGTCACAAGTGCCCACAGCTTCAGT ccattccaaccatcaagctggtgctgataccctgtcccttctgtccctagTGTGGCAGCAACCCTTTGCCTGGTCTTACCAAGCAGGAAGATTGCTGTGGTAGCATAGGTACTGCCTGGGGACCAAGCCAAGTGTCACAAGTGCCCACAGCTTCAGTgtaagagcataacatggacttacaatttttctgatcatgattagtagttg Alignment from Exonerate_protein2genome TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGA-CAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGT ccattccaaccatcaagctggtgctgataccctgtcccttctgtccctagTGTGGCAGCAACCCTTTGCCTGGTCTTACCAAGCAGGAAGATTGCTGTGGTAGCATAGGTACTGCCTGGGGACCAAGCCAAGTGTCACAAGTGCCCACAGCTTCAGTgtaagagcataacatggacttacaatttttctgatcatgattagtagttg Alignment from Exonerate_coding2genome TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGA-CAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGT ccattccaaccatcaagctggtgctgataccctgtcccttctgtccctagTGTGGCAGCAACCCTTTGCCTGGTCTTACCAAGCAGGAAGATTGCTGTGGTAGCATAGGTACTGCCTGGGGACCAAGCCAAGTGTCACAAGTGCCCACAGCTTCAGTgtaagagcataacatggacttacaatttttctgatcatgattagtagttg Alignment from GeneWise TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGA-CAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGT ccattccaaccatcaagctggtgctgataccctgtcccttctgtccctagTGTGGCAGCAACCCTTTGCCTGGTCTTACCAAGCAGGAAGATTGCTGTGGTAGCATAGGTACTGCCTGGGGACCAAGCCAAGTGTCACAAGTGCCCACAGCTTCAGTgtaagagcataacatggacttacaatttttctgatcatgattagtagttg #### Ltbp3_ID1254_6 --> 2 - 1 Original Alignment atATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTC-AACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTg caggattgattgtttcttgtttcaagtgatgcctttgtgtctgcccacagacATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGCACCAACCCTGGCTCTTTCCACTGTGTCTGCCCACCTGGTCATAGTCTAGGTCCTTTCCGCAAACAGTGTATAggtaagctcaagaatgagtttggattgactaaaggggagcagatgggtggt Alignment from CESAR atATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAAC-AACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTg caggattgattgtttcttgtttcaagtgatgcctttgtgtctgcccacagacATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGCACCAACCCTGGCTCTTTCCACTGTGTCTGCCCACCTGGTCATAGTCTAGGTCCTTTCCGCAAACAGTGTATAggtaagctcaagaatgagtttggattgactaaaggggagcagatgggtggt Alignment from Spaln_aa2Genome ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTC-AACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG caggattgattgtttcttgtttcaagtgatgcctttgtgtctgcccacagACATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGcACCAACCCTGGCTCTTTCCACTGTGTCTGCCCACCTGGTCATAGTCTAGGTCCTTTCCGCAAACAGTGTATAGgtaagctcaagaatgagtttggattgactaaaggggagcagatgggtggt Alignment from Spaln_nt2Genome ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCT-CAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG caggattgattgtttcttgtttcaagtgatgcctttgtgtctgcccacagACATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGCACCAACCCTGGCTCTTTCCACTGTGTCTGCCCACCTGGTCATAGTCTAGGTCCTTTCCGCAAACAGTGTATAGgtaagctcaagaatgagtttggattgactaaaggggagcagatgggtggt Alignment from Pairagon ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCT-CAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG caggattgattgtttcttgtttcaagtgatgcctttgtgtctgcccacagACATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGCACCAACCCTGGCTCTTTCCACTGTGTCTGCCCACCTGGTCATAGTCTAGGTCCTTTCCGCAAACAGTGTATAGgtaagctcaagaatgagtttggattgactaaaggggagcagatgggtggt Alignment from Exonerate_protein2genome ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAAC-AACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG caggattgattgtttcttgtttcaagtgatgcctttgtgtctgcccacagACATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGCACCAACCCTGGCTCTTTCCACTGTGTCTGCCCACCTGGTCATAGTCTAGGTCCTTTCCGCAAACAGTGTATAGgtaagctcaagaatgagtttggattgactaaaggggagcagatgggtggt Alignment from Exonerate_coding2genome ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAAC-AACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG caggattgattgtttcttgtttcaagtgatgcctttgtgtctgcccacagACATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGCACCAACCCTGGCTCTTTCCACTGTGTCTGCCCACCTGGTCATAGTCTAGGTCCTTTCCGCAAACAGTGTATAGgtaagctcaagaatgagtttggattgactaaaggggagcagatgggtggt Alignment from GeneWise ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTC-AACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG caggattgattgtttcttgtttcaagtgatgcctttgtgtctgcccacagACATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGCACCAACCCTGGCTCTTTCCACTGTGTCTGCCCACCTGGTCATAGTCTAGGTCCTTTCCGCAAACAGTGTATAGgtaagctcaagaatgagtttggattgactaaaggggagcagatgggtggt #### Ltbp3_ID1261_13 --> 2 - 1 Original Alignment atGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGC-CGCTCGTGCGTGg gatgtgactgatcaattctagacatatccactgtggcttcccgcggacagatGTAACCGGGTGTGGGGCTGAGCCCTGTGGCCCTGGGAAAGGTATCTGTATGACTACTGGTGGATCATATAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCCGACTCTGTGTGggtaagaacacttgggcagcacacacctttgtgcatttctgacaccagacc Alignment from CESAR atGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGC-CGCTCGTGCGTGg gatgtgactgatcaattctagacatatccactgtggcttcccgcggacagatGTAACCGGGTGTGGGGCTGAGCCCTGTGGCCCTGGGAAAGGTATCTGTATGACTACTGGTGGATCATATAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCCGACTCTGTGTGggtaagaacacttgggcagcacacacctttgtgcatttctgacaccagacc Alignment from Spaln_aa2Genome ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG gatgtgactgatcaattctagacatatccactgtggcttcccgcggacagATGTAACCGGGTGTGGGGCTGAGCCCTGTGGCCCTGGGAAAGGTATCTGTATGACTACTGGTGGATCATATAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCCGACT---CTGTgtgggtaagaacacttgggcagcacacacctttgtgcatttctgacaccagacc Alignment from Spaln_nt2Genome ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCG-TGCGTGG gatgtgactgatcaattctagacatatccactgtggcttcccgcggacagATGTAACCGGGTGTGGGGCTGAGCCCTGTGGCCCTGGGAAAGGTATCTGTATGACTACTGGTGGATCATATAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCCGACTCTGTGTGGgtaagaacacttgggcagcacacacctttgtgcatttctgacaccagacc Alignment from Pairagon ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCG----TGCGTGG gatgtgactgatcaattctagacatatccactgtggcttcccgcggacagATGTAACCGGGTGTGGGGCTGAGCCCTGTGGCCCTGGGAAAGGTATCTGTATGACTACTGGTGGATCATATAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCC---CGACTCTGTGTGGgtaagaacacttgggcagcacacacctttgtgcatttctgacaccagacc Alignment from Exonerate_protein2genome ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGC-CGCTCGTGCGTGG gatgtgactgatcaattctagacatatccactgtggcttcccgcggacagATGTAACCGGGTGTGGGGCTGAGCCCTGTGGCCCTGGGAAAGGTATCTGTATGACTACTGGTGGATCATATAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCCGACTCTGTGTGGgtaagaacacttgggcagcacacacctttgtgcatttctgacaccagacc Alignment from Exonerate_coding2genome gatgtgactgatcaattctagacatatccactgtggcttcccgcggacagatgtaaccgggtgtggggctgagccctgtggccctgggaaaggtatctgtatgactactggtggatcatataattgtcattgcaaccggggctaccgccttcatgtaggtgcagggggcccgactctgtgtgggtaagaacacttgggcagcacacacctttgtgcatttctgacaccagacc Alignment from GeneWise ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCG-- gatgtgactgatcaattctagacatatccactgtggcttcccgcggacagATGTAACCGGGTGTGGGGCTGAGCCCTGTGGCCCTGGGAAAGGTATCTGTATGACTACTGGTGGATCATATAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCCGACTCTgtgtgggtaagaacacttgggcagcacacacctttgtgcatttctgacaccagacc #### Ltbp3_ID1262_14 --> 2 - 1 Original Alignment acCTGAACGAGTGCACC-AAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAg atttctgacaccagaccctctccttcctagcatgtgtgtcctctgcccagatTTAAATGAGTGCACACAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAATTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTAAAGGCCTCCAGACCACCAATCTGGGAAggtaagatgtcatcctacttcccctcctatccttgttggatgagtgcattg Alignment from CESAR acCTGAACGAGTGCACC-AAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAg atttctgacaccagaccctctccttcctagcatgtgtgtcctctgcccagatTTAAATGAGTGCACACAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAATTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTAAAGGCCTCCAGACCACCAATCTGGGAAggtaagatgtcatcctacttcccctcctatccttgttggatgagtgcattg Alignment from Spaln_aa2Genome ACCTGAACGAGTGCACC-AAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgacaccagaccctctccttcctagcatgtgtgtcctctgcccagATTTAAATGAGTGCACAcAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAATTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTAAAGGCCTCCAGACCACCAATCTGGGAAGgtaagatgtcatcctacttcccctcctatccttgttggatgagtgcattg Alignment from Spaln_nt2Genome ACCTGAACGAGTGCAC-CAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgacaccagaccctctccttcctagcatgtgtgtcctctgcccagATTTAAATGAGTGCACACAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAATTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTAAAGGCCTCCAGACCACCAATCTGGGAAGgtaagatgtcatcctacttcccctcctatccttgttggatgagtgcattg Alignment from Pairagon ACCTGAACGAGTGCAC-CAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgacaccagaccctctccttcctagcatgtgtgtcctctgcccagATTTAAATGAGTGCACACAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAATTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTAAAGGCCTCCAGACCACCAATCTGGGAAGgtaagatgtcatcctacttcccctcctatccttgttggatgagtgcattg Alignment from Exonerate_protein2genome ACCTGAACGAGTGCACC-AAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgacaccagaccctctccttcctagcatgtgtgtcctctgcccagATTTAAATGAGTGCACACAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAATTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTAAAGGCCTCCAGACCACCAATCTGGGAAGgtaagatgtcatcctacttcccctcctatccttgttggatgagtgcattg Alignment from Exonerate_coding2genome atttctgacaccagaccctctccttcctagcatgtgtgtcctctgcccagatttaaatgagtgcacacaagccccatctgtgtggtgatggtggcttctgcatcaatttcccaggccactacacatgcaactgttatcctggttacaggctaaaggcctccagaccaccaatctgggaaggtaagatgtcatcctacttcccctcctatccttgttggatgagtgcattg Alignment from GeneWise ACCTGAACGAGTGCACC-AAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgacaccagaccctctccttcctagcatgtgtgtcctctgcccagATTTAAATGAGTGCACACAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAATTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTAAAGGCCTCCAGACCACCAATCTGGGAAGgtaagatgtcatcctacttcccctcctatccttgttggatgagtgcattg #### Ltbp3_ID1263_15 --> 2 - 1 Original Alignment acATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGC-AGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTg tggcaccatacttgcattggaccatcatctgctttcttttgccttttcagatATTGATGAATGCCATGATCCTAGCACTTGCCCAGATGGAAAGTGTGAAAATAAACTTGGGCAGCTTCAGGTGCATTGCTTGCCAGCCTGGCTACCGAAGCCAGGGAGGGGGAACATGCCATggtaagggaagaccagtgtctccgttgtgtggcacagggttgctaggatcc Alignment from CESAR acATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCT-GGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTg tggcaccatacttgcattggaccatcatctgctttcttttgccttttcagatATTGATGAATGCCATGATCCTAGCACTTGCCCAGATGGAAAGTGTGAAAATAAACTTGGGCAGCTTCAGGTGCATTGCTTGCCAGCCTGGCTACCGAAGCCAGGGAGGGGGAACATGCCATggtaagggaagaccagtgtctccgttgtgtggcacagggttgctaggatcc Alignment from Spaln_aa2Genome ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCT-GGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTG tggcaccatacttgcattggaccatcatctgctttcttttgccttttcagATATTGATGAATGCCATGATCCTAGCACTTGCCCAGATGGAAAGTGTGAAAATAAACTTgGGCAGCTTCAGGTGCATTGCTTGCCAGCCTGGCTACCGAAGCCAGGGAGGGGGAACATGCCATGgtaagggaagaccagtgtctccgttgtgtggcacagggttgctaggatcc Alignment from Spaln_nt2Genome ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGG-CAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTG tggcaccatacttgcattggaccatcatctgctttcttttgccttttcagATATTGATGAATGCCATGATCCTAGCACTTGCCCAGATGGAAAGTGTGAAAATAAACTTGGGCAGCTTCAGGTGCATTGCTTGCCAGCCTGGCTACCGAAGCCAGGGAGGGGGAACATGCCATGgtaagggaagaccagtgtctccgttgtgtggcacagggttgctaggatcc Alignment from Pairagon ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCT-GGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTG tggcaccatacttgcattggaccatcatctgctttcttttgccttttcagATATTGATGAATGCCATGATCCTAGCACTTGCCCAGATGGAAAGTGTGAAAATAAACTTGGGCAGCTTCAGGTGCATTGCTTGCCAGCCTGGCTACCGAAGCCAGGGAGGGGGAACATGCCATGgtaagggaagaccagtgtctccgttgtgtggcacagggttgctaggatcc Alignment from Exonerate_protein2genome ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAA-CCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTG tggcaccatacttgcattggaccatcatctgctttcttttgccttttcagATATTGATGAATGCCATGATCCTAGCACTTGCCCAGATGGAAAGTGTGAAAATAAACTTGGGCAGCTTCAGGTGCATTGCTTGCCAGCCTGGCTACCGAAGCCAGGGAGGGGGAACATGCCATGgtaagggaagaccagtgtctccgttgtgtggcacagggttgctaggatcc Alignment from Exonerate_coding2genome tggcaccatacttgcattggaccatcatctgctttcttttgccttttcagatattgatgaatgccatgatcctagcacttgcccagatggaaagtgtgaaaataaacttgggcagcttcaggtgcattgcttgccagcctggctaccgaagccagggagggggaacatgccatggtaagggaagaccagtgtctccgttgtgtggcacagggttgctaggatcc Alignment from GeneWise ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAA-CCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTG tggcaccatacttgcattggaccatcatctgctttcttttgccttttcagATATTGATGAATGCCATGATCCTAGCACTTGCCCAGATGGAAAGTGTGAAAATAAACTTGGGCAGCTTCAGGTGCATTGCTTGCCAGCCTGGCTACCGAAGCCAGGGAGGGGGAACATGCCATGgtaagggaagaccagtgtctccgttgtgtggcacagggttgctaggatcc #### Ltbp3_ID1268_20 --> 2 - 1 Original Alignment agGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGA-GCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAg gctatagcttagcagatattaattggaaaatctctttccaatgggcatagagGTGGAGCAGCCTCAGCATAAGAAGGAATGCTACCTTAACTTTGATGACGCAGTGTTCAGTGACAGCATACTAGCCACTAATGTTACTCAACAGGAATGCTGCTGCTCTCTGGGACGCAGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCTATATTCAGCTCAggtaacttaatgctgattctcagtcctatcagtcaggcctgggtcagtcat Alignment from CESAR agGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGA-GCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAg gctatagcttagcagatattaattggaaaatctctttccaatgggcatagagGTGGAGCAGCCTCAGCATAAGAAGGAATGCTACCTTAACTTTGATGACGCAGTGTTCAGTGACAGCATACTAGCCACTAATGTTACTCAACAGGAATGCTGCTGCTCTCTGGGACGCAGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCTATATTCAGCTCAggtaacttaatgctgattctcagtcctatcagtcaggcctgggtcagtcat Alignment from Spaln_aa2Genome AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGA-GCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG gctatagcttagcagatattaattggaaaatctctttccaatgggcatagAGGTGGAGCAGCCTCAGCATAAGAAGGAATGCTACCTTAACTTTGATGACGCAGTGTTCAGTGACAGCATACTAGCCACTAATGTTACTCAACAGGAATGCTGCTGCTCTCTGGGAcGCAGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCTATATTCAGCTCAGgtaacttaatgctgattctcagtcctatcagtcaggcctgggtcagtcat Alignment from Spaln_nt2Genome AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGA-GCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG gctatagcttagcagatattaattggaaaatctctttccaatgggcatagAGGTGGAGCAGCCTCAGCATAAGAAGGAATGCTACCTTAACTTTGATGACGCAGTGTTCAGTGACAGCATACTAGCCACTAATGTTACTCAACAGGAATGCTGCTGCTCTCTGGGACGCAGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCTATATTCAGCTCAGgtaacttaatgctgattctcagtcctatcagtcaggcctgggtcagtcat Alignment from Pairagon AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGA-GCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG gctatagcttagcagatattaattggaaaatctctttccaatgggcatagAGGTGGAGCAGCCTCAGCATAAGAAGGAATGCTACCTTAACTTTGATGACGCAGTGTTCAGTGACAGCATACTAGCCACTAATGTTACTCAACAGGAATGCTGCTGCTCTCTGGGACGCAGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCTATATTCAGCTCAGgtaacttaatgctgattctcagtcctatcagtcaggcctgggtcagtcat Alignment from Exonerate_protein2genome AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGA-GCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG gctatagcttagcagatattaattggaaaatctctttccaatgggcatagAGGTGGAGCAGCCTCAGCATAAGAAGGAATGCTACCTTAACTTTGATGACGCAGTGTTCAGTGACAGCATACTAGCCACTAATGTTACTCAACAGGAATGCTGCTGCTCTCTGGGACGCAGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCTATATTCAGCTCAGgtaacttaatgctgattctcagtcctatcagtcaggcctgggtcagtcat Alignment from Exonerate_coding2genome gctatagcttagcagatattaattggaaaatctctttccaatgggcatagaggtggagcagcctcagcataagaaggaatgctaccttaactttgatgacgcagtgttcagtgacagcatactagccactaatgttactcaacaggaatgctgctgctctctgggacgcaggatggggagaccactgtgaaatctatccctgtcctatattcagctcaggtaacttaatgctgattctcagtcctatcagtcaggcctgggtcagtcat Alignment from GeneWise AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGA-GCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG gctatagcttagcagatattaattggaaaatctctttccaatgggcatagAGGTGGAGCAGCCTCAGCATAAGAAGGAATGCTACCTTAACTTTGATGACGCAGTGTTCAGTGACAGCATACTAGCCACTAATGTTACTCAACAGGAATGCTGCTGCTCTCTGGGACGCAGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCTATATTCAGCTCAGgtaacttaatgctgattctcagtcctatcagtcaggcctgggtcagtcat #### Ltbp3_ID1269_21 --> 2 - 1 Original Alignment ccGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTG-AACTATGGCATTCCTGCCCACCGTg tagggatataagatattagagaccacactcatactttcttataatttcagcaGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATATGCAAGAGAATAACATTGTGCAACTATGGCATCCCTACCCACCGGggtgaggatgccaatcgaggataagtatcctgatgaggcatgactagcaac Alignment from CESAR ccGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTG-AACTATGGCATTCCTGCCCACCGTg tagggatataagatattagagaccacactcatactttcttataatttcagcaGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATATGCAAGAGAATAACATTGTGCAACTATGGCATCCCTACCCACCGGggtgaggatgccaatcgaggataagtatcctgatgaggcatgactagcaac Alignment from Spaln_aa2Genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTG-AACTATGGCATTCCTGCCCACCGTG tagggatataagatattagagaccacactcatactttcttataatttcagCAGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATATGCAAGAGAATAACATTGTGcAACTATGGCATCCCTACCCACCGGGgtgaggatgccaatcgaggataagtatcctgatgaggcatgactagcaac Alignment from Spaln_nt2Genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGA-ACTATGGCATTCCTGCCCACCGTG tagggatataagatattagagaccacactcatactttcttataatttcagCAGAATTTCATAG---GTGTCCTGATGGTAAAGGCTATATGCAAGAGAATAACATTGTGCAACTATGGCATCCCTACCCACCGGGgtgaggatgccaatcgaggataagtatcctgatgaggcatgactagcaac Alignment from Pairagon CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTG-AACTATGGCATTCCTGCCCACCGTG tagggatataagatattagagaccacactcatactttcttataatttcagCAGAATTTCATAG---GTGTCCTGATGGTAAAGGCTATATGCAAGAGAATAACATTGTGCAACTATGGCATCCCTACCCACCGGGgtgaggatgccaatcgaggataagtatcctgatgaggcatgactagcaac Alignment from Exonerate_protein2genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTG-AACTATGGCATTCCTGCCCACCGTG tagggatataagatattagagaccacactcatactttcttataatttcagCAGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATATGCAAGAGAATAACATTGTGCAACTATGGCATCCCTACCCACCGGGgtgaggatgccaatcgaggataagtatcctgatgaggcatgactagcaac Alignment from Exonerate_coding2genome tagggatataagatattagagaccacactcatactttcttataatttcagcagaatttcataggtgtcctgatggtaaaggctatatgcaagagaataacattgtgcaactatggcatccctacccaccggggtgaggatgccaatcgaggataagtatcctgatgaggcatgactagcaac Alignment from GeneWise CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATT-GTGAACTATGGCATTCCTGCCCACCGTG tagggatataagatattagagaccacactcatactttcttataatttcagCAGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATATGCAAGAGAATAACATTGTGCAACTATGGCATCCCTACCCACCGGGgtgaggatgccaatcgaggataagtatcctgatgaggcatgactagcaac #### Ltbp3_ID1270_22 --> 2 - 1 Original Alignment acATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTAC-TACGATGGCAACCTGCTGGAGTGCGTGg aaatctgagtgttagcccactggcacctcagccggtgctcctctccacagacACTGATGAATGCATATTGTTTGGGGCAGAGATCTGTAAGGAGGGTAAATTCGTGAACATGCAGCCTGGCTATGAGTGCTATTGCAAGCAGGGCTTCTATCTTCGATGGTAATCTTTTAGAGTGTGTAggttggttagactacttttccaatcaaggaaaacagctgtttacaccacgg Alignment from CESAR acATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTAC-TACGATGGCAACCTGCTGGAGTGCGTGg aaatctgagtgttagcccactggcacctcagccggtgctcctctccacagacACTGATGAATGCATATTGTTTGGGGCAGAGATCTGTAAGGAGGGTAAATTCGTGAACATGCAGCCTGGCTATGAGTGCTATTGCAAGCAGGGCTTCTATCTTCGATGGTAATCTTTTAGAGTGTGTAggttggttagactacttttccaatcaaggaaaacagctgtttaacccctgc Alignment from Spaln_aa2Genome ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTAC-TACGATGGCAACCTGCTGGAGTGCGTGG aaatctgagtgttagcccactggcacctcagccggtgctcctctccacagACACTGATGAATGCATATTGTTTGGGGCAGAGATCTGTAAGGAGGGTAAATTCGTGAACATGCAGCCTGGCTATGAGTGCTATTGCAAGCAGGGCTTCTATcTTCGATGGTAATCTTTTAGAGTGTGTAGgttggttagactacttttccaatcaaggaaaacagctgtttacaccacgg Alignment from Spaln_nt2Genome ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTA-CTACGATGGCAACCTGCTGGAGTGCGTGG aaatctgagtgttagcccactggcacctcagccggtgctcctctccacagACACTGATGAATGCATATTGTTTGGGGCAGAGATCTGTAAGGAGGGTAAATTCGTGAACATGCAGCCTGGCTATGAGTGCTATTGCAAGCAGGGCTTCTATCTTCGATGGTAATCTTTTAGAGTGTGTAGgttggttagactacttttccaatcaaggaaaacagctgtttacaccacgg Alignment from Pairagon ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTA-CTACGATGGCAACCTGCTGGAGTGCGTGG aaatctgagtgttagcccactggcacctcagccggtgctcctctccacagACACTGATGAATGCATATTGTTTGGGGCAGAGATCTGTAAGGAGGGTAAATTCGTGAACATGCAGCCTGGCTATGAGTGCTATTGCAAGCAGGGCTTCTATCTTCGATGGTAATCTTTTAGAGTGTGTAGgttggttagactacttttccaatcaaggaaaacagctgtttacaccacgg Alignment from Exonerate_protein2genome ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTAC-TACGATGGCAACCTGCTGGAGTGCGTGG aaatctgagtgttagcccactggcacctcagccggtgctcctctccacagACACTGATGAATGCATATTGTTTGGGGCAGAGATCTGTAAGGAGGGTAAATTCGTGAACATGCAGCCTGGCTATGAGTGCTATTGCAAGCAGGGCTTCTATCTTCGATGGTAATCTTTTAGAGTGTGTAGgttggttagactacttttccaatcaaggaaaacagctgtttacaccacgg Alignment from Exonerate_coding2genome aaatctgagtgttagcccactggcacctcagccggtgctcctctccacagacactgatgaatgcatattgtttggggcagagatctgtaaggagggtaaattcgtgaacatgcagcctggctatgagtgctattgcaagcagggcttctatcttcgatggtaatcttttagagtgtgtaggttggttagactacttttccaatcaaggaaaacagctgtttacaccacgg Alignment from GeneWise ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTAC-TACGATGGCAACCTGCTGGAGTGCGTGG aaatctgagtgttagcccactggcacctcagccggtgctcctctccacagACACTGATGAATGCATATTGTTTGGGGCAGAGATCTGTAAGGAGGGTAAATTCGTGAACATGCAGCCTGGCTATGAGTGCTATTGCAAGCAGGGCTTCTATCTTCGATGGTAATCTTTTAGAGTGTGTAGgttggttagactacttttccaatcaaggaaaacagctgtttacaccacgg #### Ltbp3_ID1272_24 --> 2 - 1 Original Alignment agCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCG-CCACGTGGCACCg ggTCCCAGTGC ataatagcatattcctcttgtttctcaacacttcttttctgccctgccagagCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGCCCCCTAGTGGGACCTGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGCCGTGGGTGGGGG---CAGTGCAGACCATGTCCCCCCACGTGGTACTggtaaagagattcgaaggacagcaatttgtttctttgcagggTCCCAGTGC Alignment from CESAR agCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCG-CCACGTGGCACCg ggTCCCAGTGC ataatagcatattcctcttgtttctcaacacttcttttctgccctgccagagCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGCCCCCTAGTGGGACCTGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGCCGTGGGTGGGGG---CAGTGCAGACCATGTCCCCCCACGTGGTACTggtaaagagattcgaaggatgactccccctggccctgcagggTCCCAGTGC Alignment from Spaln_aa2Genome AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCA-CGTGGCACCG GGTCCCAGTGC ataatagcatattcctcttgtttctcaacacttcttttctgccctgccagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGCCCCCTAGTGGGACCTGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGCCGTGGGTGGGGG---CAGTGCAGACCATGTCCCCCCaCGTGGTACTGgtaaagagattcgaaggacagcaatttgtttctttgcagGGTCCCAGTGC Alignment from Spaln_nt2Genome AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTG-CCCGCCACGTGGCACCG GGTCCCAGTGC ataatagcatattcctcttgtttctcaacacttcttttctgccctgccagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGCCCCCTAGTGGGACCTGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGCCGTGGGTGGGG---GCAGTGCAGACCATGTCCCCCCACGTGGTACTGgtaaagagattcgaaggacagcaatttgtttctttgcagGGTCCCAGTGC Alignment from Pairagon AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTG-CCCGCCACGTGGCACCG GGTCCCAGTGC ataatagcatattcctcttgtttctcaacacttcttttctgccctgccagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGCCCCCTAGTGGGACCTGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGCCGTGGGTGGGG---GCAGTGCAGACCATGTCCCCCCACGTGGTACTGgtaaagagattcgaaggacagcaatttgtttctttgcagGGTCCCAGTGC Alignment from Exonerate_protein2genome AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGC-CCGCCACGTGGCACCG GGTCCCAGTGC ataatagcatattcctcttgtttctcaacacttcttttctgccctgccagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGCCCCCTAGTGGGACCTGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGCCGTGGGTGGGGG---CAGTGCAGACCATGTCCCCCCACGTGGTACTGgtaaagagattcgaaggacagcaatttgtttctttgcagGGTCCCAGTGC Alignment from Exonerate_coding2genome ataatagcatattcctcttgtttctcaacacttcttttctgccctgccagagcatgccccagaaagatgtgaagtatgctggggacagcaaggagaagatggtatgtgtatgggccccctagtgggacctgccctcacttttgatgactgttgttgccgtcaaggccgtgggtgggggcagtgcagaccatgtccccccacgtggtactggtaaagagattcgaaggacagcaatttgtttctttgcagggtcccagtgc Alignment from GeneWise AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCA-CGTGGCACC---------------------------------------GGGTCCCAGTGC ataatagcatattcctcttgtttctcaacacttcttttctgccctgccagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGCCCCCTAGTGGGACCTGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGCCGTGGGTGGGGG---CAGTGCAGACCATGTCCCCCCACGTGGTACTGGTAAAGAGATTCGAAGGACAGCAATTTGTTTCTTTGCAGGGTCCCAGTGC #### Macrod1_ID2052_7 --> 0 - 1 Original Alignment GCTTTCCCGTGCATC-TCCACAGGCGTGTTTg aaatacagagaaactatacgtgtctctgacagcctgcctatctttcttagACGTATCCCTGCATTCTCCACAGGGGTAATTagtaacctgagggggccctggaacatggaataaaagaagactgaggtggtg Alignment from CESAR GCTTTCCCGTGCATC-TCCACAGGCGTGTTTg aaatacagagaaactatacgtgtctctgacagcctgcctatctttcttagACGTATCCCTGCATTCTCCACAGGGGTAATTagtaacctgagggggccctggaacatggaataaaagaagactgaggtggtg Alignment from Spaln_aa2Genome GCTTTCCCGTGCATCTCCACAGGC- aaatacagagaaactatacgtgtctctgacagcctgcctatctttcttagACGTATCCCTGCATTCTCCACAGGGgtaattagtaacctgagggggccctggaacatggaataaaagaagactgaggtggtg Alignment from Spaln_nt2Genome GCTTTCCCGTGCAT-CTCCACAGGCGTGTTTG aaatacagagaaactatacgtgtctctgacagcctgcctatctttcttagACGTATCCCTGCATTCTCCACAGGGGTAATTAgtaacctgagggggccctggaacatggaataaaagaagactgaggtggtg Alignment from Pairagon aaatacagagaaactatacgtgtctctgacagcctgcctatctttcttagacgtatccctgcattctccacaggggtaattagtaacctgagggggccctggaacatggaataaaagaagactgaggtggtg Alignment from Exonerate_protein2genome aaatacagagaaactatacgtgtctctgacagcctgcctatctttcttagacgtatccctgcattctccacaggggtaattagtaacctgagggggccctggaacatggaataaaagaagactgaggtggtg Alignment from Exonerate_coding2genome aaatacagagaaactatacgtgtctctgacagcctgcctatctttcttagacgtatccctgcattctccacaggggtaattagtaacctgagggggccctggaacatggaataaaagaagactgaggtggtg Alignment from GeneWise ----CT aaatacagagaaactatacgtgtctctgacagcctgcctatctttcttagacgtatccctgcattctccacaggggtaattagtaacctgagggggccctggaacatggaataaaagaagactgagGTGGTG #### Macrod1_ID2053_8 --> 2 - 0 Original Alignment gcTACCCCAATGAGGAGGCTGCAGAAGTAGTG-CTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG gaggtggtgggacgcaatatggatttactcatacagcttgctccctccaggcTACCCCAATGAGGAGGCTGCAGAGGTAGTGCCTGGTTTCATTGCAGGAATGGTTGGAGCAACACAAGGACAAGgtgagaccaaattcatgacaggagtttcattagatgaagaggttttattg Alignment from CESAR gcTACCCCAATGAGGAGGCTGCAGAAGTAGTG-CTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG gaggtggtgggacgcaatatggatttactcatacagcttgctccctccaggcTACCCCAATGAGGAGGCTGCAGAGGTAGTGCCTGGTTTCATTGCAGGAATGGTTGGAGCAACACAAGGACAAGgtgagaccaaattcatgacaggagtttcattagatgaagaggttttattg Alignment from Spaln_aa2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTG-CTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG gaggtggtgggacgcaatatggatttactcatacagcttgctccctccagGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGcCTGGTTTCATTGCAGGAATGGTTGGAGCAACACAAGGACAAGgtgagaccaaattcatgacaggagtttcattagatgaagaggttttattg Alignment from Spaln_nt2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGC-TGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG gaggtggtgggacgcaatatggatttactcatacagcttgctccctccagGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCCTGGTTTCATTGCAGGAATGGTTGGAGCAACACAAGGACAAGgtgagaccaaattcatgacaggagtttcattagatgaagaggttttattg Alignment from Pairagon ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGCCTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTGGCTTTCCCGTGCATCTCCACAGGCGTGTTTGGCTACCCCAATGAGGAGGCTGCAGAAGTAGTG-CTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG gaggtggtgggacgcaatatggatttactcatacagcttgctccctccag---------------------------------------------------------------------------------------------------------------------------------------------------------GCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCCTGGTTTCATTGCAGGAATGGTTGGAGCAACACAAGGACAAGgtgagaccaaattcatgacaggagtttcattagatgaagaggttttattg Alignment from Exonerate_protein2genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTG-CTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG gaggtggtgggacgcaatatggatttactcatacagcttgctccctccagGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCCTGGTTTCATTGCAGGAATGGTTGGAGCAACACAAGGACAAGgtgagaccaaattcatgacaggagtttcattagatgaagaggttttattg Alignment from Exonerate_coding2genome gaggtggtgggacgcaatatggatttactcatacagcttgctccctccaggctaccccaatgaggaggctgcagaggtagtgcctggtttcattgcaggaatggttggagcaacacaaggacaaggtgagaccaaattcatgacaggagtttcattagatgaagaggttttattg Alignment from GeneWise GTGCATCTCCACAGGCGTGTTTGGCTACCCCAATGAGGAGGCTGCAGAAGTA-GTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG gaggtggtgggacgcaatatggatttactcatacagCTTGCTCCCTCCAGGC---------TACCCCAATGAGGAGGCTGCAGAGGTAGTGCCTGGTTTCATTGCAGGAATGGTTGGAGCAACACAAGGACAAGgtgagaccaaattcatgacaggagtttcattagatgaagaggttttattg #### March5_ID7302_4 --> 0 - 1 Original Alignment GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATG-ATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAg gcatctatgaaggtgtgaaagcgactttcaaagatcattttgtttttcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTAATGCTGATACTAGGAAAAATGCATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAggtaacacattggtagggtattgcatacaaggcatacatagctaggattaa Alignment from CESAR GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATG-ATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAg gcatctatgaaggtgtgaaagcgactttcaaagatcattttgtttttcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTAATGCTGATACTAGGAAAAATGCATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAggtaacacattggtagggtattgcatacaaggcatacatagctaggattaa Alignment from Spaln_aa2Genome GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATG-ATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG gcatctatgaaggtgtgaaagcgactttcaaagatcattttgtttttcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTAATGCTGATACTAGGAAAAATGcATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtaacacattggtagggtattgcatacaaggcatacatagctaggattaa Alignment from Spaln_nt2Genome GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATG-ATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG gcatctatgaaggtgtgaaagcgactttcaaagatcattttgtttttcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTAATGCTGATACTAGGAAAAATGCATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtaacacattggtagggtattgcatacaaggcatacatagctaggattaa Alignment from Pairagon GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATG-ATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG gcatctatgaaggtgtgaaagcgactttcaaagatcattttgtttttcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTAATGCTGATACTAGGAAAAATGCATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtaacacattggtagggtattgcatacaaggcatacatagctaggattaa Alignment from Exonerate_protein2genome GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATG-ATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG gcatctatgaaggtgtgaaagcgactttcaaagatcattttgtttttcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTAATGCTGATACTAGGAAAAATGCATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtaacacattggtagggtattgcatacaaggcatacatagctaggattaa Alignment from Exonerate_coding2genome GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATG-ATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG gcatctatgaaggtgtgaaagcgactttcaaagatcattttgtttttcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTAATGCTGATACTAGGAAAAATGCATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtaacacattggtagggtattgcatacaaggcatacatagctaggattaa Alignment from GeneWise GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATG-ATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG gcatctatgaaggtgtgaaagcgactttcaaagatcattttgtttttcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTAATGCTGATACTAGGAAAAATGCATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtaacacattggtagggtattgcatacaaggcatacatagctaggattaa #### Mark2_ID2106_15 --> 1 - 2 Original Alignment cCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAATCC-ATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCag cccatctgactcttaactcagcaggttttttaattcccgtcctttttcagcCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCGGCCCCGCCAGCACCAGAAATCCCATGTCTGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCaggtaagtctacagagatacttatacatctatggcaccatgctggacactca Alignment from CESAR cCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAATCC-ATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCag cccatctgactcttaactcagcaggttttttaattcccgtcctttttcagcCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCGGCCCCGCCAGCACCAGAAATCCCATGTCTGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCaggtaagtctacagagatacttatacatctatggcaccatgctggacactca Alignment from Spaln_aa2Genome CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAATCC-ATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccatctgactcttaactcagcaggttttttaattcccgtcctttttcagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCGGCCCCGCCAGCACCAGAAATCCcATGTCTGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaagtctacagagatacttatacatctatggcaccatgctggacactca Alignment from Spaln_nt2Genome CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAG-AAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccatctgactcttaactcagcaggttttttaattcccgtcctttttcagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCGGCCCCGCCAGCACCAGAAATCCCATGTCTGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaagtctacagagatacttatacatctatggcaccatgctggacactca Alignment from Pairagon CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAAT-CCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccatctgactcttaactcagcaggttttttaattcccgtcctttttcagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCGGCCCCGCCAGCACCAGAAATCCCATGTCTGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaagtctacagagatacttatacatctatggcaccatgctggacactca Alignment from Exonerate_protein2genome CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAATCC-ATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccatctgactcttaactcagcaggttttttaattcccgtcctttttcagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCGGCCCCGCCAGCACCAGAAATCCCATGTCTGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaagtctacagagatacttatacatctatggcaccatgctggacactca Alignment from Exonerate_coding2genome CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAATCC-ATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccatctgactcttaactcagcaggttttttaattcccgtcctttttcagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCGGCCCCGCCAGCACCAGAAATCCCATGTCTGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaagtctacagagatacttatacatctatggcaccatgctggacactca Alignment from GeneWise CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAA-TCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccatctgactcttaactcagcaggttttttaattcccgtcctttttcagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCGGCCCCGCCAGCACCAGAAATCCCATGTCTGCCTCTGTGCACCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaagtctacagagatacttatacatctatggcaccatgctggacactca #### Mark2_ID2107_14 --> 0 - 2 Original Alignment AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCC-AGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACag gactaagtgcactactttagaggcaataattctcctttttcttcatgaagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCCAGTCTTGGCCAGGCTTCCATTCAGAATGGAAAAGACaggtataataattaactctggttcctttcccaaagaagtatgctgtgcttta Alignment from CESAR AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCC-AGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACag gactaagtgcactactttagaggcaataattctcctttttcttcatgaagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCCAGTCTTGGCCAGGCTTCCATTCAGAATGGAAAAGACaggtataataattaactctggttcctttcccaaagaagtatgctgtgcttta Alignment from Spaln_aa2Genome AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCC-AGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG gactaagtgcactactttagaggcaataattctcctttttcttcatgaagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCcAGTCTTGGCCAGGCTTCCATTCAGAATGGAAAAGACAGgtataataattaactctggttcctttcccaaagaagtatgctgtgcttta Alignment from Spaln_nt2Genome AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGC-CAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG gactaagtgcactactttagaggcaataattctcctttttcttcatgaagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCCAGTCTTGGCCAGGCTTCCATTCAGAATGGAAAAGACAGgtataataattaactctggttcctttcccaaagaagtatgctgtgcttta Alignment from Pairagon AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGG-CCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG gactaagtgcactactttagaggcaataattctcctttttcttcatgaagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCCAGTCTTGGCCAGGCTTCCATTCAGAATGGAAAAGACAGgtataataattaactctggttcctttcccaaagaagtatgctgtgcttta Alignment from Exonerate_protein2genome AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCC-AGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG gactaagtgcactactttagaggcaataattctcctttttcttcatgaagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCCAGTCTTGGCCAGGCTTCCATTCAGAATGGAAAAGACAGgtataataattaactctggttcctttcccaaagaagtatgctgtgcttta Alignment from Exonerate_coding2genome AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCC-AGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG gactaagtgcactactttagaggcaataattctcctttttcttcatgaagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCCAGTCTTGGCCAGGCTTCCATTCAGAATGGAAAAGACAGgtataataattaactctggttcctttcccaaagaagtatgctgtgcttta Alignment from GeneWise AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCC-AGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG gactaagtgcactactttagaggcaataattctcctttttcttcatgaagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCCAGTCTTGGCCAGGCTTCCATTCAGAATGGAAAAGACAGgtataataattaactctggttcctttcccaaagaagtatgctgtgcttta #### Mark2_ID2111_10 --> 0 - 1 Original Alignment CAAATTATG---------------AAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGAC-CCCCGGCGGACAg tttgaaaatagttacattttgctctctgtgcttgtgttttttgactgtagCAAATCATGGAGGATCAGTGGATGAAAGATCAGTGGATGAATGTTGGGCATGAGGATGTTGAACTAAAGATTTATGTGCAACCCTTTCCTGACTATAGGGCACCCACGGCAAACAggtaagtctgtgtggtgctgcatgtctgaggtagggccacgttgtgttaat Alignment from CESAR CAAATT---------------ATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCC-CGGCGGACAg tttgaaaatagttacattttgctctctgtgcttgtgttttttgactgtagCAAATCATGGAGGATCAGTGGATGAAAGATCAGTGGATGAATGTTGGGCATGAGGATGTTGAACTAAAGATTTATGTGCAACCCTTTCCTGACTATAGGGCACCCACGGCAAACAggtaagtctgtgtggtgctgcatgtctgaggtagggccacgttgtgttaat Alignment from Spaln_aa2Genome CAAATT---------------ATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCC-CGGCGGACAG tttgaaaatagttacattttgctctctgtgcttgtgttttttgactgtagCAAATCATGGAGGATCAGTGGATGAAAGATCAGTGGATGAATGTTGGGCATGAGGATGTTGAACTAAAGATTTATGTGCAACCCTTTCCTGACTATAGGGCACCCaCGGCAAACAGgtaagtctgtgtggtgctgcatgtctgaggtagggccacgttgtgttaat Alignment from Spaln_nt2Genome CAAATTATG---------------AAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGG-ACCCCCGGCGGACAG tttgaaaatagttacattttgctctctgtgcttgtgttttttgactgtagCAAATCATGGAGGATCAGTGGATGAAAGATCAGTGGATGAATGTTGGGCATGAGGATGTTGAACTAAAGATTTATGTGCAACCCTTTCCTGACTATAGGGCACCCACGGCAAACAGgtaagtctgtgtggtgctgcatgtctgaggtagggccacgttgtgttaat Alignment from Pairagon CAAATT---------------ATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGG-ACCCCCGGCGGACAG tttgaaaatagttacattttgctctctgtgcttgtgttttttgactgtagCAAATCATGGAGGATCAGTGGATGAAAGATCAGTGGATGAATGTTGGGCATGAGGATGTTGAACTAAAGATTTATGTGCAACCCTTTCCTGACTATAGGGCACCCACGGCAAACAGgtaagtctgtgtggtgctgcatgtctgaggtagggccacgttgtgttaat Alignment from Exonerate_protein2genome CAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAG-GACCCCCGGCGGACAG tttgaaaatagttacattttgctctctgtgcttgtgttttttgactgtagcaaatcatggaggatCAGTGGATGAAAGATCAGTGGATGAATGTTGGGCATGAGGATGTTGAACTAAAGATTTATGTGCAACCCTTTCCTGACTATAGGGCACCCACGGCAAACAGgtaagtctgtgtggtgctgcatgtctgaggtagggccacgttgtgttaat Alignment from Exonerate_coding2genome tttgaaaatagttacattttgctctctgtgcttgtgttttttgactgtagcaaatcatggaggatcagtggatgaaagatcagtggatgaatgttgggcatgaggatgttgaactaaagatttatgtgcaaccctttcctgactatagggcacccacggcaaacaggtaagtctgtgtggtgctgcatgtctgaggtagggccacgttgtgttaat Alignment from GeneWise ---CAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACA-- tttgaaaatagttacattttgctctctgtgcttgtgttttttgactgtagcaaatcatggagGATCAGTGGATGAAAGATCAGTGGATGAATGTTGGGCATGAGGATGTTGAACTAAAGATTTATGTGCAACCCTTTCCTGACTATAGGGCACCCACGGCAAACAGgtaagtctgtgtggtgctgcatgtctgaggtagggccacgttgtgttaat #### Mark2_ID2113_8 --> 0 - 0 Original Alignment GCAGAAAACCTGCTCCTGGATGCTGATATGAACATCAAGATTGCAGACTTTGGCTTTAGCAACGAATTCACCTTTGGGAACAAGCTGGATACTTTCTGTGGCAGTCCTCCTTATGCTGCCCCAGAACTTTTCCAGGGCAAAAAGTATGATGGTCCTGAGGTGGATGTCTGGAGCCTGGGA-GTCATCCTCTATACACTGGTCAGCGGATCCCTGCCTTTTGATGGACAGAACCTCAAG gagcctgtatgaattgtcaatatccctcgggtattgtccctggcttgtagTCAGAGAAGCTACTTTTGGATGCTGATATGAACATTAAGATTGCAGACTTTGGATTTAGCAATAAGTTCACTTTTGGGAATGTTCTGGACACTTTTTGTGGCAGTCCTCCTTATGCTGCTCCAGAGTATTATCAAGCCAAAAAGTATGATGGCCATGAAGTAGATGTTTGGAGCCTTGGACGTCATTCTTTATACACTA------GGATCTCTGCCCTTTGATGGCCGAAATTTAATGgtacatgaactgagcatgaacagctttttgctttgaggccttcttggacc Alignment from CESAR GCAGAAAACCTGCTCCTGGATGCTGATATGAACATCAAGATTGCAGACTTTGGCTTTAGCAACGAATTCACCTTTGGGAACAAGCTGGATACTTTCTGTGGCAGTCCTCCTTATGCTGCCCCAGAACTTTTCCAGGGCAAAAAGTATGATGGTCCTGAGGTGGATGTCTGGAGCCTGGGA-GTCATCCTCTATACACTGGTCAGCGGATCCCTGCCTTTTGATGGACAGAACCTCAAG gagcctgtatgaattgtcaatatccctcgggtattgtccctggcttgtagTCAGAGAAGCTACTTTTGGATGCTGATATGAACATTAAGATTGCAGACTTTGGATTTAGCAATAAGTTCACTTTTGGGAATGTTCTGGACACTTTTTGTGGCAGTCCTCCTTATGCTGCTCCAGAGTATTATCAAGCCAAAAAGTATGATGGCCATGAAGTAGATGTTTGGAGCCTTGGACGTCATTCTTTATACACTA------GGATCTCTGCCCTTTGATGGCCGAAATTTAATGgtacatgaactgagcatgaacagctttttgctttgaggccttcttggacc Alignment from Spaln_aa2Genome GCAGAAAACCTGCTCCTGGATGCTGATATGAACATCAAGATTGCAGACTTTGGCTTTAGCAACGAATTCACCTTTGGGAACAAGCTGGATACTTTCTGTGGCAGTCCTCCTTATGCTGCCCCAGAACTTTTCCAGGGCAAAAAGTATGATGGTCCTGAGGTGGATGTCTGGAGCCTGGGA-GTCATCCTCTATACACTGGTCAGCGGATCCCTGCCTTTTGATGGACAGAACCTCAAG gagcctgtatgaattgtcaatatccctcgggtattgtccctggcttgtagTCAGAGAAGCTACTTTTGGATGCTGATATGAACATTAAGATTGCAGACTTTGGATTTAGCAATAAGTTCACTTTTGGGAATGTTCTGGACACTTTTTGTGGCAGTCCTCCTTATGCTGCTCCAGAGTATTATCAAGCCAAAAAGTATGATGGCCATGAAGTAGATGTTTGGAGCCTTGGAcGTCATTCTTTATACACTA------GGATCTCTGCCCTTTGATGGCCGAAATTTAATGgtacatgaactgagcatgaacagctttttgctttgaggccttcttggacc Alignment from Spaln_nt2Genome GCAGAAAACCTGCTCCTGGATGCTGATATGAACATCAAGATTGCAGACTTTGGCTTTAGCAACGAATTCACCTTTGGGAACAAGCTGGATACTTTCTGTGGCAGTCCTCCTTATGCTGCCCCAGAACTTTTCCAGGGCAAAAAGTATGATGGTCCTGAGGTGGATGTCTGGAGCCTGGGA-GTCATCCTCTATACACTGGTCAGCGGATCCCTGCCTTTTGATGGACAGAACCTCAAG gagcctgtatgaattgtcaatatccctcgggtattgtccctggcttgtagTCAGAGAAGCTACTTTTGGATGCTGATATGAACATTAAGATTGCAGACTTTGGATTTAGCAATAAGTTCACTTTTGGGAATGTTCTGGACACTTTTTGTGGCAGTCCTCCTTATGCTGCTCCAGAGTATTATCAAGCCAAAAAGTATGATGGCCATGAAGTAGATGTTTGGAGCCTTGGACGTCATTCTTTATACACT------AGGATCTCTGCCCTTTGATGGCCGAAATTTAATGgtacatgaactgagcatgaacagctttttgctttgaggccttcttggacc Alignment from Pairagon GCAGAAAACCTGCTCCTGGATGCTGATATGAACATCAAGATTGCAGACTTTGGCTTTAGCAACGAATTCACCTTTGGGAACAAGCTGGATACTTTCTGTGGCAGTCCTCCTTATGCTGCCCCAGAACTTTTCCAGGGCAAAAAGTATGATGGTCCTGAGGTGGATGTCTGGAGCCTGGGA-GTCATCCTCTATACACTGGTCAGCGGATCCCTGCCTTTTGATGGACAGAACCTCAAG gagcctgtatgaattgtcaatatccctcgggtattgtccctggcttgtagTCAGAGAAGCTACTTTTGGATGCTGATATGAACATTAAGATTGCAGACTTTGGATTTAGCAATAAGTTCACTTTTGGGAATGTTCTGGACACTTTTTGTGGCAGTCCTCCTTATGCTGCTCCAGAGTATTATCAAGCCAAAAAGTATGATGGCCATGAAGTAGATGTTTGGAGCCTTGGACGTCATTCTTTATACACTA------GGATCTCTGCCCTTTGATGGCCGAAATTTAATGgtacatgaactgagcatgaacagctttttgctttgaggccttcttggacc Alignment from Exonerate_protein2genome GCAGAAAACCTGCTCCTGGATGCTGATATGAACATCAAGATTGCAGACTTTGGCTTTAGCAACGAATTCACCTTTGGGAACAAGCTGGATACTTTCTGTGGCAGTCCTCCTTATGCTGCCCCAGAACTTTTCCAGGGCAAAAAGTATGATGGTCCTGAGGTGGATGTCTGGAGCCTGGGA-GTCATCCTCTATACACTGGTCAGCGGATCCCTGCCTTTTGATGGACAGAACCTCAAG gagcctgtatgaattgtcaatatccctcgggtattgtccctggcttgtagTCAGAGAAGCTACTTTTGGATGCTGATATGAACATTAAGATTGCAGACTTTGGATTTAGCAATAAGTTCACTTTTGGGAATGTTCTGGACACTTTTTGTGGCAGTCCTCCTTATGCTGCTCCAGAGTATTATCAAGCCAAAAAGTATGATGGCCATGAAGTAGATGTTTGGAGCCTTGGACGTCATTCTTTATACACTA------GGATCTCTGCCCTTTGATGGCCGAAATTTAATGgtacatgaactgagcatgaacagctttttgctttgaggccttcttggacc Alignment from Exonerate_coding2genome gagcctgtatgaattgtcaatatccctcgggtattgtccctggcttgtagtcagagaagctacttttggatgctgatatgaacattaagattgcagactttggatttagcaataagttcacttttgggaatgttctggacactttttgtggcagtcctccttatgctgctccagagtattatcaagccaaaaagtatgatggccatgaagtagatgtttggagccttggacgtcattctttatacactaggatctctgccctttgatggccgaaatttaatggtacatgaactgagcatgaacagctttttgctttgaggccttcttggacc Alignment from GeneWise GCAGAAAACCTGCTCCTGGATGCTGATATGAACATCAAGATTGCAGACTTTGGCTTTAGCAACGAATTCACCTTTGGGAACAAGCTGGATACTTTCTGTGGCAGTCCTCCTTATGCTGCCCCAGAACTTTTCCAGGGCAAAAAGTATGATGGTCCTGAGGTGGATGTCTGGAGCCTGGGA-GTCATCCTCTATACACTGGTCAGCGGATCCCTGCCTTTTGATGGACAGAACCTCAAG gagcctgtatgaattgtcaatatccctcgggtattgtccctggcttgtagTCAGAGAAGCTACTTTTGGATGCTGATATGAACATTAAGATTGCAGACTTTGGATTTAGCAATAAGTTCACTTTTGGGAATGTTCTGGACACTTTTTGTGGCAGTCCTCCTTATGCTGCTCCAGAGTATTATCAAGCCAAAAAGTATGATGGCCATGAAGTAGATGTTTGGAGCCTTGGACGTCATTCTTTATACACTA------GGATCTCTGCCCTTTGATGGCCGAAATTTAATGgtacatgaactgagcatgaacagctttttgctttgaggccttcttggacc #### Mark2_ID2114_7 --> 0 - 0 Original Alignment ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCAT-AGAGATCTAAAG atgctttggtgtatcattctaataggctctgcccacttctttctcctcagATAGTGTCCGCTGTGCAATACTGTCACCAAAAGTTCATTGTCCATCAGAGATCTAAAGgtgaggggtgttgctgtccccaaattctgctgtgagggggccaggcagct Alignment from CESAR ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCAT-AGAGATCTAAAG atgctttggtgtatcattctaataggctctgcccacttctttctcctcagATAGTGTCCGCTGTGCAATACTGTCACCAAAAGTTCATTGTCCATCAGAGATCTAAAGgtgaggggtgttgctgtccccaaattctgctgtgagggggccaggcagct Alignment from Spaln_aa2Genome ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG- atgctttggtgtatcattctaataggctctgcccacttctttctcctcagATAGTGTCCGCTGTGCAATACTGTCACCAAAAGTTCATTGTCCATCAGAGATCTAAAGgtgaggggtgttgctgtccccaaattctgctgtgagggggccaggcagct Alignment from Spaln_nt2Genome ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCAT-AGAGATCTAAAG atgctttggtgtatcattctaataggctctgcccacttctttctcctcagATAGTGTCCGCTGTGCAATACTGTCACCAAAAGTTCATTGTCCATCAGAGATCTAAAGgtgaggggtgttgctgtccccaaattctgctgtgagggggccaggcagct Alignment from Pairagon ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCAT-AGAGATCTAAAG atgctttggtgtatcattctaataggctctgcccacttctttctcctcagATAGTGTCCGCTGTGCAATACTGTCACCAAAAGTTCATTGTCCATCAGAGATCTAAAGgtgaggggtgttgctgtccccaaattctgctgtgagggggccaggcagct Alignment from Exonerate_protein2genome ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCAT-AGAGATCTAAAG atgctttggtgtatcattctaataggctctgcccacttctttctcctcagATAGTGTCCGCTGTGCAATACTGTCACCAAAAGTTCATTGTCCATCAGAGATCTAAAGgtgaggggtgttgctgtccccaaattctgctgtgagggggccaggcagct Alignment from Exonerate_coding2genome atgctttggtgtatcattctaataggctctgcccacttctttctcctcagatagtgtccgctgtgcaatactgtcaccaaaagttcattgtccatcagagatctaaaggtgaggggtgttgctgtccccaaattctgctgtgagggggccaggcagct Alignment from GeneWise ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGGCAGAAAAC- atgctttggtgtatcattctaataggctctgcccacttctttctcctcagATAGTGTCCGCTGTGCAATACTGTCACCAAAAGTTCATTGTCCATCAGAGATCTAAAGGTGAGGGGTgttgctgtccccaaattctgctgtgagggggccaggcagct #### Mark2_ID2116_5 --> 2 - 1 Original Alignment ttAAGTTGTTTGAAGTGATCGAGACT-GAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCg ctacttctagctggtatcattcaactccggacaagggccttctctttcagtcAAGTGGTTTGATATC------GTTCGAGAAGACACTTTACTTAGTAATGGAGTATGCCAGTGGTggtaagactcaagttgctcccattgtctgttggtgcttgtctatgtacaga Alignment from CESAR ttAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCg ctacttctagctggtatcattcaactccggacaagggccttctctttcagtcAAGTGGTTTGATATCGTT-----CGAGAAGACACTTTACTTAGTAATGGAGTATGCCAGTGGTggtaagactcaagttgctcccattgtctgttggtgcttgtctatgtacaga Alignment from Spaln_aa2Genome TTAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCG ctacttctagctggtatcattcaactccggacaagggccttctctttcagTCAAGTGGTTTGATATCGTTC-----GAGAAGACACTTTACTTAGTAATGGAGTATGCCAGTGGTGgtaagactcaagttgctcccattgtctgttggtgcttgtctatgtacaga Alignment from Spaln_nt2Genome TTAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCG ctacttctagctggtatcattcaactccggacaagggccttctctttcagTCAAGTGGTTTGA---TATC--GTTCGAGAAGACACTTTACTTAGTAATGGAGTATGCCAGTGGTGgtaagactcaagttgctcccattgtctgttggtgcttgtctatgtacaga Alignment from Pairagon TTAAGTTGTTTGAAGTGATCGAGACT-------GAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCG ctacttctagctggtatcattcaactccggacaagggccttctctttcagTCAAGTGGTTTGA------------TATCGTTCGAGAAGACACTTTACTTAGTAATGGAGTATGCCAGTGGTGgtaagactcaagttgctcccattgtctgttggtgcttgtctatgtacaga Alignment from Exonerate_protein2genome TTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCG ctacttctagctggtatcattcaactccggacaagggccttctctttcagTCAAGTGGTTTGATATCGTTCGAGAAGACACTTTACTTAGTAATGGAGTATGCCAGTGGTGgtaagactcaagttgctcccattgtctgttggtgcttgtctatgtacaga Alignment from Exonerate_coding2genome ctacttctagctggtatcattcaactccggacaagggccttctctttcagtcaagtggtttgatatcgttcgagaagacactttacttagtaatggagtatgccagtggtggtaagactcaagttgctcccattgtctgttggtgcttgtctatgtacaga Alignment from GeneWise GTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCG ctacttctagctggtatcattcaactccggacaagggccttctctttcagtcaagT------GGTTTGATATCGTTCGAGAAGACACTTTACTTAGTAATGGAGTATGCCAGTGGTGgtaagactcaagttgctcccattgtctgttggtgcttgtctatgtacaga #### Mgea5_ID9593_8 --> 2 - 1 Original Alignment ctGACAGTGAAGACAGTACTGTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCACAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTC-CCTCATCAGTACAGCa ccttaggagtcccctgaaggggggatccgccccacttcttctcccttcagctGACAGTGAAGATAGTATGGTTTCAATACACGTAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGACGTCCTGTACAGTCCACAGATGGCCTTTAAGTTAGCCCTAACTGAATGGTTGCAAGAGATTGGTGTCCCCTCACCAATACAGCagttagttgagctgtgagcctcccaggctgcagtacttgtataaatccctc Alignment from CESAR ctGACAGTGAAGACAGTACTGTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCACAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTC-CCTCATCAGTACAGCa ccttaggagtcccctgaaggggggatccgccccacttcttctcccttcagctGACAGTGAAGATAGTATGGTTTCAATACACGTAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGACGTCCTGTACAGTCCACAGATGGCCTTTAAGTTAGCCCTAACTGAATGGTTGCAAGAGATTGGTGTCCCCTCACCAATACAGCagttagttgagctgtgagcctcccaggctgcagtacttgtataaatccctc Alignment from Spaln_aa2Genome CTGACAGTGAAGACAGTACTGTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCACAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTC-CCTCATCAGTACAGCA ccttaggagtcccctgaaggggggatccgccccacttcttctcccttcagCTGACAGTGAAGATAGTATGGTTTCAATACACGTAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGACGTCCTGTACAGTCCACAGATGGCCTTTAAGTTAGCCCTAACTGAATGGTTGCAAGAGATTGGTGTCcCCTCACCAATACAGCAgttagttgagctgtgagcctcccaggctgcagtacttgtataaatccctc Alignment from Spaln_nt2Genome CTGACAGTGAAGACAGTACTGTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCACAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTCCC-TCATCAGTACAGCA ccttaggagtcccctgaaggggggatccgccccacttcttctcccttcagCTGACAGTGAAGATAGTATGGTTTCAATACACGTAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGACGTCCTGTACAGTCCACAGATGGCCTTTAAGTTAGCCCTAACTGAATGGTTGCAAGAGATTGGTGTCCCCTCACCAATACAGCAgttagttgagctgtgagcctcccaggctgcagtacttgtataaatccctc Alignment from Pairagon CTGACAGTGAAGACAGTACTGTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCACAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGT-CCCTCATCAGTACAGCA ccttaggagtcccctgaaggggggatccgccccacttcttctcccttcagCTGACAGTGAAGATAGTATGGTTTCAATACACGTAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGACGTCCTGTACAGTCCACAGATGGCCTTTAAGTTAGCCCTAACTGAATGGTTGCAAGAGATTGGTGTCCCCTCACCAATACAGCAgttagttgagctgtgagcctcccaggctgcagtacttgtataaatccctc Alignment from Exonerate_protein2genome CTGACAGTGAAGACAGTACTGTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCACAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTC-CCTCATCAGTACAGCA ccttaggagtcccctgaaggggggatccgccccacttcttctcccttcagCTGACAGTGAAGATAGTATGGTTTCAATACACGTAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGACGTCCTGTACAGTCCACAGATGGCCTTTAAGTTAGCCCTAACTGAATGGTTGCAAGAGATTGGTGTCCCCTCACCAATACAGCAgttagttgagctgtgagcctcccaggctgcagtacttgtataaatccctc Alignment from Exonerate_coding2genome CTGACAGTGAAGACAGTACTGTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCACAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTC-CCTCATCAGTACAGCA ccttaggagtcccctgaaggggggatccgccccacttcttctcccttcagCTGACAGTGAAGATAGTATGGTTTCAATACACGTAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGACGTCCTGTACAGTCCACAGATGGCCTTTAAGTTAGCCCTAACTGAATGGTTGCAAGAGATTGGTGTCCCCTCACCAATACAGCAgttagttgagctgtgagcctcccaggctgcagtacttgtataaatccctc Alignment from GeneWise CTGACAGTGAAGACAGTACTGTATCAATACAGATAAAGTTAGAAAATGAAGGCAGTGACGAAGACATTGAGACTGATGTTCTCTACAGCCCACAGATGGCTTTAAAGCTGGCTTTAACTGAGTGGCTGCAGGAGTTCGGTGTCCCT---------CATCAGTACAGCAGTAG ccttaggagtcccctgaaggggggatccgccccacttcttctcccttcagCTGACAGTGAAGATAGTATGGTTTCAATACACGTAAAGCTGGAGAATGAGGATGGTGACAAAGACATTGACACTGACGTCCTGTACAGTCCACAGATGGCCTTTAAGTTAGCCCTAACTGAATGGTTGCAAGAGATTGGTGTCCCCTCACCAATACAGCAGTTAGTTGAGCTgtgagcctcccaggctgcagtacttgtataaatccctc #### Mrpl16_ID3289_2 --> 2 - 1 Original Alignment atTCTTGGGCAGCCCTTCCCACCAGTGCT-GGTCTGAAGACGCTCCTCCCAGTTCCAACTTTTGAAa aaggggtgtgagcacctatataaacctcaagtttctgtctgtctttgaagatGCT---GCAACTCTTCCCACCAGTGATCGGTCTAAAAACTCTTTTCCCTGTTCCAACATATGAAagtactatgtaccctgaggattactacataactccagctatgcctcaaatg Alignment from CESAR atTCTTGGGCAGCCCTTCCCACCAGTGCT-GGTCTGAAGACGCTCCTCCCAGTTCCAACTTTTGAAa aaggggtgtgagcacctatataaacctcaagtttctgtctgtctttgaagatGCT---GCAACTCTTCCCACCAGTGATCGGTCTAAAAACTCTTTTCCCTGTTCCAACATATGAAagtactatgtaccctgaggattactacataactccagctatgcctcaaatg Alignment from Spaln_aa2Genome GTGCTGGTCTGAAGACGCTCCTCCCAGTTCCAACTTTTGAAA aaggggtgtgagcacctatataaacctcaagtttctgtctgtctttgaagatgctgcaactcttcccaccagTGATCGGTCTAAAAACTCTTTTCCCTGTTCCAACATATGAAAgtactatgtaccctgaggattactacataactccagctatgcctcaaatg Alignment from Spaln_nt2Genome ATTCTTGGGCAGCCCTTCCCACCAGTGCT-GGTCTGAAGACGCTCCTCCCAGTTCCAACTTTTGAAA aaggggtgtgagcacctatataaacctcaagtttctgtctgtctttgaagATGCT---GCAACTCTTCCCACCAGTGATCGGTCTAAAAACTCTTTTCCCTGTTCCAACATATGAAAgtactatgtaccctgaggattactacataactccagctatgcctcaaatg Alignment from Pairagon ATTCTTGGGCAGCCCTTCCCACCAGTGCT-GGTCTGAAGACGCTCCTCCCAGTTCCAACTTTTGAAA aaggggtgtgagcacctatataaacctcaagtttctgtctgtctttgaagATGCT---GCAACTCTTCCCACCAGTGATCGGTCTAAAAACTCTTTTCCCTGTTCCAACATATGAAAgtactatgtaccctgaggattactacataactccagctatgcctcaaatg Alignment from Exonerate_protein2genome ATTCTTGGGCAGCCCTTCCCACCAGT-GCTGGTCTGAAGACGCTCCTCCCAGTTCCAACTTTTGAAA aaggggtgtgagcacctatataaacctcaagtttctgtctgtctttgAAGATGCTGCAACTCTTCCCACCAGTGATCGGTCTAAAAACTCTTTTCCCTGTTCCAACATATGAAAgtactatgtaccctgaggattactacataactccagctatgcctcaaatg Alignment from Exonerate_coding2genome aaggggtgtgagcacctatataaacctcaagtttctgtctgtctttgaagatgctgcaactcttcccaccagtgatcggtctaaaaactcttttccctgttccaacatatgaaagtactatgtaccctgaggattactacataactccagctatgcctcaaatg Alignment from GeneWise GTGCTGGTCTGAAGACGCTCCTCCCAGTTCCAACTTTTGAAA aaggggtgtgagcacctatataaacctcaagtttctgtctgtctttgaagatgctgcaactcttcccaccagTGATCGGTCTAAAAACTCTTTTCCCTGTTCCAACATATGAAAgtactatgtaccctgaggattactacataactccagctatgcctcaaatg #### Mrpl43_ID9260_2 --> 1 - 1 Original Alignment gGAGTTCGTGGAACGCGAGGTG-ACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACc ggcacaaaacttagaactagcttaatacgtttgactgactttgtccccagaGAGTTAGTTGAACGTGAGGTTCACTGACTTTGCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACtgtatgtccagctgaatgagggcaggggtatcaagtatttaatatgtcata Alignment from CESAR gGAGTTCGTGGAACGCGAGGTG-ACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACc ggcacaaaacttagaactagcttaatacgtttgactgactttgtccccagaGAGTTAGTTGAACGTGAGGTTCACTGACTTTGCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACtgtatgtccagctgaatgagggcaggggtatcaagtatttaatatgtcata Alignment from Spaln_aa2Genome GGAGTTCGTGGAACGCGAGGTG-ACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcttaatacgtttgactgactttgtccccagAGAGTTAGTTGAACGTGAGGTTcACTGACTTTGCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtatgtccagctgaatgagggcaggggtatcaagtatttaatatgtcata Alignment from Spaln_nt2Genome GGAGTTCGTGGAACGCGAGGTG-ACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcttaatacgtttgactgactttgtccccagAGAGTTAGTTGAACGTGAGGTTCACTGACTTTGCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtatgtccagctgaatgagggcaggggtatcaagtatttaatatgtcata Alignment from Pairagon GGAGTTCGTGGAACGCGAGG-TGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcttaatacgtttgactgactttgtccccagAGAGTTAGTTGAACGTGAGGTTCACTGACTTTGCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtatgtccagctgaatgagggcaggggtatcaagtatttaatatgtcata Alignment from Exonerate_protein2genome GGAGTTCGTGGAACGCGAGGTG-ACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcttaatacgtttgactgactttgtccccagAGAGTTAGTTGAACGTGAGGTTCACTGACTTTGCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtatgtccagctgaatgagggcaggggtatcaagtatttaatatgtcata Alignment from Exonerate_coding2genome GGAGTTCGTGGAACGCGAGGTG-ACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcttaatacgtttgactgactttgtccccagAGAGTTAGTTGAACGTGAGGTTCACTGACTTTGCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtatgtccagctgaatgagggcaggggtatcaagtatttaatatgtcata Alignment from GeneWise GGAGTTCGTGGAACGCGAG-GTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcttaatacgtttgactgactttgtccccagAGAGTTAGTTGAACGTGAGGTTCACTGACTTTGCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTTGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtatgtccagctgaatgagggcaggggtatcaagtatttaatatgtcata #### Ms4a10_ID3085_2 --> 0 - 0 Original Alignment GGCTTTCACATCGCC-ATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccaaccacagatcagcattagtaaggctttctgtgtcctcactttcagGGATTTCACATTACCCATTGCCTTTGCTCATCTAGCCTTCGGTGGGTACTTGATCTCCACAGTCAAGAATCTGCACCTTGTGGTACTGAAATGTTGGTATCCACTTTGGGGAACAGTCTCAgtaagggagtgcctatagcaaccagtgaggtgcctacggatgactacaaa Alignment from CESAR GGCTTTCACATCGCC-ATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccaaccacagatcagcattagtaaggctttctgtgtcctcactttcagGGATTTCACATTACCCATTGCCTTTGCTCATCTAGCCTTCGGTGGGTACTTGATCTCCACAGTCAAGAATCTGCACCTTGTGGTACTGAAATGTTGGTATCCACTTTGGGGAACAGTCTCAgtaagggagtgcctatagcaaccagtgaggtgcctacggatgactacaaa Alignment from Spaln_aa2Genome GGCTTTCACATC-GCCATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccaaccacagatcagcattagtaaggctttctgtgtcctcactttcagGGATTTCACATTaCCCATTGCCTTTGCTCATCTAGCCTTCGGTGGGTACTTGATCTCCACAGTCAAGAATCTGCACCTTGTGGTACTGAAATGTTGGTATCCACTTTGGGGAACAGTCTCAgtaagggagtgcctatagcaaccagtgaggtgcctacggatgactacaaa Alignment from Spaln_nt2Genome GGCTTTCACATCGCC-ATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccaaccacagatcagcattagtaaggctttctgtgtcctcactttcagGGATTTCACATTACCCATTGCCTTTGCTCATCTAGCCTTCGGTGGGTACTTGATCTCCACAGTCAAGAATCTGCACCTTGTGGTACTGAAATGTTGGTATCCACTTTGGGGAACAGTCTCAgtaagggagtgcctatagcaaccagtgaggtgcctacggatgactacaaa Alignment from Pairagon GGCTTTCACATCG-CCATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccaaccacagatcagcattagtaaggctttctgtgtcctcactttcagGGATTTCACATTACCCATTGCCTTTGCTCATCTAGCCTTCGGTGGGTACTTGATCTCCACAGTCAAGAATCTGCACCTTGTGGTACTGAAATGTTGGTATCCACTTTGGGGAACAGTCTCAgtaagggagtgcctatagcaaccagtgaggtgcctacggatgactacaaa Alignment from Exonerate_protein2genome GGCTTTCACATCGCC-ATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccaaccacagatcagcattagtaaggctttctgtgtcctcactttcagGGATTTCACATTACCCATTGCCTTTGCTCATCTAGCCTTCGGTGGGTACTTGATCTCCACAGTCAAGAATCTGCACCTTGTGGTACTGAAATGTTGGTATCCACTTTGGGGAACAGTCTCAgtaagggagtgcctatagcaaccagtgaggtgcctacggatgactacaaa Alignment from Exonerate_coding2genome GGCTTTCACATCGCC-ATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccaaccacagatcagcattagtaaggctttctgtgtcctcactttcagGGATTTCACATTACCCATTGCCTTTGCTCATCTAGCCTTCGGTGGGTACTTGATCTCCACAGTCAAGAATCTGCACCTTGTGGTACTGAAATGTTGGTATCCACTTTGGGGAACAGTCTCAgtaagggagtgcctatagcaaccagtgaggtgcctacggatgactacaaa Alignment from GeneWise ------------------------GGCTTTCACATCGCCATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACAGTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccaaccacagatcagcattagtaagGCTTTCTGTGTCCTCACTTTCAGGGATTTCACATTACCCATTGCCTTTGCTCATCTAGCCTTCGGTGGGTACTTGATCTCCACAGTCAAGAATCTGCACCTTGTGGTACTGAAATGTTGGTATCCACTTTGGGGAACAGTCTCAgtaagggagtgcctatagcaaccagtgaggtgcctacggatgactacaaa #### Mta2_ID2534_7 --> 2 - 2 Original Alignment gaGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATT-GATCAGTTTCTCGTGGTGGCCcg gtgcaacttctacagcccaaagaggttctgccagcccttatcatccctaggaGAGTCAGATAACAGAAACCAACAGATGATGGAGATGAAAGTCTGGGACCCAGGAAATCCACTTACAGACCAGCAGAATCGACCAGTTCCTAATTGTGGCTcggtactgaaaggttaggaggacacataggtgcactacatcttattctggat Alignment from CESAR gaGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAG-ATTGATCAGTTTCTCGTGGTGGCCcg gtgcaacttctacagcccaaagaggttctgccagcccttatcatccctaggaGAGTCAGATAACAGAAACCAACAGATGATGGAGATGAAAGTCTGGGACCCAGGAAATCCACTTACAGACCAGCAGAATCGACCAGTTCCTAATTGTGGCTcggtactgaaaggttaggaggacacataggtgcactacatcttattctggat Alignment from Spaln_aa2Genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAG-ATTGATCAGTTTCTCGTGGTGGCCCG gtgcaacttctacagcccaaagaggttctgccagcccttatcatccctagGAGAGTCAGATAACAGAAACCAACAGATGATGGAGATGAAAGTCTGGGACCCAGGAAATCCACTTACAGACCAGCAGaATCGACCAGTTCCTAATTGTGGCTCGgtactgaaaggttaggaggacacataggtgcactacatcttattctggat Alignment from Spaln_nt2Genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATT-GATCAGTTTCTCGTGGTGGCCCG gtgcaacttctacagcccaaagaggttctgccagcccttatcatccctagGAGAGTCAGATAACAGAAACCAACAGATGATGGAGATGAAAGTCTGGGACCCAGGAAATCCACTTACAGACCAGCAGAATCGACCAGTTCCTAATTGTGGCTCGgtactgaaaggttaggaggacacataggtgcactacatcttattctggat Alignment from Pairagon GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAG-ATTGATCAGTTTCTCGTGGTGGCCCG gtgcaacttctacagcccaaagaggttctgccagcccttatcatccctagGAGAGTCAGATAACAGAAACCAACAGATGATGGAGATGAAAGTCTGGGACCCAGGAAATCCACTTACAGACCAGCAGAATCGACCAGTTCCTAATTGTGGCTCGgtactgaaaggttaggaggacacataggtgcactacatcttattctggat Alignment from Exonerate_protein2genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAG-ATTGATCAGTTTCTCGTGGTGGCCCG gtgcaacttctacagcccaaagaggttctgccagcccttatcatccctagGAGAGTCAGATAACAGAAACCAACAGATGATGGAGATGAAAGTCTGGGACCCAGGAAATCCACTTACAGACCAGCAGAATCGACCAGTTCCTAATTGTGGCTCGgtactgaaaggttaggaggacacataggtgcactacatcttattctggat Alignment from Exonerate_coding2genome gtgcaacttctacagcccaaagaggttctgccagcccttatcatccctaggagagtcagataacagaaaccaacagatgatggagatgaaagtctgggacccaggaaatccacttacagaccagcagaatcgaccagttcctaattgtggctcggtactgaaaggttaggaggacacataggtgcactacatcttattctggat Alignment from GeneWise GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAG-ATTGATCAGTTTCTCGTGGTGGCCCG gtgcaacttctacagcccaaagaggttctgccagcccttatcatccctagGAGAGTCAGATAACAGAAACCAACAGATGATGGAGATGAAAGTCTGGGACCCAGGAAATCCACTTACAGACCAGCAGAATCGACCAGTTCCTAATTGTGGCTCGgtactgaaaggttaggaggacacataggtgcactacatcttattctggat #### Mta2_ID2535_8 --> 1 - 0 Original Alignment aGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATT------CGG-CAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGAT---ATCACTCTG gccaatatggcatccaacatgaggaatcacactgtggtgtgtctccacagcGCTGTGAGGACTTTTGTACGGGCTCTAGATTGTAATTGCTCCATTTCCATTCAACAAGTCCAGCCTAGACATGAGTGCA------GCTACCACGGGTATAATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagtgtggagta Alignment from CESAR aGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCA------ATTCGGCAG-CCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gccaatatggcatccaacatgaggaatcacactgtggtgtgtctccacagcGCTGTGAGGACTTTTGTACGGGCTCTAGATTGTAATTGCTCCATTTCCATTCAACAAGTCCAGCCTAGACATGAGTGCAGCTACCACGGGTATA---ATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagtgtggagta Alignment from Spaln_aa2Genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATT-------CGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gccaatatggcatccaacatgaggaatcacactgtggtgtgtctccacagCGCTGTGAGGACTTTTGTACGGGCTCTAGATTGTAATTGCTCCATTTCCATTcAACAAGTCCAGCCTAGACATGAGTGCAGCTACCACGGGTATA---ATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagtgtggagta Alignment from Spaln_nt2Genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATT------CGGCA-GCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATA-TCACTCTG gccaatatggcatccaacatgaggaatcacactgtggtgtgtctccacagCGCTGTGAGGACTTTTGTACGGGCTCTAGATTGTAATTGCTCCATTTCCATTCAACAAGTCCAGCCTAGACATGAGTGCAGCTACCACG----GGTATAATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagtgtggagta Alignment from Pairagon AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGAT------------ATCACTCTG gccaatatggcatccaacatgaggaatcacactgtggtgtgtctccacagcgctgtgaggacttttgtacgggctctagattgtaattgctccatttccattcaacaagtccagcctag--------------------------------------------------------------ACATGAGTGCAGC---------------TACCACGGGTATAATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagtgtggagta Alignment from Exonerate_protein2genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGG----CAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gccaatatggcatccaacatgaggaatcacactgtggtgtgtctccacagCGCTGTGAGGACTTTTGTACGGGCTCTAGATTGTAATTGCTCCATTTCCATTCAACAAGTCCAGCCTAGACATGAGTGCAGCTACCACGGGTATAATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagtgtggagta Alignment from Exonerate_coding2genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAAT gccaatatggcatccaacatgaggaatcacactgtggtgtgtctccacagcgctgtgaggacttttgtacgggctctagattgtaattgctccatttccattcaacaagtccagcctagacatgagtgcagctaccacgggtataatcaccctggtaagTACCAAGTCACAAATATTTTTGTATGATAAGCCAAGTGTGGAGTA Alignment from GeneWise AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAAT gccaatatggcatccaacatgaggaatcacactgtggtgtgtctccacagcgctgtgaggacttttgtacgggctctagattgtaattgctccatttccattcaacaagtccagcctagacatgagtgcagctaccacgggtataatcaccctggtaagTACCAAGTCACAAATATTTTTGTATGATAAGCCAAGTGTGGAGTA #### Mta2_ID2536_9 --> 0 - 0 Original Alignment TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCC-ATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagcacatcaaaactctcaatttttttttttttttttttaagTTTCACGCTATGGATACCCTGCAAAAGAATGGATATGACCTAGCCAAGGCTATGACAACCCTCGTACCACAGGGAGGTCCAGTTCTTTGCCAAGATGAGATGGGGGAATGGTCTGCTTCAGAAGCCCATGCTAGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTTAATGACATCCACCAAGACTTTgtgagtgatcaagaccaaggagtgaaagaacaatgatgatactaaaaaga Alignment from CESAR TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCC-ATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagcacatcaaaactctcaatttttttttttttttttttaagTTTCACGCTATGGATACCCTGCAAAAGAATGGATATGACCTAGCCAAGGCTATGACAACCCTCGTACCACAGGGAGGTCCAGTTCTTTGCCAAGATGAGATGGGGGAATGGTCTGCTTCAGAAGCCCATGCTAGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTTAATGACATCCACCAAGACTTTgtgagtgatcaagaccaaggagtgaaagaacaatgatgatactaaaaaga Alignment from Spaln_aa2Genome TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCC-ATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagcacatcaaaactctcaatttttttttttttttttttaagTTTCACGCTATGGATACCCTGCAAAAGAATGGATATGACCTAGCCAAGGCTATGACAACCCTCGTACCACAGGGAGGTCCAGTTCTTTGCCAAGATGAGATGGGGGAATGGTCTGCTTCAGAAGCCcATGCTAGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTTAATGACATCCACCAAGACTTTgtgagtgatcaagaccaaggagtgaaagaacaatgatgatactaaaaaga Alignment from Spaln_nt2Genome TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAG-CCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagcacatcaaaactctcaatttttttttttttttttttaagTTTCACGCTATGGATACCCTGCAAAAGAATGGATATGACCTAGCCAAGGCTATGACAACCCTCGTACCACAGGGAGGTCCAGTTCTTTGCCAAGATGAGATGGGGGAATGGTCTGCTTCAGAAGCCCATGCTAGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTTAATGACATCCACCAAGACTTTgtgagtgatcaagaccaaggagtgaaagaacaatgatgatactaaaaaga Alignment from Pairagon AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTGTTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAG-CCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagcacatcaaaactctcaatttttttttttttttttttaag----------------------------------------------------------------------------------------------------TTTCACGCTATGGATACCCTGCAAAAGAATGGATATGACCTAGCCAAGGCTATGACAACCCTCGTACCACAGGGAGGTCCAGTTCTTTGCCAAGATGAGATGGGGGAATGGTCTGCTTCAGAAGCCCATGCTAGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTTAATGACATCCACCAAGACTTTgtgagtgatcaagaccaaggagtgaaagaacaatgatgatactaaaaaga Alignment from Exonerate_protein2genome TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCC-ATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagcacatcaaaactctcaatttttttttttttttttttaagTTTCACGCTATGGATACCCTGCAAAAGAATGGATATGACCTAGCCAAGGCTATGACAACCCTCGTACCACAGGGAGGTCCAGTTCTTTGCCAAGATGAGATGGGGGAATGGTCTGCTTCAGAAGCCCATGCTAGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTTAATGACATCCACCAAGACTTTgtgagtgatcaagaccaaggagtgaaagaacaatgatgatactaaaaaga Alignment from Exonerate_coding2genome TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCC-ATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagcacatcaaaactctcaatttttttttttttttttttaagTTTCACGCTATGGATACCCTGCAAAAGAATGGATATGACCTAGCCAAGGCTATGACAACCCTCGTACCACAGGGAGGTCCAGTTCTTTGCCAAGATGAGATGGGGGAATGGTCTGCTTCAGAAGCCCATGCTAGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTTAATGACATCCACCAAGACTTTgtgagtgatcaagaccaaggagtgaaagaacaatgatgatactaaaaaga Alignment from GeneWise TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAA-GCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagcacatcaaaactctcaatttttttttttttttttttaagTTTCACGCTATGGATACCCTGCAAAAGAATGGATATGACCTAGCCAAGGCTATGACAACCCTCGTACCACAGGGAGGTCCAGTTCTTTGCCAAGATGAGATGGGGGAATGGTCTGCTTCAGAAGCCCATGCTAGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTTAATGACATCCACCAAGACTTTgtgagtgatcaagaccaaggagtgaaagaacaatgatgatactaaaaaga #### Mta2_ID2539_12 --> 1 - 1 Original Alignment tACCAAGCCAAACCCT-AACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACa gcctgcagtaggagaaagtctagtggccttttttttttcatgtaactaagcACAAAGCCAAATCCACAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATagtgagttacacatctgatatatccctactattaggtatttatggtttgtt Alignment from CESAR tACCAAGCCAAACCCT-AACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACa gcctgcagtaggagaaagtctagtggccttttttttttcatgtaactaagcACAAAGCCAAATCCACAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATagtgagttacacatctgatatatccctactattaggtatttatggtttgtt Alignment from Spaln_aa2Genome TACCAAGCCAAACCCT-AACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA gcctgcagtaggagaaagtctagtggccttttttttttcatgtaactaagCACAAAGCCAAATCCAcAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATAgtgagttacacatctgatatatccctactattaggtatttatggtttgtt Alignment from Spaln_nt2Genome TACCAAGCCAAACCCT-AACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA gcctgcagtaggagaaagtctagtggccttttttttttcatgtaactaagCACAAAGCCAAATCCACAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATAgtgagttacacatctgatatatccctactattaggtatttatggtttgtt Alignment from Pairagon TACCAAGCCAAACCC-TAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA gcctgcagtaggagaaagtctagtggccttttttttttcatgtaactaagCACAAAGCCAAATCCACAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATAgtgagttacacatctgatatatccctactattaggtatttatggtttgtt Alignment from Exonerate_protein2genome TACCAAGCCAAACCCT-AACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA gcctgcagtaggagaaagtctagtggccttttttttttcatgtaactaagCACAAAGCCAAATCCACAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATAgtgagttacacatctgatatatccctactattaggtatttatggtttgtt Alignment from Exonerate_coding2genome AAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTATACCAAGCCAAACCCT-AACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA GCCTGCAGTAGGAGAAAGTCTAGTGGCCTTTTTTTTTTCATGTAACTAAGCACAAAGCCAAATCCACAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATAgtgagttacacatctgatatatccctactattaggtatttatggtttgtt Alignment from GeneWise TACCAAGCCAAACCCT-AACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA gcctgcagtaggagaaagtctagtggccttttttttttcatgtaactaagCACAAAGCCAAATCCACAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATAgtgagttacacatctgatatatccctactattaggtatttatggtttgtt #### Mta2_ID2540_13 --> 2 - 0 Original Alignment ccACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGG-AAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactgtaatacagtaattcttttatctctgatttcactcttcccagcaACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCAATATGCAGTACCGACTTTGTGCTTCTTGTTGGGTTTATTGGCAAGACATATGGAGGCTTGAAAACTCCTACGCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaagggtgagtgtgtctggagcgaccataagaactgaaggtaaggaaga Alignment from CESAR ccACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGG-AAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactgtaatacagtaattcttttatctctgatttcactcttcccagcaACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCAATATGCAGTACCGACTTTGTGCTTCTTGTTGGGTTTATTGGCAAGACATATGGAGGCTTGAAAACTCCTACGCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaagggtgagtgtgtctggagcgaccataagaactgaaggtaaggaaga Alignment from Spaln_aa2Genome CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGG-AAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactgtaatacagtaattcttttatctctgatttcactcttcccagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCAATATGCAGTACCGACTTTGTGCTTCTTGTTGGGTTTATTGGcAAGACATATGGAGGCTTGAAAACTCCTACGCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaagggtgagtgtgtctggagcgaccataagaactgaaggtaaggaaga Alignment from Spaln_nt2Genome CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGG-AAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactgtaatacagtaattcttttatctctgatttcactcttcccagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCAATATGCAGTACCGACTTTGTGCTTCTTGTTGGGTTTATTGGCAAGACATATGGAGGCTTGAAAACTCCTACGCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaagggtgagtgtgtctggagcgaccataagaactgaaggtaaggaaga Alignment from Pairagon CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGG-AAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactgtaatacagtaattcttttatctctgatttcactcttcccagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCAATATGCAGTACCGACTTTGTGCTTCTTGTTGGGTTTATTGGCAAGACATATGGAGGCTTGAAAACTCCTACGCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaagggtgagtgtgtctggagcgaccataagaactgaaggtaaggaaga Alignment from Exonerate_protein2genome CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGG-AAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactgtaatacagtaattcttttatctctgatttcactcttcccagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCAATATGCAGTACCGACTTTGTGCTTCTTGTTGGGTTTATTGGCAAGACATATGGAGGCTTGAAAACTCCTACGCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaagggtgagtgtgtctggagcgaccataagaactgaaggtaaggaaga Alignment from Exonerate_coding2genome CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGG-AAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactgtaatacagtaattcttttatctctgatttcactcttcccagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCAATATGCAGTACCGACTTTGTGCTTCTTGTTGGGTTTATTGGCAAGACATATGGAGGCTTGAAAACTCCTACGCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaagggtgagtgtgtctggagcgaccataagaactgaaggtaaggaaga Alignment from GeneWise CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAG-AAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactgtaatacagtaattcttttatctctgatttcactcttcccagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCAATATGCAGTACCGACTTTGTGCTTCTTGTTGGGTTTATTGGCAAGACATATGGAGGCTTGAAAACTCCTACGCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaagggtgagtgtgtctggagcgaccataagaactgaaggtaaggaaga #### Mta2_ID2543_16 --> 2 - 0 Original Alignment tgGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGC-CTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT aaaggatcacattcccaagctatgtcacgaatttctaattctctttttaggtGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACTCAGAACCGAGGCCCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtagggtgaccagaacaagagcataccagtaattaccttacttttttctt Alignment from CESAR tgGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGC-CTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT agaggatcacattcccaagctatgtcacgaatttctaattctctttttaggtGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACTCAGAACCGAGGCCCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtagggtgaccagaacaagagcataccagtaattaccttacttttttctt Alignment from Spaln_aa2Genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGC-ATTATGGTGAAACGTTCCTATGAGACT aaaggatcacattcccaagctatgtcacgaatttctaattctctttttagGTGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACTCAGAACCGAGGCCCTGGGGGGaATTATGGTGAAACGCTCATACGAGACAgtagggtgaccagaacaagagcataccagtaattaccttacttttttctt Alignment from Spaln_nt2Genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTG-GGGGGCATTATGGTGAAACGTTCCTATGAGACT aaaggatcacattcccaagctatgtcacgaatttctaattctctttttagGTGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACTCAGAACCGAGGCCCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtagggtgaccagaacaagagcataccagtaattaccttacttttttctt Alignment from Pairagon TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGG-CCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT aaaggatcacattcccaagctatgtcacgaatttctaattctctttttagGTGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACTCAGAACCGAGGCCCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtagggtgaccagaacaagagcataccagtaattaccttacttttttctt Alignment from Exonerate_protein2genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGC-CTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT aaaggatcacattcccaagctatgtcacgaatttctaattctctttttagGTGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACTCAGAACCGAGGCCCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtagggtgaccagaacaagagcataccagtaattaccttacttttttctt Alignment from Exonerate_coding2genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGC-CTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT aaaggatcacattcccaagctatgtcacgaatttctaattctctttttagGTGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACTCAGAACCGAGGCCCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtagggtgaccagaacaagagcataccagtaattaccttacttttttctt Alignment from GeneWise ----------------------------------------------CTGGTGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGC-CTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT AAAGGATCACATTCCCAAGCTATGTCACGAATTTCTAATTCTCTTTTTAGGTGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACTCAGAACCGAGGCCCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtagggtgaccagaacaagagcataccagtaattaccttacttttttctt #### Myrf_ID2714_23 --> 1 - 2 Original Alignment gCTTGGCAACTTCACCTACCACATCCCTGTCAGCAGC-AGCACACCACTGCACCTCAGCCTGACCCTGCAGATGaa gatcttggggaggtgacacgagtggctttgttctctcttcctctacctagaCTTGGCAACTTCACATACCATATCCCTGTAAGTAGCCAGCACACCGCTACACCTCAGCCTCACCCTGCAAATGaagtaggtgaaagctacttacctcaccgacaaatgtaaagttaatccaaaca Alignment from CESAR gCTTGGCAACTTCACCTACCACATCCCTGTCAGCAGC-AGCACACCACTGCACCTCAGCCTGACCCTGCAGATGaa gatcttggggaggtgacacgagtggctttgttctctcttcctctacctagaCTTGGCAACTTCACATACCATATCCCTGTAAGTAGCCAGCACACCGCTACACCTCAGCCTCACCCTGCAAATGaagtaggtgaaagctacttacctcaccgacaaatgtaaagttaatccaaaca Alignment from Spaln_aa2Genome GCTTGGCAACTTCACCTACCACATCCCTGTCAGCAGC-AGCACACCACTGCACCTCAGCCTGACCCTGCAGATGAA gatcttggggaggtgacacgagtggctttgttctctcttcctctacctagACTTGGCAACTTCACATACCATATCCCTGTAAGTAGCcAGCACACCGCTACACCTCAGCCTCACCCTGCAAATGAAgtaggtgaaagctacttacctcaccgacaaatgtaaagttaatccaaaca Alignment from Spaln_nt2Genome GCTTGGCAACTTCACCTACCACATCCCTGTCAGCAG-CAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGAA gatcttggggaggtgacacgagtggctttgttctctcttcctctacctagACTTGGCAACTTCACATACCATATCCCTGTAAGTAGCCAGCACACCGCTACACCTCAGCCTCACCCTGCAAATGAAgtaggtgaaagctacttacctcaccgacaaatgtaaagttaatccaaaca Alignment from Pairagon GCTTGGCAACTTCACCTACCACATCCCTGTCAGCAG-CAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGAA gatcttggggaggtgacacgagtggctttgttctctcttcctctacctagACTTGGCAACTTCACATACCATATCCCTGTAAGTAGCCAGCACACCGCTACACCTCAGCCTCACCCTGCAAATGAAgtaggtgaaagctacttacctcaccgacaaatgtaaagttaatccaaaca Alignment from Exonerate_protein2genome GCTTGGCAACTTCACCTACCACATCCCTGTCAGCAGC-AGCACACCACTGCACCTCAGCCTGACCCTGCAGATGAA gatcttggggaggtgacacgagtggctttgttctctcttcctctacctagACTTGGCAACTTCACATACCATATCCCTGTAAGTAGCCAGCACACCGCTACACCTCAGCCTCACCCTGCAAATGAAgtaggtgaaagctacttacctcaccgacaaatgtaaagttaatccaaaca Alignment from Exonerate_coding2genome gatcttggggaggtgacacgagtggctttgttctctcttcctctacctagacttggcaacttcacataccatatccctgtaagtagccagcacaccgctacacctcagcctcaccctgcaaatgaagtaggtgaaagctacttacctcaccgacaaatgtaaagttaatccaaaca Alignment from GeneWise GCTTGGCAACTTCACCTACCACATCCCTGTCAGCAGC-AGCACACCACTGCACCTCAGCCTGACCCTGCAGATGAA gatcttggggaggtgacacgagtggctttgttctctcttcctctacctagACTTGGCAACTTCACATACCATATCCCTGTAAGTAGCCAGCACACCGCTACACCTCAGCCTCACCCTGCAAATGAAgtaggtgaaagctacttacctcaccgacaaatgtaaagttaatccaaaca #### Myrf_ID2721_16 --> 1 - 0 Original Alignment cCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAA-AAGAGGCCCCCTAAACTGGCCAATAAG ggaaagatccgcaggtgttttatgcatttactaaattgaatgttttgtagcCATGCTGGTAGTGAATTTAGTAGGACTGGCAGTGTCCCTCACAAACAAAAGGCCCCCCAGGCTTGCCAATAAGgcaagtcggtccaacagccacatacacttctacccattcatagagttgcc Alignment from CESAR cCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAA-AAGAGGCCCCCTAAACTGGCCAATAAG ggaaagatccgcaggtgttttatgcatttactaaattgaatgttttgtagcCATGCTGGTAGTGAATTTAGTAGGACTGGCAGTGTCCCTCACAAACAAAAGGCCCCCCAGGCTTGCCAATAAGgcaagtcggtccaacagccacatacacttctacccattcatagagttgcc Alignment from Spaln_aa2Genome CCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAA-AAGAGGCCCCCTAAACTGGCCAATAAG ggaaagatccgcaggtgttttatgcatttactaaattgaatgttttgtagCCATGCTGGTAGTGAATTTAGTAGGACTGGCAGTGTCCCTCACAAAcAAAAGGCCCCCCAGGCTTGCCAATAAGgcaagtcggtccaacagccacatacacttctacccattcatagagttgcc Alignment from Spaln_nt2Genome CCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAA-AAGAGGCCCCCTAAACTGGCCAATAAG ggaaagatccgcaggtgttttatgcatttactaaattgaatgttttgtagCCATGCTGGTAGTGAATTTAGTAGGACTGGCAGTGTCCCTCACAAACAAAAGGCCCCCCAGGCTTGCCAATAAGgcaagtcggtccaacagccacatacacttctacccattcatagagttgcc Alignment from Pairagon CCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAA-AAGAGGCCCCCTAAACTGGCCAATAAG ggaaagatccgcaggtgttttatgcatttactaaattgaatgttttgtagCCATGCTGGTAGTGAATTTAGTAGGACTGGCAGTGTCCCTCACAAACAAAAGGCCCCCCAGGCTTGCCAATAAGgcaagtcggtccaacagccacatacacttctacccattcatagagttgcc Alignment from Exonerate_protein2genome CCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAA-AAGAGGCCCCCTAAACTGGCCAATAAG ggaaagatccgcaggtgttttatgcatttactaaattgaatgttttgtagCCATGCTGGTAGTGAATTTAGTAGGACTGGCAGTGTCCCTCACAAACAAAAGGCCCCCCAGGCTTGCCAATAAGgcaagtcggtccaacagccacatacacttctacccattcatagagttgcc Alignment from Exonerate_coding2genome ggaaagatccgcaggtgttttatgcatttactaaattgaatgttttgtagccatgctggtagtgaatttagtaggactggcagtgtccctcacaaacaaaaggccccccaggcttgccaataaggcaagtcggtccaacagccacatacacttctacccattcatagagttgcc Alignment from GeneWise CCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAA-AAGAGGCCCCCTAAACTGGCCAATAAGTCATCGCCAGCGG ggaaagatccgcaggtgttttatgcatttactaaattgaatgttttgtagCCATGCTGGTAGTGAATTTAGTAGGACTGGCAGTGTCCCTCACAAACAAAAGGCCCCCCAGGCTTGCCAATAAG---------GCAAgtcggtccaacagccacatacacttctacccattcat #### Myrf_ID2727_10 --> 1 - 2 Original Alignment gGTCAATCTTCCCCCTGAGCAGGTCACA-AAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGag ttactagagttggaaaattctacttgtgtgtctgtcctgttggttttcagaGTTAATCTTCCACCTAAGCAAGTTTCCCCAAGTTACTGTCGAG---CTCCATTTCACTGAAACTGCAGCCAATAACACGAGCAAGAAAGGTAAACCAAACCCTGACCAGaggtatttaagatgtattcgccctaatatacctcagacctatggacctgcac Alignment from CESAR gGTCAATCTTCCCCCTGAGCAGGTCACA-AAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGag ttactagagttggaaaattctacttgtgtgtctgtcctgttggttttcagaGTTAATCTTCCACCTAAGCAAGTTTCCCCAAGTTACTGTCGAG---CTCCATTTCACTGAAACTGCAGCCAATAACACGAGCAAGAAAGGTAAACCAAACCCTGACCAGaggtatttaagatgtattcgccctaatatacctcagacctatggacctgcac Alignment from Spaln_aa2Genome GGTCAATCTTCCCCCTGAGCAGGTCACA-AAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGAG ttactagagttggaaaattctacttgtgtgtctgtcctgttggttttcagAGTTAATCTTCCACCTAAGCAAGTTTCCcCAAGTTACTGTCGAG---CTCCATTTCACTGAAACTGCAGCCAATAACACGAGCAAGAAAGGTAAACCAAACCCTGACCAGAGgtatttaagatgtattcgccctaatatacctcagacctatggacctgcac Alignment from Spaln_nt2Genome GGTCAATCTTCCCCCTGAGCAGGTCACAA-AAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGAG ttactagagttggaaaattctacttgtgtgtctgtcctgttggttttcagAGTTAATCTTCCACCTAAGCAAGTTTCCCCAAGTTACTGTCG---AGCTCCATTTCACTGAAACTGCAGCCAATAACACGAGCAAGAAAGGTAAACCAAACCCTGACCAGAGgtatttaagatgtattcgccctaatatacctcagacctatggacctgcac Alignment from Pairagon GGTCAATCTTCCCCCTGAGC----------------------AGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGAG ttactagagttggaaaattctacttgtgtgtctgtcctgttggttttcagAGTTAATCTTCCACCTAAGCAAGTTTCCCCAAGTTACTGTCGA------------------------GCTCCATTTCACTGAAACTGCAGCCAATAACACGAGCAAGAAAGGTAAACCAAACCCTGACCAGAGgtatttaagatgtattcgccctaatatacctcagacctatggacctgcac Alignment from Exonerate_protein2genome GGTCAATCTTCCCCCTGAGCAGGTCACA-AAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGAG ttactagagttggaaaattctacttgtgtgtctgtcctgttggttttcagAGTTAATCTTCCACCTAAGCAAGTTTCCCCAAGTTACTGTC---GAGCTCCATTTCACTGAAACTGCAGCCAATAACACGAGCAAGAAAGGTAAACCAAACCCTGACCAGAGgtatttaagatgtattcgccctaatatacctcagacctatggacctgcac Alignment from Exonerate_coding2genome GGTCAATCTTCCCCCTGAGCAGGTCACA-AAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGAG ttactagagttggaaaattctacttgtgtgtctgtcctgttggttttcagAGTTAATCTTCCACCTAAGCAAGTTTCCCCAAGTTACTGTC---GAGCTCCATTTCACTGAAACTGCAGCCAATAACACGAGCAAGAAAGGTAAACCAAACCCTGACCAGAGgtatttaagatgtattcgccctaatatacctcagacctatggacctgcac Alignment from GeneWise GGTCAATCTTCCCCCTGAGCAGGTCACA-AAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGAG ttactagagttggaaaattctacttgtgtgtctgtcctgttggttttcagAGTTAATCTTCCACCTAAGCAAGTTTCCCCAAGTTACTGTC---GAGCTCCATTTCACTGAAACTGCAGCCAATAACACGAGCAAGAAAGGTAAACCAAACCCTGACCAGAGgtatttaagatgtattcgccctaatatacctcagacctatggacctgcac #### Naaladl1_ID1447_6 --> 1 - 2 Original Alignment tAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAG-TACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGag gaataattggatctaatcacacatcatggtctgtctcgctgtgtctgcagtAACCTCACAGGAACTTCTGCCCCTACCTTCTGGCAGAGAGCTCTAGGCTGTGAACTATAAGCTAGGTCCTGGGTTTGATCCTAATGAAAGTTTCCCTGATGGAaggtgaggcactgagctgaatgaccttgggtgtgcccccagaatcactgtcc Alignment from CESAR tAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAG-TACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGag gaataattggatctaatcacacatcatggtctgtctcgctgtgtctgcagtAACCTCACAGGAACTTCTGCCCCTACCTTCTGGCAGAGAGCTCTAGGCTGTGAACTATAAGCTAGGTCCTGGGTTTGATCCTAATGAAAGTTTCCCTGATGGAaggtgaggcactgagctgaatgaccttgggtgtgcccccagaatcactgtcc Alignment from Spaln_aa2Genome TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAG-TACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG gaataattggatctaatcacacatcatggtctgtctcgctgtgtctgcagTAACCTCACAGGAACTTCTGCCCCTACCTTCTGGCAGAGAGCTCTAGGCTGTGAAcTATAAGCTAGGTCCTGGGTTTGATCCTAATGAAAGTTTCCCTGATGGAAGgtgaggcactgagctgaatgaccttgggtgtgcccccagaatcactgtcc Alignment from Spaln_nt2Genome TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAG-TACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG gaataattggatctaatcacacatcatggtctgtctcgctgtgtctgcagTAACCTCACAGGAACTTCTGCCCCTACCTTCTGGCAGAGAGCTCTAGGCTGTGAACTATAAGCTAGGTCCTGGGTTTGATCCTAATGAAAGTTTCCCTGATGGAAGgtgaggcactgagctgaatgaccttgggtgtgcccccagaatcactgtcc Alignment from Pairagon TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAG-TACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG gaataattggatctaatcacacatcatggtctgtctcgctgtgtctgcagTAACCTCACAGGAACTTCTGCCCCTACCTTCTGGCAGAGAGCTCTAGGCTGTGAACTATAAGCTAGGTCCTGGGTTTGATCCTAATGAAAGTTTCCCTGATGGAAGgtgaggcactgagctgaatgaccttgggtgtgcccccagaatcactgtcc Alignment from Exonerate_protein2genome TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAG-TACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG gaataattggatctaatcacacatcatggtctgtctcgctgtgtctgcagTAACCTCACAGGAACTTCTGCCCCTACCTTCTGGCAGAGAGCTCTAGGCTGTGAACTATAAGCTAGGTCCTGGGTTTGATCCTAATGAAAGTTTCCCTGATGGAAGgtgaggcactgagctgaatgaccttgggtgtgcccccagaatcactgtcc Alignment from Exonerate_coding2genome gaataattggatctaatcacacatcatggtctgtctcgctgtgtctgcagtaacctcacaggaacttctgcccctaccttctggcagagagctctaggctgtgaactataagctaggtcctgggtttgatcctaatgaaagtttccctgatggaaggtgaggcactgagctgaatgaccttgggtgtgcccccagaatcactgtcc Alignment from GeneWise TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGT-GAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG gaataattggatctaatcacacatcatggtctgtctcgctgtgtctgcagTAACCTCACAGGAACTTCTGCCCCTACCTTCTGGCAGAGAGCTCTAGGCTGTGAACTATAAGCTAGGTCCTGGGTTTGATCCTAATGAAAGTTTCCCTGATGGAAGgtgaggcactgagctgaatgaccttgggtgtgcccccagaatcactgtcc #### Naaladl1_ID1453_12 --> 0 - 2 Original Alignment ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACC-AACCGCACTAGTCCAGTATATGGACTGGTTCCCag taaatgtgctagccattcaccaatggcatttacatgttattaattttcagATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATACAATATACTCAACCGTGTGAGTCCAGTATACGGGCTAGTCCCAaggtaagttcagattaaggtccagggagactctttttacatttgctgacact Alignment from CESAR ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACC-AACCGCACTAGTCCAGTATATGGACTGGTTCCCag taaatgtgctagccattcaccaatggcatttacatgttattaattttcagATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATACAATATACTCAACCGTGTGAGTCCAGTATACGGGCTAGTCCCAaggtaagttcagattaaggtccagggagactctttttacacccttgctgtct Alignment from Spaln_aa2Genome ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACC-AACCGCACTAGTCCAGTATATGGACTGGTTCCCAG taaatgtgctagccattcaccaatggcatttacatgttattaattttcagATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATACAATATACTcAACCGTGTGAGTCCAGTATACGGGCTAGTCCCAAGgtaagttcagattaaggtccagggagactctttttacatttgctgacact Alignment from Spaln_nt2Genome ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATAC-CAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG taaatgtgctagccattcaccaatggcatttacatgttattaattttcagATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATACAATATACTCAACCGTGTGAGTCCAGTATACGGGCTAGTCCCAAGgtaagttcagattaaggtccagggagactctttttacatttgctgacact Alignment from Pairagon ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATAC-CAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG taaatgtgctagccattcaccaatggcatttacatgttattaattttcagATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATACAATATACTCAACCGTGTGAGTCCAGTATACGGGCTAGTCCCAAGgtaagttcagattaaggtccagggagactctttttacatttgctgacact Alignment from Exonerate_protein2genome ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACC-AACCGCACTAGTCCAGTATATGGACTGGTTCCCAG taaatgtgctagccattcaccaatggcatttacatgttattaattttcagATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATACAATATACTCAACCGTGTGAGTCCAGTATACGGGCTAGTCCCAAGgtaagttcagattaaggtccagggagactctttttacatttgctgacact Alignment from Exonerate_coding2genome taaatgtgctagccattcaccaatggcatttacatgttattaattttcagatcagtgcaccaggatccagtggtctcaggatctatgataattggatacaatatactcaaccgtgtgagtccagtatacgggctagtcccaaggtaagttcagattaaggtccagggagactctttttacatttgctgacact Alignment from GeneWise ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATAT-ACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG taaatgtgctagccattcaccaatggcatttacatgttattaattttcagATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATACAATATACTCAACCGTGTGAGTCCAGTATACGGGCTAGTCCCAAGgtaagttcagattaaggtccagggagactctttttacatttgctgacact #### Naaladl1_ID1454_13 --> 1 - 0 Original Alignment cCTGGGCACACTGGGCGCTGGCAGTGAC-TATGCCGCATTCGTTCACTTCCTGGGCATCACGTCCATGGACCTTGCCTACACCTATGACCGG attaaggtccagggagactctttttacacccttgctgtctgtccccacagcCTT---------GGGGCTGGTAGTGACCTATGCAGCATTTGTTCACTTCGCAGGCATCACATCTATGGATTTTGCTTATACCTATGATCAGgtgagttaagtttgtggcatggcaacaaaaggggactagtaaggcaacca Alignment from CESAR cCTGGGCACACTGGGCGCTGGCAGTGAC-TATGCCGCATTCGTTCACTTCCTGGGCATCACGTCCATGGACCTTGCCTACACCTATGACCGG attaaggtccagggagactctttttacacccttgctgtctgtccccacagcCTT---------GGGGCTGGTAGTGACCTATGCAGCATTTGTTCACTTCGCAGGCATCACATCTATGGATTTTGCTTATACCTATGATCAGgtgagttaagtttgtggcatggcaacaaaaggggactagtaaggcaacca Alignment from Spaln_aa2Genome CCTGGGCACACTGGGCGCTGGCAGTGACTATGCCGCATTCGTTCACTTCCTGGGCATCACGTCCATGGACCTTGCCTACACCTATGACCGG gtccagggagactctttttacacccttgctgtctgtccccacA------GCCTTGGGGCTGGTAGTGACCTATGCAGCATTTGTTCACTTCGCAGGCATCACATCTATGGATTTTGCTTATACCTATGATCAGgtgagttaagtttgtggcatggcaacaaaaggggactagtaaggcaacca Alignment from Spaln_nt2Genome CCTGGGCACACTGGGCGCTGGCAGTGAC-TATGCCGCATTCGTTCACTTCCTGGGCATCACGTCCATGGACCTTGCCTACACCTATGACCGG attaaggtccagggagactctttttacacccttgctgtctgtccccacagCCT--------TGGG-GCTGGTAGTGACCTATGCAGCATTTGTTCACTTCGCAGGCATCACATCTATGGATTTTGCTTATACCTATGATCAGgtgagttaagtttgtggcatggcaacaaaaggggactagtaaggcaacca Alignment from Pairagon CCTGGGCACACTGGGCGCTGGCAGTGA-CTATGCCGCATTCGTTCACTTCCTGGGCATCACGTCCATGGACCTTGCCTACACCTATGACCGG attaaggtccagggagactctttttacacccttgctgtctgtccccacagC---------CTTGGGGCTGGTAGTGACCTATGCAGCATTTGTTCACTTCGCAGGCATCACATCTATGGATTTTGCTTATACCTATGATCAGgtgagttaagtttgtggcatggcaacaaaaggggactagtaaggcaacca Alignment from Exonerate_protein2genome CCTGGGCACACTGGGCGCTGGCAGTGAC-TATGCCGCATTCGTTCACTTCCTGGGCATCACGTCCATGGACCTTGCCTACACCTATGACCGG attaaggtccagggagactctttttacacccttgctgtctgTCCCCACAGCCTTGGGGCTGGTAGTGACCTATGCAGCATTTGTTCACTTCGCAGGCATCACATCTATGGATTTTGCTTATACCTATGATCAGgtgagttaagtttgtggcatggcaacaaaaggggactagtaaggcaacca Alignment from Exonerate_coding2genome attaaggtccagggagactctttttacacccttgctgtctgtccccacagccttggggctggtagtgacctatgcagcatttgttcacttcgcaggcatcacatctatggattttgcttatacctatgatcaggtgagttaagtttgtggcatggcaacaaaaggggactagtaaggcaacca Alignment from GeneWise -------------------------------------AGCCTGGGCACA---CTGGGCGCTGGCAGTGACTATGCCGCATTCGTTCACTTCCTGGGCATCACGTCCATGGACCTTGCCTACACCTATGACCGG ATTAAGGTCCAGGGAGACTCTTTTTACACCCTTGCTGTCTGTCCCCACAGCCTTGGGGCTGGTAGTGACCTATGCAGCATTTGTTCACTTCGCAGGCATCACATCTATGGATTTTGCTTATACCTATGATCAGgtgagttaagtttgtggcatggcaacaaaaggggactagtaaggcaacca #### Naaladl1_ID1455_14 --> 0 - 1 Original Alignment AGCAAGACCTCGGCCAGGATCTACCCCACCTACCACACAGCA-TTTGATACATTTGATTATGTGGAGAAGTTTCTGGACCCTg gttctcacccacatttccgtctactggttacttattgttctctattatagAGCAAGACCTCAGCCAGGATCTACCCATCCTATTATGCTGCACTTCGATGCACTTGACTATGTTGAAAAATTCCTGGACCCAggtaagactcctctggtgatgtgacacaaccacaggcttgaccagcggagt Alignment from CESAR AGCAAGACCTCGGCCAGGATCTACCCCACCTACCACACAGCA-TTTGATACATTTGATTATGTGGAGAAGTTTCTGGACCCTg gttctcacccacatttccgtctactggttacttattgttctctattatagAGCAAGACCTCAGCCAGGATCTACCCATCCTATTATGCTGCACTTCGATGCACTTGACTATGTTGAAAAATTCCTGGACCCAggtaagactcctctggtgatgtgacacaaccacaggcttgaccagcggagt Alignment from Spaln_aa2Genome AGCAAGACCTCGGCCAGGATCTACCCCACCTACCACACAGCA-TTTGATACATTTGATTATGTGGAGAAGTTTCTGGACCCTG gttctcacccacatttccgtctactggttacttattgttctctattatagAGCAAGACCTCAGCCAGGATCTACCCATCCTATTATGCTGCAcTTCGATGCACTTGACTATGTTGAAAAATTCCTGGACCCAGgtaagactcctctggtgatgtgacacaaccacaggcttgaccagcggagt Alignment from Spaln_nt2Genome AGCAAGACCTCGGCCAGGATCTACCCCACCTACCACACAGCATTT-GATACATTTGATTATGTGGAGAAGTTTCTGGACCCTG gttctcacccacatttccgtctactggttacttattgttctctattatagAGCAAGACCTCAGCCAGGATCTACCCATCCTATTATGCTGCACTTCGATGCACTTGACTATGTTGAAAAATTCCTGGACCCAGgtaagactcctctggtgatgtgacacaaccacaggcttgaccagcggagt Alignment from Pairagon AGCAAGACCTCGGCCAGGATCTACCCCACCTACCACACAGCA-TTTGATACATTTGATTATGTGGAGAAGTTTCTGGACCCTG gttctcacccacatttccgtctactggttacttattgttctctattatagAGCAAGACCTCAGCCAGGATCTACCCATCCTATTATGCTGCACTTCGATGCACTTGACTATGTTGAAAAATTCCTGGACCCAGgtaagactcctctggtgatgtgacacaaccacaggcttgaccagcggagt Alignment from Exonerate_protein2genome AGCAAGACCTCGGCCAGGATCTACCCCACCTACCACACAGCA-TTTGATACATTTGATTATGTGGAGAAGTTTCTGGACCCTG gttctcacccacatttccgtctactggttacttattgttctctattatagAGCAAGACCTCAGCCAGGATCTACCCATCCTATTATGCTGCACTTCGATGCACTTGACTATGTTGAAAAATTCCTGGACCCAGgtaagactcctctggtgatgtgacacaaccacaggcttgaccagcggagt Alignment from Exonerate_coding2genome gttctcacccacatttccgtctactggttacttattgttctctattatagagcaagacctcagccaggatctacccatcctattatgctgcacttcgatgcacttgactatgttgaaaaattcctggacccaggtaagactcctctggtgatgtgacacaaccacaggcttgaccagcggagt Alignment from GeneWise AGCAAGACCTCGGCCAGGATCTACCCCACCTACCACACA-GCATTTGATACATTTGATTATGTGGAGAAGTTTCTGGACCCTG gttctcacccacatttccgtctactggttacttattgttctctattatagAGCAAGACCTCAGCCAGGATCTACCCATCCTATTATGCTGCACTTCGATGCACTTGACTATGTTGAAAAATTCCTGGACCCAGgtaagactcctctggtgatgtgacacaaccacaggcttgaccagcggagt #### Naaladl1_ID1456_15 --> 2 - 1 Original Alignment gtTTCAGCAGCCACCAAGCTGTG-GCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGg gaaggtgaaacttggatttggtctctattagccaccatcttgtcttacaggcTTTAGTAGCCAGCAGGCTGTTCGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTGCAAAGTTTTCTTCAGGCAGCACAAGAAGCCCTTGGTACTCAATTAGAAAAGCAGAATGTAAGCTTGggtgagccccaacatcttgagcccccagcggtggaatctacagaggcaagt Alignment from CESAR gtTTCAGCAGCCACCAAGCTGTG-GCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGg gaaggtgaaacttggatttggtctctattagccaccatcttgtcttacaggcTTTAGTAGCCAGCAGGCTGTTCGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTGCAAAGTTTTCTTCAGGCAGCACAAGAAGCCCTTGGTACTCAATTAGAAAAGCAGAATGTAAGCTTGggtgagccccaacatcttgagcccccagcggtggaatctacagaggcaagt Alignment from Spaln_aa2Genome GTTTCAGCAGCCACCAAGCTGTG-GCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG gaaggtgaaacttggatttggtctctattagccaccatcttgtcttacagGCTTTAGTAGCCAGCAGGCTGTTcGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTGCAAAGTTTTCTTCAGGCAGCACAAGAAGCCCTTGGTACTCAATTAGAAAAGCAGAATGTAAGCTTGGgtgagccccaacatcttgagcccccagcggtggaatctacagaggcaagt Alignment from Spaln_nt2Genome GTTTCAGCAGCCACCAAGCTGTG-GCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG gaaggtgaaacttggatttggtctctattagccaccatcttgtcttacagGCTTTAGTAGCCAGCAGGCTGTTCGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTGCAAAGTTTTCTTCAGGCAGCACAAGAAGCCCTTGGTACTCAATTAGAAAAGCAGAATGTAAGCTTGGgtgagccccaacatcttgagcccccagcggtggaatctacagaggcaagt Alignment from Pairagon GTTTCAGCAGCCACCAAGCTG-TGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG gaaggtgaaacttggatttggtctctattagccaccatcttgtcttacagGCTTTAGTAGCCAGCAGGCTGTTCGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTGCAAAGTTTTCTTCAGGCAGCACAAGAAGCCCTTGGTACTCAATTAGAAAAGCAGAATGTAAGCTTGGgtgagccccaacatcttgagcccccagcggtggaatctacagaggcaagt Alignment from Exonerate_protein2genome GTTTCAGCAGCCACCAAGCTGTG-GCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG gaaggtgaaacttggatttggtctctattagccaccatcttgtcttacagGCTTTAGTAGCCAGCAGGCTGTTCGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTGCAAAGTTTTCTTCAGGCAGCACAAGAAGCCCTTGGTACTCAATTAGAAAAGCAGAATGTAAGCTTGGgtgagccccaacatcttgagcccccagcggtggaatctacagaggcaagt Alignment from Exonerate_coding2genome gaaggtgaaacttggatttggtctctattagccaccatcttgtcttacaggctttagtagccagcaggctgttcgcccggactgctgggagtgtgcttctccagctcagtgatagcctcttcctgcccctaaatgttagtgactatagtgagaccttgcaaagttttcttcaggcagcacaagaagcccttggtactcaattagaaaagcagaatgtaagcttgggtgagccccaacatcttgagcccccagcggtggaatctacagaggcaagt Alignment from GeneWise -GCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG gaaggtgaaacttggatttggtctctattagccaccatcttgtcttacaggctttagtagccagcagGCTGTTCGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTGCAAAGTTTTCTTCAGGCAGCACAAGAAGCCCTTGGTACTCAATTAGAAAAGCAGAATGTAAGCTTGGgtgagccccaacatcttgagcccccagcggtggaatctacagaggcaagt #### Naaladl1_ID1458_17 --> 1 - 2 Original Alignment tCCTCTGCAGGTACGAATGGTC-AATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACag agagatacatagcccaatgaacagaacgtatcccttttttaaattaacagtCCTCTGCAGGTTCAGATGGTTCAATGATCAACTAATGCTATTAGAGTGTGCATTTCTGAACCCAAGGGCATTCCCAGAGGAGAGGCATTACaggtgagtcagtgtaaattgagctgccgacttgcttagaactagagttcaac Alignment from CESAR tCCTCTGCAGGTACGAATGGTC-AATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACag agagatacatagcccaatgaacagaacgtatcccttttttaaattaacagtCCTCTGCAGGTTCAGATGGTTCAATGATCAACTAATGCTATTAGAGTGTGCATTTCTGAACCCAAGGGCATTCCCAGAGGAGAGGCATTACaggtgagtcagtgtaaattgagctgccgacttgcttagaactagagttcaac Alignment from Spaln_aa2Genome TCCTCTGCAGGTACGAATGGTC-AATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG agagatacatagcccaatgaacagaacgtatcccttttttaaattaacagTCCTCTGCAGGTTCAGATGGTTcAATGATCAACTAATGCTATTAGAGTGTGCATTTCTGAACCCAAGGGCATTCCCAGAGGAGAGGCATTACAGgtgagtcagtgtaaattgagctgccgacttgcttagaactagagttcaac Alignment from Spaln_nt2Genome TCCTCTGCAGGTACGAATGGT-CAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG agagatacatagcccaatgaacagaacgtatcccttttttaaattaacagTCCTCTGCAGGTTCAGATGGTTCAATGATCAACTAATGCTATTAGAGTGTGCATTTCTGAACCCAAGGGCATTCCCAGAGGAGAGGCATTACAGgtgagtcagtgtaaattgagctgccgacttgcttagaactagagttcaac Alignment from Pairagon TCCTCTGCAGGTACGAATGG-TCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG agagatacatagcccaatgaacagaacgtatcccttttttaaattaacagTCCTCTGCAGGTTCAGATGGTTCAATGATCAACTAATGCTATTAGAGTGTGCATTTCTGAACCCAAGGGCATTCCCAGAGGAGAGGCATTACAGgtgagtcagtgtaaattgagctgccgacttgcttagaactagagttcaac Alignment from Exonerate_protein2genome TCCTCTGCAGGTACGAATGGTC-AATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG agagatacatagcccaatgaacagaacgtatcccttttttaaattaacagTCCTCTGCAGGTTCAGATGGTTCAATGATCAACTAATGCTATTAGAGTGTGCATTTCTGAACCCAAGGGCATTCCCAGAGGAGAGGCATTACAGgtgagtcagtgtaaattgagctgccgacttgcttagaactagagttcaac Alignment from Exonerate_coding2genome agagatacatagcccaatgaacagaacgtatcccttttttaaattaacagtcctctgcaggttcagatggttcaatgatcaactaatgctattagagtgtgcatttctgaacccaagggcattcccagaggagaggcattacaggtgagtcagtgtaaattgagctgccgacttgcttagaactagagttcaac Alignment from GeneWise TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG agagatacatagcccaatgaacagaacgtatcccttttttaaattaacagtcctctgcagG---------TTCAGATGGTTCAATGATCAACTAATGCTATTAGAGTGTGCATTTCTGAACCCAAGGGCATTCCCAGAGGAGAGGCATTACAGgtgagtcagtgtaaattgagctgccgacttgcttagaactagagttcaac #### Ndufv1_ID275_7 --> 2 - 0 Original Alignment gtGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGT-GGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG ggggtgcttgcaaagaatgcttcttacatttattgtaatgtctcttataggtGGTGTAACAGGCGGCTGGGACAATCTGCTTGCTGTGACACCAGGTCGGATCATCC---ACATTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCCACAGTAATC---ATGGATCGTTTGgtaagtggtcataagcaccctcatgcttgtcactatgatgtgtgtttttt Alignment from CESAR gtGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGT-GGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG ggggtgcttgcaaagaatgcttcttacatttattgtaatgtctcttataggtGGTGTAACAGGCGGCTGGGACAATCTGCTTGCTGTGACACCAGGTCGGATCATCCACA---TTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCCACAGTAATC---ATGGATCGTTTGgtaagtggtcataagcaccctcatgcttgtcactatgatgtgtgtttttt Alignment from Spaln_aa2Genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGT-GGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG ggggtgcttgcaaagaatgcttcttacatttattgtaatgtctcttatagGTGGTGTAACAGGCGGCTGGGACAATCTGCTTGCTGTGACACCAGGTcGGATCATCCACA---TTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCCACAGTAATC---ATGGATCGTTTGgtaagtggtcataagcaccctcatgcttgtcactatgatgtgtgtttttt Alignment from Spaln_nt2Genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGT-GGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG ggggtgcttgcaaagaatgcttcttacatttattgtaatgtctcttatagGTGGTGTAACAGGCGGCTGGGACAATCTGCTTGCTGTGACACCAGGTCGGATCATCCA---CATTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCCACAGTAA---TCATGGATCGTTTGgtaagtggtcataagcaccctcatgcttgtcactatgatgtgtgtttttt Alignment from Pairagon GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGT-GGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG ggggtgcttgcaaagaatgcttcttacatttattgtaatgtctcttatagGTGGTGTAACAGGCGGCTGGGACAATCTGCTTGCTGTGACACCAGGTCGGATCATCCA---CATTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCCACAGTAA---TCATGGATCGTTTGgtaagtggtcataagcaccctcatgcttgtcactatgatgtgtgtttttt Alignment from Exonerate_protein2genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGT-GGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG ggggtgcttgcaaagaatgcttcttacatttattgtaatgtctcttatagGTGGTGTAACAGGCGGCTGGGACAATCTGCTTGCTGTGACACCAGGTCGGATCATCCACA---TTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCCACAGTAATC---ATGGATCGTTTGgtaagtggtcataagcaccctcatgcttgtcactatgatgtgtgtttttt Alignment from Exonerate_coding2genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGT-GGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG ggggtgcttgcaaagaatgcttcttacatttattgtaatgtctcttatagGTGGTGTAACAGGCGGCTGGGACAATCTGCTTGCTGTGACACCAGGTCGGATCATCCACA---TTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCCACAGTAATC---ATGGATCGTTTGgtaagtggtcataagcaccctcatgcttgtcactatgatgtgtgtttttt Alignment from GeneWise GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG ggggtgcttgcaaagaatgcttcttacatttattgtaatgtctcttatagGTGGTGTAACAGGCGGCTGGGACAATCTGCTTGCTGTGACACCAGGTC--GGATCATCCACATTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCCACAGTAATC---ATGGATCGTTTGgtaagtggtcataagcaccctcatgcttgtcactatgatgtgtgtttttt #### Ndufv1_ID276_6 --> 2 - 1 Original Alignment gaGTGTTTGGATGCCCCACAACTGTGGCCAAT-GTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTg gatggtgcttgattatgactcagttaatcaatccctgtgtgtcttttcaggaGTGTTTGGCTGTCCCACCACTGTGACCAATCGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAGCACAATTCAGGTACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCACTGTGGAGGAAGAGATGGCAGTACCCCTCAAGGAGCTGATTGAGAAACATACTggtaaagctttagccaattaaaggtcagggcatcagaggggtgcttgcaaa Alignment from CESAR gaGTGTTTGGATGCCCCACAACTGTGGCCAAT-GTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTg gatggtgcttgattatgactcagttaatcaatccctgtgtgtcttttcaggaGTGTTTGGCTGTCCCACCACTGTGACCAATCGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAGCACAATTCAGGTACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCACTGTGGAGGAAGAGATGGCAGTACCCCTCAAGGAGCTGATTGAGAAACATACTggtaaagctttagccaattaaaggtcagggcatcagaggggtgcttgcaaa Alignment from Spaln_aa2Genome GAGTGTTTGGATGCCCCACAACTGTGGCCAAT-GTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gatggtgcttgattatgactcagttaatcaatccctgtgtgtcttttcagGAGTGTTTGGCTGTCCCACCACTGTGACCAATcGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAGCACAATTCAGGTACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCACTGTGGAGGAAGAGATGGCAGTACCCCTCAAGGAGCTGATTGAGAAACATACTGgtaaagctttagccaattaaaggtcagggcatcagaggggtgcttgcaaa Alignment from Spaln_nt2Genome GAGTGTTTGGATGCCCCACAACTGTGGCCAAT-GTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gatggtgcttgattatgactcagttaatcaatccctgtgtgtcttttcagGAGTGTTTGGCTGTCCCACCACTGTGACCAATCGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAGCACAATTCAGGTACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCACTGTGGAGGAAGAGATGGCAGTACCCCTCAAGGAGCTGATTGAGAAACATACTGgtaaagctttagccaattaaaggtcagggcatcagaggggtgcttgcaaa Alignment from Pairagon GAGTGTTTGGATGCCCCACAACTGTGGCCAAT-GTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gatggtgcttgattatgactcagttaatcaatccctgtgtgtcttttcagGAGTGTTTGGCTGTCCCACCACTGTGACCAATCGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAGCACAATTCAGGTACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCACTGTGGAGGAAGAGATGGCAGTACCCCTCAAGGAGCTGATTGAGAAACATACTGgtaaagctttagccaattaaaggtcagggcatcagaggggtgcttgcaaa Alignment from Exonerate_protein2genome GAGTGTTTGGATGCCCCACAACTGTGGCCAAT-GTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gatggtgcttgattatgactcagttaatcaatccctgtgtgtcttttcagGAGTGTTTGGCTGTCCCACCACTGTGACCAATCGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAGCACAATTCAGGTACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCACTGTGGAGGAAGAGATGGCAGTACCCCTCAAGGAGCTGATTGAGAAACATACTGgtaaagctttagccaattaaaggtcagggcatcagaggggtgcttgcaaa Alignment from Exonerate_coding2genome GAGTGTTTGGATGCCCCACAACTGTGGCCAAT-GTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gatggtgcttgattatgactcagttaatcaatccctgtgtgtcttttcagGAGTGTTTGGCTGTCCCACCACTGTGACCAATCGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAGCACAATTCAGGTACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCACTGTGGAGGAAGAGATGGCAGTACCCCTCAAGGAGCTGATTGAGAAACATACTGgtaaagctttagccaattaaaggtcagggcatcagaggggtgcttgcaaa Alignment from GeneWise GAGTGTTTGGATGCCCCACAACTGTGGCCAAT-GTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gatggtgcttgattatgactcagttaatcaatccctgtgtgtcttttcagGAGTGTTTGGCTGTCCCACCACTGTGACCAATCGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAGCACAATTCAGGTACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCACTGTGGAGGAAGAGATGGCAGTACCCCTCAAGGAGCTGATTGAGAAACATACTGgtaaagctttagccaattaaaggtcagggcatcagaggggtgcttgcaaa #### Ndufv1_ID280_2 --> 0 - 2 Original Alignment ACAGCACCCAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGAC-CGGATCTTTACCAACCTGTATGGGCGCCATGACTGGag ttgtatgtgtgctcctgtctctacgcaattcatgtgttctgctatttcagACAGCACCCAAAAAACCTTCATTTGGCTCAGTGAAGGATGATGACCTGCCTTTTTTCCAACCTCTGTGGGCGCCATGACTGGaggtgagtcatggttgagtcacaacttgggaaagtgcttcagattacaatct Alignment from CESAR ACAGCACCCAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGACCGG-ATCTTTACCAACCTGTATGGGCGCCATGACTGGag ttgtatgtgtgctcctgtctctacgcaattcatgtgttctgctatttcagACAGCACCCAAAAAACCTTCATTTGGCTCAGTGAAGGATGATGACCTGCCTTTTTTCCAACCTCTGTGGGCGCCATGACTGGaggtgagtcatggttgagtcacaacttgggaaagtgcttcagattacaatct Alignment from Spaln_aa2Genome ACAGCACCCAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGAC-CGGATCTTTACCAACCTGTATGGGCGCCATGACTGGAG ttgtatgtgtgctcctgtctctacgcaattcatgtgttctgctatttcagACAGCACCCAAAAAACCTTCATTTGGCTCAGTGAAGGATGATGACcTGCCTTTTTTCCAACCTCTGTGGGCGCCATGACTGGAGgtgagtcatggttgagtcacaacttgggaaagtgcttcagattacaatct Alignment from Spaln_nt2Genome ACAGCACCCAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGACCGGA-TCTTTACCAACCTGTATGGGCGCCATGACTGGAG ttgtatgtgtgctcctgtctctacgcaattcatgtgttctgctatttcagACAGCACCCAAAAAACCTTCATTTGGCTCAGTGAAGGATGATGACCTGCCTTTTTTCCAACCTCTGTGGGCGCCATGACTGGAGgtgagtcatggttgagtcacaacttgggaaagtgcttcagattacaatct Alignment from Pairagon ACAGCACCCAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGACC-GGATCTTTACCAACCTGTATGGGCGCCATGACTGGAG ttgtatgtgtgctcctgtctctacgcaattcatgtgttctgctatttcagACAGCACCCAAAAAACCTTCATTTGGCTCAGTGAAGGATGATGACCTGCCTTTTTTCCAACCTCTGTGGGCGCCATGACTGGAGgtgagtcatggttgagtcacaacttgggaaagtgcttcagattacaatct Alignment from Exonerate_protein2genome ACAGCACCCAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGACCGG-ATCTTTACCAACCTGTATGGGCGCCATGACTGGAG ttgtatgtgtgctcctgtctctacgcaattcatgtgttctgctatttcagACAGCACCCAAAAAACCTTCATTTGGCTCAGTGAAGGATGATGACCTGCCTTTTTTCCAACCTCTGTGGGCGCCATGACTGGAGgtgagtcatggttgagtcacaacttgggaaagtgcttcagattacaatct Alignment from Exonerate_coding2genome ACAGCACCCAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGACCGG-ATCTTTACCAACCTGTATGGGCGCCATGACTGGAG ttgtatgtgtgctcctgtctctacgcaattcatgtgttctgctatttcagACAGCACCCAAAAAACCTTCATTTGGCTCAGTGAAGGATGATGACCTGCCTTTTTTCCAACCTCTGTGGGCGCCATGACTGGAGgtgagtcatggttgagtcacaacttgggaaagtgcttcagattacaatct Alignment from GeneWise ACAGCACCCAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGAC-CGGATCTTTACCAACCTGTATGGGCGCCATGACTGGAG ttgtatgtgtgctcctgtctctacgcaattcatgtgttctgctatttcagACAGCACCCAAAAAACCTTCATTTGGCTCAGTGAAGGATGATGACCTGCCTTTTTTCCAACCTCTGTGGGCGCCATGACTGGAGgtgagtcatggttgagtcacaacttgggaaagtgcttcagattacaatct #### Nfkb2_ID9824_2 --> 0 - 1 Original Alignment GGCCTGGATGGCATCCCCGAATATGAT-GATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAg tagccaatttatcccttaataccactacttgtctgctcctttccatgtagGGGCTAGACGGAATCCCAGATTATGAACGATTTTGAATTCAGCCCAACCATAGGTGAACCTAATGACCCAGCACCTGAAACAggtgagagagtatacggaggcttttcaattgaggagtttgaggtgtccact Alignment from CESAR GGCCTGGATGGCATCCCCGAATATGAT-GATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAg tagccaatttatcccttaataccactacttgtctgctcctttccatgtagGGGCTAGACGGAATCCCAGATTATGAACGATTTTGAATTCAGCCCAACCATAGGTGAACCTAATGACCCAGCACCTGAAACAggtgagagagtatacggaggcttttcaattgaggagtttgaggtgtccact Alignment from Spaln_aa2Genome GGCCTGGATGGCATCCCCGAATATGAT-GATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG tagccaatttatcccttaataccactacttgtctgctcctttccatgtagGGGCTAGACGGAATCCCAGATTATGAAcGATTTTGAATTCAGCCCAACCATAGGTGAACCTAATGACCCAGCACCTGAAACAGgtgagagagtatacggaggcttttcaattgaggagtttgaggtgtccact Alignment from Spaln_nt2Genome GGCCTGGATGGCATCCCCGAATATGAT-GATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG tagccaatttatcccttaataccactacttgtctgctcctttccatgtagGGGCTAGACGGAATCCCAGATTATGAACGATTTTGAATTCAGCCCAACCATAGGTGAACCTAATGACCCAGCACCTGAAACAGgtgagagagtatacggaggcttttcaattgaggagtttgaggtgtccact Alignment from Pairagon GGCCTGGATGGCATCCCCGAATATG-ATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG tagccaatttatcccttaataccactacttgtctgctcctttccatgtagGGGCTAGACGGAATCCCAGATTATGAACGATTTTGAATTCAGCCCAACCATAGGTGAACCTAATGACCCAGCACCTGAAACAGgtgagagagtatacggaggcttttcaattgaggagtttgaggtgtccact Alignment from Exonerate_protein2genome GGCCTGGATGGCATCCCCGAATATGAT-GATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG tagccaatttatcccttaataccactacttgtctgctcctttccatgtagGGGCTAGACGGAATCCCAGATTATGAACGATTTTGAATTCAGCCCAACCATAGGTGAACCTAATGACCCAGCACCTGAAACAGgtgagagagtatacggaggcttttcaattgaggagtttgaggtgtccact Alignment from Exonerate_coding2genome GGCCTGGATGGCATCCCCGAATATGAT-GATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG tagccaatttatcccttaataccactacttgtctgctcctttccatgtagGGGCTAGACGGAATCCCAGATTATGAACGATTTTGAATTCAGCCCAACCATAGGTGAACCTAATGACCCAGCACCTGAAACAGgtgagagagtatacggaggcttttcaattgaggagtttgaggtgtccact Alignment from GeneWise GACAATTGCTACGATCCAGGCCTGGATGGCATCCCCGAATAT-GATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG tagccaatttatcccttaataccactacttgtctgctcctttccatgtag------------------GGGCTAGACGGAATCCCAGATTATGAACGATTTTGAATTCAGCCCAACCATAGGTGAACCTAATGACCCAGCACCTGAAACAGgtgagagagtatacggaggcttttcaattgaggagtttgaggtgtccact #### Nfkb2_ID9826_4 --> 0 - 0 Original Alignment CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTAT-CCTACTGTCAAG gggtagtttgcttcacctgctcattgtacttttgctgttaaacttttcagAGAGGCTATAGATTCCGCTATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCAGGTGCATCCAGTGAGAAGGGACGGAAGAGCTATCCCCACTGTAAAAgtaagaacaggtgccacagctgcttcatgcataggcctgtggggcactca Alignment from CESAR CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTAT-CCTACTGTCAAG gggtagtttgcttcacctgctcattgtacttttgctgttaaacttttcagAGAGGCTATAGATTCCGCTATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCAGGTGCATCCAGTGAGAAGGGACGGAAGAGCTATCCCCACTGTAAAAgtaagaacaggtgccacagctgcttcatgcataggcctgtggggcactca Alignment from Spaln_aa2Genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTAT-CCTACTGTCAAG gggtagtttgcttcacctgctcattgtacttttgctgttaaacttttcagAGAGGCTATAGATTCCGCTATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCAGGTGCATCCAGTGAGAAGGGACGGAAGAGCTATcCCCACTGTAAAAgtaagaacaggtgccacagctgcttcatgcataggcctgtggggcactca Alignment from Spaln_nt2Genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCT-ACTGTCAAG gggtagtttgcttcacctgctcattgtacttttgctgttaaacttttcagAGAGGCTATAGATTCCGCTATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCAGGTGCATCCAGTGAGAAGGGACGGAAGAGCTATCCCCACTGTAAAAgtaagaacaggtgccacagctgcttcatgcataggcctgtggggcactca Alignment from Pairagon CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCT-ACTGTCAAG gggtagtttgcttcacctgctcattgtacttttgctgttaaacttttcagAGAGGCTATAGATTCCGCTATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCAGGTGCATCCAGTGAGAAGGGACGGAAGAGCTATCCCCACTGTAAAAgtaagaacaggtgccacagctgcttcatgcataggcctgtggggcactca Alignment from Exonerate_protein2genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTAT-CCTACTGTCAAG gggtagtttgcttcacctgctcattgtacttttgctgttaaacttttcagAGAGGCTATAGATTCCGCTATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCAGGTGCATCCAGTGAGAAGGGACGGAAGAGCTATCCCCACTGTAAAAgtaagaacaggtgccacagctgcttcatgcataggcctgtggggcactca Alignment from Exonerate_coding2genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTAT-CCTACTGTCAAG gggtagtttgcttcacctgctcattgtacttttgctgttaaacttttcagAGAGGCTATAGATTCCGCTATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCAGGTGCATCCAGTGAGAAGGGACGGAAGAGCTATCCCCACTGTAAAAgtaagaacaggtgccacagctgcttcatgcataggcctgtggggcactca Alignment from GeneWise CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCT-ACTGTCAAG gggtagtttgcttcacctgctcattgtacttttgctgttaaacttttcagAGAGGCTATAGATTCCGCTATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCAGGTGCATCCAGTGAGAAGGGACGGAAGAGCTATCCCCACTGTAAAAgtaagaacaggtgccacagctgcttcatgcataggcctgtggggcactca #### Nfkb2_ID9827_5 --> 0 - 2 Original Alignment ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCC-CACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTca ggcctgtggggcactcagctatatagaatattccttttcttcttttccagATATGTAACTATGAGGGACCCAGAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCCACAGTCTGGCAGGCAAGCAGTGTTCAGAAGTCGGGGTATGTGCCATTTCTGTAGGCCCCAAGGACATGACTGCTcagtgagtcgcttaacagtcttggagctaatccaagggatatctggatgtcc Alignment from CESAR ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCC-CACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTca ggcctgtggggcactcagctatatagaatattccttttcttcttttccagATATGTAACTATGAGGGACCCAGAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCCACAGTCTGGCAGGCAAGCAGTGTTCAGAAGTCGGGGTATGTGCCATTTCTGTAGGCCCCAAGGACATGACTGCTcagtgagtcgcttaacagtcttggagctaatccaagggatatctggatgtcc Alignment from Spaln_aa2Genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCC-CACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA ggcctgtggggcactcagctatatagaatattccttttcttcttttccagATATGTAACTATGAGGGACCCAGAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCcCACAGTCTGGCAGGCAAGCAGTGTTCAGAAGTCGGGGTATGTGCCATTTCTGTAGGCCCCAAGGACATGACTGCTCAgtgagtcgcttaacagtcttggagctaatccaagggatatctggatgtcc Alignment from Spaln_nt2Genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATG-CCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA ggcctgtggggcactcagctatatagaatattccttttcttcttttccagATATGTAACTATGAGGGACCCAGAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCCACAGTCTGGCAGGCAAGCAGTGTTCAGAAGTCGGGGTATGTGCCATTTCTGTAGGCCCCAAGGACATGACTGCTCAgtgagtcgcttaacagtcttggagctaatccaagggatatctggatgtcc Alignment from Pairagon ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATG-CCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA ggcctgtggggcactcagctatatagaatattccttttcttcttttccagATATGTAACTATGAGGGACCCAGAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCCACAGTCTGGCAGGCAAGCAGTGTTCAGAAGTCGGGGTATGTGCCATTTCTGTAGGCCCCAAGGACATGACTGCTCAgtgagtcgcttaacagtcttggagctaatccaagggatatctggatgtcc Alignment from Exonerate_protein2genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCC-CACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA ggcctgtggggcactcagctatatagaatattccttttcttcttttccagATATGTAACTATGAGGGACCCAGAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCCACAGTCTGGCAGGCAAGCAGTGTTCAGAAGTCGGGGTATGTGCCATTTCTGTAGGCCCCAAGGACATGACTGCTCAgtgagtcgcttaacagtcttggagctaatccaagggatatctggatgtcc Alignment from Exonerate_coding2genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCC-CACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA ggcctgtggggcactcagctatatagaatattccttttcttcttttccagATATGTAACTATGAGGGACCCAGAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCCACAGTCTGGCAGGCAAGCAGTGTTCAGAAGTCGGGGTATGTGCCATTTCTGTAGGCCCCAAGGACATGACTGCTCAgtgagtcgcttaacagtcttggagctaatccaagggatatctggatgtcc Alignment from GeneWise ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCAT-GCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA ggcctgtggggcactcagctatatagaatattccttttcttcttttccagATATGTAACTATGAGGGACCCAGAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCCACAGTCTGGCAGGCAAGCAGTGTTCAGAAGTCGGGGTATGTGCCATTTCTGTAGGCCCCAAGGACATGACTGCTCAgtgagtcgcttaacagtcttggagctaatccaagggatatctggatgtcc #### Nfkb2_ID9832_10 --> 0 - 1 Original Alignment TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACATAT-TAC---CCTCTGGTGGAAg tagtgtgccattctgtttcagacccaacctgagctcacctctctctttagTATGCCATTCCGTTCCAGACCCCACCCTATCACAAGATGAAGGTTGAAAGACCTTTGACTGTGTACCTTCAGCTGAAACGTAAGCGTGGGGGTGATGTTTCAGACTGCAGAGAATACACCTATCTATTACTCTTTAGTAGAGggtaagacatcaggggtcactattctgcaaagccagtggaacccctaccca Alignment from CESAR TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACATAT----TACCCTCTGGTGGAAg tagtgtgccattctgtttcagacccaacctgagctcacctctctctttagTATGCCATTCCGTTCCAGACCCCACCCTATCACAAGATGAAGGTTGAAAGACCTTTGACTGTGTACCTTCAGCTGAAACGTAAGCGTGGGGGTGATGTTTCAGACTGCAGAGAATACACCTATCTATTACTCTTTAGTAGAGggtaagacatcaggggtcactattctgcaaagccagtggaacccctaccca Alignment from Spaln_aa2Genome TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACATATTACCCTCTGGTG- tagtgtgccattctgtttcagacccaacctgagctcacctctctctttagTATGCCATTCCGTTCCAGACCCCACCCTATCACAAGATGAAGGTTGAAAGACCTTTGACTGTGTACCTTCAGCTGAAACGTAAGCGTGGGGGTGATGTTTCAGACTGCAGAGAATACACCTATCTATTACTCTTTAgtagagggtaagacatcaggggtcactattctgcaaagccagtggaacccctaccca Alignment from Spaln_nt2Genome TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACATAT----TACCCTCTGGTGGAAG tagtgtgccattctgtttcagacccaacctgagctcacctctctctttagTATGCCATTCCGTTCCAGACCCCACCCTATCACAAGATGAAGGTTGAAAGACCTTTGACTGTGTACCTTCAGCTGAAACGTAAGCGTGGGGGTGATGTTTCAGACTGCAGAGAATACACCTATCTATTACTCTTTAGTAGAGGgtaagacatcaggggtcactattctgcaaagccagtggaacccctaccca Alignment from Pairagon TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCAC----ATATTACCCTCTGGTGGAAG tagtgtgccattctgtttcagacccaacctgagctcacctctctctttagTATGCCATTCCGTTCCAGACCCCACCCTATCACAAGATGAAGGTTGAAAGACCTTTGACTGTGTACCTTCAGCTGAAACGTAAGCGTGGGGGTGATGTTTCAGACTGCAGAGAATACACCTATCTATTACTCTTTAGTAGAGGgtaagacatcaggggtcactattctgcaaagccagtggaacccctaccca Alignment from Exonerate_protein2genome TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACA----TATTACCCTCTGGTGGAAG tagtgtgccattctgtttcagacccaacctgagctcacctctctctttagTATGCCATTCCGTTCCAGACCCCACCCTATCACAAGATGAAGGTTGAAAGACCTTTGACTGTGTACCTTCAGCTGAAACGTAAGCGTGGGGGTGATGTTTCAGACTGCAGAGAATACACCTATCTATTACTCTTTAGTAGAGGgtaagacatcaggggtcactattctgcaaagccagtggaacccctaccca Alignment from Exonerate_coding2genome TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACA----TATTACCCTCTGGTGGAAG tagtgtgccattctgtttcagacccaacctgagctcacctctctctttagTATGCCATTCCGTTCCAGACCCCACCCTATCACAAGATGAAGGTTGAAAGACCTTTGACTGTGTACCTTCAGCTGAAACGTAAGCGTGGGGGTGATGTTTCAGACTGCAGAGAATACACCTATCTATTACTCTTTAGTAGAGGgtaagacatcaggggtcactattctgcaaagccagtggaacccctaccca Alignment from GeneWise TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACATATTACCCTCTGGTGGAAG tagtgtgccattctgtttcagacccaacctgagctcacctctctctttagTATGCCATTCCGTTCCAGACCCCACCCTATCACAAGATGAAGGTTGAAAGACCTTTGACTGTGTACCTTCAGCTGAAACGTAAGCGTGGGGGTGATGTTTCAGACTGCAGAGAATACACCTATCTA---TTACTCTTTAgtagagggtaagacatcaggggtcactattctgcaaagccagtggaacccctaccca #### Nfkb2_ID9834_12 --> 2 - 1 Original Alignment gtGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAG-GCCCTTGACACACTGCAGCGAg atattgcctttgtaaggaccctgattaatcaccccgcttcccctctgcaggtGGAAGCCTTGGTTTCCTATCCCCCCCTTTGGCCTATAATCCATATCAACCAGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGCGGAACACAAACGGCTGGGTCTAGACGTGACACCGACGCTGGTGAGGGTCCTAAGGAGCCCAGGACGCCCCCAGAGGCTCCCCAGGGTGAACCACAACGCCCTAGACACACTGCATCGAagcatgtgttggcacgaatcaacacatgctattaaaggagcaacacaggat Alignment from CESAR gtGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAG-GCCCTTGACACACTGCAGCGAg atattgcctttgtaaggaccctgattaatcaccccgcttcccctctgcaggtGGAAGCCTTGGTTTCCTATCCCCCCCTTTGGCCTATAATCCATATCAACCAGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGCGGAACACAAACGGCTGGGTCTAGACGTGACACCGACGCTGGTGAGGGTCCTAAGGAGCCCAGGACGCCCCCAGAGGCTCCCCAGGGTGAACCACAACGCCCTAGACACACTGCATCGAagcatgtgttggcacgaatcaacacatgctattaaaggagcaacacaggat Alignment from Spaln_aa2Genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAG-GCCCTTGACACACTGCAGCGAG atattgcctttgtaaggaccctgattaatcaccccgcttcccctctgcagGTGGAAGCCTTGGTTTCCTATCCCCCCCTTTGGCCTATAATCCATATCAACCAGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGCGGAACACAAACGGCTGGGTCTAGACGTGACACCGACGCTGGTGAGGGTCCTAAGGAGCCCAGGACGCCCCCAGAGGCTCCCCAGGGTGAACCACAAcGCCCTAGACACACTGCATCGAAgcatgtgttggcacgaatcaacacatgctattaaaggagcaacacaggat Alignment from Spaln_nt2Genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAG-GCCCTTGACACACTGCAGCGAG atattgcctttgtaaggaccctgattaatcaccccgcttcccctctgcagGTGGAAGCCTTGGTTTCCTATCCCCCCCTTTGGCCTATAATCCATATCAACCAGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGCGGAACACAAACGGCTGGGTCTAGACGTGACACCGACGCTGGTGAGGGTCCTAAGGAGCCCAGGACGCCCCCAGAGGCTCCCCAGGGTGAACCACAACGCCCTAGACACACTGCATCGAAgcatgtgttggcacgaatcaacacatgctattaaaggagcaacacaggat Alignment from Pairagon GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAG-GCCCTTGACACACTGCAGCGAG atattgcctttgtaaggaccctgattaatcaccccgcttcccctctgcagGTGGAAGCCTTGGTTTCCTATCCCCCCCTTTGGCCTATAATCCATATCAACCAGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGCGGAACACAAACGGCTGGGTCTAGACGTGACACCGACGCTGGTGAGGGTCCTAAGGAGCCCAGGACGCCCCCAGAGGCTCCCCAGGGTGAACCACAACGCCCTAGACACACTGCATCGAAgcatgtgttggcacgaatcaacacatgctattaaaggagcaacacaggat Alignment from Exonerate_protein2genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAG-GCCCTTGACACACTGCAGCGAG atattgcctttgtaaggaccctgattaatcaccccgcttcccctctgcagGTGGAAGCCTTGGTTTCCTATCCCCCCCTTTGGCCTATAATCCATATCAACCAGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGCGGAACACAAACGGCTGGGTCTAGACGTGACACCGACGCTGGTGAGGGTCCTAAGGAGCCCAGGACGCCCCCAGAGGCTCCCCAGGGTGAACCACAACGCCCTAGACACACTGCATCGAAgcatgtgttggcacgaatcaacacatgctattaaaggagcaacacaggat Alignment from Exonerate_coding2genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAG-GCCCTTGACACACTGCAGCGAGCT atattgcctttgtaaggaccctgattaatcaccccgcttcccctctgcagGTGGAAGCCTTGGTTTCCTATCCCCCCCTTTGGCCTATAATCCATATCAACCAGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGCGGAACACAAACGGCTGGGTCTAGACGTGACACCGACGCTGGTGAGGGTCCTAAGGAGCCCAGGACGCCCCCAGAGGCTCCCCAGGGTGAACCACAACGCCCTAGACACACTGCATCGAAGCatgtgttggcacgaatcaacacatgctattaaaggagcaacacaggat Alignment from GeneWise GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAG-GCCCTTGACACACTGCAGCGAGCTCGC- atattgcctttgtaaggaccctgattaatcaccccgcttcccctctgcagGTGGAAGCCTTGGTTTCCTATCCCCCCCTTTGGCCTATAATCCATATCAACCAGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGCGGAACACAAACGGCTGGGTCTAGACGTGACACCGACGCTGGTGAGGGTCCTAAGGAGCCCAGGACGCCCCCAGAGGCTCCCCAGGGTGAACCACAACGCCCTAGACACACTGCATCGAAGCATGTgttggcacgaatcaacacatgctattaaaggagcaacacaggat #### Nfkb2_ID9838_16 --> 2 - 0 Original Alignment gaCTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGAT-CTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG ttgcctagtcagagtggccactttggattctctgctttgtaaaatcctaggaCTATACCCTGTGCACCTGGCAGTACATGCACAAAGCCCTAAATGTCTGGATCCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAAGCAAGGGGGCCATAATCCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGTTA---GCCCATTTGGTCACCAAAgtttgtatgtttagactaaaaattgtgataaaatgatatatgctgtatcc Alignment from CESAR gaCTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGAT-CTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG ttgcctagtcagagtggccactttggattctctgctttgtaaaatcctaggaCTATACCCTGTGCACCTGGCAGTACATGCACAAAGCCCTAAATGTCTGGATCCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAAGCAAGGGGGCCATAATCCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGTTA---GCCCATTTGGTCACCAAAgtttgtatgtttagactaaaaattgtgataaaatgatatatgctgtatcc Alignment from Spaln_aa2Genome GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGAT-CTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG ttgcctagtcagagtggccactttggattctctgctttgtaaaatcctagGACTATACCCTGTGCACCTGGCAGTACATGCACAAAGCCCTAAATGTCTGGATcCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAAGCAAGGGGGCCATAATCCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGTTA---GCCCATTTGGTCACCAAAgtttgtatgtttagactaaaaattgtgataaaatgatatatgctgtatcc Alignment from Spaln_nt2Genome GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGAT-CTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG ttgcctagtcagagtggccactttggattctctgctttgtaaaatcctagGACTATACCCTGTGCACCTGGCAGTACATGCACAAAGCCCTAAATGTCTGGATCCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAAGCAAGGGGGCCATAATCCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGTTAG---CCCATTTGGTCACCAAAgtttgtatgtttagactaaaaattgtgataaaatgatatatgctgtatcc Alignment from Pairagon GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGAT-CTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG ttgcctagtcagagtggccactttggattctctgctttgtaaaatcctagGACTATACCCTGTGCACCTGGCAGTACATGCACAAAGCCCTAAATGTCTGGATCCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAAGCAAGGGGGCCATAATCCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGTTAG---CCCATTTGGTCACCAAAgtttgtatgtttagactaaaaattgtgataaaatgatatatgctgtatcc Alignment from Exonerate_protein2genome GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGAT-CTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG ttgcctagtcagagtggccactttggattctctgctttgtaaaatcctagGACTATACCCTGTGCACCTGGCAGTACATGCACAAAGCCCTAAATGTCTGGATCCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAAGCAAGGGGGCCATAATCCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGTTA---GCCCATTTGGTCACCAAAgtttgtatgtttagactaaaaattgtgataaaatgatatatgctgtatcc Alignment from Exonerate_coding2genome ttgcctagtcagagtggccactttggattctctgctttgtaaaatcctaggactataccctgtgcacctggcagtacatgcacaaagccctaaatgtctggatccttttagttgattgtggagcagttgtggaggctccagggaagcaagggggccataatcccctgcacctggcaacagagatggaagaattggggttagcccatttggtcaccaaagtttgtatgtttagactaaaaattgtgataaaatgatatatgctgtatcc Alignment from GeneWise GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGAT-CTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG ttgcctagtcagagtggccactttggattctctgctttgtaaaatcctagGACTATACCCTGTGCACCTGGCAGTACATGCACAAAGCCCTAAATGTCTGGATCCTTTTAGTTGATTGTGGAGCAGTTGTGGAGGCTCCAGGGAAGCAAGGGGGCCATAATCCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGTTAGCC---CATTTGGTCACCAAAgtttgtatgtttagactaaaaattgtgataaaatgatatatgctgtatcc #### Nfkb2_ID9841_19 --> 0 - 1 Original Alignment GTG---AAGACTCTGCTGCTAAATGCT-GCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAg tgatagggagagatacccccccattaggagcccttgcctgtgtgccacagGTGAAAAAAACACTACTTCTAAACACTCGCTCAGAATTCCACAGAGCCACCCTTGGCCCCCCCGACGCCAGTAggtacaactgcatgccatggcttgcaggggagggattgagggctttcttaa Alignment from CESAR GTGAAG---ACTCTGCTGCTAAATGCT-GCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAg tgatagggagagatacccccccattaggagcccttgcctgtgtgccacagGTGAAAAAAACACTACTTCTAAACACTCGCTCAGAATTCCACAGAGCCACCCTTGGCCCCCCCGACGCCAGTAggtacaactgcatgccatggcttgcaggggagggattgagggctttcttaa Alignment from Spaln_aa2Genome GTG---AAGACTCTGCTGCTAAATGCT-GCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG tgatagggagagatacccccccattaggagcccttgcctgtgtgccacagGTGAAAAAAACACTACTTCTAAACACTcGCTCAGAATTCCACAGAGCCACCCTTGGCCCCCCCGACGCCAGTAGgtacaactgcatgccatggcttgcaggggagggattgagggctttcttaa Alignment from Spaln_nt2Genome GTGAAGA---CTCTGCTGCTAAATGCT-GCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG tgatagggagagatacccccccattaggagcccttgcctgtgtgccacagGTGAAAAAAACACTACTTCTAAACACTCGCTCAGAATTCCACAGAGCCACCCTTGGCCCCCCCGACGCCAGTAGgtacaactgcatgccatggcttgcaggggagggattgagggctttcttaa Alignment from Pairagon -------AGACTCTGCTGCTAAATGCT-GCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG tgatagggagagatacccccccattaggagcccttgcctgtgtgccacagGTGAAAAAAACACTACTTCTAAACACTCGCTCAGAATTCCACAGAGCCACCCTTGGCCCCCCCGACGCCAGTAGgtacaactgcatgccatggcttgcaggggagggattgagggctttcttaa Alignment from Exonerate_protein2genome GTGAAGACTCTGCTGCTA----AATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG tgatagggagagatacccccccattaggagcccttgcctgtgtgccacagGTGAAAAAAACACTACTTCTAAACACTCGCTCAGAATTCCACAGAGCCACCCTTGGCCCCCCCGACGCCAGTAGgtacaactgcatgccatggcttgcaggggagggattgagggctttcttaa Alignment from Exonerate_coding2genome tgatagggagagatacccccccattaggagcccttgcctgtgtgccacaggtgaaaaaaacactacttctaaacactcgctcagaattccacagagccacccttggcccccccgacgccagtaggtacaactgcatgccatggcttgcaggggagggattgagggctttcttaa Alignment from GeneWise GTGAAG---ACTCTGCTGCTAAAT-GCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG tgatagggagagatacccccccattaggagcccttgcctgtgtgccacagGTGAAAAAAACACTACTTCTAAACACTCGCTCAGAATTCCACAGAGCCACCCTTGGCCCCCCCGACGCCAGTAGgtacaactgcatgccatggcttgcaggggagggattgagggctttcttaa #### Nfkb2_ID9842_20 --> 2 - 0 Original Alignment ggCCAGGGCTGTCCCTG-GGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG ctggactagtcttgtgccctaagcactgctgggcttgctttttctttcagagCCAGGCCTGTCCCTGCGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtacaattcagctctgatgagacctcagtcaacactgctgcggcctcaac Alignment from CESAR ggCCAGGGCTGTCCCTG-GGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG ctggactagtcttgtgccctaagcactgctgggcttgctttttctttcagagCCAGGCCTGTCCCTGCGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtacaattcagctctgatgagacctcagtcaacactgctgcggcctcaac Alignment from Spaln_aa2Genome GGCCAGGGCTGTCCCTG-GGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG ctggactagtcttgtgccctaagcactgctgggcttgctttttctttcagAGCCAGGCCTGTCCCTGcGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtacaattcagctctgatgagacctcagtcaacactgctgcggcctcaac Alignment from Spaln_nt2Genome GGCCAGGGCTGTCCCTGGGG-GATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG ctggactagtcttgtgccctaagcactgctgggcttgctttttctttcagAGCCAGGCCTGTCCCTGCGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtacaattcagctctgatgagacctcagtcaacactgctgcggcctcaac Alignment from Pairagon GGCCAGGGCTGTCCCTG-GGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG ctggactagtcttgtgccctaagcactgctgggcttgctttttctttcagAGCCAGGCCTGTCCCTGCGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtacaattcagctctgatgagacctcagtcaacactgctgcggcctcaac Alignment from Exonerate_protein2genome GGCCAGGGCTGTCCCTG-GGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG ctggactagtcttgtgccctaagcactgctgggcttgctttttctttcagAGCCAGGCCTGTCCCTGCGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtacaattcagctctgatgagacctcagtcaacactgctgcggcctcaac Alignment from Exonerate_coding2genome ctggactagtcttgtgccctaagcactgctgggcttgctttttctttcagagccaggcctgtccctgcggagatacagccctccaaaacttgcagcaactgttagatggtcctgaagcacaaggtagctgggcaaagctggctgagcgtctgggattgaggagcctggtggacacatacaggaaaactccatcttccagtggtagtctcctgcgtagctacaaggtacaattcagctctgatgagacctcagtcaacactgctgcggcctcaac Alignment from GeneWise -CCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG ctggactagtcttgtgccctaagcactgctgggcttgctttttctttcagagCCAGGCCTGTCCCTGCGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCTGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtacaattcagctctgatgagacctcagtcaacactgctgcggcctcaac #### Nfkb2_ID9843_21 --> 0 - 1 Original Alignment CTGGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCAT-GAGGGAGTCAGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCCAGCACAg ctcagtcaacactgctgcggcctcaactttgatatttgatgttccaatagTCAGCTGGTGGGGACCTGATTGGGCTATTGGAGGCCTTATCTGACATGGGACTTCATCGAGGGATTCAGGCTTCTGAAAGGTCCAGAGACCCGTGACAAGCTACCCAGCAAAggtaagcaatgaacgggcacttgatagatcatgtctgattagagaagacag Alignment from CESAR CTGGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCAT-GAGGGAGTCAGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCCAGCACAg ctcagtcaacactgctgcggcctcaactttgatatttgatgttccaatagTCAGCTGGTGGGGACCTGATTGGGCTATTGGAGGCCTTATCTGACATGGGACTTCATCGAGGGATTCAGGCTTCTGAAAGGTCCAGAGACCCGTGACAAGCTACCCAGCAAAggtaagcaatgaacgggcacttgatagatcatgtctgattagagaagacag Alignment from Spaln_aa2Genome CTGGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCATGAGGGAGTC-AGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCCAGCACAG ctcagtcaacactgctgcggcctcaactttgatatttgatgttccaatagTCAGCTGGTGGGGACCTGATTGGGCTATTGGAGGCCTTATCTGACATGGGACTTCATCGAGGGATTcAGGCTTCTGAAAGGTCCAGAGACCCGTGACAAGCTACCCAGCAAAGgtaagcaatgaacgggcacttgatagatcatgtctgattagagaagacag Alignment from Spaln_nt2Genome CTGGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCAT-GAGGGAGTCAGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCCAGCACAG ctcagtcaacactgctgcggcctcaactttgatatttgatgttccaatagTCAGCTGGTGGGGACCTGATTGGGCTATTGGAGGCCTTATCTGACATGGGACTTCATCGAGGGATTCAGGCTTCTGAAAGGTCCAGAGACCCGTGACAAGCTACCCAGCAAAGgtaagcaatgaacgggcacttgatagatcatgtctgattagagaagacag Alignment from Pairagon CTGGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCAT-GAGGGAGTCAGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCCAGCACAG ctcagtcaacactgctgcggcctcaactttgatatttgatgttccaatagTCAGCTGGTGGGGACCTGATTGGGCTATTGGAGGCCTTATCTGACATGGGACTTCATCGAGGGATTCAGGCTTCTGAAAGGTCCAGAGACCCGTGACAAGCTACCCAGCAAAGgtaagcaatgaacgggcacttgatagatcatgtctgattagagaagacag Alignment from Exonerate_protein2genome CTGGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCAT-GAGGGAGTCAGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCCAGCACAG ctcagtcaacactgctgcggcctcaactttgatatttgatgttccaatagTCAGCTGGTGGGGACCTGATTGGGCTATTGGAGGCCTTATCTGACATGGGACTTCATCGAGGGATTCAGGCTTCTGAAAGGTCCAGAGACCCGTGACAAGCTACCCAGCAAAGgtaagcaatgaacgggcacttgatagatcatgtctgattagagaagacag Alignment from Exonerate_coding2genome ctcagtcaacactgctgcggcctcaactttgatatttgatgttccaatagtcagctggtggggacctgattgggctattggaggccttatctgacatgggacttcatcgagggattcaggcttctgaaaggtccagagacccgtgacaagctacccagcaaaggtaagcaatgaacgggcacttgatagatcatgtctgattagagaagacag Alignment from GeneWise CTGGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCATGAGGGA-GTCAGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCCAGCACAG ctcagtcaacactgctgcggcctcaactttgatatttgatgttccaatagTCAGCTGGTGGGGACCTGATTGGGCTATTGGAGGCCTTATCTGACATGGGACTTCATCGAGGGATTCAGGCTTCTGAAAGGTCCAGAGACCCGTGACAAGCTACCCAGCAAAGgtaagcaatgaacgggcacttgatagatcatgtctgattagagaagacag #### Noc3l_ID7660_15 --> 0 - 1 Original Alignment GAGCTAAGTTATCAAGAAAGTCTC-CACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAg gggatagaatgcatggagtttaattgggccatgtgagttcctctcttcagGAACTTAGTTATCATGAAAGTCTCCCACTGTGTTCAAACTGCTTTTCATGTTCTTTCTGGACCAggtaagtaactcattctgccaccctttcatttcaataaaagccatcctttc Alignment from CESAR GAGCTAAGTTATCAAGAAAGTCTC-CACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAg gggatagaatgcatggagtttaattgggccatgtgagttcctctcttcagGAACTTAGTTATCATGAAAGTCTCCCACTGTGTTCAAACTGCTTTTCATGTTCTTTCTGGACCAggtaagtaactcattctgccaccctttcatttcaataaaaaatctgtttgt Alignment from Spaln_aa2Genome GAGCTAAGTTATCAAGAAAGTCTC-CACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG gggatagaatgcatggagtttaattgggccatgtgagttcctctcttcagGAACTTAGTTATCATGAAAGTCTCcCACTGTGTTCAAACTGCTTTTCATGTTCTTTCTGGACCAGgtaagtaactcattctgccaccctttcatttcaataaaagccatcctttc Alignment from Spaln_nt2Genome GAGCTAAGTTATCAAGAAAGTCT-CCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG gggatagaatgcatggagtttaattgggccatgtgagttcctctcttcagGAACTTAGTTATCATGAAAGTCTCCCACTGTGTTCAAACTGCTTTTCATGTTCTTTCTGGACCAGgtaagtaactcattctgccaccctttcatttcaataaaagccatcctttc Alignment from Pairagon GAGCTAAGTTATCAAGAAAGTCT-CCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG gggatagaatgcatggagtttaattgggccatgtgagttcctctcttcagGAACTTAGTTATCATGAAAGTCTCCCACTGTGTTCAAACTGCTTTTCATGTTCTTTCTGGACCAGgtaagtaactcattctgccaccctttcatttcaataaaagccatcctttc Alignment from Exonerate_protein2genome GAGCTAAGTTATCAAGAAAGTCTC-CACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG gggatagaatgcatggagtttaattgggccatgtgagttcctctcttcagGAACTTAGTTATCATGAAAGTCTCCCACTGTGTTCAAACTGCTTTTCATGTTCTTTCTGGACCAGgtaagtaactcattctgccaccctttcatttcaataaaagccatcctttc Alignment from Exonerate_coding2genome GAGCTAAGTTATCAAGAAAGTCTC-CACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG gggatagaatgcatggagtttaattgggccatgtgagttcctctcttcagGAACTTAGTTATCATGAAAGTCTCCCACTGTGTTCAAACTGCTTTTCATGTTCTTTCTGGACCAGgtaagtaactcattctgccaccctttcatttcaataaaagccatcctttc Alignment from GeneWise GAGCTAAGTTATCAAGAAAGT-CTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG gggatagaatgcatggagtttaattgggccatgtgagttcctctcttcagGAACTTAGTTATCATGAAAGTCTCCCACTGTGTTCAAACTGCTTTTCATGTTCTTTCTGGACCAGgtaagtaactcattctgccaccctttcatttcaataaaagccatcctttc #### Npas4_ID775_6 --> 2 - 2 Original Alignment tgGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAA-GGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCag gtagatggtttgatagcacctgagatcttaagaaaccatttttccctaagttGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTAAGGCTGCAGACCAAGCATGGAGGGTGGGCATGGATTTATTGCATGTTATGCTCAGAGCGGACCAGAAGGACCTTTCGCTGCAAATAATTATCCTAATaggtatgttgggttccatcagacaaatgctgtatttggtttttataaattac Alignment from CESAR tgGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAA-GGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCag gtagatggtttgatagcacctgagatcttaagaaaccatttttccctaagttGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTAAGGCTGCAGACCAAGCATGGAGGGTGGGCATGGATTTATTGCATGTTATGCTCAGAGCGGACCAGAAGGACCTTTCGCTGCAAATAATTATCCTAATaggtatgttgggttccatcagacaaatgctgtatttggtttttataaattac Alignment from Spaln_aa2Genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAA-GGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtagatggtttgatagcacctgagatcttaagaaaccatttttccctaagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTAAGGCTGCAGACCAAGCATGGAGGGTGGGCATGGATTTATTGCATGTTATGCTCAGAGcGGACCAGAAGGACCTTTCGCTGCAAATAATTATCCTAATAGgtatgttgggttccatcagacaaatgctgtatttggtttttataaattac Alignment from Spaln_nt2Genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAA-GGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtagatggtttgatagcacctgagatcttaagaaaccatttttccctaagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTAAGGCTGCAGACCAAGCATGGAGGGTGGGCATGGATTTATTGCATGTTATGCTCAGAGCGGACCAGAAGGACCTTTCGCTGCAAATAATTATCCTAATAGgtatgttgggttccatcagacaaatgctgtatttggtttttataaattac Alignment from Pairagon TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAA-GGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtagatggtttgatagcacctgagatcttaagaaaccatttttccctaagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTAAGGCTGCAGACCAAGCATGGAGGGTGGGCATGGATTTATTGCATGTTATGCTCAGAGCGGACCAGAAGGACCTTTCGCTGCAAATAATTATCCTAATAGgtatgttgggttccatcagacaaatgctgtatttggtttttataaattac Alignment from Exonerate_protein2genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAA-GGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtagatggtttgatagcacctgagatcttaagaaaccatttttccctaagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTAAGGCTGCAGACCAAGCATGGAGGGTGGGCATGGATTTATTGCATGTTATGCTCAGAGCGGACCAGAAGGACCTTTCGCTGCAAATAATTATCCTAATAGgtatgttgggttccatcagacaaatgctgtatttggtttttataaattac Alignment from Exonerate_coding2genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAA-GGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtagatggtttgatagcacctgagatcttaagaaaccatttttccctaagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTAAGGCTGCAGACCAAGCATGGAGGGTGGGCATGGATTTATTGCATGTTATGCTCAGAGCGGACCAGAAGGACCTTTCGCTGCAAATAATTATCCTAATAGgtatgttgggttccatcagacaaatgctgtatttggtttttataaattac Alignment from GeneWise TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCA-GAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtagatggtttgatagcacctgagatcttaagaaaccatttttccctaagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTAAGGCTGCAGACCAAGCATGGAGGGTGGGCATGGATTTATTGCATGTTATGCTCAGAGCGGACCAGAAGGACCTTTCGCTGCAAATAATTATCCTAATAGgtatgttgggttccatcagacaaatgctgtatttggtttttataaattac #### Npas4_ID778_3 --> 0 - 1 Original Alignment GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACT-GTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTg gcaaggtcctatcctcaagtgccctcatctcccgcgttctgtgttcgcagGTGGACTTAGTGGCACAGGGAGTCAGTATCTATGATATTCTGGACCCTACTGACCATCTAACACGTGTGTCAACAACTCACAATGCCCTCTGCTCTTGATGCAggtgagactatcatgaacatgatttcctatgtgtttggtgcacttactaat Alignment from CESAR GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACT-GTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTg gcaaggtcctatcctcaagtgccctcatctcccgcgttctgtgttcgcagGTGGACTTAGTGGCACAGGGAGTCAGTATCTATGATATTCTGGACCCTACTGACCATCTAACACGTGTGTCAACAACTCACAATGCCCTCTGCTCTTGATGCAggtgagactatcatgaacatgatttcctatgtgtttggtgcacttactaat Alignment from Spaln_aa2Genome GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACT-GTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTG gcaaggtcctatcctcaagtgccctcatctcccgcgttctgtgttcgcagGTGGACTTAGTGGCACAGGGAGTCAGTATCTATGATATTCTGGACCCTACTGACCATCTAACAcGTGTGTCAACAACTCACAATGCCCTCTGCTCTTGATGCAGgtgagactatcatgaacatgatttcctatgtgtttggtgcacttactaat Alignment from Spaln_nt2Genome GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACT-GTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTG gcaaggtcctatcctcaagtgccctcatctcccgcgttctgtgttcgcagGTGGACTTAGTGGCACAGGGAGTCAGTATCTATGATATTCTGGACCCTACTGACCATCTAACACGTGTGTCAACAACTCACAATGCCCTCTGCTCTTGATGCAGgtgagactatcatgaacatgatttcctatgtgtttggtgcacttactaat Alignment from Pairagon GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCAC-TGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTG gcaaggtcctatcctcaagtgccctcatctcccgcgttctgtgttcgcagGTGGACTTAGTGGCACAGGGAGTCAGTATCTATGATATTCTGGACCCTACTGACCATCTAACACGTGTGTCAACAACTCACAATGCCCTCTGCTCTTGATGCAGgtgagactatcatgaacatgatttcctatgtgtttggtgcacttactaat Alignment from Exonerate_protein2genome GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACT-GTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTG gcaaggtcctatcctcaagtgccctcatctcccgcgttctgtgttcgcagGTGGACTTAGTGGCACAGGGAGTCAGTATCTATGATATTCTGGACCCTACTGACCATCTAACACGTGTGTCAACAACTCACAATGCCCTCTGCTCTTGATGCAGgtgagactatcatgaacatgatttcctatgtgtttggtgcacttactaat Alignment from Exonerate_coding2genome GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACT-GTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTG gcaaggtcctatcctcaagtgccctcatctcccgcgttctgtgttcgcagGTGGACTTAGTGGCACAGGGAGTCAGTATCTATGATATTCTGGACCCTACTGACCATCTAACACGTGTGTCAACAACTCACAATGCCCTCTGCTCTTGATGCAGgtgagactatcatgaacatgatttcctatgtgtttggtgcacttactaat Alignment from GeneWise GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACT-GTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTG gcaaggtcctatcctcaagtgccctcatctcccgcgttctgtgttcgcagGTGGACTTAGTGGCACAGGGAGTCAGTATCTATGATATTCTGGACCCTACTGACCATCTAACACGTGTGTCAACAACTCACAATGCCCTCTGCTCTTGATGCAGgtgagactatcatgaacatgatttcctatgtgtttggtgcacttactaat #### Npm3_ID9576_4 --> 0 - 1 Original Alignment CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGC-CCAGTTCGGATCACTGGCCGGCATCAGATCg tcatcattgatacccattaaaaagtactaccacccctgatctctacccagCTTGGAGTCGATGATCTCCAGCTTCAACCCCCAGTTTCCTTTCGATTGAGGTCAGGTTCAGGCCCCAGTTCGAATC---------CATCACATTggtaagtgggcagaattgtgtagactattatgcagtgcatggtcagcaaca Alignment from CESAR CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGC-CCAGTTCGGATCACTGGCCGGCATCAGATCg tcatcattgatacccattaaaaagtactaccacccctgatctctacccagCTTGGAGTCGATGATCTCCAGCTTCAACCCCCAGTTTCCTTTCGATTGAGGTCAGGTTCAGGCCCCAGTTCGAATC---------CATCACATTggtaagtgggcagaattgtgtagactattatgcagtgcatggtcagcaaca Alignment from Spaln_aa2Genome CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAG tcatcattgatacccattaaaaagtactaccacccctgatctctacccagCTTGGAGTCGATGATCTCCAGCTTCAACCCCCAGTTTCCTTTCGATTGAGGTCAGGTTCAGGCCCCAgttcgaatccatcacattggtaagtgggcagaattgtgtagactattatgcagtgcatggtcagcaaca Alignment from Spaln_nt2Genome CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCC-AGTTCGGATCACTGGCCGGCATCAGATCG tcatcattgatacccattaaaaagtactaccacccctgatctctacccagCTTGGAGTCGATGATCTCCAGCTTCAACCCCCAGTTTCCTTTCGATTGAGGTCAGGTTCAGGCCCCAGTTCGAATC---------CATCACATTGgtaagtgggcagaattgtgtagactattatgcagtgcatggtcagcaaca Alignment from Pairagon CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGG-CCCAGTTCGGATCACTGGCCGGCATCAGATCG tcatcattgatacccattaaaaagtactaccacccctgatctctacccagCTTGGAGTCGATGATCTCCAGCTTCAACCCCCAGTTTCCTTTCGATTGAGGTCAGGTTCAGGCCCCAGTTCGAATC---------CATCACATTGgtaagtgggcagaattgtgtagactattatgcagtgcatggtcagcaaca Alignment from Exonerate_protein2genome CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG tcatcattgatacccattaaaaagtactaccacccctgatctctacccagCTTGGAGTCGATGATCTCCAGCTTCAACCCCCAGTTTCCTTTCGATTGAGGTCAGGTTCAGGCCCCAGTTCGAATCCATCACATTGGTAAGTGGgcagaattgtgtagactattatgcagtgcatggtcagcaaca Alignment from Exonerate_coding2genome tcatcattgatacccattaaaaagtactaccacccctgatctctacccagcttggagtcgatgatctccagcttcaacccccagtttcctttcgattgaggtcaggttcaggccccagttcgaatccatcacattggtaagtgggcagaattgtgtagactattatgcagtgcatggtcagcaaca Alignment from GeneWise CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAG tcatcattgatacccattaaaaagtactaccacccctgatctctacccagCTTGGAGTCGATGATCTCCAGCTTCAACCCCCAGTTTCCTTTCGATTGAGGTCAGGTTCAGGCCCCAgttcgaatccatcacattggtaagtgggcagaattgtgtagactattatgcagtgcatggtcagcaaca #### Npm3_ID9577_3 --> 0 - 0 Original Alignment CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTT-CCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcttcttcagccggtattatcaaacgcaaatcctcaaatttaaatttcagCTCTGCCTTACTGAGGCCGCCACTGATGAGTGTAATGTGATAGAAGTTGTTGCTCGGGACTATGGCAACCAGGAAATTGCAGTTCTCTGTTGCAAACCTCAGGCTGTATTGCCAACCAATGgtaaggttgaagcactcattactgtggggacctaatgttcaatcatcatt Alignment from CESAR CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTT-CCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcttcttcagccggtattatcaaacgcaaatcctcaaatttaaatttcagCTCTGCCTTACTGAGGCCGCCACTGATGAGTGTAATGTGATAGAAGTTGTTGCTCGGGACTATGGCAACCAGGAAATTGCAGTTCTCTGTTGCAAACCTCAGGCTGTATTGCCAACCAATGgtaaggttgaagcactcattactgtggggacctaatgttcaatcatcatt Alignment from Spaln_aa2Genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTT-CCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcttcttcagccggtattatcaaacgcaaatcctcaaatttaaatttcagCTCTGCCTTACTGAGGCCGCCACTGATGAGTGTAATGTGATAGAAGTTGTTGCTCGGGACTATGGCAACCAGGAAATTGCAGTTcTCTGTTGCAAACCTCAGGCTGTATTGCCAACCAATGgtaaggttgaagcactcattactgtggggacctaatgttcaatcatcatt Alignment from Spaln_nt2Genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTC-CTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcttcttcagccggtattatcaaacgcaaatcctcaaatttaaatttcagCTCTGCCTTACTGAGGCCGCCACTGATGAGTGTAATGTGATAGAAGTTGTTGCTCGGGACTATGGCAACCAGGAAATTGCAGTTCTCTGTTGCAAACCTCAGGCTGTATTGCCAACCAATGgtaaggttgaagcactcattactgtggggacctaatgttcaatcatcatt Alignment from Pairagon CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTC-CTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcttcttcagccggtattatcaaacgcaaatcctcaaatttaaatttcagCTCTGCCTTACTGAGGCCGCCACTGATGAGTGTAATGTGATAGAAGTTGTTGCTCGGGACTATGGCAACCAGGAAATTGCAGTTCTCTGTTGCAAACCTCAGGCTGTATTGCCAACCAATGgtaaggttgaagcactcattactgtggggacctaatgttcaatcatcatt Alignment from Exonerate_protein2genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTT-CCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcttcttcagccggtattatcaaacgcaaatcctcaaatttaaatttcagCTCTGCCTTACTGAGGCCGCCACTGATGAGTGTAATGTGATAGAAGTTGTTGCTCGGGACTATGGCAACCAGGAAATTGCAGTTCTCTGTTGCAAACCTCAGGCTGTATTGCCAACCAATGgtaaggttgaagcactcattactgtggggacctaatgttcaatcatcatt Alignment from Exonerate_coding2genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTT-CCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATGCTCAGTGTGGATGATTTCCAACTCCAACCACCT tcttcttcagccggtattatcaaacgcaaatcctcaaatttaaatttcagCTCTGCCTTACTGAGGCCGCCACTGATGAGTGTAATGTGATAGAAGTTGTTGCTCGGGACTATGGCAACCAGGAAATTGCAGTTCTCTGTTGCAAACCTCAGGCTGTATTGCCAACCAATGGTAAGGTTGAAGCACTCATTACTGTGGGGACCTaatgttcaatcatcatt Alignment from GeneWise CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTT-CCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcttcttcagccggtattatcaaacgcaaatcctcaaatttaaatttcagCTCTGCCTTACTGAGGCCGCCACTGATGAGTGTAATGTGATAGAAGTTGTTGCTCGGGACTATGGCAACCAGGAAATTGCAGTTCTCTGTTGCAAACCTCAGGCTGTATTGCCAACCAATGgtaaggttgaagcactcattactgtggggacctaatgttcaatcatcatt #### Npm3_ID9578_2 --> 2 - 0 Original Alignment gtTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCAC-GTGCTGGCGTTGAACATG gacttggttcaggatgtgcctagaaggcgcttcctgctctccctgtccaggtTGTGAGCTCTCTGATCACACACGTTCATTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGCGTGCTTGCGTTGAACATGgtaggtggtgcaagaaaatttggttcagcacacccttggtcttatctttc Alignment from CESAR gtTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCAC-GTGCTGGCGTTGAACATG gacttggttcaggatgtgcctagaaggcgcttcctgctctccctgtccaggtTGTGAGCTCTCTGATCACACACGTTCATTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGCGTGCTTGCGTTGAACATGgtaggtggtgcaagaaaatttggttcagcacacccttggtcttatctttc Alignment from Spaln_aa2Genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCAC-GTGCTGGCGTTGAACATG gacttggttcaggatgtgcctagaaggcgcttcctgctctccctgtccagGTTGTGAGCTCTCTGATCACACACGTTCATTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGcGTGCTTGCGTTGAACATGgtaggtggtgcaagaaaatttggttcagcacacccttggtcttatctttc Alignment from Spaln_nt2Genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCA-CGTGCTGGCGTTGAACATG gacttggttcaggatgtgcctagaaggcgcttcctgctctccctgtccagGTTGTGAGCTCTCTGATCACACACGTTCATTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGCGTGCTTGCGTTGAACATGgtaggtggtgcaagaaaatttggttcagcacacccttggtcttatctttc Alignment from Pairagon GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCA-CGTGCTGGCGTTGAACATG gacttggttcaggatgtgcctagaaggcgcttcctgctctccctgtccagGTTGTGAGCTCTCTGATCACACACGTTCATTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGCGTGCTTGCGTTGAACATGgtaggtggtgcaagaaaatttggttcagcacacccttggtcttatctttc Alignment from Exonerate_protein2genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCAC-GTGCTGGCGTTGAACATG gacttggttcaggatgtgcctagaaggcgcttcctgctctccctgtccagGTTGTGAGCTCTCTGATCACACACGTTCATTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGCGTGCTTGCGTTGAACATGgtaggtggtgcaagaaaatttggttcagcacacccttggtcttatctttc Alignment from Exonerate_coding2genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCAC-GTGCTGGCGTTGAACATG gacttggttcaggatgtgcctagaaggcgcttcctgctctccctgtccagGTTGTGAGCTCTCTGATCACACACGTTCATTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGCGTGCTTGCGTTGAACATGgtaggtggtgcaagaaaatttggttcagcacacccttggtcttatctttc Alignment from GeneWise GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAG-CACGTGCTGGCGTTGAACATG gacttggttcaggatgtgcctagaaggcgcttcctgctctccctgtccagGTTGTGAGCTCTCTGATCACACACGTTCATTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGCGTGCTTGCGTTGAACATGgtaggtggtgcaagaaaatttggttcagcacacccttggtcttatctttc #### Nt5c2_ID10036_17 --> 0 - 0 Original Alignment AAAGTAACTCATGACATGGACATGTGCTAT-GGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggattgccaaaggattagatactggcacctttttcttgtctacatttaagGAAGTAACTCATGATATGGATATGTGCTATCGGCATGATGGGAAGTTTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCTTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTACTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCACGTCCTGgtgagcactggtctatatggctaccacatgatgcaacatcagagtcacta Alignment from CESAR AAAGTAACTCATGACATGGACATGTGCTAT-GGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggattgccaaaggattagatactggcacctttttcttgtctacatttaagGAAGTAACTCATGATATGGATATGTGCTATCGGCATGATGGGAAGTTTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCTTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTACTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCACGTCCTGgtgagcactggtctatatggctaccacatgatgcaacatcagagtcacta Alignment from Spaln_aa2Genome AAAGTAACTCATGACATGGACATGTGCTAT-GGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggattgccaaaggattagatactggcacctttttcttgtctacatttaagGAAGTAACTCATGATATGGATATGTGCTATcGGCATGATGGGAAGTTTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCTTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTACTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCACGTCCTGgtgagcactggtctatatggctaccacatgatgcaacatcagagtcacta Alignment from Spaln_nt2Genome AAAGTAACTCATGACATGGACATGTGCTATG-GGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggattgccaaaggattagatactggcacctttttcttgtctacatttaagGAAGTAACTCATGATATGGATATGTGCTATCGGCATGATGGGAAGTTTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCTTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTACTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCACGTCCTGgtgagcactggtctatatggctaccacatgatgcaacatcagagtcacta Alignment from Pairagon ---------------------------------------------TTAAGAAAGTAACTCATGACATGGACATGTGCTAT-GGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG GGATTGCCAAAGGATTAGATACTGGCACCTTTTTCTTGTCTACATTTAAGGAAGTAACTCATGATATGGATATGTGCTATCGGCATGATGGGAAGTTTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCTTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTACTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCACGTCCTGgtgagcactggtctatatggctaccacatgatgcaacatcagagtcacta Alignment from Exonerate_protein2genome AGACGGATTAAGAAAGTAACTCATGACATGGACATGTGCTAT-GGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggattgccaaaggattagatactggcacctttttcttgTCTACATTTAAGGAAGTAACTCATGATATGGATATGTGCTATCGGCATGATGGGAAGTTTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCTTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTACTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCACGTCCTGgtgagcactggtctatatggctaccacatgatgcaacatcagagtcacta Alignment from Exonerate_coding2genome ggattgccaaaggattagatactggcacctttttcttgtctacatttaaggaagtaactcatgatatggatatgtgctatcggcatgatgggaagtttgttccggagtagctcccagcagacactctttgccagcttagttatgcgttatgcagacctctacacatcctcattcattaacctactgtactacccattcagctacctcttcagagctgcccacgtcctggtgagcactggtctatatggctaccacatgatgcaacatcagagtcacta Alignment from GeneWise AAAGTAACTCATGACATGGACATGTGCTAT-GGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggattgccaaaggattagatactggcacctttttcttgtctacatttaagGAAGTAACTCATGATATGGATATGTGCTATCGGCATGATGGGAAGTTTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCTTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTACTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCACGTCCTGgtgagcactggtctatatggctaccacatgatgcaacatcagagtcacta #### Nudt22_ID1971_4 --> 1 - 0 Original Alignment gTGCAGCTTGACTTCAGAGGAGGTC-AGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gattatgggaatgcaacactatcctagcatagccttccctctcgtttcaggTGCAGCTTGACTTCAGAGGAGGTCCAGGAGCTATTACCTGAGTGGGGGACCTGAAGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtaccagagtttagctctgtttggcacctggattatttaaggctattaac Alignment from CESAR gTGCAGCTTGACTTCAGAGGAGGTC-AGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gattatgggaatgcaacactatcctagcatagccttccctctcgtttcaggTGCAGCTTGACTTCAGAGGAGGTCCAGGAGCTATTACCTGAGTGGGGGACCTGAAGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtaccagagtttagctctgtttggcacctggattatttaaggctattaac Alignment from Spaln_aa2Genome GTGCAGCTTGACTTCAGAGGAGGTC-AGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gattatgggaatgcaacactatcctagcatagccttccctctcgtttcagGTGCAGCTTGACTTCAGAGGAGGTCcAGGAGCTATTACCTGAGTGGGGGACCTGAAGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtaccagagtttagctctgtttggcacctggattatttaaggctattaac Alignment from Spaln_nt2Genome GTGCAGCTTGACTTCAGAGGAGGT-CAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gattatgggaatgcaacactatcctagcatagccttccctctcgtttcagGTGCAGCTTGACTTCAGAGGAGGTCCAGGAGCTATTACCTGAGTGGGGGACCTGAAGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtaccagagtttagctctgtttggcacctggattatttaaggctattaac Alignment from Pairagon GTGCAGCTTGACTTCAGAGGAGGT-CAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gattatgggaatgcaacactatcctagcatagccttccctctcgtttcagGTGCAGCTTGACTTCAGAGGAGGTCCAGGAGCTATTACCTGAGTGGGGGACCTGAAGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtaccagagtttagctctgtttggcacctggattatttaaggctattaac Alignment from Exonerate_protein2genome GTGCAGCTTGACTTCAGAGGAGGTC-AGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gattatgggaatgcaacactatcctagcatagccttccctctcgtttcagGTGCAGCTTGACTTCAGAGGAGGTCCAGGAGCTATTACCTGAGTGGGGGACCTGAAGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtaccagagtttagctctgtttggcacctggattatttaaggctattaac Alignment from Exonerate_coding2genome GTGCAGCTTGACTTCAGAGGAGGTC-AGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gattatgggaatgcaacactatcctagcatagccttccctctcgtttcagGTGCAGCTTGACTTCAGAGGAGGTCCAGGAGCTATTACCTGAGTGGGGGACCTGAAGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtaccagagtttagctctgtttggcacctggattatttaaggctattaac Alignment from GeneWise GTGCAGCTTGACTTCAGAGGAG-GTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gattatgggaatgcaacactatcctagcatagccttccctctcgtttcagGTGCAGCTTGACTTCAGAGGAGGTCCAGGAGCTATTACCTGAGTGGGGGACCTGAAGCCCACGAATCTACAGGAATCATCTTTGTGGAAACGCAGgtaccagagtttagctctgtttggcacctggattatttaaggctattaac #### Nudt8_ID267_2 --> 1 - 0 Original Alignment tTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTA---ATACATACGGCCCTTCGGGAGACTCAGGAG-GAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG ttgattggtctaggccacgtaaacattatttcttgctgtttctcttacagtTTTCCAGGTGGTAAGTGTGACCCTGATGACCGAGATGTTGTAATACACACTGCACTGCAGGAGACACAAGAGCGAGTTAGACTTG---GTACCCAAGGAGCAAGTCTGGGGAGTGTTGCAACCTGTGCATGATCAGgtgagtaagcttttcaggtgaggaagcttttcaatagaaaaagtctacca Alignment from CESAR tTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAG-GAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG ttgattggtctaggccacgtaaacattatttcttgctgtttctcttacagtTTTCCAGGTGGTAAGTGTGACCCTGATGACCGAGATGTTGTAATACACACTGCACTGCAGGAGACACAAGAGCGAGTTAGACTTG---GTACCCAAGGAGCAAGTCTGGGGAGTGTTGCAACCTGTGCATGATCAGgtgagtaagcttttcaggtgaggaagcttttcaatagaaaaagtctacca Alignment from Spaln_aa2Genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAG-GAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG ttgattggtctaggccacgtaaacattatttcttgctgtttctcttacagTTTTCCAGGTGGTAAGTGTGACCCTGATGACCGAGATGTTGTAATACACACTGCACTGCAGGAGACACAAGAGcGAGTTAGACTTG---GTACCCAAGGAGCAAGTCTGGGGAGTGTTGCAACCTGTGCATGATCAGgtgagtaagcttttcaggtgaggaagcttttcaatagaaaaagtctacca Alignment from Spaln_nt2Genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGT---AATACATACGGCCCTTCGGGAGACTCAGGAG-GAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG ttgattggtctaggccacgtaaacattatttcttgctgtttctcttacagTTTTCCAGGTGGTAAGTGTGACCCTGATGACCGAGATGTTGTAATACACACTGCACTGCAGGAGACACAAGAGCGAGTTAGACTT---GGTACCCAAGGAGCAAGTCTGGGGAGTGTTGCAACCTGTGCATGATCAGgtgagtaagcttttcaggtgaggaagcttttcaatagaaaaagtctacca Alignment from Pairagon TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGA---TGTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGA-------------GGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG ttgattggtctaggccacgtaaacattatttcttgctgtttctcttacagTTTTCCAGGTGGTAAGTGTGACCCTGATGACCGAGATGTTGTAATACACACTGCACTGCAGGAGACACA---------------AGAGCGAGTTAGACTTGGTACCCAAGGAGCAAGTCTGGGGAGTGTTGCAACCTGTGCATGATCAGgtgagtaagcttttcaggtgaggaagcttttcaatagaaaaagtctacca Alignment from Exonerate_protein2genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAG-GAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG ttgattggtctaggccacgtaaacattatttcttgctgtttctcttacagTTTTCCAGGTGGTAAGTGTGACCCTGATGACCGAGATGTTGTAATACACACTGCACTGCAGGAGACACAAGAGCGAGTTAGACTTG---GTACCCAAGGAGCAAGTCTGGGGAGTGTTGCAACCTGTGCATGATCAGgtgagtaagcttttcaggtgaggaagcttttcaatagaaaaagtctacca Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTA---ATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG ttgattggtctaggccacgtaaacattatttcttgctgtttctcttacagTTTTCCAGGTGGTAAGTGTGACCCTGATGACCGAGATGTTGTAATACACACTGCACTGCAGGAGACACAAGAGCGAGTTAGACTTG--GTACCCAAGGAGCAAGTCTGGGGAGTGTTGCAACCTGTGCATGATCAGgtgagtaagcttttcaggtgaggaagcttttcaatagaaaaagtctacca #### Nxf1_ID2347_7 --> 0 - 1 Original Alignment CTGATCATGAGCAAACGATATGATGGCAACCAACAAGCACTT-GACCTCAAGGGGCTCCGCTCAGACCCAg cactaacctcaggttaaaagtgtctaggttttgttttttttaattttcagACTGTCATGAGCAAACAGTATGACAGTAATCAACAAGCACTGCGACCTTAAGCAGCTTCGCTTAGACCCTggtaatgcatgcccaatgaacagattattgaggtagtaaatcgggcctttg Alignment from CESAR CTGATCATGAGCAAACGATATGATGGCAACCAACAAGCACTT-GACCTCAAGGGGCTCCGCTCAGACCCAg cactaacctcaggttaaaagtgtctaggttttgttttttttaattttcagACTGTCATGAGCAAACAGTATGACAGTAATCAACAAGCACTGCGACCTTAAGCAGCTTCGCTTAGACCCTggtaatgcatgcccaatgaacagattattgaggtagtaaatcgggcctttg Alignment from Spaln_aa2Genome CTGATCATGAGCAAACGATATGATGGCAACCAACAAGCACTT-GACCTCAAGGGGCTCCGCTCAGACCCAG cactaacctcaggttaaaagtgtctaggttttgttttttttaattttcagACTGTCATGAGCAAACAGTATGACAGTAATCAACAAGCACTGcGACCTTAAGCAGCTTCGCTTAGACCCTGgtaatgcatgcccaatgaacagattattgaggtagtaaatcgggcctttg Alignment from Spaln_nt2Genome CTGATCATGAGCAAACGATATGATGGCAACCAACAAGCACTT-GACCTCAAGGGGCTCCGCTCAGACCCAG cactaacctcaggttaaaagtgtctaggttttgttttttttaattttcagACTGTCATGAGCAAACAGTATGACAGTAATCAACAAGCACTGCGACCTTAAGCAGCTTCGCTTAGACCCTGgtaatgcatgcccaatgaacagattattgaggtagtaaatcgggcctttg Alignment from Pairagon CTGATCATGAGCAAACGATATGATGGCAACCAACAAGCACT-TGACCTCAAGGGGCTCCGCTCAGACCCAG cactaacctcaggttaaaagtgtctaggttttgttttttttaattttcagACTGTCATGAGCAAACAGTATGACAGTAATCAACAAGCACTGCGACCTTAAGCAGCTTCGCTTAGACCCTGgtaatgcatgcccaatgaacagattattgaggtagtaaatcgggcctttg Alignment from Exonerate_protein2genome CTGATCATGAGCAAACGATATGATGGCAACCAACAAGCACTT-GACCTCAAGGGGCTCCGCTCAGACCCAG cactaacctcaggttaaaagtgtctaggttttgttttttttaattttcagACTGTCATGAGCAAACAGTATGACAGTAATCAACAAGCACTGCGACCTTAAGCAGCTTCGCTTAGACCCTGgtaatgcatgcccaatgaacagattattgaggtagtaaatcgggcctttg Alignment from Exonerate_coding2genome CTGATCATGAGCAAACGATATGATGGCAACCAACAAGCACTT-GACCTCAAGGGGCTCCGCTCAGACCCAG cactaacctcaggttaaaagtgtctaggttttgttttttttaattttcagACTGTCATGAGCAAACAGTATGACAGTAATCAACAAGCACTGCGACCTTAAGCAGCTTCGCTTAGACCCTGgtaatgcatgcccaatgaacagattattgaggtagtaaatcgggcctttg Alignment from GeneWise CTGATCATGAGCAAACGATATGATGGCAACCAACAAGCA-CTTGACCTCAAGGGGCTCCGCTCAGACCCAG cactaacctcaggttaaaagtgtctaggttttgttttttttaattttcagACTGTCATGAGCAAACAGTATGACAGTAATCAACAAGCACTGCGACCTTAAGCAGCTTCGCTTAGACCCTGgtaatgcatgcccaatgaacagattattgaggtagtaaatcgggcctttg #### Nxf1_ID2348_8 --> 2 - 0 Original Alignment atTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGG-ATCATTGAAGAGAACATTCCTGAG aggggcccccattttgattagttgtctgatagttttctttaccattctagatTTGGTAGCTCAGAACATTGTCGTAATTCTAAACCGGAGGAGTTGCATGGCAGCAACACTTCGTCACCATCAAGGATAACATTCCTGAGgtgtgttttattctctctgtgataattaatcgcgtttacttaattggatg Alignment from CESAR atTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGG-ATCATTGAAGAGAACATTCCTGAG aggggcccccattttgattagttgtctgatagttttctttaccattctagatTTGGTAGCTCAGAACATTGTCGTAATTCTAAACCGGAGGAGTTGCATGGCAGCAACACTTCGTCACCATCAAGGATAACATTCCTGAGgtgtgttttattctctctgtgataattaatcgcgtttacttaattggatg Alignment from Spaln_aa2Genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGG-ATCATTGAAGAGAACATTCCTGAG aggggcccccattttgattagttgtctgatagttttctttaccattctagATTTGGTAGCTCAGAACATTGTCGTAATTCTAAACCGGAGGAGTTGCATGGCAGCAACACTTCGTcACCATCAAGGATAACATTCCTGAGgtgtgttttattctctctgtgataattaatcgcgtttacttaattggatg Alignment from Spaln_nt2Genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGG-ATCATTGAAGAGAACATTCCTGAG aggggcccccattttgattagttgtctgatagttttctttaccattctagATTTGGTAGCTCAGAACATTGTCGTAATTCTAAACCGGAGGAGTTGCATGGCAGCAACACTTCGTCACCATCAAGGATAACATTCCTGAGgtgtgttttattctctctgtgataattaatcgcgtttacttaattggatg Alignment from Pairagon ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCG-GATCATTGAAGAGAACATTCCTGAG aggggcccccattttgattagttgtctgatagttttctttaccattctagATTTGGTAGCTCAGAACATTGTCGTAATTCTAAACCGGAGGAGTTGCATGGCAGCAACACTTCGTCACCATCAAGGATAACATTCCTGAGgtgtgttttattctctctgtgataattaatcgcgtttacttaattggatg Alignment from Exonerate_protein2genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGG-ATCATTGAAGAGAACATTCCTGAGCTA aggggcccccattttgattagttgtctgatagttttctttaccattctagATTTGGTAGCTCAGAACATTGTCGTAATTCTAAACCGGAGGAGTTGCATGGCAGCAACACTTCGTCACCATCAAGGATAACATTCCTGAG---gtgtgttttattctctctgtgataattaatcgcgtttacttaattgg Alignment from Exonerate_coding2genome aggggcccccattttgattagttgtctgatagttttctttaccattctagatttggtagctcagaacattgtcgtaattctaaaccggaggagttgcatggcagcaacacttcgtcaccatcaaggataacattcctgaggtgtgttttattctctctgtgataattaatcgcgtttacttaattggatg Alignment from GeneWise ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGG-ATCATTGAAGAGAACATTCCTGAG aggggcccccattttgattagttgtctgatagttttctttaccattctagATTTGGTAGCTCAGAACATTGTCGTAATTCTAAACCGGAGGAGTTGCATGGCAGCAACACTTCGTCACCATCAAGGATAACATTCCTGAGgtgtgttttattctctctgtgataattaatcgcgtttacttaattggatg #### Nxf1_ID2349_9 --> 0 - 0 Original Alignment CTATTGTCTTTGAACTTGAGC-AGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatttgtcatagacaagttcataaactacctcttgtcctacccag---TTGTCTTTGAACTTGAGTCGGAAACCGGCTATTCAAGCTGGATGATATGTCTGGTATTGTACAAACAGCTCCGAATATAAAAACCTTAAATCTTCCTGGTAAAGAGgtatggtggctctcaggataatcaatgatctttaagtaggagtagttgaa Alignment from CESAR CTATTGTCTTTGAACTTGAGC-AGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatttgtcatagacaagttcataaactacctcttgtcctacccag---TTGTCTTTGAACTTGAGTCGGAAACCGGCTATTCAAGCTGGATGATATGTCTGGTATTGTACAAACAGCTCCGAATATAAAAACCTTAAATCTTCCTGGTAAAGAGgtatggtggctctcaggataatcaatgatctttaagtaggagtagttgaa Alignment from Spaln_aa2Genome CTATTGTCTTTGAACTTGAGC-AGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatttgtcatagacaagttcataaactacctcttgtcctacccag---TTGTCTTTGAACTTGAGTcGGAAACCGGCTATTCAAGCTGGATGATATGTCTGGTATTGTACAAACAGCTCCGAATATAAAAACCTTAAATCTTCCTGGTAAAGAGgtatggtggctctcaggataatcaatgatctttaagtaggagtagttgaa Alignment from Spaln_nt2Genome ---- TTGTCTTTGAACTTGAG-CAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA GGAGgcatttgtcatagacaagttcataaactacctcttgtcctacccagTTGTCTTTGAACTTGAGTCGGAAACCGGCTATTCAAGCTGGATGATATGTCTGGTATTGTACAAACAGCTCCGAATATAAAAACCTTAAATCTTCCTGGTAAAGAGgtatggtggctctcaggataatcaatgatctttaagtaggagtagttgaa Alignment from Pairagon CTATTGTCTTTGAACTTGAG-CAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatttgtcatagacaagttcataaactacctcttgtcctacccag---TTGTCTTTGAACTTGAGTCGGAAACCGGCTATTCAAGCTGGATGATATGTCTGGTATTGTACAAACAGCTCCGAATATAAAAACCTTAAATCTTCCTGGTAAAGAGgtatggtggctctcaggataatcaatgatctttaagtaggagtagttgaa Alignment from Exonerate_protein2genome TTGTCTTTGAACTTGAGC-AGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatttgtcatagacaagttcataaactacctcttgtcctacccagTTGTCTTTGAACTTGAGTCGGAAACCGGCTATTCAAGCTGGATGATATGTCTGGTATTGTACAAACAGCTCCGAATATAAAAACCTTAAATCTTCCTGGTAAAGAGgtatggtggctctcaggataatcaatgatctttaagtaggagtagttgaa Alignment from Exonerate_coding2genome TTGTCTTTGAACTTGAGC-AGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatttgtcatagacaagttcataaactacctcttgtcctacccagTTGTCTTTGAACTTGAGTCGGAAACCGGCTATTCAAGCTGGATGATATGTCTGGTATTGTACAAACAGCTCCGAATATAAAAACCTTAAATCTTCCTGGTAAAGAGgtatggtggctctcaggataatcaatgatctttaagtaggagtagttgaa Alignment from GeneWise GCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatttgtcatagacaagttcataaactacctcttgtcctacccagttgtctttgaacttgagTCGGAAACCGGCTATTCAAGCTGGATGATATGTCTGGTATTGTACAAACAGCTCCGAATATAAAAACCTTAAATCTTCCTGGTAAAGAGgtatggtggctctcaggataatcaatgatctttaagtaggagtagttgaa #### Nxf1_ID2352_12 --> 0 - 0 Original Alignment GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATG-TTACCACCCTGCAAG atcattacaagttcttagtctatcacatcctatgaaaatattttttctagGATGGTCATCAGGTACCTCCCCCAATTTCTTTTGATGTTGAAGCTCCTACAATGCCTACCACCCTGTAAGgtgagtgttggaagcattttagtaactcatgagaagatattgcagaacat Alignment from CESAR GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATG-TTACCACCCTGCAAG atcattacaagttcttagtctatcacatcctatgaaaatattttttctagGATGGTCATCAGGTACCTCCCCCAATTTCTTTTGATGTTGAAGCTCCTACAATGCCTACCACCCTGTAAGgtgagtgttggaagcattttagtaactcatgagaagatattgcagaacat Alignment from Spaln_aa2Genome GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATG-TTACCACCCTGCAAG atcattacaagttcttagtctatcacatcctatgaaaatattttttctagGATGGTCATCAGGTACCTCCCCCAATTTCTTTTGATGTTGAAGCTCCTACAATGcCTACCACCCTGTAAGgtgagtgttggaagcattttagtaactcatgagaagatattgcagaacat Alignment from Spaln_nt2Genome GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGT-TACCACCCTGCAAG atcattacaagttcttagtctatcacatcctatgaaaatattttttctagGATGGTCATCAGGTACCTCCCCCAATTTCTTTTGATGTTGAAGCTCCTACAATGCCTACCACCCTGTAAGgtgagtgttggaagcattttagtaactcatgagaagatattgcagaacat Alignment from Pairagon GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATG-TTACCACCCTGCAAG atcattacaagttcttagtctatcacatcctatgaaaatattttttctagGATGGTCATCAGGTACCTCCCCCAATTTCTTTTGATGTTGAAGCTCCTACAATGCCTACCACCCTGTAAGgtgagtgttggaagcattttagtaactcatgagaagatattgcagaacat Alignment from Exonerate_protein2genome GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATG-TTACCACCCTGCAAG atcattacaagttcttagtctatcacatcctatgaaaatattttttctagGATGGTCATCAGGTACCTCCCCCAATTTCTTTTGATGTTGAAGCTCCTACAATGCCTACCACCCTGTAAGgtgagtgttggaagcattttagtaactcatgagaagatattgcagaacat Alignment from Exonerate_coding2genome atcattacaagttcttagtctatcacatcctatgaaaatattttttctaggatggtcatcaggtacctcccccaatttcttttgatgttgaagctcctacaatgcctaccaccctgtaaggtgagtgttggaagcattttagtaactcatgagaagatattgcagaacat Alignment from GeneWise GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATG-TTACCACCCTGCAAG-------------------------------------------------- atcattacaagttcttagtctatcacatcctatgaaaatattttttctagGATGGTCATCAGGTACCTCCCCCAATTTCTTTTGATGTTGAAGCTCCTACAATGCCTACCACCCTGTAAGGTGAGTGTTGGAAGCATTTTAGTAACTCATGAGAAGATATTGCAGAACAT #### Nxf1_ID2354_14 --> 1 - 2 Original Alignment gTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCC-TGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCcg ttgcagtaacaaggggtttataaatattattgtattacttctggtctcaggTACTTTGTCATTTGTGACCTAGGAGACCGTCAGGGTCTCCAGCATGCCTACCATGACGGTGCTCTGTTGCTCTCTAAGCATCCCATACAACCCTCAAAACCCTGTCaggtacttgtacatccattactctatttggcactgtaaaactaactgcaatc Alignment from CESAR gTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCC-TGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCcg ttgcagtaacaaggggtttataaatattattgtattacttctggtctcaggTACTTTGTCATTTGTGACCTAGGAGACCGTCAGGGTCTCCAGCATGCCTACCATGACGGTGCTCTGTTGCTCTCTAAGCATCCCATACAACCCTCAAAACCCTGTCaggtacttgtacatccattactctatttggcactgtaaaactaactgcaatc Alignment from Spaln_aa2Genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCC-TGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG ttgcagtaacaaggggtttataaatattattgtattacttctggtctcagGTACTTTGTCATTTGTGACCTAGGAGACCGTCAGGGTCTCCAGCATGCCTACCATGACGGTGCTcTGTTGCTCTCTAAGCATCCCATACAACCCTCAAAACCCTGTCAGgtacttgtacatccattactctatttggcactgtaaaactaactgcaatc Alignment from Spaln_nt2Genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGC-CTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG ttgcagtaacaaggggtttataaatattattgtattacttctggtctcagGTACTTTGTCATTTGTGACCTAGGAGACCGTCAGGGTCTCCAGCATGCCTACCATGACGGTGCTCTGTTGCTCTCTAAGCATCCCATACAACCCTCAAAACCCTGTCAGgtacttgtacatccattactctatttggcactgtaaaactaactgcaatc Alignment from Pairagon GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGC-CTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG ttgcagtaacaaggggtttataaatattattgtattacttctggtctcagGTACTTTGTCATTTGTGACCTAGGAGACCGTCAGGGTCTCCAGCATGCCTACCATGACGGTGCTCTGTTGCTCTCTAAGCATCCCATACAACCCTCAAAACCCTGTCAGgtacttgtacatccattactctatttggcactgtaaaactaactgcaatc Alignment from Exonerate_protein2genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCC-TGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG ttgcagtaacaaggggtttataaatattattgtattacttctggtctcagGTACTTTGTCATTTGTGACCTAGGAGACCGTCAGGGTCTCCAGCATGCCTACCATGACGGTGCTCTGTTGCTCTCTAAGCATCCCATACAACCCTCAAAACCCTGTCAGgtacttgtacatccattactctatttggcactgtaaaactaactgcaatc Alignment from Exonerate_coding2genome ttgcagtaacaaggggtttataaatattattgtattacttctggtctcaggtactttgtcatttgtgacctaggagaccgtcagggtctccagcatgcctaccatgacggtgctctgttgctctctaagcatcccatacaaccctcaaaaccctgtcaggtacttgtacatccattactctatttggcactgtaaaactaactgcaatc Alignment from GeneWise GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGC-GCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG ttgcagtaacaaggggtttataaatattattgtattacttctggtctcagGTACTTTGTCATTTGTGACCTAGGAGACCGTCAGGGTCTCCAGCATGCCTACCATGACGGTGCTCTGTTGCTCTCTAAGCATCCCATACAACCCTCAAAACCCTGTCAGgtacttgtacatccattactctatttggcactgtaaaactaactgcaatc #### Nxf1_ID2356_16 --> 2 - 0 Original Alignment ccCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTA-GATATAAGTGCCCAAACA gaatttaggggtttaattctaaagcttgaaatacaatcttttattttaagccCAGCGATTCTGC---CTAAAGCATACACGTTTGAATGTAGTTGCCTTTCTTAATGCTTTACCCAAAACTCAACATGACGTCAATGCATTTGTAGTACGACATAAGTGCACAGACAgtaagcgtctgcttgatggttatctgtttaattgagaccaaaaagtgagg Alignment from CESAR ccCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTA-GATATAAGTGCCCAAACA gaatttaggggtttaattctaaagcttgaaatacaatcttttattttaagccCAGCGATTCTGC---CTAAAGCATACACGTTTGAATGTAGTTGCCTTTCTTAATGCTTTACCCAAAACTCAACATGACGTCAATGCATTTGTAGTACGACATAAGTGCACAGACAgtaagcgtctgcttgatggttatctgtttaattgagaccaaaaagtgagg Alignment from Spaln_aa2Genome CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTA-GATATAAGTGCCCAAACA gaatttaggggtttaattctaaagcttgaaatacaatcttttattttaagCCCAGCGATTCTGC---CTAAAGCATACACGTTTGAATGTAGTTGCCTTTCTTAATGCTTTACCCAAAACTCAACATGACGTCAATGCATTTGTAGTAcGACATAAGTGCACAGACAgtaagcgtctgcttgatggttatctgtttaattgagaccaaaaagtgagg Alignment from Spaln_nt2Genome CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTA-GATATAAGTGCCCAAACA gaatttaggggtttaattctaaagcttgaaatacaatcttttattttaagCCCAGCGATTCTG---CCTAAAGCATACACGTTTGAATGTAGTTGCCTTTCTTAATGCTTTACCCAAAACTCAACATGACGTCAATGCATTTGTAGTACGACATAAGTGCACAGACAgtaagcgtctgcttgatggttatctgtttaattgagaccaaaaagtgagg Alignment from Pairagon CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTA-GATATAAGTGCCCAAACA gaatttaggggtttaattctaaagcttgaaatacaatcttttattttaagCCCAGCGATTCTG---CCTAAAGCATACACGTTTGAATGTAGTTGCCTTTCTTAATGCTTTACCCAAAACTCAACATGACGTCAATGCATTTGTAGTACGACATAAGTGCACAGACAgtaagcgtctgcttgatggttatctgtttaattgagaccaaaaagtgagg Alignment from Exonerate_protein2genome CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTA-GATATAAGTGCCCAAACAAGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAAG gaatttaggggtttaattctaaagcttgaaatacaatcttttattttaagCCCAGCGATTC---TGCCTAAAGCATACACGTTTGAATGTAGTTGCCTTTCTTAATGCTTTACCCAAAACTCAACATGACGTCAATGCATTTGTAGTACGACATAAGTGCACAGACAGTAAGC---GTCTGCTTGATGGTTATCTGTTTAATTGAGACCAaaaagtg Alignment from Exonerate_coding2genome gaatttaggggtttaattctaaagcttgaaatacaatcttttattttaagcccagcgattctgcctaaagcatacacgtttgaatgtagttgcctttcttaatgctttacccaaaactcaacatgacgtcaatgcatttgtagtacgacataagtgcacagacagtaagcgtctgcttgatggttatctgtttaattgagaccaaaaagtgagg Alignment from GeneWise CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACAAGCACATTACTGTGTTTT- gaatttaggggtttaattctaaagcttgaaatacaatcttttattttaagCCCAGCGATTC---TGCCTAAAGCATACACGTTTGAATGTAGTTGCCTTTCTTAATGCTTTACCCAAAACTCAACATGACGTCAATGCATTTGTAGTACGACATAAGTGCACAGACAGTAAGCGTCTGCTTGATGgttatctgtttaattgagaccaaaaagtgagg #### Otub1_ID2060_6 --> 0 - 0 Original Alignment TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATC-GAGGGTGGCCGGACTGTTAAGGAGTTCTGCCAGCAG gaccatctcaatactttgtcataccctgctcttctcttcttttcctgtagTTCATGGATTTTATTGAGCGTGTGGAGAAGAAGACCTCTGTTGCTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTGGTGGTCTACCTGCAGCTGCTAACCTCAGGCTATGTCCAACGAAAAAGCAAGTTCTTTGAACACTACATTCGAGGGTGGTCAA---------------AGTCAGGAGgtaaggcctaccccagcacctgtactgaggccttcctttttttagtatga Alignment from CESAR TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATC-GAGGGTGGCCGGACTGTTAAGGAGTTCTGCCAGCAG gaccatctcaatactttgtcataccctgctcttctcttcttttcctgtagTTCATGGATTTTATTGAGCGTGTGGAGAAGAAGACCTCTGTTGCTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTGGTGGTCTACCTGCAGCTGCTAACCTCAGGCTATGTCCAACGAAAAAGCAAGTTCTTTGAACACTACATTCGAGGGTGGTCAAAGT---------------CAGGAGgtaaggcctaccccagcacctgtactgaggccttcctttttttagtatga Alignment from Spaln_aa2Genome TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAG---------------GGTGGCCGGACTGTTAAGGAGTTCTGCCAGCAG gaccatctcaatactttgtcataccctgctcttctcttcttttcctgtagTTCATGGATTTTATTGAGCGTGTGGAGAAGAAGACCTCTGTTGCTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTGGTGGTCTACCTGCAGCTGCTAACCTCAGGCTATGTCCAACGAAAAAGCAAGTTCTTTGAACACTACATTCGAGGGTGGTCAAAGTCAGGAGGTAAGGCCTACCCCAGCACCTGTACTGAGgccttcctttttttagtatga Alignment from Spaln_nt2Genome TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCAT-CGAGGGTGGCCGGACT-----GTTAAGGAGTTCTGCCAGCAG-- gaccatctcaatactttgtcataccctgctcttctcttcttttcctgtagTTCATGGATTTTATTGAGCGTGTGGAGAAGAAGACCTCTGTTGCTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTGGTGGTCTACCTGCAGCTGCTAACCTCAGGCTATGTCCAACGAAAAAGCAAGTTCTTTGAACACTACATTCGAGGGTGGTCAAAGTCAGGAGGTAAGGCCTAC-CCCAGCACCTgtactgaggccttcctttttttagtatg Alignment from Pairagon TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCA-TCGAGGGTGGCCGGACTGTTAAGGAGTTCTGCCAGCAG gaccatctcaatactttgtcataccctgctcttctcttcttttcctgtagTTCATGGATTTTATTGAGCGTGTGGAGAAGAAGACCTCTGTTGCTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTGGTGGTCTACCTGCAGCTGCTAACCTCAGGCTATGTCCAACGAAAAAGCAAGTTCTTTGAACACTACATTCGAGGGTGGTCAAA---------------GTCAGGAGgtaaggcctaccccagcacctgtactgaggccttcctttttttagtatga Alignment from Exonerate_protein2genome TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGG gaccatctcaatactttgtcataccctgctcttctcttcttttcctgtagTTCATGGATTTTATTGAGCGTGTGGAGAAGAAGACCTCTGTTGCTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTGGTGGTCTACCTGCAGCTGCTAACCTCAGGCTATGTCCAACGAAAAAGCAAGTTCTTTGAACACTACATTCGAGGGTGGTCAAAGTCAGGAGgtaaggcctaccccagcacctgtactgaggccttcctttttttagtatga Alignment from Exonerate_coding2genome TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGG gaccatctcaatactttgtcataccctgctcttctcttcttttcctgtagTTCATGGATTTTATTGAGCGTGTGGAGAAGAAGACCTCTGTTGCTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTGGTGGTCTACCTGCAGCTGCTAACCTCAGGCTATGTCCAACGAAAAAGCAAGTTCTTTGAACACTACATTCGAGGGTGGTCAAAGTCAGGAGgtaaggcctaccccagcacctgtactgaggccttcctttttttagtatga Alignment from GeneWise TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGT---------------GGCCGGACTGTTAAGGAGTTCTGCCAGCAG--------------- gaccatctcaatactttgtcataccctgctcttctcttcttttcctgtagTTCATGGATTTTATTGAGCGTGTGGAGAAGAAGACCTCTGTTGCTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTGGTGGTCTACCTGCAGCTGCTAACCTCAGGCTATGTCCAACGAAAAAGCAAGTTCTTTGAACACTACATTCGAGGGTGGTCAAAGTCAGGAGGTAAGGCCTACCCCAGCACCTGTACTGAGGCCTTCCTTTTTTTAgtatga #### Otub1_ID2061_5 --> 1 - 0 Original Alignment gTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCC-CAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG tatctggaccagtaagattctgctggaattaacatctcactctttttaaggTTTAGAGCAGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCCAGGGCATCACTGAGTTCACAATTGAAGACTTCCCCAACACAgtgaggaagacttccctaacacagtgagcatccccaccaatacttaaccc Alignment from CESAR gTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCC-CAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG tatctggaccagtaagattctgctggaattaacatctcactctttttaaggTTTAGAGCAGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCCAGGGCATCACTGAGTTCACAATTGAAGACTTCCCCAACACAgtgaggaagacttccctaacacagtgagcatccccaccaatacttaaccc Alignment from Spaln_aa2Genome GTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCC-CAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG tatctggaccagtaagattctgctggaattaacatctcactctttttaagGTTTAGAGCAGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCcCAGGGCATCACTGAGTTCACAATTGAAGACTTCCCCAACACAgtgaggaagacttccctaacacagtgagcatccccaccaatacttaaccc Alignment from Spaln_nt2Genome GTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCC-AGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG tatctggaccagtaagattctgctggaattaacatctcactctttttaagGTTTAGAGCAGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCCAGGGCATCACTGAGTTCACAATTGAAGACTTCCCCAACACAgtgaggaagacttccctaacacagtgagcatccccaccaatacttaaccc Alignment from Pairagon GTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTAT-CCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG tatctggaccagtaagattctgctggaattaacatctcactctttttaagGTTTAGAGCAGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCCAGGGCATCACTGAGTTCACAATTGAAGACTTCCCCAACACAgtgaggaagacttccctaacacagtgagcatccccaccaatacttaaccc Alignment from Exonerate_protein2genome GTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCC-CAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG tatctggaccagtaagattctgctggaattaacatctcactctttttaagGTTTAGAGCAGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCCAGGGCATCACTGAGTTCACAATTGAAGACTTCCCCAACACAgtgaggaagacttccctaacacagtgagcatccccaccaatacttaaccc Alignment from Exonerate_coding2genome GTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCC-CAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG tatctggaccagtaagattctgctggaattaacatctcactctttttaagGTTTAGAGCAGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCCAGGGCATCACTGAGTTCACAATTGAAGACTTCCCCAACACAgtgaggaagacttccctaacacagtgagcatccccaccaatacttaaccc Alignment from GeneWise GTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTA-TCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG tatctggaccagtaagattctgctggaattaacatctcactctttttaagGTTTAGAGCAGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCCAGGGCATCACTGAGTTCACAATTGAAGACTTCCCCAACACAgtgaggaagacttccctaacacagtgagcatccccaccaatacttaaccc #### Pacs1_ID878_16 --> 1 - 1 Original Alignment cTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATG-CGCTTCCTCATCATTCCCCTAg tcttgcacctcacacatcaacctgccccctgacccctcctgcctttgcagtTGCAATTGCAACTCATCAATGCCAAGGCCGGTTAAAGTAGCAGCCGTGGGTAGCCAGAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTGGTTATATGCCATTTCCTCATTATCCTCTTAggtaaggttacaccatgctaattgtatgtttggaatgagtaattctttctc Alignment from CESAR cTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATG-CGCTTCCTCATCATTCCCCTAg tcttgcacctcacacatcaacctgccccctgacccctcctgcctttgcagtTGCAATTGCAACTCATCAATGCCAAGGCCGGTTAAAGTAGCAGCCGTGGGTAGCCAGAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTGGTTATATGCCATTTCCTCATTATCCTCTTAggtaaggttacaccatgctaattgtatgtttggaatgagtaacattccctg Alignment from Spaln_aa2Genome CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATG-CGCTTCCTCATCATTCCCCTAG tcttgcacctcacacatcaacctgccccctgacccctcctgcctttgcagTTGCAATTGCAACTCATCAATGCCAAGGCCGGTTAAAGTAGCAGCCGTGGGTAGCCAGAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTGGTTATATGcCATTTCCTCATTATCCTCTTAGgtaaggttacaccatgctaattgtatgtttggaatgagtaattctttctc Alignment from Spaln_nt2Genome CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTT-CCTCATCATTCCCCTAG tcttgcacctcacacatcaacctgccccctgacccctcctgcctttgcagTTGCAATTGCAACTCATCAATGCCAAGGCCGGTTAAAGTAGCAGCCGTGGGTAGCCAGAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTGGTTATATGCCATTTCCTCATTATCCTCTTAGgtaaggttacaccatgctaattgtatgtttggaatgagtaattctttctc Alignment from Pairagon CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATG-CGCTTCCTCATCATTCCCCTAG tcttgcacctcacacatcaacctgccccctgacccctcctgcctttgcagTTGCAATTGCAACTCATCAATGCCAAGGCCGGTTAAAGTAGCAGCCGTGGGTAGCCAGAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTGGTTATATGCCATTTCCTCATTATCCTCTTAGgtaaggttacaccatgctaattgtatgtttggaatgagtaattctttctc Alignment from Exonerate_protein2genome CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATG-CGCTTCCTCATCATTCCCCTAG tcttgcacctcacacatcaacctgccccctgacccctcctgcctttgcagTTGCAATTGCAACTCATCAATGCCAAGGCCGGTTAAAGTAGCAGCCGTGGGTAGCCAGAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTGGTTATATGCCATTTCCTCATTATCCTCTTAGgtaaggttacaccatgctaattgtatgtttggaatgagtaattctttctc Alignment from Exonerate_coding2genome CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAGG tcttgcacctcacacatcaacctgccccctgacccctcctgcctttgcagTTGCAATTGCAACTCATCAATGCCAAGGCCGGTTAAAGTAGCAGCCGTGGGTAGCCAGAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTGGTTATATGCCATTTCCTCATTATCCTCTTAGgtaaggttacaccatgctaattgtatgtttggaatgagtaattctttctc Alignment from GeneWise CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATG-CGCTTCCTCATCATTCCCCTAG tcttgcacctcacacatcaacctgccccctgacccctcctgcctttgcagTTGCAATTGCAACTCATCAATGCCAAGGCCGGTTAAAGTAGCAGCCGTGGGTAGCCAGAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACACCAGACTGGCTTGGTTATATGCCATTTCCTCATTATCCTCTTAGgtaaggttacaccatgctaattgtatgtttggaatgagtaattctttctc #### Pacs1_ID888_6 --> 2 - 0 Original Alignment atCGCTCCCCAGATATTGACAACTACTCTGAAGAA-GAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG accggattttgttaaactctcctgcagtaaatttttcttctaactttcagacCGCGCCCCAGACATCGACAATTATTCAGAGGAGCGAGGAGGAAAGCTTCTTCTCAGCACAGGATGACACTGATGAACCACTGCATGGACAAgtaagtatttgacagtgtggcagtgtacaatttgaaacagggtgaggcac Alignment from CESAR atCGCTCCCCAGATATTGACAACTACTCTGAAGAA-GAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG accggattttgttaaactctcctgcagtaaatttttcttctaactttcagacCGCGCCCCAGACATCGACAATTATTCAGAGGAGCGAGGAGGAAAGCTTCTTCTCAGCACAGGATGACACTGATGAACCACTGCATGGACAAgtaagtatttgacagtgtggcagtgtacaatttgaaacagggtgaggcac Alignment from Spaln_aa2Genome ATCGCTCCCCAGATATTGACAACTACTCTGAAGAA-GAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG accggattttgttaaactctcctgcagtaaatttttcttctaactttcagACCGCGCCCCAGACATCGACAATTATTCAGAGGAGcGAGGAGGAAAGCTTCTTCTCAGCACAGGATGACACTGATGAACCACTGCATGGACAAgtaagtatttgacagtgtggcagtgtacaatttgaaacagggtgaggcac Alignment from Spaln_nt2Genome ATCGCTCCCCAGATATTGACAACTACTCTGAAGAA-GAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG accggattttgttaaactctcctgcagtaaatttttcttctaactttcagACCGCGCCCCAGACATCGACAATTATTCAGAGGAGCGAGGAGGAAAGCTTCTTCTCAGCACAGGATGACACTGATGAACCACTGCATGGACAAgtaagtatttgacagtgtggcagtgtacaatttgaaacagggtgaggcac Alignment from Pairagon ATCGCTCCCCAGATATTGACAACTACTCTGAAGAA-GAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG accggattttgttaaactctcctgcagtaaatttttcttctaactttcagACCGCGCCCCAGACATCGACAATTATTCAGAGGAGCGAGGAGGAAAGCTTCTTCTCAGCACAGGATGACACTGATGAACCACTGCATGGACAAgtaagtatttgacagtgtggcagtgtacaatttgaaacagggtgaggcac Alignment from Exonerate_protein2genome ATCGCTCCCCAGATATTGACAACTACTCTGAAGAA-GAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG accggattttgttaaactctcctgcagtaaatttttcttctaactttcagACCGCGCCCCAGACATCGACAATTATTCAGAGGAGCGAGGAGGAAAGCTTCTTCTCAGCACAGGATGACACTGATGAACCACTGCATGGACAAgtaagtatttgacagtgtggcagtgtacaatttgaaacagggtgaggcac Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATCGCTCCCCAGATATTGACAACTACTCTGAAGAA-GAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG accggattttgttaaactctcctgcagtaaatttttcttctaactttcagACCGCGCCCCAGACATCGACAATTATTCAGAGGAGCGAGGAGGAAAGCTTCTTCTCAGCACAGGATGACACTGATGAACCACTGCATGGACAAgtaagtatttgacagtgtggcagtgtacaatttgaaacagggtgaggcac #### Patl1_ID3327_12 --> 2 - 0 Original Alignment tgCAGTTTGAGGGCTCGTTGGGGAAGCTTACTGTCTCTAGTGTGAATAAT-CCTCGGAAGATGATAGATGCTGTTGTGACATCTCGAAGTGAGGATGAT gatggaccctgatcaacggttaggagttacttccttgctcttttctctagtgCAGTTTGATGGCTCATTGGGGAAACTTACTGTCTCCAGTGTGAATAATCCCTCGGAAGATGATAGATGCTGTTGTGACATCTAGAAGCGAGGATGATgtaaggttgagggcagtgttcacagtcagttactatgacaaaatccatcc Alignment from CESAR tgCAGTTTGAGGGCTCGTTGGGGAAGCTTACTGTCTCTAGTGTGAATAAT-CCTCGGAAGATGATAGATGCTGTTGTGACATCTCGAAGTGAGGATGAT gatggaccctgatcaacggttaggagttacttccttgctcttttctctagtgCAGTTTGATGGCTCATTGGGGAAACTTACTGTCTCCAGTGTGAATAATCCCTCGGAAGATGATAGATGCTGTTGTGACATCTAGAAGCGAGGATGATgtaaggttgagggcagtgttcacagtcagttactatgacaaaatccatcc Alignment from Spaln_aa2Genome TGCAGTTTGAGGGCTCGTTGGGGAAGCTTACTGTCTCTAGTGTGAATAAT-CCTCGGAAGATGATAGATGCTGTTGTGACATCTCGAAGTGAGGATGAT gatggaccctgatcaacggttaggagttacttccttgctcttttctctagTGCAGTTTGATGGCTCATTGGGGAAACTTACTGTCTCCAGTGTGAATAATcCCTCGGAAGATGATAGATGCTGTTGTGACATCTAGAAGCGAGGATGATgtaaggttgagggcagtgttcacagtcagttactatgacaaaatccatcc Alignment from Spaln_nt2Genome TGCAGTTTGAGGGCTCGTTGGGGAAGCTTACTGTCTCTAGTGTGAATAAT-CCTCGGAAGATGATAGATGCTGTTGTGACATCTCGAAGTGAGGATGAT gatggaccctgatcaacggttaggagttacttccttgctcttttctctagTGCAGTTTGATGGCTCATTGGGGAAACTTACTGTCTCCAGTGTGAATAATCCCTCGGAAGATGATAGATGCTGTTGTGACATCTAGAAGCGAGGATGATgtaaggttgagggcagtgttcacagtcagttactatgacaaaatccatcc Alignment from Pairagon TGCAGTTTGAGGGCTCGTTGGGGAAGCTTACTGTCTCTAGTGTGAATAAT-CCTCGGAAGATGATAGATGCTGTTGTGACATCTCGAAGTGAGGATGAT gatggaccctgatcaacggttaggagttacttccttgctcttttctctagTGCAGTTTGATGGCTCATTGGGGAAACTTACTGTCTCCAGTGTGAATAATCCCTCGGAAGATGATAGATGCTGTTGTGACATCTAGAAGCGAGGATGATgtaaggttgagggcagtgttcacagtcagttactatgacaaaatccatcc Alignment from Exonerate_protein2genome TGCAGTTTGAGGGCTCGTTGGGGAAGCTTACTGTCTCTAGTGTGAATAAT-CCTCGGAAGATGATAGATGCTGTTGTGACATCTCGAAGTGAGGATGAT gatggaccctgatcaacggttaggagttacttccttgctcttttctctagTGCAGTTTGATGGCTCATTGGGGAAACTTACTGTCTCCAGTGTGAATAATCCCTCGGAAGATGATAGATGCTGTTGTGACATCTAGAAGCGAGGATGATgtaaggttgagggcagtgttcacagtcagttactatgacaaaatccatcc Alignment from Exonerate_coding2genome TGCAGTTTGAGGGCTCGTTGGGGAAGCTTACTGTCTCTAGTGTGAATAAT-CCTCGGAAGATGATAGATGCTGTTGTGACATCTCGAAGTGAGGATGAT gatggaccctgatcaacggttaggagttacttccttgctcttttctctagTGCAGTTTGATGGCTCATTGGGGAAACTTACTGTCTCCAGTGTGAATAATCCCTCGGAAGATGATAGATGCTGTTGTGACATCTAGAAGCGAGGATGATgtaaggttgagggcagtgttcacagtcagttactatgacaaaatccatcc Alignment from GeneWise TGCAGTTTGAGGGCTCGTTGGGGAAGCTTACTGTCTCTAGTGTGAATAATCCT-CGGAAGATGATAGATGCTGTTGTGACATCTCGAAGTGAGGATGAT gatggaccctgatcaacggttaggagttacttccttgctcttttctctagTGCAGTTTGATGGCTCATTGGGGAAACTTACTGTCTCCAGTGTGAATAATCCCTCGGAAGATGATAGATGCTGTTGTGACATCTAGAAGCGAGGATGATgtaaggttgagggcagtgttcacagtcagttactatgacaaaatccatcc #### Patl1_ID3333_18 --> 1 - 2 Original Alignment gACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAG-AAACTGAACTTGCTGGAAACAAAACTGca ccccaagttggtgtagctctcatctgtcgagtctgtttgtaattccacaggACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAAGTAGCCCTTTCCAACTCGACTTCTATTCCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGGCAACAAACTGAATCTGCTAGAGACCAAACTCaagttgaaattgtcacactttttctgctttgtcaggtcagataaactgattg Alignment from CESAR gACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAG-AAACTGAACTTGCTGGAAACAAAACTGca ccccaagttggtgtagctctcatctgtcgagtctgtttgtaattccacaggACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAAGTAGCCCTTTCCAACTCGACTTCTATTCCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGGCAACAAACTGAATCTGCTAGAGACCAAACTCaagttgaaattgtcacactttttctgctttgtcaggtcagataaactgattg Alignment from Spaln_aa2Genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAG-AAACTGAACTTGCTGGAAACAAAACTGCA ccccaagttggtgtagctctcatctgtcgagtctgtttgtaattccacagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAAGTAGCCCTTTCCAACTCGACTTCTATTCCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGGCAAcAAACTGAATCTGCTAGAGACCAAACTCAAgttgaaattgtcacactttttctgctttgtcaggtcagataaactgattg Alignment from Spaln_nt2Genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAG-AAACTGAACTTGCTGGAAACAAAACTGCA ccccaagttggtgtagctctcatctgtcgagtctgtttgtaattccacagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAAGTAGCCCTTTCCAACTCGACTTCTATTCCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGGCAACAAACTGAATCTGCTAGAGACCAAACTCAAgttgaaattgtcacactttttctgctttgtcaggtcagataaactgattg Alignment from Pairagon GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAG-AAACTGAACTTGCTGGAAACAAAACTGCA ccccaagttggtgtagctctcatctgtcgagtctgtttgtaattccacagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAAGTAGCCCTTTCCAACTCGACTTCTATTCCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGGCAACAAACTGAATCTGCTAGAGACCAAACTCAAgttgaaattgtcacactttttctgctttgtcaggtcagataaactgattg Alignment from Exonerate_protein2genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAG-AAACTGAACTTGCTGGAAACAAAACTGCAGCTG ccccaagttggtgtagctctcatctgtcgagtctgtttgtaattccacagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAAGTAGCCCTTTCCAACTCGACTTCTATTCCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGGCAACAAACTGAATCTGCTAGAGACCAAACTCAAGTTGaaattgtcacactttttctgctttgtcaggtcagataaactgattg Alignment from Exonerate_coding2genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAG-AAACTGAACTTGCTGGAAACAAAACTGCAGCTG ccccaagttggtgtagctctcatctgtcgagtctgtttgtaattccacagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAAGTAGCCCTTTCCAACTCGACTTCTATTCCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGGCAACAAACTGAATCTGCTAGAGACCAAACTCAAGTTGaaattgtcacactttttctgctttgtcaggtcagataaactgattg Alignment from GeneWise GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAGCTGGTTCAGGGGATACGG ccccaagttggtgtagctctcatctgtcgagtctgtttgtaattccacagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAAGTAGCCCTTTCCAACTCGACTTCTATTCCACCAAACCTAGCATCTTTTTTATCCCGCTTTGTTGACCGGCAACAAACTGAATCTGCTAGAGACCAAACTCAA---GTTGAAATTGTCACActttttctgctttgtcaggtcagataaactga #### Pcnxl3_ID1159_34 --> 2 - 0 Original Alignment gcAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGG-AGCCCCAAAGGAGGCACCCCCAAATCTCAG aaaattatgaactgaaatgttggccgggcaaacaccatgcctttccccaggcAGCAGCGAACAGCCCCTCCCACCAGGCCCTAGCTGGGGACCAAGGCCCTCACTAATTGGCTCTGGAGATGGGCAGCCCCGTTCTCTTTTACAGTGGCCGCCCCCTCGGCTCCAAGGACCACCTCCAGTTTCACCTGTCCCCACTGATGGACCTCAGCCCTCACGACTTTCGGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGCCTGGAAGGATCTGATGGGGAACCTGCTTCTGGGCAGCCCAAAAGGTGGTAGACCCAAGTCTCAGgtgggcaggacctcatggtaaagaggcgtcctcagtgacaaggtggttac Alignment from CESAR gcAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGG-AGCCCCAAAGGAGGCACCCCCAAATCTCAG aaaattatgaactgaaatgttggccgggcaaacaccatgcctttccccaggcAGCAGCGAACAGCCCCTCCCACCAGGCCCTAGCTGGGGACCAAGGCCCTCACTAATTGGCTCTGGAGATGGGCAGCCCCGTTCTCTTTTACAGTGGCCGCCCCCTCGGCTCCAAGGACCACCTCCAGTTTCACCTGTCCCCACTGATGGACCTCAGCCCTCACGACTTTCGGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGCCTGGAAGGATCTGATGGGGAACCTGCTTCTGGGCAGCCCAAAAGGTGGTAGACCCAAGTCTCAGgtgggcaggacctcatggtaaagaggcgtcctcagtgacaaggtggttac Alignment from Spaln_aa2Genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGG-AGCCCCAAAGGAGGCACCCCCAAATCTCAG aaaattatgaactgaaatgttggccgggcaaacaccatgcctttccccagGCAGCAGCGAACAGCCCCTCCCACCAGGCCCTAGCTGGGGACCAAGGCCCTCACTAATTGGCTCTGGAGATGGGCAGCCCCGTTCTCTTTTACAGTGGCCGCCCCCTCGGCTCCAAGGACCACCTCCAGTTTCACCTGTCCCCACTGATGGACCTCAGCCCTCACGACTTTCGGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGCCTGGAAGGATCTGATGGGGAACCTGCTTCTGGGcAGCCCAAAAGGTGGTAGACCCAAGTCTCAGgtgggcaggacctcatggtaaagaggcgtcctcagtgacaaggtggttac Alignment from Spaln_nt2Genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGG-AGCCCCAAAGGAGGCACCCCCAAATCTCAG aaaattatgaactgaaatgttggccgggcaaacaccatgcctttccccagGCAGCAGCGAACAGCCCCTCCCACCAGGCCCTAGCTGGGGACCAAGGCCCTCACTAATTGGCTCTGGAGATGGGCAGCCCCGTTCTCTTTTACAGTGGCCGCCCCCTCGGCTCCAAGGACCACCTCCAGTTTCACCTGTCCCCACTGATGGACCTCAGCCCTCACGACTTTCGGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGCCTGGAAGGATCTGATGGGGAACCTGCTTCTGGGCAGCCCAAAAGGTGGTAGACCCAAGTCTCAGgtgggcaggacctcatggtaaagaggcgtcctcagtgacaaggtggttac Alignment from Pairagon GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGG-AGCCCCAAAGGAGGCACCCCCAAATCTCAG aaaattatgaactgaaatgttggccgggcaaacaccatgcctttccccagGCAGCAGCGAACAGCCCCTCCCACCAGGCCCTAGCTGGGGACCAAGGCCCTCACTAATTGGCTCTGGAGATGGGCAGCCCCGTTCTCTTTTACAGTGGCCGCCCCCTCGGCTCCAAGGACCACCTCCAGTTTCACCTGTCCCCACTGATGGACCTCAGCCCTCACGACTTTCGGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGCCTGGAAGGATCTGATGGGGAACCTGCTTCTGGGCAGCCCAAAAGGTGGTAGACCCAAGTCTCAGgtgggcaggacctcatggtaaagaggcgtcctcagtgacaaggtggttac Alignment from Exonerate_protein2genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCA-GGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG aaaattatgaactgaaatgttggccgggcaaacaccatgcctttccccagGCAGCAGCGAACAGCCCCTCCCACCAGGCCCTAGCTGGGGACCAAGGCCCTCACTAATTGGCTCTGGAGATGGGCAGCCCCGTTCTCTTTTACAGTGGCCGCCCCCTCGGCTCCAAGGACCACCTCCAGTTTCACCTGTCCCCACTGATGGACCTCAGCCCTCACGACTTTCGGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGCCTGGAAGGATCTGATGGGGAACCTGCTTCTGGGCAGCCCAAAAGGTGGTAGACCCAAGTCTCAGgtgggcaggacctcatggtaaagaggcgtcctcagtgacaaggtggttac Alignment from Exonerate_coding2genome aaaattatgaactgaaatgttggccgggcaaacaccatgcctttccccaggcagcagcgaacagcccctcccaccaggccctagctggggaccaaggccctcactaattggctctggagatgggcagccccgttctcttttacagtggccgccccctcggctccaaggaccacctccagtttcacctgtccccactgatggacctcagccctcacgactttcgggccctgctctccttaattcagagggacccagtgggaagtggagtttggggggtcagaagggcctggaaggatctgatggggaacctgcttctgggcagcccaaaaggtggtagacccaagtctcaggtgggcaggacctcatggtaaagaggcgtcctcagtgacaaggtggttac Alignment from GeneWise CAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGG-AGCCCCAAAGGAGGCACCCCCAAATCTCAG aaaattatgaactgaaatgttggccgggcaaacaccatgcctttccccaggcagCAGCGAACAGCCCCTCCCACCAGGCCCTAGCTGGGGACCAAGGCCCTCACTAATTGGCTCTGGAGATGGGCAGCCCCGTTCTCTTTTACAGTGGCCGCCCCCTCGGCTCCAAGGACCACCTCCAGTTTCACCTGTCCCCACTGATGGACCTCAGCCCTCACGACTTTCGGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGCCTGGAAGGATCTGATGGGGAACCTGCTTCTGGGCAGCCCAAAAGGTGGTAGACCCAAGTCTCAGgtgggcaggacctcatggtaaagaggcgtcctcagtgacaaggtggttac #### Pcnxl3_ID1167_26 --> 2 - 1 Original Alignment gcGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCAC-ACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGg acacaatgcacttactttgtttaattgactcctttgttcttcgattgcaggaGCTGATGACAATAACCTT---TTGCTTTTCTATCAACATTTGACACGCTCACTGCAACATCATGCTTTGTGATGATCTGGTCCTGGGCTGCTGGGGCAACCATGGTCCAGGAGATTGCATTGTACTGGCACCAGACTACCTAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGggtaggccttggaatcaagctcgagctaagggtggcccatagacatatgag Alignment from CESAR gcGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCAC-ACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGg acacaatgcacttactttgtttaattgactcctttgttcttcgattgcaggaGCTGATGACAATAACCTT---TTGCTTTTCTATCAACATTTGACACGCTCACTGCAACATCATGCTTTGTGATGATCTGGTCCTGGGCTGCTGGGGCAACCATGGTCCAGGAGATTGCATTGTACTGGCACCAGACTACCTAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGggtaggccttggaatcaagctcgagctaagggtggcccatagacatatgag Alignment from Spaln_aa2Genome GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCAC-ACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG acacaatgcacttactttgtttaattgactcctttgttcttcgattgcagGAGCTGATGACAATAACCTT---TTGCTTTTCTATCAACATTTGACACGCTCACTGCAACATcATGCTTTGTGATGATCTGGTCCTGGGCTGCTGGGGCAACCATGGTCCAGGAGATTGCATTGTACTGGCACCAGACTACCTAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGGgtaggccttggaatcaagctcgagctaagggtggcccatagacatatgag Alignment from Spaln_nt2Genome GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCA-CACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG acacaatgcacttactttgtttaattgactcctttgttcttcgattgcagGAGCTGATGACAATAACCT---TTTGCTTTTCTATCAACATTTGACACGCTCACTGCAACATCATGCTTTGTGATGATCTGGTCCTGGGCTGCTGGGGCAACCATGGTCCAGGAGATTGCATTGTACTGGCACCAGACTACCTAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGGgtaggccttggaatcaagctcgagctaagggtggcccatagacatatgag Alignment from Pairagon GCGCTGATGACAACAACCT----CAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCA-CACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG acacaatgcacttactttgtttaattgactcctttgttcttcgattgcagGAGCTGATGACAATAACCTTTTGC-------TTTTCTATCAACATTTGACACGCTCACTGCAACATCATGCTTTGTGATGATCTGGTCCTGGGCTGCTGGGGCAACCATGGTCCAGGAGATTGCATTGTACTGGCACCAGACTACCTAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGGgtaggccttggaatcaagctcgagctaagggtggcccatagacatatgag Alignment from Exonerate_protein2genome GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCAC-ACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG acacaatgcacttactttgtttaattgactcctttgttcttcgattgcagGAGCTGATGACAATAACCTT---TTGCTTTTCTATCAACATTTGACACGCTCACTGCAACATCATGCTTTGTGATGATCTGGTCCTGGGCTGCTGGGGCAACCATGGTCCAGGAGATTGCATTGTACTGGCACCAGACTACCTAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGGgtaggccttggaatcaagctcgagctaagggtggcccatagacatatgag Alignment from Exonerate_coding2genome acacaatgcacttactttgtttaattgactcctttgttcttcgattgcaggagctgatgacaataaccttttgcttttctatcaacatttgacacgctcactgcaacatcatgctttgtgatgatctggtcctgggctgctggggcaaccatggtccaggagattgcattgtactggcaccagactacctaaatggacttgtccagctcattgaggttggcaatggtctcatcacctaccagccccatggcctcaagttccggggtaggccttggaatcaagctcgagctaagggtggcccatagacatatgag Alignment from GeneWise GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCAC-ACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG acacaatgcacttactttgtttaattgactcctttgttcttcgattgcagGAGCTGATGACAATAACCTT---TTGCTTTTCTATCAACATTTGACACGCTCACTGCAACATCATGCTTTGTGATGATCTGGTCCTGGGCTGCTGGGGCAACCATGGTCCAGGAGATTGCATTGTACTGGCACCAGACTACCTAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGGgtaggccttggaatcaagctcgagctaagggtggcccatagacatatgag #### Pcnxl3_ID1168_25 --> 1 - 1 Original Alignment cACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAG-CTGGACCGGAACCCAg tcttacaaggcagcaggtaactcatgtttttttctgttatcatgaaacagtACAAAACCTGTAGACCACTCTAACACTCGGCTTGTGACACAACCTGGACCGGAATCCAggtaagttacagctggccccagttctgaaagcaacacaatgcacttacttt Alignment from CESAR cACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAG-CTGGACCGGAACCCAg tcttacaaggcagcaggtaactcatgtttttttctgttatcatgaaacagtACAAAACCTGTAGACCACTCTAACACTCGGCTTGTGACACAACCTGGACCGGAATCCAggtaagttacagctggccccagttctgaaagcaacacaatgcacttacttt Alignment from Spaln_aa2Genome CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAG-CTGGACCGGAACCCAG tcttacaaggcagcaggtaactcatgtttttttctgttatcatgaaacagTACAAAACCTGTAGACCACTCTAACACTCGGCTTGTGACACAAcCTGGACCGGAATCCAGgtaagttacagctggccccagttctgaaagcaacacaatgcacttacttt Alignment from Spaln_nt2Genome CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGC-TGGACCGGAACCCAG tcttacaaggcagcaggtaactcatgtttttttctgttatcatgaaacagTACAAAACCTGTAGACCACTCTAACACTCGGCTTGTGACACAACCTGGACCGGAATCCAGgtaagttacagctggccccagttctgaaagcaacacaatgcacttacttt Alignment from Pairagon CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAG-CTGGACCGGAACCCAG tcttacaaggcagcaggtaactcatgtttttttctgttatcatgaaacagTACAAAACCTGTAGACCACTCTAACACTCGGCTTGTGACACAACCTGGACCGGAATCCAGgtaagttacagctggccccagttctgaaagcaacacaatgcacttacttt Alignment from Exonerate_protein2genome CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAG-CTGGACCGGAACCCAG tcttacaaggcagcaggtaactcatgtttttttctgttatcatgaaacagTACAAAACCTGTAGACCACTCTAACACTCGGCTTGTGACACAACCTGGACCGGAATCCAGgtaagttacagctggccccagttctgaaagcaacacaatgcacttacttt Alignment from Exonerate_coding2genome tcttacaaggcagcaggtaactcatgtttttttctgttatcatgaaacagtacaaaacctgtagaccactctaacactcggcttgtgacacaacctggaccggaatccaggtaagttacagctggccccagttctgaaagcaacacaatgcacttacttt Alignment from GeneWise CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAG-CTGGACCGGAACCCAG tcttacaaggcagcaggtaactcatgtttttttctgttatcatgaaacagTACAAAACCTGTAGACCACTCTAACACTCGGCTTGTGACACAACCTGGACCGGAATCCAGgtaagttacagctggccccagttctgaaagcaacacaatgcacttacttt #### Pcnxl3_ID1174_19 --> 0 - 0 Original Alignment CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTC-ACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG taacaggcaatctgaacagtcactgtactttttttttttttaatttttagAGGGAAGTTTTGCACTCTGACCTGGTAATGTGTGTTGTGATCGCTGTGCTCCATTTTTGCAGTAAGTGCTAGCATAGTGTTCATTGCTTTGAAAgtgagggcagcatgaagcacctggataaatctgctgctatcctgactata Alignment from CESAR CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTC-ACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG taacaggcaatctgaacagtcactgtactttttttttttttaatttttagAGGGAAGTTTTGCACTCTGACCTGGTAATGTGTGTTGTGATCGCTGTGCTCCATTTTTGCAGTAAGTGCTAGCATAGTGTTCATTGCTTTGAAAgtgagggcagcatgaagcacctggataaatctgctgctatcctgactata Alignment from Spaln_aa2Genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTT-GCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG taacaggcaatctgaacagtcactgtactttttttttttttaatttttagAGGGAAGTTTTGCACTCTGACCTGGTAATGTGTGTTGTGATCGCTGTGCTCCATTTTtGCAGTAAGTGCTAGCATAGTGTTCATTGCTTTGAAAgtgagggcagcatgaagcacctggataaatctgctgctatcctgactata Alignment from Spaln_nt2Genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTC-ACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG taacaggcaatctgaacagtcactgtactttttttttttttaatttttagAGGGAAGTTTTGCACTCTGACCTGGTAATGTGTGTTGTGATCGCTGTGCTCCATTTTTGCAGTAAGTGCTAGCATAGTGTTCATTGCTTTGAAAgtgagggcagcatgaagcacctggataaatctgctgctatcctgactata Alignment from Pairagon CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCT-CACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG taacaggcaatctgaacagtcactgtactttttttttttttaatttttagAGGGAAGTTTTGCACTCTGACCTGGTAATGTGTGTTGTGATCGCTGTGCTCCATTTTTGCAGTAAGTGCTAGCATAGTGTTCATTGCTTTGAAAgtgagggcagcatgaagcacctggataaatctgctgctatcctgactata Alignment from Exonerate_protein2genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTC-ACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG taacaggcaatctgaacagtcactgtactttttttttttttaatttttagAGGGAAGTTTTGCACTCTGACCTGGTAATGTGTGTTGTGATCGCTGTGCTCCATTTTTGCAGTAAGTGCTAGCATAGTGTTCATTGCTTTGAAAgtgagggcagcatgaagcacctggataaatctgctgctatcctgactata Alignment from Exonerate_coding2genome taacaggcaatctgaacagtcactgtactttttttttttttaatttttagagggaagttttgcactctgacctggtaatgtgtgttgtgatcgctgtgctccatttttgcagtaagtgctagcatagtgttcattgctttgaaagtgagggcagcatgaagcacctggataaatctgctgctatcctgactata Alignment from GeneWise CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTC-ACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG taacaggcaatctgaacagtcactgtactttttttttttttaatttttagAGGGAAGTTTTGCACTCTGACCTGGTAATGTGTGTTGTGATCGCTGTGCTCCATTTTTGCAGTAAGTGCTAGCATAGTGTTCATTGCTTTGAAAgtgagggcagcatgaagcacctggataaatctgctgctatcctgactata #### Pcnxl3_ID1178_15 --> 2 - 1 Original Alignment GTGGCCACTg tgTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTAC-CTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAg GTGGCAACTggtaagtcacctcaagatagctgaatgctctgtacctccagtaTTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCTCAGGTCAACACCTGCCTGACATACCCTCTCGGAACAAATTGATATGCATGGTTTTGGAGGCACAggtgagatgtgctcggaaaggtctaggccatgaatattacatgtaccaaat Alignment from CESAR GTGGCCACTg tgTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTG-GAGCAGATAGACATGCATGGCTTTGGAGGCACAg GTGGCAACTggtgagtcacctcaagatagctgaatgctctgtacctccagtaTTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCTCAGGTCAACACCTGCCTGACATACCCTCTCGGAACAAATTGATATGCATGGTTTTGGAGGCACAggtgagatgtgctcggaaaggtctaggccatgaatattacatgtaccaaat Alignment from Spaln_aa2Genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTG-GAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaagtcacctcaagatagctgaatgctctgtacctccagTATTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCTCAGGTCAACACCTGCCTGACATACCCTCTCgGAACAAATTGATATGCATGGTTTTGGAGGCACAGgtgagatgtgctcggaaaggtctaggccatgaatattacatgtaccaaat Alignment from Spaln_nt2Genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCT-GGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaagtcacctcaagatagctgaatgctctgtacctccagTATTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCTCAGGTCAACACCTGCCTGACATACCCTCTCGGAACAAATTGATATGCATGGTTTTGGAGGCACAGgtgagatgtgctcggaaaggtctaggccatgaatattacatgtaccaaat Alignment from Pairagon GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTA-CCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaagtcacctcaagatagctgaatgctctgtacctccagTATTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCTCAGGTCAACACCTGCCTGACATACCCTCTCGGAACAAATTGATATGCATGGTTTTGGAGGCACAGgtgagatgtgctcggaaaggtctaggccatgaatattacatgtaccaaat Alignment from Exonerate_protein2genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTAC-CTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaagtcacctcaagatagctgaatgctctgtacctccagTATTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCTCAGGTCAACACCTGCCTGACATACCCTCTCGGAACAAATTGATATGCATGGTTTTGGAGGCACAGgtgagatgtgctcggaaaggtctaggccatgaatattacatgtaccaaat Alignment from Exonerate_coding2genome gtggcaactggtaagtcacctcaagatagctgaatgctctgtacctccagtattcaccttatgctttccctttgtcttcctgctggggctcctgcctcaggtcaacacctgcctgacataccctctcggaacaaattgatatgcatggttttggaggcacaggtgagatgtgctcggaaaggtctaggccatgaatattacatgtaccaaat Alignment from GeneWise GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTAC-CTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaagtcacctcaagatagctgaatgctctgtacctccagTATTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCTCAGGTCAACACCTGCCTGACATACCCTCTCGGAACAAATTGATATGCATGGTTTTGGAGGCACAGgtgagatgtgctcggaaaggtctaggccatgaatattacatgtaccaaat #### Pcnxl3_ID1189_4 --> 0 - 1 Original Alignment GAGTTGCTGCCCCGGATG-GAGGATTCTGGGCCCCTCAGAg ttgactgcaagcatgggcttgctgcagctaagttttctatgttttcttagAAGTTGCTACCACAGATGCGAGGATTCTGGACCTCTCAGAggtaaattgtgtcagactgtatcatgtcaagagaggcctagccagtgtcag Alignment from CESAR GAGTTGCTGCCCCGGATG-GAGGATTCTGGGCCCCTCAGAg ttgactgcaagcatgggcttgctgcagctaagttttctatgttttcttagAAGTTGCTACCACAGATGCGAGGATTCTGGACCTCTCAGAggtaaattgtgtcagactgtatcatgtcaagagaggcctagccagtgtcag Alignment from Spaln_aa2Genome GAGTTGCTGCCCCGGATG-GAGGATTCTGGGCCCCTCAGAG ttgactgcaagcatgggcttgctgcagctaagttttctatgttttcttagAAGTTGCTACCACAGATGcGAGGATTCTGGACCTCTCAGAGgtaaattgtgtcagactgtatcatgtcaagagaggcctagccagtgtcag Alignment from Spaln_nt2Genome GAGTTGCTGCCCCGGATG-GAGGATTCTGGGCCCCTCAGAG ttgactgcaagcatgggcttgctgcagctaagttttctatgttttcttagAAGTTGCTACCACAGATGCGAGGATTCTGGACCTCTCAGAGgtaaattgtgtcagactgtatcatgtcaagagaggcctagccagtgtcag Alignment from Pairagon GAGTTGCTGCCCCGGATG-GAGGATTCTGGGCCCCTCAGAG ttgactgcaagcatgggcttgctgcagctaagttttctatgttttcttagAAGTTGCTACCACAGATGCGAGGATTCTGGACCTCTCAGAGgtaaattgtgtcagactgtatcatgtcaagagaggcctagccagtgtcag Alignment from Exonerate_protein2genome GAGTTGCTGCCCCGGATG-GAGGATTCTGGGCCCCTCAGAG ttgactgcaagcatgggcttgctgcagctaagttttctatgttttcttagAAGTTGCTACCACAGATGCGAGGATTCTGGACCTCTCAGAGgtaaattgtgtcagactgtatcatgtcaagagaggcctagccagtgtcag Alignment from Exonerate_coding2genome GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAAC ttgactgcaagcatgggcttgctgcagctaagttttctatgttttcttagAAGTTGCTACCACAGATGCGAGGATTCTGGACCTCTCAGAGGTAAATTGTGTCAGACTGTATCATGTCAAGAGAGGCCTAGCCAGTGTCAG Alignment from GeneWise ttgactgcaagcatgggcttgctgcagctaagttttctatgttttcttagaagttgctaccacagatgcgaggattctggacctctcagaggtaaattgtgtcagactgtatcatgtcaagagaggcctagccagtgtcag #### Pcsk5_ID4264_19 --> 2 - 2 Original Alignment ggGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGT-GTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGag agtttgatatgtacaaactgattgccttcatgctgtgtgttctttgccagggGCTGGAGCAGATGGGTTCATAAATTGCACTGAGGGGTATGTTATGGAAGAGGGAAAATGCGTTCAAAGTTGTAGTCGTGAGTTACTACTTGGATCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAaggtgagtttatcaatgatactctacccctgacaccaactgtgattttttta Alignment from CESAR ggGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGT-GTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGag agtttgatatgtacaaactgattgccttcatgctgtgtgttctttgccagggGCTGGAGCAGATGGGTTCATAAATTGCACTGAGGGGTATGTTATGGAAGAGGGAAAATGCGTTCAAAGTTGTAGTCGTGAGTTACTACTTGGATCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAaggtgagtttatcaatgatactctacccctgacaccaactgtgattttttta Alignment from Spaln_aa2Genome GGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGT-GTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG agtttgatatgtacaaactgattgccttcatgctgtgtgttctttgccagGGGCTGGAGCAGATGGGTTCATAAATTGCACTGAGGGGTATGTTATGGAAGAGGGAAAATGCGTTCAAAGTTGTAGTcGTGAGTTACTACTTGGATCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtgagtttatcaatgatactctacccctgacaccaactgtgattttttta Alignment from Spaln_nt2Genome GGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGT-GTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG agtttgatatgtacaaactgattgccttcatgctgtgtgttctttgccagGGGCTGGAGCAGATGGGTTCATAAATTGCACTGAGGGGTATGTTATGGAAGAGGGAAAATGCGTTCAAAGTTGTAGTCGTGAGTTACTACTTGGATCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtgagtttatcaatgatactctacccctgacaccaactgtgattttttta Alignment from Pairagon GGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGT-GTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG agtttgatatgtacaaactgattgccttcatgctgtgtgttctttgccagGGGCTGGAGCAGATGGGTTCATAAATTGCACTGAGGGGTATGTTATGGAAGAGGGAAAATGCGTTCAAAGTTGTAGTCGTGAGTTACTACTTGGATCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtgagtttatcaatgatactctacccctgacaccaactgtgattttttta Alignment from Exonerate_protein2genome CTTGCTCT------GGGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGT-GTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG agtttgatatgtacaaactgattgccttcatgctgTGTGTTCTTTGCCAGGGGCTGGAGCAGATGGGTTCATAAATTGCACTGAGGGGTATGTTATGGAAGAGGGAAAATGCGTTCAAAGTTGTAGTCGTGAGTTACTACTTGGATCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtgagtttatcaatgatactctacccctgacaccaactgtgattttttta Alignment from Exonerate_coding2genome CTTGCTCT------GGGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGT-GTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG agtttgatatgtacaaactgattgccttcatgctgTGTGTTCTTTGCCAGGGGCTGGAGCAGATGGGTTCATAAATTGCACTGAGGGGTATGTTATGGAAGAGGGAAAATGCGTTCAAAGTTGTAGTCGTGAGTTACTACTTGGATCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtgagtttatcaatgatactctacccctgacaccaactgtgattttttta Alignment from GeneWise GGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGT-AGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG agtttgatatgtacaaactgattgccttcatgctgtgtgttctttgccagGGGCTGGAGCAGATGGGTTCATAAATTGCACTGAGGGGTATGTTATGGAAGAGGGAAAATGCGTTCAAAGTTGTAGTCGTGAGTTACTACTTGGATCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtgagtttatcaatgatactctacccctgacaccaactgtgattttttta #### Pcx_ID553_3 --> 2 - 0 Original Alignment gtGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATC-CGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggagggggtctgagcacagcctctccccaggtGAGATTGCTATCCGCGTCTTTCGTGCTTGCAGAGAACTTGGCATCCCGCACAGTAGCTGTGTATTCAGAACAGGATACAGGGCTAACACACAGGCAGAAAACAGATGAGGGTTACCTTCTTGGTCGTGGCCTTGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtgagaatcaattatctttacagggggagagaaaagtcccactcatttgt Alignment from CESAR gtGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATC-CGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggagggggtctgagcacagcctctccccaggtGAGATTGCTATCCGCGTCTTTCGTGCTTGCAGAGAACTTGGCATCCCGCACAGTAGCTGTGTATTCAGAACAGGATACAGGGCTAACACACAGGCAGAAAACAGATGAGGGTTACCTTCTTGGTCGTGGCCTTGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtgagaatcaattatctttacagggggagagaaaagtcccactcatttgt Alignment from Spaln_aa2Genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATC-CGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggagggggtctgagcacagcctctccccagGTGAGATTGCTATCCGCGTCTTTCGTGCTTGCAGAGAACTTGGCATCcCGCACAGTAGCTGTGTATTCAGAACAGGATACAGGGCTAACACACAGGCAGAAAACAGATGAGGGTTACCTTCTTGGTCGTGGCCTTGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtgagaatcaattatctttacagggggagagaaaagtcccactcatttgt Alignment from Spaln_nt2Genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCC-GCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggagggggtctgagcacagcctctccccagGTGAGATTGCTATCCGCGTCTTTCGTGCTTGCAGAGAACTTGGCATCCCGCACAGTAGCTGTGTATTCAGAACAGGATACAGGGCTAACACACAGGCAGAAAACAGATGAGGGTTACCTTCTTGGTCGTGGCCTTGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtgagaatcaattatctttacagggggagagaaaagtcccactcatttgt Alignment from Pairagon GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCC-GCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggagggggtctgagcacagcctctccccagGTGAGATTGCTATCCGCGTCTTTCGTGCTTGCAGAGAACTTGGCATCCCGCACAGTAGCTGTGTATTCAGAACAGGATACAGGGCTAACACACAGGCAGAAAACAGATGAGGGTTACCTTCTTGGTCGTGGCCTTGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtgagaatcaattatctttacagggggagagaaaagtcccactcatttgt Alignment from Exonerate_protein2genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATC-CGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggagggggtctgagcacagcctctccccagGTGAGATTGCTATCCGCGTCTTTCGTGCTTGCAGAGAACTTGGCATCCCGCACAGTAGCTGTGTATTCAGAACAGGATACAGGGCTAACACACAGGCAGAAAACAGATGAGGGTTACCTTCTTGGTCGTGGCCTTGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtgagaatcaattatctttacagggggagagaaaagtcccactcatttgt Alignment from Exonerate_coding2genome tggtggttcctatccccaggggagggggtctgagcacagcctctccccaggtgagattgctatccgcgtctttcgtgcttgcagagaacttggcatcccgcacagtagctgtgtattcagaacaggatacagggctaacacacaggcagaaaacagatgagggttaccttcttggtcgtggccttgcacctgtccaaacctatttgcacattccagacatcattagggtttcgaaggtgagaatcaattatctttacagggggagagaaaagtcccactcatttgt Alignment from GeneWise ATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGT-ATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggagggggtctgagcacagcctctccccaggtgagATTGCTATCCGCGTCTTTCGTGCTTGCAGAGAACTTGGCATCCCGCACAGTAGCTGTGTATTCAGAACAGGATACAGGGCTAACACACAGGCAGAAAACAGATGAGGGTTACCTTCTTGGTCGTGGCCTTGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtgagaatcaattatctttacagggggagagaaaagtcccactcatttgt #### Pcx_ID554_4 --> 0 - 1 Original Alignment GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGC-AAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAg attgcacatgtcagatcaatgaacacttctctgttttcttcttcaaacagGAAAATGGTGAAGATGCAGTGCATCCAGGTTATGGTTTTCTCTCTGAGCAGGCGGATTTTGCCCAGGCCTGCCAGGACACTGGAGTCCGATTCATTGGACCAAGCCCAGAGGTGATACTTCAAAACA---GACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAggtaggttaccaaacagaacattaaatttaaatcaggagtacaggtgtttt Alignment from CESAR GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAg attgcacatgtcagatcaatgaacacttctctgttttcttcttcaaacagGAAAATGGTGAAGATGCAGTGCATCCAGGTTATGGTTTTCTCTCTGAGCAGGCGGATTTTGCCCAGGCCTGCCAGGACACTGGAGTCCGATTCATTGGACCAAGCCCAGAGGTGATACTTCAA--AACAGACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAggtaggttaccaaacagaacattaaatttaaatcaggagtacaggtgtttt Alignment from Spaln_aa2Genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG attgcacatgtcagatcaatgaacacttctctgttttcttcttcaaacagGAAAATGGTGAAGATGCAGTGCATCCAGGTTATGGTTTTCTCTCTGAGCAGGCGGATTTTGCCCAGGCCTGCCAGGACACTGGAGTCCGATTCATTGGACCAAGCCCAGAGGTGATACTTCAAA--ACAGACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtaggttaccaaacagaacattaaatttaaatcaggagtacaggtgtttt Alignment from Spaln_nt2Genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG attgcacatgtcagatcaatgaacacttctctgttttcttcttcaaacagGAAAATGGTGAAGATGCAGTGCATCCAGGTTATGGTTTTCTCTCTGAGCAGGCGGATTTTGCCCAGGCCTGCCAGGACACTGGAGTCCGATTCATTGGACCAAGCCCAGAGGTGATACTTCAAA--ACAGACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtaggttaccaaacagaacattaaatttaaatcaggagtacaggtgtttt Alignment from Pairagon GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGT---------CCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG attgcacatgtcagatcaatgaacacttctctgttttcttcttcaaacagGAAAATGGTGAAGATGCAGTGCATCCAGGTTATGGTTTTCTCTCTGAGCAGGCGGATTTTGCCCAGGCCTGCCAGGACACTGGAGTCCGATTCATTGGACCAAGCCCAGAGGTGATACTTCAAAAC-----------AGACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtaggttaccaaacagaacattaaatttaaatcaggagtacaggtgtttt Alignment from Exonerate_protein2genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGC-AAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG attgcacatgtcagatcaatgaacacttctctgttttcttcttcaaacagGAAAATGGTGAAGATGCAGTGCATCCAGGTTATGGTTTTCTCTCTGAGCAGGCGGATTTTGCCCAGGCCTGCCAGGACACTGGAGTCCGATTCATTGGACCAAGCCCAGAGGTGATACTTCAAAACA---GACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtaggttaccaaacagaacattaaatttaaatcaggagtacaggtgtttt Alignment from Exonerate_coding2genome attgcacatgtcagatcaatgaacacttctctgttttcttcttcaaacaggaaaatggtgaagatgcagtgcatccaggttatggttttctctctgagcaggcggattttgcccaggcctgccaggacactggagtccgattcattggaccaagcccagaggtgatacttcaaaacagacagggtagaagcccaggctgttgccatagatgcaggtaggttaccaaacagaacattaaatttaaatcaggagtacaggtgtttt Alignment from GeneWise GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG attgcacatgtcagatcaatgaacacttctctgttttcttcttcaaacagGAAAATGGTGAAGATGCAGTGCATCCAGGTTATGGTTTTCTCTCTGAGCAGGCGGATTTTGCCCAGGCCTGCCAGGACACTGGAGTCCGATTCATTGGACCAAGCCCAGAGGTGATACTTCAAAACA--GACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtaggttaccaaacagaacattaaatttaaatcaggagtacaggtgtttt #### Pcx_ID555_5 --> 2 - 0 Original Alignment gcGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTC-AAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG aatttaaatcaggagtacaggtgttttgtttcttttcttcctgttttcaggtGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCACTAACACCTATGATCCTCCCTTTATTTTCCAATGCAGCTTAT---GATGGAGGTCATGACATGAGGGTTGTGCAGAGCTATGAGgtaactagggcagcaaagggtagggtggtcatggcagggccagtgtttat Alignment from CESAR gcGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAG-GCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG aatttaaatcaggagtacaggtgttttgtttcttttcttcctgttttcaggtGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCACTAACACCTATGATCCTCCCTTTATTTTCCAATGCAGCTTAT---GATGGAGGTCATGACATGAGGGTTGTGCAGAGCTATGAGgtaactagggcagcaaagggtagggtggtcatggcagggccagtgtttat Alignment from Spaln_aa2Genome GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAG-GCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG aatttaaatcaggagtacaggtgttttgtttcttttcttcctgttttcagGTGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCACTAACACCTATGATCCTCCCTTTATTTTCCAAtGCAGCTTAT---GATGGAGGTCATGACATGAGGGTTGTGCAGAGCTATGAGgtaactagggcagcaaagggtagggtggtcatggcagggccagtgtttat Alignment from Spaln_nt2Genome GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGG-CTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG aatttaaatcaggagtacaggtgttttgtttcttttcttcctgttttcagGTGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCACTAACACCTATGATCCTCCCTTTATTTTCCAATGCAGCTTA---TGATGGAGGTCATGACATGAGGGTTGTGCAGAGCTATGAGgtaactagggcagcaaagggtagggtggtcatggcagggccagtgtttat Alignment from Pairagon GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCT----------------------------------------------ACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG aatttaaatcaggagtacaggtgttttgtttcttttcttcctgttttcagGTGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCACTAACACCTATGATCCTCCCTTTATTTTCCAATGCAGCTTATGATGGAGGTCATGA------------------------------------------------CATGAGGGTTGTGCAGAGCTATGAGgtaactagggcagcaaagggtagggtggtcatggcagggccagtgtttat Alignment from Exonerate_protein2genome GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAG-GCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG aatttaaatcaggagtacaggtgttttgtttcttttcttcctgttttcagGTGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCACTAACACCTATGATCCTCCCTTTATTTTCCAATGCAGCTTAT---GATGGAGGTCATGACATGAGGGTTGTGCAGAGCTATGAGgtaactagggcagcaaagggtagggtggtcatggcagggccagtgtttat Alignment from Exonerate_coding2genome GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAG-GCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG aatttaaatcaggagtacaggtgttttgtttcttttcttcctgttttcagGTGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCACTAACACCTATGATCCTCCCTTTATTTTCCAATGCAGCTTAT---GATGGAGGTCATGACATGAGGGTTGTGCAGAGCTATGAGgtaactagggcagcaaagggtagggtggtcatggcagggccagtgtttat Alignment from GeneWise GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTC-AAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG aatttaaatcaggagtacaggtgttttgtttcttttcttcctgttttcagGTGCCCCGGTAGTTCCTGGAACAGAGTCCCCCATCAGCTCCCTATATGAAGCCCATGAGTTCACTAACACCTATGATCCTCCCTTTATTTTCCAATGCAGCTTATGATGGAGGT---CATGACATGAGGGTTGTGCAGAGCTATGAGgtaactagggcagcaaagggtagggtggtcatggcagggccagtgtttat #### Pcx_ID565_14 --> 1 - 0 Original Alignment gTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCT-GGCACTCACATCCTGTGCATTAAG caatttgttatagaccacaacgttgtgattttttttttttggtctttcaggTTCTGCGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACATGCTGCTTGGTATGAAATCTGCTGGCAGTGCTGGGGCAGTAGTTGAGGCTGCCATATCTTACGCTGGTGAAGTAGCTGACCCTGGTCGCACGAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAACTCGGATCTCACATTTTGTGTATTAGGgtatttaggctactaggtgtgtccccatctttacatcatggctgaggcag Alignment from CESAR gTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCT-GGCACTCACATCCTGTGCATTAAG caatttgttatagaccacaacgttgtgattttttttttttggtctttcaggTTCTGCGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACATGCTGCTTGGTATGAAATCTGCTGGCAGTGCTGGGGCAGTAGTTGAGGCTGCCATATCTTACGCTGGTGAAGTAGCTGACCCTGGTCGCACGAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAACTCGGATCTCACATTTTGTGTATTAGGgtatttaggctactaggtgtgtccccatctttacatcatggctgaggcac Alignment from Spaln_aa2Genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCT-GGCACTCACATCCTGTGCATTAAG caatttgttatagaccacaacgttgtgattttttttttttggtctttcagGTTCTGCGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACATGCTGCTTGGTATGAAATCTGCTGGCAGTGCTGGGGCAGTAGTTGAGGCTGCCATATCTTACGCTGGTGAAGTAGCTGACCCTGGTCGCACGAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAACTcGGATCTCACATTTTGTGTATTAGGgtatttaggctactaggtgtgtccccatctttacatcatggctgaggcag Alignment from Spaln_nt2Genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCA-CTCACATCCTGTGCATTAAG caatttgttatagaccacaacgttgtgattttttttttttggtctttcagGTTCTGCGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACATGCTGCTTGGTATGAAATCTGCTGGCAGTGCTGGGGCAGTAGTTGAGGCTGCCATATCTTACGCTGGTGAAGTAGCTGACCCTGGTCGCACGAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAACTCGGATCTCACATTTTGTGTATTAGGgtatttaggctactaggtgtgtccccatctttacatcatggctgaggcag Alignment from Pairagon GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCA-CTCACATCCTGTGCATTA---------------------------------------------------- caatttgttatagaccacaacgttgtgattttttttttttggtctttcagGTTCTGCGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACATGCTGCTTGGTATGAAATCTGCTGGCAGTGCTGGGGCAGTAGTTGAGGCTGCCATATCTTACGCTGGTGAAGTAGCTGACCCTGGTCGCACGAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAACTCGGATCTCACATTTTGTGTATTAGGGTATTTAGGCTACTAGGTGTGTCCCCATCTTTACATCATGGCTGAGGCAG Alignment from Exonerate_protein2genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCT-GGCACTCACATCCTGTGCATTAAG caatttgttatagaccacaacgttgtgattttttttttttggtctttcagGTTCTGCGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACATGCTGCTTGGTATGAAATCTGCTGGCAGTGCTGGGGCAGTAGTTGAGGCTGCCATATCTTACGCTGGTGAAGTAGCTGACCCTGGTCGCACGAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAACTCGGATCTCACATTTTGTGTATTAGGgtatttaggctactaggtgtgtccccatctttacatcatggctgaggcag Alignment from Exonerate_coding2genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCT-GGCACTCACATCCTGTGCATTAAG caatttgttatagaccacaacgttgtgattttttttttttggtctttcagGTTCTGCGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACATGCTGCTTGGTATGAAATCTGCTGGCAGTGCTGGGGCAGTAGTTGAGGCTGCCATATCTTACGCTGGTGAAGTAGCTGACCCTGGTCGCACGAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAACTCGGATCTCACATTTTGTGTATTAGGgtatttaggctactaggtgtgtccccatctttacatcatggctgaggcag Alignment from GeneWise GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGA-GCTGGCACTCACATCCTGTGCATTAAG caatttgttatagaccacaacgttgtgattttttttttttggtctttcagGTTCTGCGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACATGCTGCTTGGTATGAAATCTGCTGGCAGTGCTGGGGCAGTAGTTGAGGCTGCCATATCTTACGCTGGTGAAGTAGCTGACCCTGGTCGCACGAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAACTCGGATCTCACATTTTGTGTATTAGGgtatttaggctactaggtgtgtccccatctttacatcatggctgaggcag #### Pcx_ID568_17 --> 0 - 0 Original Alignment GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCT-CAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctgctgcacttgcagaagcctctcttttttcctggcctcacagGTAAAGCCATCTTCCAAGATCTTGGCTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGAACTGAAACGGAAGTTCCAAGCAGAAGAGCTCTCCTTCCCCTGCTCCGTAGTGGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGTTTCCCCAAGCCATTTCATTCTAAGgtaagataggttgatgtggagtaaatcagtctttacccaccctactgtcc Alignment from CESAR GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCT-CAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctgctgcacttgcagaagcctctcttttttcctggcctcacagGTAAAGCCATCTTCCAAGATCTTGGCTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGAACTGAAACGGAAGTTCCAAGCAGAAGAGCTCTCCTTCCCCTGCTCCGTAGTGGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGTTTCCCCAAGCCATTTCATTCTAAGgtaagataggttgatgtggagtaaatcagtctttaaagctgcggctcttc Alignment from Spaln_aa2Genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCT-CAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctgctgcacttgcagaagcctctcttttttcctggcctcacagGTAAAGCCATCTTCCAAGATCTTGGCTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGAACTGAAACGGAAGTTcCAAGCAGAAGAGCTCTCCTTCCCCTGCTCCGTAGTGGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGTTTCCCCAAGCCATTTCATTCTAAGgtaagataggttgatgtggagtaaatcagtctttacccaccctactgtcc Alignment from Spaln_nt2Genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTC-AGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctgctgcacttgcagaagcctctcttttttcctggcctcacagGTAAAGCCATCTTCCAAGATCTTGGCTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGAACTGAAACGGAAGTTCCAAGCAGAAGAGCTCTCCTTCCCCTGCTCCGTAGTGGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGTTTCCCCAAGCCATTTCATTCTAAGgtaagataggttgatgtggagtaaatcagtctttacccaccctactgtcc Alignment from Pairagon GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCT-CAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctgctgcacttgcagaagcctctcttttttcctggcctcacagGTAAAGCCATCTTCCAAGATCTTGGCTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGAACTGAAACGGAAGTTCCAAGCAGAAGAGCTCTCCTTCCCCTGCTCCGTAGTGGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGTTTCCCCAAGCCATTTCATTCTAAGgtaagataggttgatgtggagtaaatcagtctttacccaccctactgtcc Alignment from Exonerate_protein2genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCT-CAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctgctgcacttgcagaagcctctcttttttcctggcctcacagGTAAAGCCATCTTCCAAGATCTTGGCTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGAACTGAAACGGAAGTTCCAAGCAGAAGAGCTCTCCTTCCCCTGCTCCGTAGTGGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGTTTCCCCAAGCCATTTCATTCTAAGgtaagataggttgatgtggagtaaatcagtctttacccaccctactgtcc Alignment from Exonerate_coding2genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCT-CAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctgctgcacttgcagaagcctctcttttttcctggcctcacagGTAAAGCCATCTTCCAAGATCTTGGCTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGAACTGAAACGGAAGTTCCAAGCAGAAGAGCTCTCCTTCCCCTGCTCCGTAGTGGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGTTTCCCCAAGCCATTTCATTCTAAGgtaagataggttgatgtggagtaaatcagtctttacccaccctactgtcc Alignment from GeneWise GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAA-GCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctgctgcacttgcagaagcctctcttttttcctggcctcacagGTAAAGCCATCTTCCAAGATCTTGGCTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGAACTGAAACGGAAGTTCCAAGCAGAAGAGCTCTCCTTCCCCTGCTCCGTAGTGGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGTTTCCCCAAGCCATTTCATTCTAAGgtaagataggttgatgtggagtaaatcagtctttacccaccctactgtcc #### Pcx_ID570_19 --> 0 - 0 Original Alignment GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTC-AATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG GAGATGCA aaacatcatgcacccaatttagaaggggtgtcttctgttttcatgattagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCACTAGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTGTGAACTCCAATGGCCAGCTTCGATCAATTCTGGTCAAAGACACGGAGGCCATGAAGgtgagatcaagtttgatttgcatcctatctatgtgtttgcagGAAATGCA Alignment from CESAR GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTC-AATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG GAGATGCA aaacatcatgcacccaatttagaaggggtgtcttctgttttcatgattagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCACTAGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTGTGAACTCCAATGGCCAGCTTCGATCAATTCTGGTCAAAGACACGGAGGCCATGAAGgtgagatcaagtttgatttggaccaagatctctctctttcagGAAATGCA Alignment from Spaln_aa2Genome GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTC-AATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG GAGATGCAC aaacatcatgcacccaatttagaaggggtgtcttctgttttcatgattagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCACTAGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTGTGAACTCcAATGGCCAGCTTCGATCAATTCTGGTCAAAGACACGGAGGCCATGAAGgtgagatcaagtttgatttgcatcctatctatgtgtttgcagGAAATGCA Alignment from Spaln_nt2Genome GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCA-ATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG GAGATGCA aaacatcatgcacccaatttagaaggggtgtcttctgttttcatgattagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCACTAGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTGTGAACTCCAATGGCCAGCTTCGATCAATTCTGGTCAAAGACACGGAGGCCATGAAGgtgagatcaagtttgatttgcatcctatctatgtgtttgcagGAAATGCA Alignment from Pairagon GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACT-CAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG GAGATGCA aaacatcatgcacccaatttagaaggggtgtcttctgttttcatgattagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCACTAGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTGTGAACTCCAATGGCCAGCTTCGATCAATTCTGGTCAAAGACACGGAGGCCATGAAGgtgagatcaagtttgatttgcatcctatctatgtgtttgcagGAAATGCA Alignment from Exonerate_protein2genome GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTC-AATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG GAGATGCA aaacatcatgcacccaatttagaaggggtgtcttctgttttcatgattagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCACTAGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTGTGAACTCCAATGGCCAGCTTCGATCAATTCTGGTCAAAGACACGGAGGCCATGAAGgtgagatcaagtttgatttgcatcctatctatgtgtttgcagGAAATGCA Alignment from Exonerate_coding2genome GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTC-AATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG GAGATGCA aaacatcatgcacccaatttagaaggggtgtcttctgttttcatgattagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCACTAGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTGTGAACTCCAATGGCCAGCTTCGATCAATTCTGGTCAAAGACACGGAGGCCATGAAGgtgagatcaagtttgatttgcatcctatctatgtgtttgcagGAAATGCA Alignment from GeneWise GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAA-CTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG------------------------------------------GAGATGCA aaacatcatgcacccaatttagaaggggtgtcttctgttttcatgattagGTTAAGCTAGAACAAGGAAAAACACTGCACATTAAAGCACTAGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTGTGAACTCCAATGGCCAGCTTCGATCAATTCTGGTCAAAGACACGGAGGCCATGAAGGTGAGATCAAGTTTGATTTGCATCCTATCTATGTGTTTGCAGGAAATGCA #### Pdcd11_ID10111_5 --> 0 - 1 Original Alignment CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGC-TACCTAGTGGACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAg catgtcctctgttacaaacacccaaaagtctcttctgtgtctccctccagCTCCTGACAGGAACAGTTTCTAGCCTCGAAGACCATGGCCTACCTTGTGAGAATTGGAGTTGGCACAACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGCGTACACTCGACAGAAGAACAAAggtttgtcaactttaatccttgtgtttcacattaggggttcttattgctat Alignment from CESAR CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGC-TACCTAGTGGACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAg catgtcctctgttacaaacacccaaaagtctcttctgtgtctccctccagCTCCTGACAGGAACAGTTTCTAGCCTCGAAGACCATGGCCTACCTTGTGAGAATTGGAGTTGGCACAACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGCGTACACTCGACAGAAGAACAAAggtttgtcaactttaatccttgtgtttcacattaggggttcttattgctat Alignment from Spaln_aa2Genome CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGC-TACCTAGTGGACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAG catgtcctctgttacaaacacccaaaagtctcttctgtgtctccctccagCTCCTGACAGGAACAGTTTCTAGCCTCGAAGACCATGGCcTACCTTGTGAGAATTGGAGTTGGCACAACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGCGTACACTCGACAGAAGAACAAAGgtttgtcaactttaatccttgtgtttcacattaggggttcttattgctat Alignment from Spaln_nt2Genome CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGC-TACCTAGTGGACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAG catgtcctctgttacaaacacccaaaagtctcttctgtgtctccctccagCTCCTGACAGGAACAGTTTCTAGCCTCGAAGACCATGGCCTACCTTGTGAGAATTGGAGTTGGCACAACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGCGTACACTCGACAGAAGAACAAAGgtttgtcaactttaatccttgtgtttcacattaggggttcttattgctat Alignment from Pairagon CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGG-CTACCTAGTGGACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAG catgtcctctgttacaaacacccaaaagtctcttctgtgtctccctccagCTCCTGACAGGAACAGTTTCTAGCCTCGAAGACCATGGCCTACCTTGTGAGAATTGGAGTTGGCACAACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGCGTACACTCGACAGAAGAACAAAGgtttgtcaactttaatccttgtgtttcacattaggggttcttattgctat Alignment from Exonerate_protein2genome CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCATGGC-TACCTAGTGGACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAG catgtcctctgttacaaacacccaaaagtctcttctgtgtctccctccagCTCCTGACAGGAACAGTTTCTAGCCTCGAAGACCATGGCCTACCTTGTGAGAATTGGAGTTGGCACAACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGCGTACACTCGACAGAAGAACAAAGgtttgtcaactttaatccttgtgtttcacattaggggttcttattgctat Alignment from Exonerate_coding2genome catgtcctctgttacaaacacccaaaagtctcttctgtgtctccctccagctcctgacaggaacagtttctagcctcgaagaccatggcctaccttgtgagaattggagttggcacaactagagcctttctattactgaagaaggcacaagcgtacactcgacagaagaacaaaggtttgtcaactttaatccttgtgtttcacattaggggttcttattgctat Alignment from GeneWise CTGCTGACAGGCACAGTGTCAAGCCTGGAAGACCAT-GGCTACCTAGTGGACATTGGCGTTGGTGGGACCAGAGCTTTTCTGTCACTTAAGAAGGCACAAGAGTACATCCGGCAGAAGAACAAAG catgtcctctgttacaaacacccaaaagtctcttctgtgtctccctccagCTCCTGACAGGAACAGTTTCTAGCCTCGAAGACCATGGCCTACCTTGTGAGAATTGGAGTTGGCACAACTAGAGCCTTTCTATTACTGAAGAAGGCACAAGCGTACACTCGACAGAAGAACAAAGgtttgtcaactttaatccttgtgtttcacattaggggttcttattgctat #### Pdcd11_ID10115_9 --> 0 - 2 Original Alignment GTCAGCCATCTCTCTGATTCTAAGAAA-GCATTCAACGCTGAGGCCTTCAAACCGGGGAGCACTCACAAGTGTAGAATCATTGACTACAGCCAGATGGATGAGCTGGCCTTGCTCTCTCTGCGGaa tcaaatgaacaaaagaacagctctactccattttgtttgtaacttggcagGTAAGCCATCTCTCTGATTCTAAAAAACGCGTTCAATGCCGAGGCCCTGAAACCAGGGAGCACTCATGAGTGTAGGATCATTGACTTTAGCCAGATGGATGAGCTGGCCCTGCTCTCACTGCGGaagtgggtactatctaccacacatgtgcatgtgctagttgcagtgtctttaa Alignment from CESAR GTCAGCCATCTCTCTGATTCTAAGAAA-GCATTCAACGCTGAGGCCTTCAAACCGGGGAGCACTCACAAGTGTAGAATCATTGACTACAGCCAGATGGATGAGCTGGCCTTGCTCTCTCTGCGGaa tcaaatgaacaaaagaacagctctactccattttgtttgtaacttggcagGTAAGCCATCTCTCTGATTCTAAAAAACGCGTTCAATGCCGAGGCCCTGAAACCAGGGAGCACTCATGAGTGTAGGATCATTGACTTTAGCCAGATGGATGAGCTGGCCCTGCTCTCACTGCGGaagtgggtactatctaccacacatgtgcatgtgctagttgcagtgtctttaa Alignment from Spaln_aa2Genome GTCAGCCATCTCTCTGATTCTAAGAAA-GCATTCAACGCTGAGGCCTTCAAACCGGGGAGCACTCACAAGTGTAGAATCATTGACTACAGCCAGATGGATGAGCTGGCCTTGCTCTCTCTGCGGAA tcaaatgaacaaaagaacagctctactccattttgtttgtaacttggcagGTAAGCCATCTCTCTGATTCTAAAAAAcGCGTTCAATGCCGAGGCCCTGAAACCAGGGAGCACTCATGAGTGTAGGATCATTGACTTTAGCCAGATGGATGAGCTGGCCCTGCTCTCACTGCGGAAgtgggtactatctaccacacatgtgcatgtgctagttgcagtgtctttaa Alignment from Spaln_nt2Genome GTCAGCCATCTCTCTGATTCT-AAGAAAGCATTCAACGCTGAGGCCTTCAAACCGGGGAGCACTCACAAGTGTAGAATCATTGACTACAGCCAGATGGATGAGCTGGCCTTGCTCTCTCTGCGGAA tcaaatgaacaaaagaacagctctactccattttgtttgtaacttggcagGTAAGCCATCTCTCTGATTCTAAAAAACGCGTTCAATGCCGAGGCCCTGAAACCAGGGAGCACTCATGAGTGTAGGATCATTGACTTTAGCCAGATGGATGAGCTGGCCCTGCTCTCACTGCGGAAgtgggtactatctaccacacatgtgcatgtgctagttgcagtgtctttaa Alignment from Pairagon GTCAGCCATCTCTCTGATTCTAAGAAA-GCATTCAACGCTGAGGCCTTCAAACCGGGGAGCACTCACAAGTGTAGAATCATTGACTACAGCCAGATGGATGAGCTGGCCTTGCTCTCTCTGCGGAA tcaaatgaacaaaagaacagctctactccattttgtttgtaacttggcagGTAAGCCATCTCTCTGATTCTAAAAAACGCGTTCAATGCCGAGGCCCTGAAACCAGGGAGCACTCATGAGTGTAGGATCATTGACTTTAGCCAGATGGATGAGCTGGCCCTGCTCTCACTGCGGAAgtgggtactatctaccacacatgtgcatgtgctagttgcagtgtctttaa Alignment from Exonerate_protein2genome GTCAGCCATCTCTCTGATTCTAAGAAA-GCATTCAACGCTGAGGCCTTCAAACCGGGGAGCACTCACAAGTGTAGAATCATTGACTACAGCCAGATGGATGAGCTGGCCTTGCTCTCTCTGCGGAA tcaaatgaacaaaagaacagctctactccattttgtttgtaacttggcagGTAAGCCATCTCTCTGATTCTAAAAAACGCGTTCAATGCCGAGGCCCTGAAACCAGGGAGCACTCATGAGTGTAGGATCATTGACTTTAGCCAGATGGATGAGCTGGCCCTGCTCTCACTGCGGAAgtgggtactatctaccacacatgtgcatgtgctagttgcagtgtctttaa Alignment from Exonerate_coding2genome tcaaatgaacaaaagaacagctctactccattttgtttgtaacttggcaggtaagccatctctctgattctaaaaaacgcgttcaatgccgaggccctgaaaccagggagcactcatgagtgtaggatcattgactttagccagatggatgagctggccctgctctcactgcggaagtgggtactatctaccacacatgtgcatgtgctagttgcagtgtctttaa Alignment from GeneWise GTCAGCCATCTCTCTGATTCTAAGAAA-GCATTCAACGCTGAGGCCTTCAAACCGGGGAGCACTCACAAGTGTAGAATCATTGACTACAGCCAGATGGATGAGCTGGCCTTGCTCTCTCTGCGGAA tcaaatgaacaaaagaacagctctactccattttgtttgtaacttggcagGTAAGCCATCTCTCTGATTCTAAAAAACGCGTTCAATGCCGAGGCCCTGAAACCAGGGAGCACTCATGAGTGTAGGATCATTGACTTTAGCCAGATGGATGAGCTGGCCCTGCTCTCACTGCGGAAgtgggtactatctaccacacatgtgcatgtgctagttgcagtgtctttaa #### Pdcd11_ID10116_10 --> 1 - 0 Original Alignment aTCAATTATTGCAGCTCCATTCCTT-AGATATCATGACATCAAAATAGGGACAGTAGTAAAG tgttgggcctacatcaagaccactgtagtcttttattttctatttcctagaTCAATTATCGCAGCTCCATTTCTTCAGATATCATGACATCAAAATTGGAACAGTAGTAAAGgtatgtattcaattttcttttcagaaacagatttgcagttagtcttcatg Alignment from CESAR aTCAATTATTGCAGCTCCATTCCTT-AGATATCATGACATCAAAATAGGGACAGTAGTAAAG tgttgggcctacatcaagaccactgtagtcttttattttctatttcctagaTCAATTATCGCAGCTCCATTTCTTCAGATATCATGACATCAAAATTGGAACAGTAGTAAAGgtatgtattcaattttcttttcagaaacagatttgcagttagtcttcatg Alignment from Spaln_aa2Genome ATCAATTATTGCAGCTCCATTCCTT-AGATATCATGACATCAAAATAGGGACAGTAGTAAAG tgttgggcctacatcaagaccactgtagtcttttattttctatttcctagATCAATTATCGCAGCTCCATTTCTTcAGATATCATGACATCAAAATTGGAACAGTAGTAAAGgtatgtattcaattttcttttcagaaacagatttgcagttagtcttcatg Alignment from Spaln_nt2Genome ATCAATTATTGCAGCTCCATTCCTT-AGATATCATGACATCAAAATAGGGACAGTAGTAAAG tgttgggcctacatcaagaccactgtagtcttttattttctatttcctagATCAATTATCGCAGCTCCATTTCTTCAGATATCATGACATCAAAATTGGAACAGTAGTAAAGgtatgtattcaattttcttttcagaaacagatttgcagttagtcttcatg Alignment from Pairagon ATCAATTATTGCAGCTCCATTCCTT-AGATATCATGACATCAAAATAGGGACAGTAGTAAAG tgttgggcctacatcaagaccactgtagtcttttattttctatttcctagATCAATTATCGCAGCTCCATTTCTTCAGATATCATGACATCAAAATTGGAACAGTAGTAAAGgtatgtattcaattttcttttcagaaacagatttgcagttagtcttcatg Alignment from Exonerate_protein2genome ATCAATTATTGCAGCTCCATTCCTT-AGATATCATGACATCAAAATAGGGACAGTAGTAAAG tgttgggcctacatcaagaccactgtagtcttttattttctatttcctagATCAATTATCGCAGCTCCATTTCTTCAGATATCATGACATCAAAATTGGAACAGTAGTAAAGgtatgtattcaattttcttttcagaaacagatttgcagttagtcttcatg Alignment from Exonerate_coding2genome tgttgggcctacatcaagaccactgtagtcttttattttctatttcctagatcaattatcgcagctccatttcttcagatatcatgacatcaaaattggaacagtagtaaaggtatgtattcaattttcttttcagaaacagatttgcagttagtcttcatg Alignment from GeneWise ATCAATTATTGCAGCTCCATTC-CTTAGATATCATGACATCAAAATAGGGACAGTAGTAAAG tgttgggcctacatcaagaccactgtagtcttttattttctatttcctagATCAATTATCGCAGCTCCATTTCTTCAGATATCATGACATCAAAATTGGAACAGTAGTAAAGgtatgtattcaattttcttttcagaaacagatttgcagttagtcttcatg #### Pdcd11_ID10119_13 --> 0 - 0 Original Alignment GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAA-ACAGGAGCTGTGCGCATCGGGCAG cacaaattgctttaaggaccagtgagtgatgtaacttcctgtgttaccagGTGGTAAAGGTGGCTGTGTTGAGCTGTGAACCTTCAAAGGAGAAAATGCCCCTCTCCTTTAAATTGTTAGGTGACTCTCAGCCCAAAGATCCTGGTGTTGAGACCAGTCAGAAAAAGCACAGAAGGTGTGCACATTGGCCAGgtgaagcccctatgattttggcagatggtaatatcatcacagcgtgtgag Alignment from CESAR GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAA-ACAGGAGCTGTGCGCATCGGGCAG cacaaattgctttaaggaccagtgagtgatgtaacttcctgtgttaccagGTGGTAAAGGTGGCTGTGTTGAGCTGTGAACCTTCAAAGGAGAAAATGCCCCTCTCCTTTAAATTGTTAGGTGACTCTCAGCCCAAAGATCCTGGTGTTGAGACCAGTCAGAAAAAGCACAGAAGGTGTGCACATTGGCCAGgtgaagcccctatgattttggcagatggtaatatcatcacagcgtgtgag Alignment from Spaln_aa2Genome GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAA-ACAGGAGCTGTGCGCATCGGGCAG cacaaattgctttaaggaccagtgagtgatgtaacttcctgtgttaccagGTGGTAAAGGTGGCTGTGTTGAGCTGTGAACCTTCAAAGGAGAAAATGCCCCTCTCCTTTAAATTGTTAGGTGACTCTCAGCCCAAAGATCCTGGTGTTGAGACCAGTCAGAAAAAGcACAGAAGGTGTGCACATTGGCCAGgtgaagcccctatgattttggcagatggtaatatcatcacagcgtgtgag Alignment from Spaln_nt2Genome ACCCAGAGACGGTCTT---TTACACTGG--CCAGGTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAA-ACAGGAGCTGTGCGCATCGGGCAG cacaaattgctttaagGACCAGTGAGTGATGTAACTTCCTGTGTTACCAGGTGGTAAAGGTGGCTGTGTTGAGCTGTGAACCTTCAAAGGAGAAAATGCCCCTCTCCTTTAAATTGTTAGGTGACTCTCAGCCCAAAGATCCTGGTGTTGAGACCAGTCAGAAAAAGCACAGAAGGTGTGCACATTGGCCAGgtgaagcccctatgattttggcagatggtaatatcatcacagcgtgtgag Alignment from Pairagon GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAA-ACAGGAGCTGTGCGCATCGGGCAG cacaaattgctttaaggaccagtgagtgatgtaacttcctgtgttaccagGTGGTAAAGGTGGCTGTGTTGAGCTGTGAACCTTCAAAGGAGAAAATGCCCCTCTCCTTTAAATTGTTAGGTGACTCTCAGCCCAAAGATCCTGGTGTTGAGACCAGTCAGAAAAAGCACAGAAGGTGTGCACATTGGCCAGgtgaagcccctatgattttggcagatggtaatatcatcacagcgtgtgag Alignment from Exonerate_protein2genome CCCAG---CACATCCCGGACCCAGAG---ACGGTCTTTTACACTGGCCAGGTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAA-ACAGGAGCTGTGCGCATCGGGCAG CACAAATTGCTTTAAGGACCAGTGAGTGATGTAACTTCCTGTGTTACCAGGTGGTAAAGGTGGCTGTGTTGAGCTGTGAACCTTCAAAGGAGAAAATGCCCCTCTCCTTTAAATTGTTAGGTGACTCTCAGCCCAAAGATCCTGGTGTTGAGACCAGTCAGAAAAAGCACAGAAGGTGTGCACATTGGCCAGgtgaagcccctatgattttggcagatggtaatatcatcacagcgtgtgag Alignment from Exonerate_coding2genome TTTTACACTGGCCAGGTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAA-ACAGGAGCTGTGCGCATCGGGCAG cacaaattgctttaaggaccagtgagtgatgtaacTTCCTGTGTTACCAGGTGGTAAAGGTGGCTGTGTTGAGCTGTGAACCTTCAAAGGAGAAAATGCCCCTCTCCTTTAAATTGTTAGGTGACTCTCAGCCCAAAGATCCTGGTGTTGAGACCAGTCAGAAAAAGCACAGAAGGTGTGCACATTGGCCAGgtgaagcccctatgattttggcagatggtaatatcatcacagcgtgtgag Alignment from GeneWise GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCT- cacaaattgctttaaggaccagtgagtgatgtaacttcctgtgttaccagGTGGTAAAGGTGGCTGTGTTGAGCTGTGAACCTTCAAAGGAGAAAATGCCCCTCTCCTTTAAATTGTTAGGTGACTCTCAGCCCAAAGATCCTGGTGTTGAGACCAGTCAGAAAAAGCACAGAAGGTgtgcacattggccaggtgaagcccctatgattttggcagatggtaatatcatcacagcgtgtgag #### Pdcd11_ID10120_14 --> 0 - 0 Original Alignment TTGGTGGATGTGAAGGTCCTG-GAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT gaggaacataactggttttgacatgaaacaaccccttacctttattccagGTTGTGGATGTGAAGGTCCTACCACAAAACCAAAACTGGGCTAGAGGTGGCCATTCTACCTCATAAT------GAATTCCTACCTACACCCCACTTGTCTGACCATGCTACCAATGGCCCACTACTACACCACTGGCTTCAAGCAGGTGATACTCTTCACCAC---CTTTGCTTAAGCCAGTGTGAAAGGCATATTgtacctacacatactctgtttgtgtgtggtgattagaccagcaatgggtg Alignment from CESAR TTGGTGGATGTGAAGGTCCTG-GAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT gaggaacataactggttttgacatgaaacaaccccttacctttattccagGTTGTGGATGTGAAGGTCCTACCACAAAACCAAAACTGGGCTAGAGGTGGCCATTCTACCTCATAAT------GAATTCCTACCTACACCCCACTTGTCTGACCATGCTACCAATGGCCCACTACTACACCACTGGCTTCAAGCAGGTGATACTCTTCACCAC---CTTTGCTTAAGCCAGTGTGAAAGGCATATTgtacctacacatactctgtttgtgtgtggtgattagaccagcaatgggtg Alignment from Spaln_aa2Genome TTGGTGGATGTGAAGGTCCTG-GAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT gaggaacataactggttttgacatgaaacaaccccttacctttattccagGTTGTGGATGTGAAGGTCCTAcCACAAAACCAAAACTGGGCTAGAGGTGGCCATTCTACCTCATAAT------GAATTCCTACCTACACCCCACTTGTCTGACCATGCTACCAATGGCCCACTACTACACCACTGGCTTCAAGCAGGTGATACTCTTCACCAC---CTTTGCTTAAGCCAGTGTGAAAGGCATATTgtacctacacatactctgtttgtgtgtggtgattagaccagcaatgggtg Alignment from Spaln_nt2Genome TTGGTGGATGTGAAGGTCCTGG-AGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT gaggaacataactggttttgacatgaaacaaccccttacctttattccagGTTGTGGATGTGAAGGTCCTACCACAAAACCAAAACTGGGCTAGAGGTGGCCATTCTACCTCATAA------TGAATTCCTACCTACACCCCACTTGTCTGACCATGCTACCAATGGCCCACTACTACACCACTGGCTTCAAGCAGGTGATACTCTTCACC---ACCTTTGCTTAAGCCAGTGTGAAAGGCATATTgtacctacacatactctgtttgtgtgtggtgattagaccagcaatgggtg Alignment from Pairagon TTGGTGGATGTGAAGGTCCTG-GAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT gaggaacataactggttttgacatgaaacaaccccttacctttattccagGTTGTGGATGTGAAGGTCCTACCACAAAACCAAAACTGGGCTAGAGGTGGCCATTCTACCTCATAA------TGAATTCCTACCTACACCCCACTTGTCTGACCATGCTACCAATGGCCCACTACTACACCACTGGCTTCAAGCAGGTGATACTCTTCACCA---CCTTTGCTTAAGCCAGTGTGAAAGGCATATTgtacctacacatactctgtttgtgtgtggtgattagaccagcaatgggtg Alignment from Exonerate_protein2genome TTGGTGGATGTGAAGGTCCTG-GAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT gaggaacataactggttttgacatgaaacaaccccttacctttattccagGTTGTGGATGTGAAGGTCCTACCACAAAACCAAAACTGGGCTAGAGGTGGCCATTCTACCTCATAAT------GAATTCCTACCTACACCCCACTTGTCTGACCATGCTACCAATGGCCCACTACTACACCACTGGCTTCAAGCAGGTGATACTCTTCACCAC---CTTTGCTTAAGCCAGTGTGAAAGGCATATTgtacctacacatactctgtttgtgtgtggtgattagaccagcaatgggtg Alignment from Exonerate_coding2genome TTGGTGGATGTGAAGGTCCTG-GAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT gaggaacataactggttttgacatgaaacaaccccttacctttattccagGTTGTGGATGTGAAGGTCCTACCACAAAACCAAAACTGGGCTAGAGGTGGCCATTCTACCTCATAAT------GAATTCCTACCTACACCCCACTTGTCTGACCATGCTACCAATGGCCCACTACTACACCACTGGCTTCAAGCAGGTGATACTCTTCACCAC---CTTTGCTTAAGCCAGTGTGAAAGGCATATTgtacctacacatactctgtttgtgtgtggtgattagaccagcaatgggtg Alignment from GeneWise TTGGTGGATGTGAAGGTCCTG-GAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT gaggaacataactggttttgacatgaaacaaccccttacctttattccagGTTGTGGATGTGAAGGTCCTACCACAAAACCAAAACTGGGCTAGAGGTGGCCATTCTACCTCATAATGAA------TTCCTACCTACACCCCACTTGTCTGACCATGCTACCAATGGCCCACTACTACACCACTGGCTTCAAGCAGGTGATACTCTTCACCAC---CTTTGCTTAAGCCAGTGTGAAAGGCATATTgtacctacacatactctgtttgtgtgtggtgattagaccagcaatgggtg #### Pdcd11_ID10126_20 --> 1 - 2 Original Alignment gTTTCTCCCAATAAGT-CACCCCAGATTTGTTCTGACCATCCTGGAGCTGAGTGTTCGGCCAag tgtatgtgggtatacactatctagtaattcttacccttgtttctccttagaTTTCTTCCAATTAGCCCACCCCAGATTTGTACTGACCATACTGGAGTTAAGTGTTCGTCCAaggtgagagtctactcttgaggataagttgacagctgggatcaactctggct Alignment from CESAR gTTTCTCCCAATAAGT-CACCCCAGATTTGTTCTGACCATCCTGGAGCTGAGTGTTCGGCCAag tgtatgtgggtatacactatctagtaattcttacccttgtttctccttagaTTTCTTCCAATTAGCCCACCCCAGATTTGTACTGACCATACTGGAGTTAAGTGTTCGTCCAaggtgagagtctactcttgaggataagttgacagctgggatcaactctggct Alignment from Spaln_aa2Genome GTTTCTCCCAATAAGT-CACCCCAGATTTGTTCTGACCATCCTGGAGCTGAGTGTTCGGCCAAG tgtatgtgggtatacactatctagtaattcttacccttgtttctccttagATTTCTTCCAATTAGCcCACCCCAGATTTGTACTGACCATACTGGAGTTAAGTGTTCGTCCAAGgtgagagtctactcttgaggataagttgacagctgggatcaactctggct Alignment from Spaln_nt2Genome GTTTCTCCCAATAAGTC-ACCCCAGATTTGTTCTGACCATCCTGGAGCTGAGTGTTCGGCCAAG tgtatgtgggtatacactatctagtaattcttacccttgtttctccttagATTTCTTCCAATTAGCCCACCCCAGATTTGTACTGACCATACTGGAGTTAAGTGTTCGTCCAAGgtgagagtctactcttgaggataagttgacagctgggatcaactctggct Alignment from Pairagon GTTTCTCCCAATAAG-TCACCCCAGATTTGTTCTGACCATCCTGGAGCTGAGTGTTCGGCCAAG tgtatgtgggtatacactatctagtaattcttacccttgtttctccttagATTTCTTCCAATTAGCCCACCCCAGATTTGTACTGACCATACTGGAGTTAAGTGTTCGTCCAAGgtgagagtctactcttgaggataagttgacagctgggatcaactctggct Alignment from Exonerate_protein2genome GTTTCTCCCAATAAGT-CACCCCAGATTTGTTCTGACCATCCTGGAGCTGAGTGTTCGGCCAAG tgtatgtgggtatacactatctagtaattcttacccttgtttctccttagATTTCTTCCAATTAGCCCACCCCAGATTTGTACTGACCATACTGGAGTTAAGTGTTCGTCCAAGgtgagagtctactcttgaggataagttgacagctgggatcaactctggct Alignment from Exonerate_coding2genome GTTTCTCCCAATAAGT-CACCCCAGATTTGTTCTGACCATCCTGGAGCTGAGTGTTCGGCCAAG tgtatgtgggtatacactatctagtaattcttacccttgtttctccttagATTTCTTCCAATTAGCCCACCCCAGATTTGTACTGACCATACTGGAGTTAAGTGTTCGTCCAAGgtgagagtctactcttgaggataagttgacagctgggatcaactctggct Alignment from GeneWise -------------------------AAGTTTCTCCCAATAAGTCACCCCAGATTTGTTCTGACCATCCTGGAGCTGAGTGTTCGGCCAAG tgtatgtgggtatacactatctagTAATTCTTACCCTTGTTTCTCCTTAGATTTCTTCCAATTAGCCCACCCCAGATTTGTACTGACCATACTGGAGTTAAGTGTTCGTCCAAGgtgagagtctactcttgaggataagttgacagctgggatcaactctggct #### Pdcd11_ID10129_23 --> 0 - 1 Original Alignment GTTCTGAAACACCCAGAC-AAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAg aaccccaagctcactaacatatcgttgtctccattttgtttgttcaatagGTTCTCAAACATCCAGACCAGAAAGTTCCAAGTAGGGCAGGCCATTGAGGCTACAGTTGTTGACCCAGAAGTCCCTAGGGCTTCACTTTGTCTGTCACTGACAggtgagcacttagttgggttatgaaatgggatggcagtgaaggatcttttt Alignment from CESAR GTTCTGAAACACCCAGACAAG-AAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAg aaccccaagctcactaacatatcgttgtctccattttgtttgttcaatagGTTCTCAAACATCCAGACCAGAAAGTTCCAAGTAGGGCAGGCCATTGAGGCTACAGTTGTTGACCCAGAAGTCCCTAGGGCTTCACTTTGTCTGTCACTGACAggtgagcacttagttgggttatgaaatgggatggcagtgaaggatcttttt Alignment from Spaln_aa2Genome GTTCTGAAACACCCAGAC-AAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAG aaccccaagctcactaacatatcgttgtctccattttgtttgttcaatagGTTCTCAAACATCCAGACcAGAAAGTTCCAAGTAGGGCAGGCCATTGAGGCTACAGTTGTTGACCCAGAAGTCCCTAGGGCTTCACTTTGTCTGTCACTGACAGgtgagcacttagttgggttatgaaatgggatggcagtgaaggatcttttt Alignment from Spaln_nt2Genome GTTCTGAAACACCCAGACAAGAA-GTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAG aaccccaagctcactaacatatcgttgtctccattttgtttgttcaatagGTTCTCAAACATCCAGACCAGAAAGTTCCAAGTAGGGCAGGCCATTGAGGCTACAGTTGTTGACCCAGAAGTCCCTAGGGCTTCACTTTGTCTGTCACTGACAGgtgagcacttagttgggttatgaaatgggatggcagtgaaggatcttttt Alignment from Pairagon GTTCTGAAACACCCAGACAAG-AAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAG aaccccaagctcactaacatatcgttgtctccattttgtttgttcaatagGTTCTCAAACATCCAGACCAGAAAGTTCCAAGTAGGGCAGGCCATTGAGGCTACAGTTGTTGACCCAGAAGTCCCTAGGGCTTCACTTTGTCTGTCACTGACAGgtgagcacttagttgggttatgaaatgggatggcagtgaaggatcttttt Alignment from Exonerate_protein2genome GTTCTGAAACACCCAGAC-AAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAG aaccccaagctcactaacatatcgttgtctccattttgtttgttcaatagGTTCTCAAACATCCAGACCAGAAAGTTCCAAGTAGGGCAGGCCATTGAGGCTACAGTTGTTGACCCAGAAGTCCCTAGGGCTTCACTTTGTCTGTCACTGACAGgtgagcacttagttgggttatgaaatgggatggcagtgaaggatcttttt Alignment from Exonerate_coding2genome GTTCTGAAACACCCAGAC-AAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAG aaccccaagctcactaacatatcgttgtctccattttgtttgttcaatagGTTCTCAAACATCCAGACCAGAAAGTTCCAAGTAGGGCAGGCCATTGAGGCTACAGTTGTTGACCCAGAAGTCCCTAGGGCTTCACTTTGTCTGTCACTGACAGgtgagcacttagttgggttatgaaatgggatggcagtgaaggatcttttt Alignment from GeneWise GTTCTGAAACACCCAGAC-AAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAG aaccccaagctcactaacatatcgttgtctccattttgtttgttcaatagGTTCTCAAACATCCAGACCAGAAAGTTCCAAGTAGGGCAGGCCATTGAGGCTACAGTTGTTGACCCAGAAGTCCCTAGGGCTTCACTTTGTCTGTCACTGACAGgtgagcacttagttgggttatgaaatgggatggcagtgaaggatcttttt #### Pdcd11_ID10137_31 --> 0 - 2 Original Alignment AAGAAGAAGGGCAAGAAGGAGAGGGAG-CTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCag gcttttctgaataggtgccattatccaacaatggctgtccctttctacagAAAAAGAAGGGCAAAAAAGAAAGGGCACCTGGAGAAGCAAAAATTGAAGAAAGAGCTGTCGCGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGACGTATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACAACAGAGATTGAGCGGGCCCGGGCTGTCGCTGAGAGGGCTTTGAAGACCATCGCATTCcggtaggaggtccaggccttctgcagtccaaaaggatgaggacttctcagct Alignment from CESAR AAGAAGAAGGGCAAGAAGGAGAGGGAG-CTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCag gcttttctgaataggtgccattatccaacaatggctgtccctttctacagAAAAAGAAGGGCAAAAAAGAAAGGGCACCTGGAGAAGCAAAAATTGAAGAAAGAGCTGTCGCGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGACGTATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACAACAGAGATTGAGCGGGCCCGGGCTGTCGCTGAGAGGGCTTTGAAGACCATCGCATTCcggtaggaggtccaggccttctgcagtccaaaaggatgaggacttctcagct Alignment from Spaln_aa2Genome AAGAAGAAGGGCAAGAAGGAGAGG-GAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCAG gcttttctgaataggtgccattatccaacaatggctgtccctttctacagAAAAAGAAGGGCAAAAAAGAAAGGgCACCTGGAGAAGCAAAAATTGAAGAAAGAGCTGTCGCGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGACGTATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACAACAGAGATTGAGCGGGCCCGGGCTGTCGCTGAGAGGGCTTTGAAGACCATCGCATTCCGgtaggaggtccaggccttctgcagtccaaaaggatgaggacttctcagct Alignment from Spaln_nt2Genome AAGAAGAAGGGCAAGAAGGAGAGGG-AGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCAG gcttttctgaataggtgccattatccaacaatggctgtccctttctacagAAAAAGAAGGGCAAAAAAGAAAGGGCACCTGGAGAAGCAAAAATTGAAGAAAGAGCTGTCGCGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGACGTATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACAACAGAGATTGAGCGGGCCCGGGCTGTCGCTGAGAGGGCTTTGAAGACCATCGCATTCCGgtaggaggtccaggccttctgcagtccaaaaggatgaggacttctcagct Alignment from Pairagon AAGAAGAAGGGCAAGAAGGAGAGGG-AGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCAG gcttttctgaataggtgccattatccaacaatggctgtccctttctacagAAAAAGAAGGGCAAAAAAGAAAGGGCACCTGGAGAAGCAAAAATTGAAGAAAGAGCTGTCGCGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGACGTATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACAACAGAGATTGAGCGGGCCCGGGCTGTCGCTGAGAGGGCTTTGAAGACCATCGCATTCCGgtaggaggtccaggccttctgcagtccaaaaggatgaggacttctcagct Alignment from Exonerate_protein2genome AAGAAGAAGGGCAAGAAGGAGAGG-GAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCAG gcttttctgaataggtgccattatccaacaatggctgtccctttctacagAAAAAGAAGGGCAAAAAAGAAAGGGCACCTGGAGAAGCAAAAATTGAAGAAAGAGCTGTCGCGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGACGTATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACAACAGAGATTGAGCGGGCCCGGGCTGTCGCTGAGAGGGCTTTGAAGACCATCGCATTCCGgtaggaggtccaggccttctgcagtccaaaaggatgaggacttctcagct Alignment from Exonerate_coding2genome AAGAAGAAGGGCAAGAAGGAGAGG-GAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCAG gcttttctgaataggtgccattatccaacaatggctgtccctttctacagAAAAAGAAGGGCAAAAAAGAAAGGGCACCTGGAGAAGCAAAAATTGAAGAAAGAGCTGTCGCGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGACGTATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACAACAGAGATTGAGCGGGCCCGGGCTGTCGCTGAGAGGGCTTTGAAGACCATCGCATTCCGgtaggaggtccaggccttctgcagtccaaaaggatgaggacttctcagct Alignment from GeneWise AAGAAGAAGGGCAAGAAGGAGAGG-GAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCAG gcttttctgaataggtgccattatccaacaatggctgtccctttctacagAAAAAGAAGGGCAAAAAAGAAAGGGCACCTGGAGAAGCAAAAATTGAAGAAAGAGCTGTCGCGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGACGTATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACAACAGAGATTGAGCGGGCCCGGGCTGTCGCTGAGAGGGCTTTGAAGACCATCGCATTCCGgtaggaggtccaggccttctgcagtccaaaaggatgaggacttctcagct #### Pdcd11_ID10138_32 --> 1 - 0 Original Alignment aGAGGAGCAGGAGAAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAG-GTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgagtggctccaatgtaggtagatcactgtgggcttctctctacaggGAGGAACAAGAGAAGCTAAATATATGGGTAGCCCTGTTAAATCTGGAAAACATGTACGGCTCCCAGGCATCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGCGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtcagttgttggccacacatcaatgcagtttatcctgcacccttcccttg Alignment from CESAR aGAGGAGCAGGAGAAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAG-GTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgagtggctccaatgtaggtagatcactgtgggcttctctctacaggGAGGAACAAGAGAAGCTAAATATATGGGTAGCCCTGTTAAATCTGGAAAACATGTACGGCTCCCAGGCATCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGCGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtcagttgttggccacacatcaatgcagtttatcctgcacccttcccttg Alignment from Spaln_aa2Genome AGAGGAGCAGGAGAAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAG-GTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgagtggctccaatgtaggtagatcactgtgggcttctctctacagGGAGGAACAAGAGAAGCTAAATATATGGGTAGCCCTGTTAAATCTGGAAAACATGTACGGCTCCCAGGCATCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGcGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtcagttgttggccacacatcaatgcagtttatcctgcacccttcccttg Alignment from Spaln_nt2Genome AGAGGAGCAGGAGAAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAG-GTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgagtggctccaatgtaggtagatcactgtgggcttctctctacagGGAGGAACAAGAGAAGCTAAATATATGGGTAGCCCTGTTAAATCTGGAAAACATGTACGGCTCCCAGGCATCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGCGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtcagttgttggccacacatcaatgcagtttatcctgcacccttcccttg Alignment from Pairagon AGAGGAGCAGGAGAAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAG-GTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgagtggctccaatgtaggtagatcactgtgggcttctctctacagGGAGGAACAAGAGAAGCTAAATATATGGGTAGCCCTGTTAAATCTGGAAAACATGTACGGCTCCCAGGCATCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGCGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtcagttgttggccacacatcaatgcagtttatcctgcacccttcccttg Alignment from Exonerate_protein2genome AGAGGAGCAGGAGAAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAG-GTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgagtggctccaatgtaggtagatcactgtgggcttctctctacagGGAGGAACAAGAGAAGCTAAATATATGGGTAGCCCTGTTAAATCTGGAAAACATGTACGGCTCCCAGGCATCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGCGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtcagttgttggccacacatcaatgcagtttatcctgcacccttcccttg Alignment from Exonerate_coding2genome AGAGGAGCAGGAGAAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAG-GTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgagtggctccaatgtaggtagatcactgtgggcttctctctacagGGAGGAACAAGAGAAGCTAAATATATGGGTAGCCCTGTTAAATCTGGAAAACATGTACGGCTCCCAGGCATCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGCGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtcagttgttggccacacatcaatgcagtttatcctgcacccttcccttg Alignment from GeneWise AGAGGAGCAGGAGAAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAG-CCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgagtggctccaatgtaggtagatcactgtgggcttctctctacagGGAGGAACAAGAGAAGCTAAATATATGGGTAGCCCTGTTAAATCTGGAAAACATGTACGGCTCCCAGGCATCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGCGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtcagttgttggccacacatcaatgcagtttatcctgcacccttcccttg #### Pga5_ID2970_8 --> 0 - 0 Original Alignment TGGTGACGGCGAG TACTTCCTCAAGTGTGACACCATC-AAC------ACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG TGGTGATGGTCAGgtatgtgactctagcgatttggcctttcctcacacagTATTTTCTAAAGTGTGAT---GTCCAACTTCAACTGCTTGCCAGATACTGTA---------------TTCACATGCCTAGTACCAGCTAGTACCTACATTCGAAAGgtacaataggcaggagtcattaactaacttatattgcttaggttttaatg Alignment from CESAR TGGTGACGGCGAG TACTTCCTCAAGTGTGAC----ACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG TGGTGATGGTCAGgttagtgactctagcgatttggcctttcctcacacagTATTTTCTAAAGTGTGATGTCCAACTTCAACTGCTTGCCAGATACTGTATTC---------------ACATGCCTAGTACCAGCTAGTACCTACATTCGAAAGgtacaataggcaggagtcattaactaacttatattgcttaggttttaatg Alignment from Spaln_aa2Genome TGGTGACGGCGAG TACTTCCTCAAGTGTGAC----ACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG TGGTGATGGTCAGgtatgtgactctagcgatttggcctttcctcacacagTATTTTCTAAAGTGTGATGTCcAACTTCAACTGCTTGCCAGATACTGTATTC---------------ACATGCCTAGTACCAGCTAGTACCTACATTCGAAAGgtacaataggcaggagtcattaactaacttatattgcttaggttttaatg Alignment from Spaln_nt2Genome TGGTGACGGCGAG TACTTCCTCAAGTGTGA----CACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG TGGTGATGGTCAGgtatgtgactctagcgatttggcctttcctcacacagTATTTTCTAAAGTGTGATGTCCAACTTCAACTGCTTGCCAGATACTGTATTC---------------ACATGCCTAGTACCAGCTAGTACCTACATTCGAAAGgtacaataggcaggagtcattaactaacttatattgcttaggttttaatg Alignment from Pairagon TGGTGACGGCGAG TACTTCCTCAAGTGTGA----CACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG TGGTGATGGTCAGgtatgtgactctagcgatttggcctttcctcacacagTATTTTCTAAAGTGTGATGTCCAACTTCAACTGCTTGCCAGATACTGTATTC---------------ACATGCCTAGTACCAGCTAGTACCTACATTCGAAAGgtacaataggcaggagtcattaactaacttatattgcttaggttttaatg Alignment from Exonerate_protein2genome TGGTGACGGCGAG TACTTCCTCAAGTGTGAC----ACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG TGGTGATGGTCAGgtatgtgactctagcgatttggcctttcctcacacagTATTTTCTAAAGTGTGATGTCCAACTTCAACTGCTTGCCAGATACTGTATTC---------------ACATGCCTAGTACCAGCTAGTACCTACATTCGAAAGgtacaataggcaggagtcattaactaacttatattgcttaggttttaatg Alignment from Exonerate_coding2genome TGGTGACGGCGAG TACTTCCTCAAGTGTGACACCATCAACACCCTGCCTGATATTGTCTTCACCA TGGTGATGGTCAGgtatgtgactctagcgatttggcctttcctcacacagtattttctaaagtgtgatgtccaacttcaactgcttgccagatactgtattcacatgcctagtaccagctagtacctacattcgaaAGGTACAATAGGCAGGAGTCATTAACTAACTTATATTGCTTAGGTTTTAATG Alignment from GeneWise CGAGTACTTCCTCAAGTGTGACACCATCAAC---ACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTT TCAGGTA---------TGTGACTCTAGCGATTTGGCCTTTCCTCACACAGTATTT---------TCTAAAgtgtgatgtccaacttcaactgcttgccagatactgtattcacatgcctagtaccagctagtacctacattcgaaaggtacaataggcaggagtcattaactaacttatattgcttaggttttaatg #### Pga5_ID2971_7 --> 1 - 0 Original Alignment cATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACAGGGACC-TCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG TACTTCCTCAAGT acccagactgaagagtgtgttttagcctaacaatcttctatctctattagcAATGCCATGAATGGGGGGGCCATTGCATTGGATGGTAGCTGTCAAGGCATTATGGATACAGGGGCTCTCTTTGCTAACCAGGCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgttagtgactctagcttgacatctgtctgtcttgcagTATTTTCTAAAGT Alignment from CESAR cATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACAGGGACC-TCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG TACTTCCTCAAGT acccagactgaagagtgtgttttagcctaacaatcttctatctctattagcAATGCCATGAATGGGGGGGCCATTGCATTGGATGGTAGCTGTCAAGGCATTATGGATACAGGGGCTCTCTTTGCTAACCAGGCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgttagtgactctagcgatttggcctttcctcacacagTATTTTCTAAAGT Alignment from Spaln_aa2Genome CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACAGGGACC-TCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG TACTTCCTCAAGT acccagactgaagagtgtgttttagcctaacaatcttctatctctattagCAATGCCATGAATGGGGGGGCCATTGCATTGGATGGTAGCTGTCAAGGCATTATGGATACAGGGGCTcTCTTTGCTAACCAGGCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgttagtgactctagcttgacatctgtctgtcttgcagTATTTTCTAAAGT Alignment from Spaln_nt2Genome CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACAGGGAC-CTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG TACTTCCTCAAGT acccagactgaagagtgtgttttagcctaacaatcttctatctctattagCAATGCCATGAATGGGGGGGCCATTGCATTGGATGGTAGCTGTCAAGGCATTATGGATACAGGGGCTCTCTTTGCTAACCAGGCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgttagtgactctagcttgacatctgtctgtcttgcagTATTTTCTAAAGT Alignment from Pairagon CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACAGGGAC-CTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG TACTTCCTCAAGT acccagactgaagagtgtgttttagcctaacaatcttctatctctattagCAATGCCATGAATGGGGGGGCCATTGCATTGGATGGTAGCTGTCAAGGCATTATGGATACAGGGGCTCTCTTTGCTAACCAGGCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgttagtgactctagcttgacatctgtctgtcttgcagTATTTTCTAAAGT Alignment from Exonerate_protein2genome CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACAGGGACC-TCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG TACTTCCTCAAGT acccagactgaagagtgtgttttagcctaacaatcttctatctctattagCAATGCCATGAATGGGGGGGCCATTGCATTGGATGGTAGCTGTCAAGGCATTATGGATACAGGGGCTCTCTTTGCTAACCAGGCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgttagtgactctagcttgacatctgtctgtcttgcagTATTTTCTAAAGT Alignment from Exonerate_coding2genome CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACAGGGACC-TCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG acccagactgaagagtgtgttttagcctaacaatcttctatctctattagCAATGCCATGAATGGGGGGGCCATTGCATTGGATGGTAGCTGTCAAGGCATTATGGATACAGGGGCTCTCTTTGCTAACCAGGCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgttagtgactctagcttgacatctgtctgtcttgcagtattttctaaagt Alignment from GeneWise CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACAGGG-ACCTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG TACTTCCTCAAGT acccagactgaagagtgtgttttagcctaacaatcttctatctctattagCAATGCCATGAATGGGGGGGCCATTGCATTGGATGGTAGCTGTCAAGGCATTATGGATACAGGGGCTCTCTTTGCTAACCAGGCCTCAAAGCACCATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgttagtgactctagcttgacatctgtctgtcttgcagTATTTTCTAAAGT #### Pik3ap1_ID8164_5 --> 2 - 0 Original Alignment acCTCTCCTCGGGGAATGTTTCTCTGAAGGTC-TATTCTGGGGACCTGGTGGTCTGCGAAACCACCGTCAGCTATTATACCGACATGGAGGAAATTGGGAACTTACTGTCGAGTGCTGCAAATCCTGTGGAGTTTATGTGTCAG agtcatacctcataccctttcatagggcaacttttgtttctgtctcttagacCTTTCCTCAGGGAATGTCTCTCTAAAGCTACTATTCAGGGGATCTAGTGGTCTGTGAAACAACTGTCAGTTACTATACTGATATGGAAGAAATCGGGAACTTGCTTTCGAGCCCTGCCAATCCAGTGGAATTAATGTGTCAGgtaagagcagaccaaaatcaatccaacccaacaccaacatcagcaatggt Alignment from CESAR acCTCTCCTCGGGGAATGTTTCTCTGAAGGTC-TATTCTGGGGACCTGGTGGTCTGCGAAACCACCGTCAGCTATTATACCGACATGGAGGAAATTGGGAACTTACTGTCGAGTGCTGCAAATCCTGTGGAGTTTATGTGTCAG agtcatacctcataccctttcatagggcaacttttgtttctgtctcttagacCTTTCCTCAGGGAATGTCTCTCTAAAGCTACTATTCAGGGGATCTAGTGGTCTGTGAAACAACTGTCAGTTACTATACTGATATGGAAGAAATCGGGAACTTGCTTTCGAGCCCTGCCAATCCAGTGGAATTAATGTGTCAGgtaagagcagaccaaaatcaatccaacccaacaccaacatcagcaatttt Alignment from Spaln_aa2Genome ACCTCTCCTCGGGGAATGTTTCTCTGAAGGTC-TATTCTGGGGACCTGGTGGTCTGCGAAACCACCGTCAGCTATTATACCGACATGGAGGAAATTGGGAACTTACTGTCGAGTGCTGCAAATCCTGTGGAGTTTATGTGTCAG agtcatacctcataccctttcatagggcaacttttgtttctgtctcttagACCTTTCCTCAGGGAATGTCTCTCTAAAGCTAcTATTCAGGGGATCTAGTGGTCTGTGAAACAACTGTCAGTTACTATACTGATATGGAAGAAATCGGGAACTTGCTTTCGAGCCCTGCCAATCCAGTGGAATTAATGTGTCAGgtaagagcagaccaaaatcaatccaacccaacaccaacatcagcaatggt Alignment from Spaln_nt2Genome ACCTCTCCTCGGGGAATGTTTCTCTGAAGGT-CTATTCTGGGGACCTGGTGGTCTGCGAAACCACCGTCAGCTATTATACCGACATGGAGGAAATTGGGAACTTACTGTCGAGTGCTGCAAATCCTGTGGAGTTTATGTGTCAG agtcatacctcataccctttcatagggcaacttttgtttctgtctcttagACCTTTCCTCAGGGAATGTCTCTCTAAAGCTACTATTCAGGGGATCTAGTGGTCTGTGAAACAACTGTCAGTTACTATACTGATATGGAAGAAATCGGGAACTTGCTTTCGAGCCCTGCCAATCCAGTGGAATTAATGTGTCAGgtaagagcagaccaaaatcaatccaacccaacaccaacatcagcaatggt Alignment from Pairagon ACCTCTCCTCGGGGAATGTTTCTCTGAAGGT-CTATTCTGGGGACCTGGTGGTCTGCGAAACCACCGTCAGCTATTATACCGACATGGAGGAAATTGGGAACTTACTGTCGAGTGCTGCAAATCCTGTGGAGTTTATGTGTCAG agtcatacctcataccctttcatagggcaacttttgtttctgtctcttagACCTTTCCTCAGGGAATGTCTCTCTAAAGCTACTATTCAGGGGATCTAGTGGTCTGTGAAACAACTGTCAGTTACTATACTGATATGGAAGAAATCGGGAACTTGCTTTCGAGCCCTGCCAATCCAGTGGAATTAATGTGTCAGgtaagagcagaccaaaatcaatccaacccaacaccaacatcagcaatggt Alignment from Exonerate_protein2genome ACCTCTCCTCGGGGAATGTTTCTCTGAAGGTC-TATTCTGGGGACCTGGTGGTCTGCGAAACCACCGTCAGCTATTATACCGACATGGAGGAAATTGGGAACTTACTGTCGAGTGCTGCAAATCCTGTGGAGTTTATGTGTCAG agtcatacctcataccctttcatagggcaacttttgtttctgtctcttagACCTTTCCTCAGGGAATGTCTCTCTAAAGCTACTATTCAGGGGATCTAGTGGTCTGTGAAACAACTGTCAGTTACTATACTGATATGGAAGAAATCGGGAACTTGCTTTCGAGCCCTGCCAATCCAGTGGAATTAATGTGTCAGgtaagagcagaccaaaatcaatccaacccaacaccaacatcagcaatggt Alignment from Exonerate_coding2genome TCGAGTGCTGCAAATCCT agtcatacctcataccctttcatagggcaacttttgtttctgtctcttagacctttcctcagggaatgtctctctaaagctactattcaggggatctagtggtctgtgaaacaactgtcagttactatactgatatggaagaaatcgggaacttgctttcgagccctgccaatccagtggaattaatgtgtcaggtaagagcagaccaaaatcaatccaacccaacACCAACATCAGCAATGGT Alignment from GeneWise ACCTCTCCTCGGGGAATGTTTCTCTGAAG-GTCTATTCTGGGGACCTGGTGGTCTGCGAAACCACCGTCAGCTATTATACCGACATGGAGGAAATTGGGAACTTACTGTCGAGTGCTGCAAATCCTGTGGAGTTTATGTGTCAG agtcatacctcataccctttcatagggcaacttttgtttctgtctcttagACCTTTCCTCAGGGAATGTCTCTCTAAAGCTACTATTCAGGGGATCTAGTGGTCTGTGAAACAACTGTCAGTTACTATACTGATATGGAAGAAATCGGGAACTTGCTTTCGAGCCCTGCCAATCCAGTGGAATTAATGTGTCAGgtaagagcagaccaaaatcaatccaacccaacaccaacatcagcaatggt #### Pitpnm1_ID312_9 --> 0 - 2 Original Alignment GGCCTAGATGGAGCGGGGGAT-CTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCaa atcaggtggggtcaacatatgctcttcttgattttttttttttttcctagGGACTGGATGGGGCAGGGGACCCTAATTGTCGAGGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGTCCTGGTGACACCAATTCTAAGCAAGCTGATGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACACGTAGCACTACGGTTGATACCCTGTCCGTCC---TGTGAAGCAGCTTATGCACTTGTCTCCaagtgagagcggagaggaatagtaaatacacataaataaagtaagtaatgat Alignment from CESAR GGCCTAGATGGAGCGGGGGAT-CTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCaa atcaggtggggtcaacatatgctcttcttgattttttttttttttcctagGGACTGGATGGGGCAGGGGACCCTAATTGTCGAGGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGTCCTGGTGACACCAATTCTAAGCAAGCTGATGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACACGTAGCACTACGGTTGATACCCTGTCCGTCC---TGTGAAGCAGCTTATGCACTTGTCTCCaagtgagagcggagaggaatagtaaatacacataaataaagtaagtaatgat Alignment from Spaln_aa2Genome GGCCTAGATGGAGCGGGGGAT-CTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA atcaggtggggtcaacatatgctcttcttgattttttttttttttcctagGGACTGGATGGGGCAGGGGACcCTAATTGTCGAGGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGTCCTGGTGACACCAATTCTAAGCAAGCTGATGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACACGTAGCACTACGGTTGATACCCTGTCCGTCC---TGTGAAGCAGCTTATGCACTTGTCTCCAAgtgagagcggagaggaatagtaaatacacataaataaagtaagtaatgat Alignment from Spaln_nt2Genome GGCCTAGATGGAGCGGGGGATC-TAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA atcaggtggggtcaacatatgctcttcttgattttttttttttttcctagGGACTGGATGGGGCAGGGGACCCTAATTGTCGAGGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGTCCTGGTGACACCAATTCTAAGCAAGCTGATGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACACGTAGCACTACGGTTGATACCCTGTCCGTCC---TGTGAAGCAGCTTATGCACTTGTCTCCAAgtgagagcggagaggaatagtaaatacacataaataaagtaagtaatgat Alignment from Pairagon GGCCTAGATGGAGCGGGGGA-TCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA atcaggtggggtcaacatatgctcttcttgattttttttttttttcctagGGACTGGATGGGGCAGGGGACCCTAATTGTCGAGGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGTCCTGGTGACACCAATTCTAAGCAAGCTGATGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACACGTAGCACTACGGTTGATACCCTGTCCGTCC---TGTGAAGCAGCTTATGCACTTGTCTCCAAgtgagagcggagaggaatagtaaatacacataaataaagtaagtaatgat Alignment from Exonerate_protein2genome GGCCTAGATGGAGCGGGGGAT-CTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA atcaggtggggtcaacatatgctcttcttgattttttttttttttcctagGGACTGGATGGGGCAGGGGACCCTAATTGTCGAGGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGTCCTGGTGACACCAATTCTAAGCAAGCTGATGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACACGTAGCACTACGGTTGATACCCTGTCCGTCC---TGTGAAGCAGCTTATGCACTTGTCTCCAAgtgagagcggagaggaatagtaaatacacataaataaagtaagtaatgat Alignment from Exonerate_coding2genome GGCCTAGATGGAGCGGGGGAT-CTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA atcaggtggggtcaacatatgctcttcttgattttttttttttttcctagGGACTGGATGGGGCAGGGGACCCTAATTGTCGAGGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGTCCTGGTGACACCAATTCTAAGCAAGCTGATGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACACGTAGCACTACGGTTGATACCCTGTCCGTCC---TGTGAAGCAGCTTATGCACTTGTCTCCAAgtgagagcggagaggaatagtaaatacacataaataaagtaagtaatgat Alignment from GeneWise GGCCTAGATGGAGCGGGGGAT-CTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA atcaggtggggtcaacatatgctcttcttgattttttttttttttcctagGGACTGGATGGGGCAGGGGACCCTAATTGTCGAGGCATGCTCTGTGCATGATCTTTTCCTCATACTGCACAGTGGTAGCATTCCAGACCCTGGTCCTGGTGACACCAATTCTAAGCAAGCTGATGTCCAAACTCTGAGCACTGCTTTTGAGGCTGTCTTTCGAGTTCATTCTCCCAAGGCCCTTGGACACGTAGCACTACGGTTGATACCCTGTCCGTCC---TGTGAAGCAGCTTATGCACTTGTCTCCAAgtgagagcggagaggaatagtaaatacacataaataaagtaagtaatgat #### Pitpnm1_ID313_10 --> 1 - 0 Original Alignment cCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGC-TCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttatgtcttaattgtccattactgcccgccctgcccatgtgcccagcCTAAGTCCTTATAGCCATGATGGAGATTGTCTATCCCGAACCCCAGACCACATTCCATTGGCTTGCCTCCCTCTTCTGACCATCTTATCCTCTCAATACCAGGGGGCAGTGACCACAGTTATTGCTCACACCAACCAAGCCTTTGCAGCTTTTCTGCGTCTCGTCAGAGGGATCTGGTTTCTGTGGACAAgtgagggtaactgtatttgcatgggttaatcaaaaacctatgatgctgcc Alignment from CESAR cCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGC-TCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttatgtcttaattgtccattactgcccgccctgcccatgtgcccagcCTAAGTCCTTATAGCCATGATGGAGATTGTCTATCCCGAACCCCAGACCACATTCCATTGGCTTGCCTCCCTCTTCTGACCATCTTATCCTCTCAATACCAGGGGGCAGTGACCACAGTTATTGCTCACACCAACCAAGCCTTTGCAGCTTTTCTGCGTCTCGTCAGAGGGATCTGGTTTCTGTGGACAAgtgagggtaactgtatttgcatgggttaatcaaaaacctatgatgctgcc Alignment from Spaln_aa2Genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGC-TCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttatgtcttaattgtccattactgcccgccctgcccatgtgcccagCCTAAGTCCTTATAGCCATGATGGAGATTGTCTATCCCGAACCCCAGACCACATTCCATTGGCTTGCCTCCCTCTTCTGACCATCTTATCCTCTCAATACCAGGGGGCAGTGACCACAGTTATTGCTCACACCAACCAAGCCTTTGCAGCTTTTCTGCGTcTCGTCAGAGGGATCTGGTTTCTGTGGACAAgtgagggtaactgtatttgcatgggttaatcaaaaacctatgatgctgcc Alignment from Spaln_nt2Genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCG-CTCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttatgtcttaattgtccattactgcccgccctgcccatgtgcccagCCTAAGTCCTTATAGCCATGATGGAGATTGTCTATCCCGAACCCCAGACCACATTCCATTGGCTTGCCTCCCTCTTCTGACCATCTTATCCTCTCAATACCAGGGGGCAGTGACCACAGTTATTGCTCACACCAACCAAGCCTTTGCAGCTTTTCTGCGTCTCGTCAGAGGGATCTGGTTTCTGTGGACAAgtgagggtaactgtatttgcatgggttaatcaaaaacctatgatgctgcc Alignment from Pairagon CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCG-CTCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttatgtcttaattgtccattactgcccgccctgcccatgtgcccagCCTAAGTCCTTATAGCCATGATGGAGATTGTCTATCCCGAACCCCAGACCACATTCCATTGGCTTGCCTCCCTCTTCTGACCATCTTATCCTCTCAATACCAGGGGGCAGTGACCACAGTTATTGCTCACACCAACCAAGCCTTTGCAGCTTTTCTGCGTCTCGTCAGAGGGATCTGGTTTCTGTGGACAAgtgagggtaactgtatttgcatgggttaatcaaaaacctatgatgctgcc Alignment from Exonerate_protein2genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGC-TCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttatgtcttaattgtccattactgcccgccctgcccatgtgcccagCCTAAGTCCTTATAGCCATGATGGAGATTGTCTATCCCGAACCCCAGACCACATTCCATTGGCTTGCCTCCCTCTTCTGACCATCTTATCCTCTCAATACCAGGGGGCAGTGACCACAGTTATTGCTCACACCAACCAAGCCTTTGCAGCTTTTCTGCGTCTCGTCAGAGGGATCTGGTTTCTGTGGACAAgtgagggtaactgtatttgcatgggttaatcaaaaacctatgatgctgcc Alignment from Exonerate_coding2genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGC-TCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttatgtcttaattgtccattactgcccgccctgcccatgtgcccagCCTAAGTCCTTATAGCCATGATGGAGATTGTCTATCCCGAACCCCAGACCACATTCCATTGGCTTGCCTCCCTCTTCTGACCATCTTATCCTCTCAATACCAGGGGGCAGTGACCACAGTTATTGCTCACACCAACCAAGCCTTTGCAGCTTTTCTGCGTCTCGTCAGAGGGATCTGGTTTCTGTGGACAAgtgagggtaactgtatttgcatgggttaatcaaaaacctatgatgctgcc Alignment from GeneWise CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGC-TCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttatgtcttaattgtccattactgcccgccctgcccatgtgcccagCCTAAGTCCTTATAGCCATGATGGAGATTGTCTATCCCGAACCCCAGACCACATTCCATTGGCTTGCCTCCCTCTTCTGACCATCTTATCCTCTCAATACCAGGGGGCAGTGACCACAGTTATTGCTCACACCAACCAAGCCTTTGCAGCTTTTCTGCGTCTCGTCAGAGGGATCTGGTTTCTGTGGACAAgtgagggtaactgtatttgcatgggttaatcaaaaacctatgatgctgcc #### Pitpnm1_ID322_19 --> 0 - 2 Original Alignment TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTAC-CCTGTGCGCATGGTGGTCag TGTAGTTACACTCACCAGAGAAGAGgtaaggttttgccttatatttgcagGTTGAGGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTTTCATCAGAGCATGCACTGGGCATTGGTGTCTACCCCTTTGCACATGGTGGTCaggtgagcacagaaagttagctactaatttcattcctgttaaatactaactt Alignment from CESAR TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTAC-CCTGTGCGCATGGTGGTCag TGTAGTTACACTCACCAGAGAAGAGgtccccttttgccttatatttgcagGTTGAGGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTTTCATCAGAGCATGCACTGGGCATTGGTGTCTACCCCTTTGCACATGGTGGTCaggtgagcacagaaagttagctactaatttcattcctgttaaatactaactt Alignment from Spaln_aa2Genome TGTGGTCACGCTCACTGGAGAGAAG-------------------------GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCT-GTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGGTAAGGTTTTGCCTTATATTTGCAgGTTGAGGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTTTCATCAGAGCATGCACTGGGCATTGGTGTCTACCCCtTTGCACATGGTGGTCAGgtgagcacagaaagttagctactaatttcattcctgttaaatactaactt Alignment from Spaln_nt2Genome CACGCTCACTGGAGAGAAGGTGGAT-------------------------------GTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCC-TGTGCGCATGGTGGTCAG TACACTCAC--CAGAGAA----GAGGTAAGGTTTTGCCTTATATTTGCAGGTTGAGGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTTTCATCAGAGCATGCACTGGGCATTGGTGTCTACCCCTTTGCACATGGTGGTCAGgtgagcacagaaagttagctactaatttcattcctgttaaatactaactt Alignment from Pairagon TGTGGTCACGCTCACTGGAGA-------------------------GAAGGTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTA-CCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGGTAAGGTTTTGCCTTATATTTGCAGGTTGAGGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTTTCATCAGAGCATGCACTGGGCATTGGTGTCTACCCCTTTGCACATGGTGGTCAGgtgagcacagaaagttagctactaatttcattcctgttaaatactaactt Alignment from Exonerate_protein2genome TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTAC-CCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGgtaaggttttgccttatatttgcaggttgag------GTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTTTCATCAGAGCATGCACTGGGCATTGGTGTCTACCCCTTTGCACATGGTGGTCAGgtgagcacagaaagttagctactaatttcattcctgttaaatactaactt Alignment from Exonerate_coding2genome tgtagttacactcaccagagaagaggtaaggttttgccttatatttgcaggttgaggtctatgtcatgacacagcccctgtcaggcaagtggattcattttggcacagaggtcacaaacagttctggccatcttaccttcccagtttcatcagagcatgcactgggcattggtgtctacccctttgcacatggtggtcaggtgagcacagaaagttagctactaatttcattcctgttaaatactaactt Alignment from GeneWise TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATG- TGTAGTTACACTCACCAGAGAAGAGgtaaggttttgccttatatttgcagGTTGAGGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACAAACAGTTCTGGCCATCTTACCTTCCCAGTTTCATCAGAGCATGCACTGGGCATTGGTGTCTACCCCTTTGCACATGgtggtcaggtgagcacagaaagttagctactaatttcattcctgttaaatactaactt #### Pitpnm1_ID323_20 --> 1 - 2 Original Alignment gGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCT-GTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCag cattcctgttaaatactaacttagactgacaaggctcttatcctccacaggGGCGACCACACATATGCTGAATGTTGCTTAACCATTGTCTCCAGAGGTGCTGAAGCACGTGGTTTTCAGCATTGATGGTTCTTTTACTGCGAGTGTCTCAATCATGGGTAGTGACCCCAAGGTGCGAGCTGGGGCCGTAGATGTGGTGaggtacggccagacttctgtgccatgtgatgatcttctgtctgtggggaggt Alignment from CESAR gGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCT-GTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCag cattcctgttaaatactaacttagactgacaaggctcttatcctccacaggGGCGACCACACATATGCTGAATGTTGCTTAACCATTGTCTCCAGAGGTGCTGAAGCACGTGGTTTTCAGCATTGATGGTTCTTTTACTGCGAGTGTCTCAATCATGGGTAGTGACCCCAAGGTGCGAGCTGGGGCCGTAGATGTGGTGaggtacggccagacttctgtgccatgtgatgatcttctgtctgtggggaggt Alignment from Spaln_aa2Genome GGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCT-GTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG cattcctgttaaatactaacttagactgacaaggctcttatcctccacagGGGCGACCACACATATGCTGAATGTTGCTTAACCATTGTCTCCAGAGGTGCTGAAGCAcGTGGTTTTCAGCATTGATGGTTCTTTTACTGCGAGTGTCTCAATCATGGGTAGTGACCCCAAGGTGCGAGCTGGGGCCGTAGATGTGGTGAGgtacggccagacttctgtgccatgtgatgatcttctgtctgtggggaggt Alignment from Spaln_nt2Genome GGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCT-GTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG cattcctgttaaatactaacttagactgacaaggctcttatcctccacagGGGCGACCACACATATGCTGAATGTTGCTTAACCATTGTCTCCAGAGGTGCTGAAGCACGTGGTTTTCAGCATTGATGGTTCTTTTACTGCGAGTGTCTCAATCATGGGTAGTGACCCCAAGGTGCGAGCTGGGGCCGTAGATGTGGTGAGgtacggccagacttctgtgccatgtgatgatcttctgtctgtggggaggt Alignment from Pairagon GGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGC-TGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG cattcctgttaaatactaacttagactgacaaggctcttatcctccacagGGGCGACCACACATATGCTGAATGTTGCTTAACCATTGTCTCCAGAGGTGCTGAAGCACGTGGTTTTCAGCATTGATGGTTCTTTTACTGCGAGTGTCTCAATCATGGGTAGTGACCCCAAGGTGCGAGCTGGGGCCGTAGATGTGGTGAGgtacggccagacttctgtgccatgtgatgatcttctgtctgtggggaggt Alignment from Exonerate_protein2genome GGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCT-GTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG cattcctgttaaatactaacttagactgacaaggctcttatcctccacagGGGCGACCACACATATGCTGAATGTTGCTTAACCATTGTCTCCAGAGGTGCTGAAGCACGTGGTTTTCAGCATTGATGGTTCTTTTACTGCGAGTGTCTCAATCATGGGTAGTGACCCCAAGGTGCGAGCTGGGGCCGTAGATGTGGTGAGgtacggccagacttctgtgccatgtgatgatcttctgtctgtggggaggt Alignment from Exonerate_coding2genome cattcctgttaaatactaacttagactgacaaggctcttatcctccacaggggcgaccacacatatgctgaatgttgcttaaccattgtctccagaggtgctgaagcacgtggttttcagcattgatggttcttttactgcgagtgtctcaatcatgggtagtgaccccaaggtgcgagctggggccgtagatgtggtgaggtacggccagacttctgtgccatgtgatgatcttctgtctgtggggaggt Alignment from GeneWise GGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAA-GCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG cattcctgttaaatactaacttagactgacaaggctcttatcctccacagGGGCGACCACACATATGCTGAATGTTGCTTAACCATTGTCTCCAGAGGTGCTGAAGCACGTGGTTTTCAGCATTGATGGTTCTTTTACTGCGAGTGTCTCAATCATGGGTAGTGACCCCAAGGTGCGAGCTGGGGCCGTAGATGTGGTGAGgtacggccagacttctgtgccatgtgatgatcttctgtctgtggggaggt #### Pkd2l1_ID8954_14 --> 1 - 0 Original Alignment gCTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCC-CAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG tgtaatggtgactgaatgtcagagtctacgtgtcattctcacccctgcaggCTTACAAGGAGGGTATTGCAGCTACAATGTGTATTAGGGGGAGTTGTCTCCCCAGATTGATGCCATTGACTCTAAGCTAAAAATGCTGGAAAGAAAGGGGGAGTTGGCTCCTTACCCTGGTATGgtgggcactgtctgggggcatgcagagggagacctactggcagtcatggc Alignment from CESAR gCTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCC-CAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG tgtaatggtgactgaatgtcagagtctacgtgtcattctcacccctgcaggCTTACAAGGAGGGTATTGCAGCTACAATGTGTATTAGGGGGAGTTGTCTCCCCAGATTGATGCCATTGACTCTAAGCTAAAAATGCTGGAAAGAAAGGGGGAGTTGGCTCCTTACCCTGGTATGgtgggcactgtctgggggcatgcagagggagacctactggcagtcatggc Alignment from Spaln_aa2Genome GCTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCC-CAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG tgtaatggtgactgaatgtcagagtctacgtgtcattctcacccctgcagGCTTACAAGGAGGGTATTGCAGCTACAATGTGTATTAGGGGGAGTTGTCTCCcCAGATTGATGCCATTGACTCTAAGCTAAAAATGCTGGAAAGAAAGGGGGAGTTGGCTCCTTACCCTGGTATGgtgggcactgtctgggggcatgcagagggagacctactggcagtcatggc Alignment from Spaln_nt2Genome GCTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCC-AGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG tgtaatggtgactgaatgtcagagtctacgtgtcattctcacccctgcagGCTTACAAGGAGGGTATTGCAGCTACAATGTGTATTAGGGGGAGTTGTCTCCCCAGATTGATGCCATTGACTCTAAGCTAAAAATGCTGGAAAGAAAGGGGGAGTTGGCTCCTTACCCTGGTATGgtgggcactgtctgggggcatgcagagggagacctactggcagtcatggc Alignment from Pairagon GCTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGT-CCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG tgtaatggtgactgaatgtcagagtctacgtgtcattctcacccctgcagGCTTACAAGGAGGGTATTGCAGCTACAATGTGTATTAGGGGGAGTTGTCTCCCCAGATTGATGCCATTGACTCTAAGCTAAAAATGCTGGAAAGAAAGGGGGAGTTGGCTCCTTACCCTGGTATGgtgggcactgtctgggggcatgcagagggagacctactggcagtcatggc Alignment from Exonerate_protein2genome GCTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCC-CAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG tgtaatggtgactgaatgtcagagtctacgtgtcattctcacccctgcagGCTTACAAGGAGGGTATTGCAGCTACAATGTGTATTAGGGGGAGTTGTCTCCCCAGATTGATGCCATTGACTCTAAGCTAAAAATGCTGGAAAGAAAGGGGGAGTTGGCTCCTTACCCTGGTATGgtgggcactgtctgggggcatgcagagggagacctactggcagtcatggc Alignment from Exonerate_coding2genome GCTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCC-CAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG tgtaatggtgactgaatgtcagagtctacgtgtcattctcacccctgcagGCTTACAAGGAGGGTATTGCAGCTACAATGTGTATTAGGGGGAGTTGTCTCCCCAGATTGATGCCATTGACTCTAAGCTAAAAATGCTGGAAAGAAAGGGGGAGTTGGCTCCTTACCCTGGTATGgtgggcactgtctgggggcatgcagagggagacctactggcagtcatggc Alignment from GeneWise GCTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTG-TCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG tgtaatggtgactgaatgtcagagtctacgtgtcattctcacccctgcagGCTTACAAGGAGGGTATTGCAGCTACAATGTGTATTAGGGGGAGTTGTCTCCCCAGATTGATGCCATTGACTCTAAGCTAAAAATGCTGGAAAGAAAGGGGGAGTTGGCTCCTTACCCTGGTATGgtgggcactgtctgggggcatgcagagggagacctactggcagtcatggc #### Pkd2l1_ID8959_9 --> 1 - 0 Original Alignment tTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTC-TTCGTCTTCTTCGTGCTCCTG atgagagacttgtacacacagagtgctccattatttcccccatcccacagtTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTTGGCCCTGTGTACTTTGTTACCTATGTCTTCCTTCGTTTTTTTTGTGCTTCTGgtgagcagaataacttaaagaccaatgggctatatttctgttggatatat Alignment from CESAR tTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTC-TTCGTCTTCTTCGTGCTCCTG atgagagacttgtacacacagagtgctccattatttcccccatcccacagtTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTTGGCCCTGTGTACTTTGTTACCTATGTCTTCCTTCGTTTTTTTTGTGCTTCTGgtgagcagaataacttaaagaccaatgggctatatttctgttggatatat Alignment from Spaln_aa2Genome TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTC-TTCGTCTTCTTCGTGCTCCTG atgagagacttgtacacacagagtgctccattatttcccccatcccacagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTTGGCCCTGTGTACTTTGTTACCTATGTCTTCcTTCGTTTTTTTTGTGCTTCTGgtgagcagaataacttaaagaccaatgggctatatttctgttggatatat Alignment from Spaln_nt2Genome TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTC-TTCGTCTTCTTCGTGCTCCTG atgagagacttgtacacacagagtgctccattatttcccccatcccacagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTTGGCCCTGTGTACTTTGTTACCTATGTCTTCCTTCGTTTTTTTTGTGCTTCTGgtgagcagaataacttaaagaccaatgggctatatttctgttggatatat Alignment from Pairagon TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTT-CTTCGTCTTCTTCGTGCTCCTG atgagagacttgtacacacagagtgctccattatttcccccatcccacagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTTGGCCCTGTGTACTTTGTTACCTATGTCTTCCTTCGTTTTTTTTGTGCTTCTGgtgagcagaataacttaaagaccaatgggctatatttctgttggatatat Alignment from Exonerate_protein2genome TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTC-TTCGTCTTCTTCGTGCTCCTG atgagagacttgtacacacagagtgctccattatttcccccatcccacagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTTGGCCCTGTGTACTTTGTTACCTATGTCTTCCTTCGTTTTTTTTGTGCTTCTGgtgagcagaataacttaaagaccaatgggctatatttctgttggatatat Alignment from Exonerate_coding2genome TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTC-TTCGTCTTCTTCGTGCTCCTG atgagagacttgtacacacagagtgctccattatttcccccatcccacagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTTGGCCCTGTGTACTTTGTTACCTATGTCTTCCTTCGTTTTTTTTGTGCTTCTGgtgagcagaataacttaaagaccaatgggctatatttctgttggatatat Alignment from GeneWise TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTC-TTCGTCTTCTTCGTGCTCCTG atgagagacttgtacacacagagtgctccattatttcccccatcccacagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTTGGCCCTGTGTACTTTGTTACCTATGTCTTCCTTCGTTTTTTTTGTGCTTCTGgtgagcagaataacttaaagaccaatgggctatatttctgttggatatat #### Pkd2l1_ID8960_8 --> 0 - 2 Original Alignment ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATC-CTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCat cttgaacccattagccttgtcgctccaactttctgattcttgtcttgtagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCatgtgagcacaaccattgtagacccttgggttttgagatcccagaatgttta Alignment from CESAR ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATC-CTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCat cttgaacccattagccttgtcgctccaactttctgattcttgtcttgtagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCatgtgagcacaaccattgtagacccttgggttttgagatcccagaatgttta Alignment from Spaln_aa2Genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGC-TTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT cttgaacccattagccttgtcgctccaactttctgattcttgtcttgtagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCCTGGGcTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCATgtgagcacaaccattgtagacccttgggttttgagatcccagaatgttta Alignment from Spaln_nt2Genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACAT-CCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT cttgaacccattagccttgtcgctccaactttctgattcttgtcttgtagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCATgtgagcacaaccattgtagacccttgggttttgagatcccagaatgttta Alignment from Pairagon ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACAT-CCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT cttgaacccattagccttgtcgctccaactttctgattcttgtcttgtagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCATgtgagcacaaccattgtagacccttgggttttgagatcccagaatgttta Alignment from Exonerate_protein2genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATC-CTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT cttgaacccattagccttgtcgctccaactttctgattcttgtcttgtagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCATgtgagcacaaccattgtagacccttgggttttgagatcccagaatgttta Alignment from Exonerate_coding2genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATC-CTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT cttgaacccattagccttgtcgctccaactttctgattcttgtcttgtagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCATgtgagcacaaccattgtagacccttgggttttgagatcccagaatgttta Alignment from GeneWise ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATC-CTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT cttgaacccattagccttgtcgctccaactttctgattcttgtcttgtagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTTCAGCACTTTTGTTAAGTGCATgtgagcacaaccattgtagacccttgggttttgagatcccagaatgttta #### Plcb3_ID1902_29 --> 1 - 0 Original Alignment --gt gGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTA-AACTCCATCAGACGG GGatgtgagcacccagaagcaggtcaatgtctgtcctgttctctctctagaGAATTGACAGAGATTATCCGGCAACACATCACTGAGTCAATACAATTCCAACAGACAGgtgagaggtaatctcctttgtcaagaacttcctttgtcactaacagagac Alignment from CESAR gGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTA-AACTCCATCAGACGG ggatgtgagtacccagaagcaggtcaatgtctgtcctgttctctctctagaGAATTGACAGAGATTATCCGGCAACACATCACTGAGTCAATACAATTCCAACAGACAGgtgagaggtaatctcctttgtcaagaacttcctttgtcactaacagagac Alignment from Spaln_aa2Genome GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGGCTGG ggatgtgagcacccagaagcaggtcaatgtctgtcctgttctctctctagAGAATTGACAGAGATTATCCGGCAACACATCACTGAGTCAATACAA---TTCCAACAGACAGgtgagaggtaatctcctttgtcaagaacttcctttgtcactaacagagac Alignment from Spaln_nt2Genome GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTA-AACTCCATCAGACGG ggatgtgagcacccagaagcaggtcaatgtctgtcctgttctctctctagAGAATTGACAGAGATTATCCGGCAACACATCACTGAGTCAATACAATTCCAACAGACAGgtgagaggtaatctcctttgtcaagaacttcctttgtcactaacagagac Alignment from Pairagon GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTA-AACTCCATCAGACGG ggatgtgagcacccagaagcaggtcaatgtctgtcctgttctctctctagAGAATTGACAGAGATTATCCGGCAACACATCACTGAGTCAATACAATTCCAACAGACAGgtgagaggtaatctcctttgtcaagaacttcctttgtcactaacagagac Alignment from Exonerate_protein2genome GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTA-AACTCCATCAGACGG ggatgtgagcacccagaagcaggtcaatgtctgtcctgttctctctctagAGAATTGACAGAGATTATCCGGCAACACATCACTGAGTCAATACAATTCCAACAGACAGgtgagaggtaatctcctttgtcaagaacttcctttgtcactaacagagac Alignment from Exonerate_coding2genome GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTA-AACTCCATCAGACGG ggatgtgagcacccagaagcaggtcaatgtctgtcctgttctctctctagAGAATTGACAGAGATTATCCGGCAACACATCACTGAGTCAATACAATTCCAACAGACAGgtgagaggtaatctcctttgtcaagaacttcctttgtcactaacagagac Alignment from GeneWise GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGGCTGG ggatgtgagcacccagaagcaggtcaatgtctgtcctgttctctctctagAGAATTGACAGAGATTATCCGGCAACACATCACTGAGTCAATACAA---TTCCAACAGACAGgtgagaggtaatctcctttgtcaagaacttcctttgtcactaacagagac #### Plcb3_ID1903_28 --> 1 - 2 Original Alignment gGAGAAGAAGGAACTCCAGAAGATC-CTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAG---------------gt gGAA tcggtataattcctcacatacaattcaactcatgtatctgtctcttacaggGAGAAAAGAGAGCCTCAAAAGATCCCTGGATAGGGAGCGCAACAATAGTATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAGTGTATGGTCACTGGatgtgagtacccagaagcaggtcaatttctctctgtgtgtccacacagaGAA Alignment from CESAR gGAGAAGAAGGAACTCCAGAAGATC-CTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGgt gGAA tcggtataattcctcacatacaattcaactcatgtatctgtctcttacaggGAGAAAAGAGAGCCTCAAAAGATCCCTGGATAGGGAGCGCAACAATAGTATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAgtgtatggtcactggatgtgagtacccagaagcaggtcaatgtctgtcctgttctctctctagaGAA Alignment from Spaln_aa2Genome GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT GGAA tcggtataattcctcacatacaattcaactcatgtatctgtctcttacagggagA---AAAGAGAGCCTCAAAAGATCCCTGGATAGGGAGCGCAACAATAGTATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAGTgtatggtcactggatgtgagtacccagaagcaggtcaatttctctctgtgtgtccacacagAGAA Alignment from Spaln_nt2Genome GGAGAAGAAGGAACTCCAGAAGATCC-TGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT GGAA tcggtataattcctcacatacaattcaactcatgtatctgtctcttacagGGAGAAAAGAGAGCCTCAAAAGATCCCTGGATAGGGAGCGCAACAATAGTATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAGTgtatggtcactggatgtgagtacccagaagcaggtcaatttctctctgtgtgtccacacagAGAA Alignment from Pairagon GGAGAAGAAGGAACTCCAGAAGAT-CCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGTG-------------------------------------------------------------GAA tcggtataattcctcacatacaattcaactcatgtatctgtctcttacagGGAGAAAAGAGAGCCTCAAAAGATCCCTGGATAGGGAGCGCAACAATAGTATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAGTGTATGGTCACTGGATGTGAGTACCCAGAAGCAGGTCAATTTCTCTCTGTGTGTCCACACAGAGAA Alignment from Exonerate_protein2genome GGAGAAGAAGGAACTCCAGAAGATC-CTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT GGAA tcggtataattcctcacatacaattcaactcatgtatctgtctcttacagGGAGAAAAGAGAGCCTCAAAAGATCCCTGGATAGGGAGCGCAACAATAGTATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAGTgtatggtcactggatgtgagtacccagaagcaggtcaatttctctctgtgtgtccacacagAGAA Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT GGAA tcggtataattcctcacatacaattcaactcatgtatctgtctcttacagggagA---AAAGAGAGCCTCAAAAGATCCCTGGATAGGGAGCGCAACAATAGTATTTCAGAAGCCAAGACAAGGGAGAAACATAAGAAGGAAGTgtatggtcactggatgtgagtacccagaagcaggtcaatttctctctgtgtgtccacacagAGAA #### Plcb3_ID1904_27 --> 0 - 2 Original Alignment GACAG GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACA-ACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAag GACATgtaagggatcaatgtcggatggttttgttttttgtcttctcttagGCACATCAGTGGGTTAAGGAGGTCGTACTGGACACACACATACATCCAATTTAAGAGGCTAAGGGAACTTAAAGAAaggtaaagataagcaggattcaattcggtataattcctcacatacaattcaa Alignment from CESAR GACAG GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACA-ACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAag GACATgtaagcgatcaatgtcggatggttttgttttttgtcttctcttagGCACATCAGTGGGTTAAGGAGGTCGTACTGGACACACACATACATCCAATTTAAGAGGCTAAGGGAACTTAAAGAAaggtaaagataagcaggattcaattcggtataattcctcacatacaattcaa Alignment from Spaln_aa2Genome GACAG GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACA-ACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG GACATgtaagggatcaatgtcggatggttttgttttttgtcttctcttagGCACATCAGTGGGTTAAGGAGGTCGTACTGGACACACACATAcATCCAATTTAAGAGGCTAAGGGAACTTAAAGAAAGgtaaagataagcaggattcaattcggtataattcctcacatacaattcaa Alignment from Spaln_nt2Genome GACAG GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACA-ACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG GACATgtaagggatcaatgtcggatggttttgttttttgtcttctcttagGCACATCAGTGGGTTAAGGAGGTCGTACTGGACACACACATACATCCAATTTAAGAGGCTAAGGGAACTTAAAGAAAGgtaaagataagcaggattcaattcggtataattcctcacatacaattcaa Alignment from Pairagon GACAG GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACA-ACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG GACATgtaagggatcaatgtcggatggttttgttttttgtcttctcttagGCACATCAGTGGGTTAAGGAGGTCGTACTGGACACACACATACATCCAATTTAAGAGGCTAAGGGAACTTAAAGAAAGgtaaagataagcaggattcaattcggtataattcctcacatacaattcaa Alignment from Exonerate_protein2genome GACAG GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACA-ACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG GACATgtaagggatcaatgtcggatggttttgttttttgtcttctcttagGCACATCAGTGGGTTAAGGAGGTCGTACTGGACACACACATACATCCAATTTAAGAGGCTAAGGGAACTTAAAGAAAGgtaaagataagcaggattcaattcggtataattcctcacatacaattcaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GACAG GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACA-ACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG GACATgtaagggatcaatgtcggatggttttgttttttgtcttctcttagGCACATCAGTGGGTTAAGGAGGTCGTACTGGACACACACATACATCCAATTTAAGAGGCTAAGGGAACTTAAAGAAAGgtaaagataagcaggattcaattcggtataattcctcacatacaattcaa #### Plcb3_ID1905_26 --> 1 - 0 Original Alignment gGGCAAGGCCACCAACTCGGAGGACGTGAAG-GAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tcttgtttggtcgtatcacttggagaatatatcattactttgctttacaggGGCAAGGCCTCCAACTCAGAGGATGTGAAACGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAATTGCAAGCTGGATCATCTACGACATgtaagcgatcaatgtcggatggttctctcctctctcctctcccagGCACA Alignment from CESAR gGGCAAGGCCACCAACTCGGAGGACGTGAAG-GAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tcttgtttggtcgtatcacttggagaatatatcattactttgctttacaggGGCAAGGCCTCCAACTCAGAGGATGTGAAACGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAATTGCAAGCTGGATCATCTACGACATgtaagcgatcaatgtcggatggttttgttttttgtcttctcttagGCACA Alignment from Spaln_aa2Genome GGGCAAGGCCACCAACTCGGAGGACGTGAAG-GAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tcttgtttggtcgtatcacttggagaatatatcattactttgctttacagGGGCAAGGCCTCCAACTCAGAGGATGTGAAAcGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAATTGCAAGCTGGATCATCTACGACATgtaagcgatcaatgtcggatggttctctcctctctcctctcccagGCACA Alignment from Spaln_nt2Genome GGGCAAGGCCACCAACTCGGAGGACGTGAAG-GAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tcttgtttggtcgtatcacttggagaatatatcattactttgctttacagGGGCAAGGCCTCCAACTCAGAGGATGTGAAACGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAATTGCAAGCTGGATCATCTACGACATgtaagcgatcaatgtcggatggttctctcctctctcctctcccagGCACA Alignment from Pairagon GGGCAAGGCCACCAACTCGGAGGACGTGAAG-GAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tcttgtttggtcgtatcacttggagaatatatcattactttgctttacagGGGCAAGGCCTCCAACTCAGAGGATGTGAAACGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAATTGCAAGCTGGATCATCTACGACATgtaagcgatcaatgtcggatggttctctcctctctcctctcccagGCACA Alignment from Exonerate_protein2genome GGGCAAGGCCACCAACTCGGAGGACGTGAAG-GAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tcttgtttggtcgtatcacttggagaatatatcattactttgctttacagGGGCAAGGCCTCCAACTCAGAGGATGTGAAACGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAATTGCAAGCTGGATCATCTACGACATgtaagcgatcaatgtcggatggttctctcctctctcctctcccagGCACA Alignment from Exonerate_coding2genome GGGCAAGGCCACCAACTCGGAGGACGTGAAG-GAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAGGCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTT tcttgtttggtcgtatcacttggagaatatatcattactttgctttacagGGGCAAGGCCTCCAACTCAGAGGATGTGAAACGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAATTGCAAGCTGGATCATCTACGACATGTAAGCGATCAATGTCGGATGGTTCTCTCCTCTCTCCTCTCCCAGGCACA Alignment from GeneWise GGGCAAGGCCACCAACTCGGAGGACGTGAAG-GAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGA---------------------------------------------CAGGCTCA tcttgtttggtcgtatcacttggagaatatatcattactttgctttacagGGGCAAGGCCTCCAACTCAGAGGATGTGAAACGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAAGCACAAAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAATTGCAAGCTGGATCATCTACGACATGTAAGCGATCAATGTCGGATGGTTCTCTCCTCTCTCCTCTCCCAGGCACA #### Plcb3_ID1910_21 --> 2 - 1 Original Alignment gaTACCACTATGTCTGCCTGCGAAAC---GAGGCCAACCAACCT-TTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGg atttgaaacaattataaaattctgcaagtgttctttgtctctctctccaggtTACCACTATGTGTGCTTGCGAAATATTGAAGCTAACCAGTCTCTTGTGCTTGCCTGCCCTGCTTATATACACTGTAGCCTCCGACTACATCCCAGATGACCACCAGggtgagtgagtagcctggtgaagtattgtgaagagtctcatagggtgatca Alignment from CESAR gaTACCACTATGTCTGCCTGCGAAAC---GAGGCCAACCAACCT-TTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGg atttgaaacaattataaaattctgcaagtgttctttgtctctctctccaggtTACCACTATGTGTGCTTGCGAAATATTGAAGCTAACCAGTCTCTTGTGCTTGCCTGCCCTGCTTATATACACTGTAGCCTCCGACTACATCCCAGATGACCACCAGggtgagtgagtagcctggtgaagtattgtgaagagtctcatagggtgatca Alignment from Spaln_aa2Genome GATACCACTATGTCTGCCTGCGAAAC---GAGGCCAACCAACCTTTG-TGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG atttgaaacaattataaaattctgcaagtgttctttgtctctctctccagGTTACCACTATGTGTGCTTGCGAAATATTGAAGCTAACCAGTCTCTTgTGCTTGCCTGCCCTGCTTATATACACTGTAGCCTCCGACTACATCCCAGATGACCACCAGGgtgagtgagtagcctggtgaagtattgtgaagagtctcatagggtgatca Alignment from Spaln_nt2Genome GATACCACTATGTCTGCCTGCGAAAC---GAGGCCAACCAACCT-TTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG atttgaaacaattataaaattctgcaagtgttctttgtctctctctccagGTTACCACTATGTGTGCTTGCGAAATATTGAAGCTAACCAGTCTCTTGTGCTTGCCTGCCCTGCTTATATACACTGTAGCCTCCGACTACATCCCAGATGACCACCAGGgtgagtgagtagcctggtgaagtattgtgaagagtctcatagggtgatca Alignment from Pairagon GATACCACTATGTCTGCCTGCGAAA---CGAGGCCAACCAACCT-TTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG atttgaaacaattataaaattctgcaagtgttctttgtctctctctccagGTTACCACTATGTGTGCTTGCGAAATATTGAAGCTAACCAGTCTCTTGTGCTTGCCTGCCCTGCTTATATACACTGTAGCCTCCGACTACATCCCAGATGACCACCAGGgtgagtgagtagcctggtgaagtattgtgaagagtctcatagggtgatca Alignment from Exonerate_protein2genome GATACCACTATGTCTGCCTGCGAAAC---GAGGCCAACCAACCT-TTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG atttgaaacaattataaaattctgcaagtgttctttgtctctctctccagGTTACCACTATGTGTGCTTGCGAAATATTGAAGCTAACCAGTCTCTTGTGCTTGCCTGCCCTGCTTATATACACTGTAGCCTCCGACTACATCCCAGATGACCACCAGGgtgagtgagtagcctggtgaagtattgtgaagagtctcatagggtgatca Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GATACCACTATGTCTGCCTGCGAAAC---GAGGCCAACCAA-CCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG atttgaaacaattataaaattctgcaagtgttctttgtctctctctccagGTTACCACTATGTGTGCTTGCGAAATATTGAAGCTAACCAGTCTCTTGTGCTTGCCTGCCCTGCTTATATACACTGTAGCCTCCGACTACATCCCAGATGACCACCAGGgtgagtgagtagcctggtgaagtattgtgaagagtctcatagggtgatca #### Plcb3_ID1912_19 --> 0 - 0 Original Alignment GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAG-GAACCCTTTGACTTCCCCAAG acacgaaaattctctcatcaactttcaggtgtcctgcttccaacccctagGTGATCCCAGGGCAATTCCTTTCTCATAAGAAAGTCGGTATCTATGTTGAGGTGGATATGTTTGGTCTCCCACTAGATACTAGATGTAAATATCGTACCCGGACCTCTCAGGGAAACTTGTTCAACCCTGTATGGGAAGAACGAACCGTTTGATTTCCCAAAGgtgagttccagcaattatgccctccatttcatgtaggacagcaagaccac Alignment from CESAR GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAG-GAACCCTTTGACTTCCCCAAG acacgaaaattctctcatcaactttcaggtgtcctgcttccaacccctagGTGATCCCAGGGCAATTCCTTTCTCATAAGAAAGTCGGTATCTATGTTGAGGTGGATATGTTTGGTCTCCCACTAGATACTAGATGTAAATATCGTACCCGGACCTCTCAGGGAAACTTGTTCAACCCTGTATGGGAAGAACGAACCGTTTGATTTCCCAAAGgtgagttccagcaattatgccctccatttcatgtaggacagcaagaccac Alignment from Spaln_aa2Genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAG-GAACCCTTTGACTTCCCCAAG acacgaaaattctctcatcaactttcaggtgtcctgcttccaacccctagGTGATCCCAGGGCAATTCCTTTCTCATAAGAAAGTCGGTATCTATGTTGAGGTGGATATGTTTGGTCTCCCACTAGATACTAGATGTAAATATCGTACCCGGACCTCTCAGGGAAACTTGTTCAACCCTGTATGGGAAGAAcGAACCGTTTGATTTCCCAAAGgtgagttccagcaattatgccctccatttcatgtaggacagcaagaccac Alignment from Spaln_nt2Genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAG-GAACCCTTTGACTTCCCCAAG acacgaaaattctctcatcaactttcaggtgtcctgcttccaacccctagGTGATCCCAGGGCAATTCCTTTCTCATAAGAAAGTCGGTATCTATGTTGAGGTGGATATGTTTGGTCTCCCACTAGATACTAGATGTAAATATCGTACCCGGACCTCTCAGGGAAACTTGTTCAACCCTGTATGGGAAGAACGAACCGTTTGATTTCCCAAAGgtgagttccagcaattatgccctccatttcatgtaggacagcaagaccac Alignment from Pairagon GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAG-GAACCCTTTGACTTCCCCAAG acacgaaaattctctcatcaactttcaggtgtcctgcttccaacccctagGTGATCCCAGGGCAATTCCTTTCTCATAAGAAAGTCGGTATCTATGTTGAGGTGGATATGTTTGGTCTCCCACTAGATACTAGATGTAAATATCGTACCCGGACCTCTCAGGGAAACTTGTTCAACCCTGTATGGGAAGAACGAACCGTTTGATTTCCCAAAGgtgagttccagcaattatgccctccatttcatgtaggacagcaagaccac Alignment from Exonerate_protein2genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAG-GAACCCTTTGACTTCCCCAAG acacgaaaattctctcatcaactttcaggtgtcctgcttccaacccctagGTGATCCCAGGGCAATTCCTTTCTCATAAGAAAGTCGGTATCTATGTTGAGGTGGATATGTTTGGTCTCCCACTAGATACTAGATGTAAATATCGTACCCGGACCTCTCAGGGAAACTTGTTCAACCCTGTATGGGAAGAACGAACCGTTTGATTTCCCAAAGgtgagttccagcaattatgccctccatttcatgtaggacagcaagaccac Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAG-GAACCCTTTGACTTCCCCAAG acacgaaaattctctcatcaactttcaggtgtcctgcttccaacccctagGTGATCCCAGGGCAATTCCTTTCTCATAAGAAAGTCGGTATCTATGTTGAGGTGGATATGTTTGGTCTCCCACTAGATACTAGATGTAAATATCGTACCCGGACCTCTCAGGGAAACTTGTTCAACCCTGTATGGGAAGAACGAACCGTTTGATTTCCCAAAGgtgagttccagcaattatgccctccatttcatgtaggacagcaagaccac #### Plcb3_ID1923_8 --> 1 - 2 Original Alignment tGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATT-TTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGat tgttggctcaatattctcggcctgcgatgctaacccggctctccatgcagtGAATCTATTCGCCCTGATGAATTTCCTTTGGAAGTTCTTTGAACGGTTCTTGAATAAACTGTGTCTGCGAGCAGATATTGACAAGATTGTGCTGGAGatgtaccgaagtcaccccaagtcttctcctggagtgactgtgaaatctcatt Alignment from CESAR tGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATT-TTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGat tgttggctcaatattctcggcctgcgatgctaacccggctctccatgcagtGAATCTATTCGCCCTGATGAATTTCCTTTGGAAGTTCTTTGAACGGTTCTTGAATAAACTGTGTCTGCGAGCAGATATTGACAAGATTGTGCTGGAGatgtaccgaagtcaccccaagtcttctcctggagtgactgtgaaatctcatt Alignment from Spaln_aa2Genome TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATT-TTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGAT tgttggctcaatattctcggcctgcgatgctaacccggctctccatgcagTGAATCTATTCGCCCTGATGAATTTCCTTTGGAAGTTcTTTGAACGGTTCTTGAATAAACTGTGTCTGCGAGCAGATATTGACAAGATTGTGCTGGAGATgtaccgaagtcaccccaagtcttctcctggagtgactgtgaaatctcatt Alignment from Spaln_nt2Genome TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATT-TTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGAT tgttggctcaatattctcggcctgcgatgctaacccggctctccatgcagTGAATCTATTCGCCCTGATGAATTTCCTTTGGAAGTTCTTTGAACGGTTCTTGAATAAACTGTGTCTGCGAGCAGATATTGACAAGATTGTGCTGGAGATgtaccgaagtcaccccaagtcttctcctggagtgactgtgaaatctcatt Alignment from Pairagon TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATT-TTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGAT tgttggctcaatattctcggcctgcgatgctaacccggctctccatgcagTGAATCTATTCGCCCTGATGAATTTCCTTTGGAAGTTCTTTGAACGGTTCTTGAATAAACTGTGTCTGCGAGCAGATATTGACAAGATTGTGCTGGAGATgtaccgaagtcaccccaagtcttctcctggagtgactgtgaaatctcatt Alignment from Exonerate_protein2genome tgttggctcaatattctcggcctgcgatgctaacccggctctccatgcagtgaatctattcgccctgatgaatttcctttggaagttctttgaacggttcttgaataaactgtgtctgcgagcagatattgacaagattgtgctggagatgtaccgaagtcaccccaagtcttctcctggagtgactgtgaaatctcatt Alignment from Exonerate_coding2genome tgttggctcaatattctcggcctgcgatgctaacccggctctccatgcagtgaatctattcgccctgatgaatttcctttggaagttctttgaacggttcttgaataaactgtgtctgcgagcagatattgacaagattgtgctggagatgtaccgaagtcaccccaagtcttctcctggagtgactgtgaaatctcatt Alignment from GeneWise TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAA-ATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGAT tgttggctcaatattctcggcctgcgatgctaacccggctctccatgcagTGAATCTATTCGCCCTGATGAATTTCCTTTGGAAGTTCTTTGAACGGTTCTTGAATAAACTGTGTCTGCGAGCAGATATTGACAAGATTGTGCTGGAGATgtaccgaagtcaccccaagtcttctcctggagtgactgtgaaatctcatt #### Plcb3_ID1924_7 --> 1 - 2 Original Alignment cATTCTGAAGATGTTC-TCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAgt tgctgatgtctgtgtaaccacttaaactaattttttttatcccctttcagcATTCTTAAGATGTTCCTCAGCAGATAAGAAGTGTGTAGAGAACACGCTGGAATCTTGTGGTCTCAACTTGAACCGAgtgtaagagtcaacgccagtgtggtagttgggtcagattggctactgccatc Alignment from CESAR cATTCTGAAGATGTTC-TCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAgt tgctgatgtctgtgtaaccacttaaactaattttttttatcccctttcagcATTCTTAAGATGTTCCTCAGCAGATAAGAAGTGTGTAGAGAACACGCTGGAATCTTGTGGTCTCAACTTGAACCGAgtgtaagagtcaacgccagtgtggtagttgggtcagattggctactgccatc Alignment from Spaln_aa2Genome CATTCTGAAGATGTTC-TCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAGT tgctgatgtctgtgtaaccacttaaactaattttttttatcccctttcagCATTCTTAAGATGTTCcTCAGCAGATAAGAAGTGTGTAGAGAACACGCTGGAATCTTGTGGTCTCAACTTGAACCGAGTgtaagagtcaacgccagtgtggtagttgggtcagattggctactgccatc Alignment from Spaln_nt2Genome CATTCTGAAGATGTTC-TCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAGT tgctgatgtctgtgtaaccacttaaactaattttttttatcccctttcagCATTCTTAAGATGTTCCTCAGCAGATAAGAAGTGTGTAGAGAACACGCTGGAATCTTGTGGTCTCAACTTGAACCGAGTgtaagagtcaacgccagtgtggtagttgggtcagattggctactgccatc Alignment from Pairagon CATTCTGAAGATGTT-CTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAGT tgctgatgtctgtgtaaccacttaaactaattttttttatcccctttcagCATTCTTAAGATGTTCCTCAGCAGATAAGAAGTGTGTAGAGAACACGCTGGAATCTTGTGGTCTCAACTTGAACCGAGTgtaagagtcaacgccagtgtggtagttgggtcagattggctactgccatc Alignment from Exonerate_protein2genome CATTCTGAAGATGTTC-TCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAGT tgctgatgtctgtgtaaccacttaaactaattttttttatcccctttcagCATTCTTAAGATGTTCCTCAGCAGATAAGAAGTGTGTAGAGAACACGCTGGAATCTTGTGGTCTCAACTTGAACCGAGTgtaagagtcaacgccagtgtggtagttgggtcagattggctactgccatc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAGT tgctgatgtctgtgtaaccacttaaactaattttttttatcccctttcagcattcttaagA---------TGTTCCTCAGCAGATAAGAAGTGTGTAGAGAACACGCTGGAATCTTGTGGTCTCAACTTGAACCGAGTgtaagagtcaacgccagtgtggtagttgggtcagattggctactgccatc #### Plcb3_ID1925_6 --> 1 - 2 Original Alignment aTACACGAAGCTGAAGCTGCAGGTGAACCAGGATGGA-CGGATTCCGGTCAAGaa ttgtatccacagaaacaacacatgatacgcttattttctttgttttacagaTACACAAAGCTAAAGCTGCAGGGCAATCAGGATGGGCCGGATTCCAGTCAAGaagtatgctccctgcacatgttatcccagcatccctaacattcgtctaccca Alignment from CESAR aTACACGAAGCTGAAGCTGCAGGTGAACCAGGATGGA-CGGATTCCGGTCAAGaa ttgtatccacagaaacaacacatgatacgcttattttctttgttttacagaTACACAAAGCTAAAGCTGCAGGGCAATCAGGATGGGCCGGATTCCAGTCAAGaagtatgctccctgcacatgttatcccagcatccctaacattcgtctaccca Alignment from Spaln_aa2Genome ATACACGAAGCTGAAGCTGCAGGTGAACCAGGAT-GGACGGATTCCGGTCAAGAA ttgtatccacagaaacaacacatgatacgcttattttctttgttttacagATACACAAAGCTAAAGCTGCAGGGCAATCAGGATgGGCCGGATTCCAGTCAAGAAgtatgctccctgcacatgttatcccagcatccctaacattcgtctaccca Alignment from Spaln_nt2Genome ATACACGAAGCTGAAGCTGCAGGTGAACCAGGATGGACG-GATTCCGGTCAAGAA ttgtatccacagaaacaacacatgatacgcttattttctttgttttacagATACACAAAGCTAAAGCTGCAGGGCAATCAGGATGGGCCGGATTCCAGTCAAGAAgtatgctccctgcacatgttatcccagcatccctaacattcgtctaccca Alignment from Pairagon ATACACGAAGCTGAAGCTGCAGGTGAACCAGGATGGA-CGGATTCCGGTCAAGAA ttgtatccacagaaacaacacatgatacgcttattttctttgttttacagATACACAAAGCTAAAGCTGCAGGGCAATCAGGATGGGCCGGATTCCAGTCAAGAAgtatgctccctgcacatgttatcccagcatccctaacattcgtctaccca Alignment from Exonerate_protein2genome ttgtatccacagaaacaacacatgatacgcttattttctttgttttacagatacacaaagctaaagctgcagggcaatcaggatgggccggattccagtcaagaagtatgctccctgcacatgttatcccagcatccctaacattcgtctaccca Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ttgtatccacagaaacaacacatgatacgcttattttctttgttttacagatacacaaagctaaagctgcagggcaatcaggatgggccggattccagtcaagaagtatgctccctgcacatgttatcccagcatccctaacattcgtctaccca #### Plcb3_ID1926_5 --> 0 - 2 Original Alignment GTCTGGTCAGAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGG-AACACCTTCCTGCGGAAAgc tcaatgggcctaatcctccattccataaagtcatctcacttgctctgtagGTATGGTCAGAGGAGTTGTTTAGACTAGCAATGAACATATTGGCCCAGAATGCATCCCAACAACACATTCTCACGTAAGccgtgagtctacaagcacacagggggtgggaaaatgtctcactgtgcttcat Alignment from CESAR GTCTGGTCAGAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGG-AACACCTTCCTGCGGAAAgc tcaatgggcctaatcctccattccataaagtcatctcacttgctctgtagGTATGGTCAGAGGAGTTGTTTAGACTAGCAATGAACATATTGGCCCAGAATGCATCCCAACAACACATTCTCACGTAAGccgtgagtctacaagcacacagggggtgggaaaatgtctcactgtgcttcat Alignment from Spaln_aa2Genome GTCTGGTCAGAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCG tcaatgggcctaatcctccattccataaagtcatctcacttgctctgtagGTATGGTCAGAGGAGTTGTTTAGACTAGCAATGAACATATTGGCCCAGAATGCATCCCAACAACACATTCTCACgtaagccgtgagtctacaagcacacagggggtgggaaaatgtctcactgtgcttcat Alignment from Spaln_nt2Genome GTCTGGTCAGAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGG-AACACCTTCCTGCGGAAAGC tcaatgggcctaatcctccattccataaagtcatctcacttgctctgtagGTATGGTCAGAGGAGTTGTTTAGACTAGCAATGAACATATTGGCCCAGAATGCATCCCAACAACACATTCTCACGTAAGCCgtgagtctacaagcacacagggggtgggaaaatgtctcactgtgcttcat Alignment from Pairagon GTCTGGTCAGAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGG-AACACCTTCCTGCGGAAAGC tcaatgggcctaatcctccattccataaagtcatctcacttgctctgtagGTATGGTCAGAGGAGTTGTTTAGACTAGCAATGAACATATTGGCCCAGAATGCATCCCAACAACACATTCTCACGTAAGCCgtgagtctacaagcacacagggggtgggaaaatgtctcactgtgcttcat Alignment from Exonerate_protein2genome tcaatgggcctaatcctccattccataaagtcatctcacttgctctgtaggtatggtcagaggagttgtttagactagcaatgaacatattggcccagaatgcatcccaacaacacattctcacgtaagccgtgagtctacaagcacacagggggtgggaaaatgtctcactgtgcttcat Alignment from Exonerate_coding2genome tcaatgggcctaatcctccattccataaagtcatctcacttgctctgtaggtatggtcagaggagttgtttagactagcaatgaacatattggcccagaatgcatcccaacaacacattctcacgtaagccgtgagtctacaagcacacagggggtgggaaaatgtctcactgtgcttcat Alignment from GeneWise GTCTGGTCAGAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCG tcaatgggcctaatcctccattccataaagtcatctcacttgctctgtagGTATGGTCAGAGGAGTTGTTTAGACTAGCAATGAACATATTGGCCCAGAATGCATCCCAACAACACATTCTCACgtaagccgtgagtctacaagcacacagggggtgggaaaatgtctcactgtgcttcat #### Plcb3_ID1927_4 --> 0 - 0 Original Alignment GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGG-CTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG taccataccattggggagcactttgaactaccttatttcattcctttcagGATCCTAAGATTCGTGAAGTG------TTTGGTGGCCCTGACACACGCCCTGGAGGAGAGATTGATG---------ACTGGGCCAGATTTAGTAACAACCACATTCGTGAATTTCATGGCAGTGCAAGATGGTACAGTTAAGgtgtgttcagcctgatctccatattgaagccattagttcattcaagcctt Alignment from CESAR GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGG-CTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG taccataccattggggagcactttgaactaccttatttcattcctttcagGATCCTAAGATTCGTGAAGTG------TTTGGTGGCCCTGACACACGCCCTGGAGGAGAGATTGATGACT---------GGGCCAGATTTAGTAACAACCACATTCGTGAATTTCATGGCAGTGCAAGATGGTACAGTTAAGgtgtgttcagcctgatctccatattgaagccattagttcattcaagcctt Alignment from Spaln_aa2Genome GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGG-CTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG taccataccattggggagcactttgaactaccttatttcattcctttcagGATCCTAAGATTCGTGAAGTG------TTTGGTGGCCCTGACACACGCcCTGGAGGAGAGATTGATGACT---------GGGCCAGATTTAGTAACAACCACATTCGTGAATTTCATGGCAGTGCAAGATGGTACAGTTAAGgtgtgttcagcctgatctccatattgaagccattagttcattcaagcctt Alignment from Spaln_nt2Genome GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGC-TGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG taccataccattggggagcactttgaactaccttatttcattcctttcagGATCCTAAGATTCGTGAAGT------GTTTGGTGGCCCTGACACACGCCCTGGAGGAGAGATTGATGA---------CTGGGCCAGATTTAGTAACAACCACATTCGTGAATTTCATGGCAGTGCAAGATGGTACAGTTAAGgtgtgttcagcctgatctccatattgaagccattagttcattcaagcctt Alignment from Pairagon GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCG-GCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG taccataccattggggagcactttgaactaccttatttcattcctttcagGATCCTAAGATTCGTGAAGTG------TTTGGTGGCCCTGACACACGCCCTGGAGGAGAGATTGATGA---------CTGGGCCAGATTTAGTAACAACCACATTCGTGAATTTCATGGCAGTGCAAGATGGTACAGTTAAGgtgtgttcagcctgatctccatattgaagccattagttcattcaagcctt Alignment from Exonerate_protein2genome taccataccattggggagcactttgaactaccttatttcattcctttcaggatcctaagattcgtgaagtgtttggtggccctgacacacgccctggaggagagattgatgactgggccagatttagtaacaaccacattcgtgaatttcatggcagtgcaagatggtacagttaaggtgtgttcagcctgatctccatattgaagccattagttcattcaagcctt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGG-CTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG taccataccattggggagcactttgaactaccttatttcattcctttcagGATCCTAAGATTCGTGAAGTG------TTTGGTGGCCCTGACACACGCCCTGGAGGAGAGATTGATGACT---------GGGCCAGATTTAGTAACAACCACATTCGTGAATTTCATGGCAGTGCAAGATGGTACAGTTAAGgtgtgttcagcctgatctccatattgaagccattagttcattcaagcctt #### Plcb3_ID1928_3 --> 0 - 0 Original Alignment GAGGTGGACACACTGGACATCAGCTCCATCAGG-GACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tgcattggtgggcaaccttgctctttgatggtactaactctgcttgtcagGAGGTGGACACACTGGATATCAGCTCGATCAGACGGTACAAGGACAGGTCGTTATGCCCACCTGCCCAAAgtagtcctctggctttgcacatgtaaataccataccattggggagcactt Alignment from CESAR GAGGTGGACACACTGGACATCAGCTCCATCAGG-GACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tgcattggtgggcaaccttgctctttgatggtactaactctgcttgtcagGAGGTGGACACACTGGATATCAGCTCGATCAGACGGTACAAGGACAGGTCGTTATGCCCACCTGCCCAAAgtagtcctctggctttgcacatgtaaataccataccattggggagcactt Alignment from Spaln_aa2Genome GAGGTGGACACACTGGACATCAGCTCCATCAGG-GACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tgcattggtgggcaaccttgctctttgatggtactaactctgcttgtcagGAGGTGGACACACTGGATATCAGCTCGATCAGAcGGTACAAGGACAGGTCGTTATGCCCACCTGCCCAAAgtagtcctctggctttgcacatgtaaataccataccattggggagcactt Alignment from Spaln_nt2Genome GAGGTGGACACACTGGACATCAGCTCCATCAGG-GACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tgcattggtgggcaaccttgctctttgatggtactaactctgcttgtcagGAGGTGGACACACTGGATATCAGCTCGATCAGACGGTACAAGGACAGGTCGTTATGCCCACCTGCCCAAAgtagtcctctggctttgcacatgtaaataccataccattggggagcactt Alignment from Pairagon GAGGTGGACACACTGGACATCAGCTCCATCAGG-GACACAAGGACAGGTCGTTATGCCCGCCTGCCCA---------------------------------------------------- tgcattggtgggcaaccttgctctttgatggtactaactctgcttgtcagGAGGTGGACACACTGGATATCAGCTCGATCAGACGGTACAAGGACAGGTCGTTATGCCCACCTGCCCAAAGTAGTCCTCTGGCTTTGCACATGTAAATACCATACCATTGGGGAGCACTT Alignment from Exonerate_protein2genome GAGGTGGACACACTGGACATCAGCTCCATCAGG-GACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tgcattggtgggcaaccttgctctttgatggtactaactctgcttgtcagGAGGTGGACACACTGGATATCAGCTCGATCAGACGGTACAAGGACAGGTCGTTATGCCCACCTGCCCAAAgtagtcctctggctttgcacatgtaaataccataccattggggagcactt Alignment from Exonerate_coding2genome tgcattggtgggcaaccttgctctttgatggtactaactctgcttgtcaggaggtggacacactggatatcagctcgatcagacggtacaaggacaggtcgttatgcccacctgcccaaagtagtcctctggctttgcacatgtaaataccataccattggggagcactt Alignment from GeneWise GAGGTGGACACACTGGACATCAGCTCCATCAGG-GACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tgcattggtgggcaaccttgctctttgatggtactaactctgcttgtcagGAGGTGGACACACTGGATATCAGCTCGATCAGACGGTACAAGGACAGGTCGTTATGCCCACCTGCCCAAAgtagtcctctggctttgcacatgtaaataccataccattggggagcactt #### Plce1_ID7626_12 --> 1 - 1 Original Alignment cATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAA-AATACCAGCGATCTTCAGCCTGACCTAg tgtatatgactatttcagaaagggcaactgttctcatttttcatccacagcATTAGGAGCCGTAAGGACCTGAAAGACATCTTTGATATCTATACAGTG---------AGATCCACCTCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAACAATACGAGTGAGCTTCAGCCAGACCTGggtgagtttgttggcccattccttctatcaggcaggtgtgtaactttgata Alignment from CESAR cATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAA-AATACCAGCGATCTTCAGCCTGACCTAg tgtatatgactatttcagaaagggcaactgttctcatttttcatccacagcATTAGGAGCCGTAAGGACCTGAAAGACATCTTTGATATCTATACAGTG---------AGATCCACCTCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAACAATACGAGTGAGCTTCAGCCAGACCTGggtgagtttgttggcccattccttctatcaggcaggtgtgtaactttgata Alignment from Spaln_aa2Genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAA-AATACCAGCGATCTTCAGCCTGACCTAG tgtatatgactatttcagaaagggcaactgttctcatttttcatccacagCATTAGGAGCCGTAAGGACCTGAAAGACATCTTTGATATCTATACAGTG---------AGATCCACCTCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAcAATACGAGTGAGCTTCAGCCAGACCTGGgtgagtttgttggcccattccttctatcaggcaggtgtgtaactttgata Alignment from Spaln_nt2Genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAA-AATACCAGCGATCTTCAGCCTGACCTAG tgtatatgactatttcagaaagggcaactgttctcatttttcatccacagCATTAGGAGCCGTAAGGACCTGAAAGACATCTTTGATATCTA-----TACAGTG----AGATCCACCTCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAACAATACGAGTGAGCTTCAGCCAGACCTGGgtgagtttgttggcccattccttctatcaggcaggtgtgtaactttgata Alignment from Pairagon CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCT--------------ACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAA-AATACCAGCGATCTTCAGCCTGACCTAG tgtatatgactatttcagaaagggcaactgttctcatttttcatccacagCATTAGGAGCCGTAAGGACCTGAAAGACATCTTTGATATCTATACAGTGAGATCCA-----------------------CCTCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAACAATACGAGTGAGCTTCAGCCAGACCTGGgtgagtttgttggcccattccttctatcaggcaggtgtgtaactttgata Alignment from Exonerate_protein2genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAA-AATACCAGCGATCTTCAGCCTGACCTAG tgtatatgactatttcagaaagggcaactgttctcatttttcatccacagCATTAGGAGCCGTAAGGACCTGAAAGACATCTTTGATATCTATACAGTG---------AGATCCACCTCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAACAATACGAGTGAGCTTCAGCCAGACCTGGgtgagtttgttggcccattccttctatcaggcaggtgtgtaactttgata Alignment from Exonerate_coding2genome tgtatatgactatttcagaaagggcaactgttctcatttttcatccacagcattaggagccgtaaggacctgaaagacatctttgatatctatacagtgagatccacctcagagtccacccccctctataccaactggacaattgaggaacaatacgagtgagcttcagccagacctgggtgagtttgttggcccattccttctatcaggcaggtgtgtaactttgata Alignment from GeneWise CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAA-GAAAATACCAGCGATCTTCAGCCTGACCTAG tgtatatgactatttcagaaagggcaactgttctcatttttcatccacagCATTAGGAGCCGTAAGGACCTGAAAGACATCTTTGATATCTATACAGTG---------AGATCCACCTCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAACAATACGAGTGAGCTTCAGCCAGACCTGGgtgagtttgttggcccattccttctatcaggcaggtgtgtaactttgata #### Plekhs1_ID12098_3 --> 0 - 2 Original Alignment ACCTCCTGGAAAAAGCGTCTT-TTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACgg cattggctttactgacatcaactagtgcgttcatttttactgactgttagACCTCCTGGAAGAAGCGTTTGCTTTATACTGTCCCAGAGCCGGGGATCCGGTCTTGGTCTTTCTTATTACAAAGATCATCAACACAGAGGCTCCATTGGAGTTGATaggtgtgtcattgggcaatgctcacactagaagcactagattttgtgtacca Alignment from CESAR ACCTCCTGGAAAAAGCGTCTT-TTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACgg cattggctttactgacatcaactagtgcgttcatttttactgactgttagACCTCCTGGAAGAAGCGTTTGCTTTATACTGTCCCAGAGCCGGGGATCCGGTCTTGGTCTTTCTTATTACAAAGATCATCAACACAGAGGCTCCATTGGAGTTGATaggtgtgtcattgggcaatgctcacactagaagcactagattttgtgtacca Alignment from Spaln_aa2Genome ACCTCCTGGAAAAAGCGTCTT-TTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGG cattggctttactgacatcaactagtgcgttcatttttactgactgttagACCTCCTGGAAGAAGCGTTTGcTTTATACTGTCCCAGAGCCGGGGATCCGGTCTTGGTCTTTCTTATTACAAAGATCATCAACACAGAGGCTCCATTGGAGTTGATAGgtgtgtcattgggcaatgctcacactagaagcactagattttgtgtacca Alignment from Spaln_nt2Genome ACCTCCTGGAAAAAGCGTCTT-TTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGG cattggctttactgacatcaactagtgcgttcatttttactgactgttagACCTCCTGGAAGAAGCGTTTGCTTTATACTGTCCCAGAGCCGGGGATCCGGTCTTGGTCTTTCTTATTACAAAGATCATCAACACAGAGGCTCCATTGGAGTTGATAGgtgtgtcattgggcaatgctcacactagaagcactagattttgtgtacca Alignment from Pairagon ACCTCCTGGAAAAAGCGTCT-TTTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGG cattggctttactgacatcaactagtgcgttcatttttactgactgttagACCTCCTGGAAGAAGCGTTTGCTTTATACTGTCCCAGAGCCGGGGATCCGGTCTTGGTCTTTCTTATTACAAAGATCATCAACACAGAGGCTCCATTGGAGTTGATAGgtgtgtcattgggcaatgctcacactagaagcactagattttgtgtacca Alignment from Exonerate_protein2genome ACCTCCTGGAAAAAGCGTCTT-TTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGG cattggctttactgacatcaactagtgcgttcatttttactgactgttagACCTCCTGGAAGAAGCGTTTGCTTTATACTGTCCCAGAGCCGGGGATCCGGTCTTGGTCTTTCTTATTACAAAGATCATCAACACAGAGGCTCCATTGGAGTTGATAGgtgtgtcattgggcaatgctcacactagaagcactagattttgtgtacca Alignment from Exonerate_coding2genome cattggctttactgacatcaactagtgcgttcatttttactgactgttagacctcctggaagaagcgtttgctttatactgtcccagagccggggatccggtcttggtctttcttattacaaagatcatcaacacagaggctccattggagttgataggtgtgtcattgggcaatgctcacactagaagcactagattttgtgtacca Alignment from GeneWise ACCTCCTGGAAAAAGCGT-CTTTTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGG cattggctttactgacatcaactagtgcgttcatttttactgactgttagACCTCCTGGAAGAAGCGTTTGCTTTATACTGTCCCAGAGCCGGGGATCCGGTCTTGGTCTTTCTTATTACAAAGATCATCAACACAGAGGCTCCATTGGAGTTGATAGgtgtgtcattgggcaatgctcacactagaagcactagattttgtgtacca #### Pnlip_ID12752_11 --> 1 - 2 Original Alignment gGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCA-TCAAGGATCACAGTGGAAAGAAATGATGGCAGAgt ccaccagggacaagagaaatggctcaagttctctcctttgcccaacccagg------------------------GATGGCAATGAATTTGAGTCTGAA------GTTGGAGACTTGCAGAGGGTCAAATTTATTGGC---AACAATGTAATTAACCCAACACTTCCGAGAGTGGGGGCACTCAGGGATTACTGTTGAAAGAAATGATGGGAGAgtgtaagttacctgtgtaccaaaagacagcagggtgtagtttaaagtcatat Alignment from CESAR gGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCA-TCAAGGATCACAGTGGAAAGAAATGATGGCAGAgt ccaccagggacaagagaaatggctcaagttctctcctttgcccaacccaggGAT------------------------GGCAATGAATTTGAGTCT------GAAGTTGGAGACTTGCAGAGGGTCAAATTTATT---GGCAACAATGTAATTAACCCAACACTTCCGAGAGTGGGGGCACTCAGGGATTACTGTTGAAAGAAATGATGGGAGAgtgtaagttacctgtgtaccaaaagacagcagggtgtagtttaaagtcatat Alignment from Spaln_aa2Genome TCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGG-ATCACAGTGGAAAGAAATGATGGCAGAGTG---TTCAACTTCTGTAGTCAA---------------------------- ccaccagggacaagagaaatggctcaagttctctcctttgcccaacccagGGATGGCAATGAATTTGAGTCT------GAAGTTGGAGACTTGCAGAGGGTCAAATTTATTGGC---AACAATGTAATTAACCCAACACTTCCGAGAGTGGGGGCACTCAGGgATTACTGTTGAAAGAAATGATGGGAGAGTGTAAGTTACCTGTGTACCAAAAGACAGCAGGGTGTAGTTTAAAGTCATAT Alignment from Spaln_nt2Genome TCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCA-TCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT ccaccagggacaagagaaatggctcaagttctctcctttgcccaacccagGGATGGCAATGAATTTGAGTCT------GAAGTTGGAGACTTGCAGAGGGTCAAATTTATTGG---CAACAATGTAATTAACCCAACACTTCCGAGAGTGGGGGCACTCAGGGATTACTGTTGAAAGAAATGATGGGAGAGTgtaagttacctgtgtaccaaaagacagcagggtgtagtttaaagtcatat Alignment from Pairagon GGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCA-TCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT ccaccagggacaagagaaatggctcaagttctctcctttgcccaacccagGG------------------------ATGGCAATGAATTTGAGTCT------GAAGTTGGAGACTTGCAGAGGGTCAAATTTATTGG---CAACAATGTAATTAACCCAACACTTCCGAGAGTGGGGGCACTCAGGGATTACTGTTGAAAGAAATGATGGGAGAGTgtaagttacctgtgtaccaaaagacagcagggtgtagtttaaagtcatat Alignment from Exonerate_protein2genome CAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGG-ATCACAGTGGAAAGAAATGATGGCAGAGT ccaccagggacaagagaaatggctcaagttctctcctttgcccaacccagGGATGGCAATGAATTTGAGTCTGAAGTTGGAGACTTGCAGAGGGTCAAATTTATTGGC---AACAATGTAATTAACCCAACACTTCCGAGAGTGGGGGCACTCAGGGATTACTGTTGAAAGAAATGATGGGAGAGTgtaagttacctgtgtaccaaaagacagcagggtgtagtttaaagtcatat Alignment from Exonerate_coding2genome CAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGG-ATCACAGTGGAAAGAAATGATGGCAGAGT ccaccagggacaagagaaatggctcaagttctctcctttgcccaacccagGGATGGCAATGAATTTGAGTCTGAAGTTGGAGACTTGCAGAGGGTCAAATTTATTGGC---AACAATGTAATTAACCCAACACTTCCGAGAGTGGGGGCACTCAGGGATTACTGTTGAAAGAAATGATGGGAGAGTgtaagttacctgtgtaccaaaagacagcagggtgtagtttaaagtcatat Alignment from GeneWise ----------------AAGGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGG-ATCACAGTGGAAAGAAATGATGGCAGAGTG ccaccagggacaagAGAAATGGCTCAAGTTCTCTCCTTTGCCCAACCCAGGGATGGC------AATGAATTTGAGTCTGAAGTT------GGAGACTTGCAGAGGGTCAAATTTATTGGC---AACAATGTAATTAACCCAACACTTCCGAGAGTGGGGGCACTCAGGGATTACTGTTGAAAGAAATGATGGGAGAGTGtaagttacctgtgtaccaaaagacagcagggtgtagtttaaagtcatat #### Pnliprp1_ID12769_6 --> 2 - 1 Original Alignment gaCTGGATCCTGTAGAAGCAAATTTTGAGGGAACCCCTGAAGAGGTCCGGCTCGACCCCTCGGATGCTGACTTTGTTGATGTGATTCACACAGATGCAGCTCCC-TTGATCCCATTCTTGg actctgaactctcatgctgctacatttgttgttgatgaatttccttttaggaCTGGATTCTGTAGAAGCAAATTTTGAGGGAACCCCTGAAGAGATTCGGCTGGACCCCTCAGATGCTGACTTTGTCGATGTGATTCACACAGATGCAGCTGCCCTTGGTCCCATCCTTGggtgagtcctggctccctgtaatcttctaccaggtatagcaagacctgacc Alignment from CESAR gaCTGGATCCTGTAGAAGCAAATTTTGAGGGAACCCCTGAAGAGGTCCGGCTCGACCCCTCGGATGCTGACTTTGTTGATGTGATTCACACAGATGCAGCT-CCCTTGATCCCATTCTTGg actctgaactctcatgctgctacatttgttgttgatgaatttccttttaggaCTGGATTCTGTAGAAGCAAATTTTGAGGGAACCCCTGAAGAGATTCGGCTGGACCCCTCAGATGCTGACTTTGTCGATGTGATTCACACAGATGCAGCTGCCCTTGGTCCCATCCTTGggtgagtcctggctccctgtaatcttctaccaggtatagcaagacctgacc Alignment from Spaln_aa2Genome GACTGGATCCTGTAGAAGCAAATTTTGAGGGAACCCCTGAAGAGGTCCGGCTCGACCCCTCGGATGCTGACTTTGTTGATGTGATTCACACAGATGCAGCT-CCCTTGATCCCATTCTTGG actctgaactctcatgctgctacatttgttgttgatgaatttccttttagGACTGGATTCTGTAGAAGCAAATTTTGAGGGAACCCCTGAAGAGATTCGGCTGGACCCCTCAGATGCTGACTTTGTCGATGTGATTCACACAGATGCAGCTgCCCTTGGTCCCATCCTTGGgtgagtcctggctccctgtaatcttctaccaggtatagcaagacctgacc Alignment from Spaln_nt2Genome GACTGGATCCTGTAGAAGCAAATTTTGAGGGAACCCCTGAAGAGGTCCGGCTCGACCCCTCGGATGCTGACTTTGTTGATGTGATTCACACAGATGCAGCT-CCCTTGATCCCATTCTTGG actctgaactctcatgctgctacatttgttgttgatgaatttccttttagGACTGGATTCTGTAGAAGCAAATTTTGAGGGAACCCCTGAAGAGATTCGGCTGGACCCCTCAGATGCTGACTTTGTCGATGTGATTCACACAGATGCAGCTGCCCTTGGTCCCATCCTTGGgtgagtcctggctccctgtaatcttctaccaggtatagcaagacctgacc Alignment from Pairagon GACTGGATCCTGTAGAAGCAAATTTTGAGGGAACCCCTGAAGAGGTCCGGCTCGACCCCTCGGATGCTGACTTTGTTGATGTGATTCACACAGATGCAGCT-CCCTTGATCCCATTCTTGG actctgaactctcatgctgctacatttgttgttgatgaatttccttttagGACTGGATTCTGTAGAAGCAAATTTTGAGGGAACCCCTGAAGAGATTCGGCTGGACCCCTCAGATGCTGACTTTGTCGATGTGATTCACACAGATGCAGCTGCCCTTGGTCCCATCCTTGGgtgagtcctggctccctgtaatcttctaccaggtatagcaagacctgacc Alignment from Exonerate_protein2genome GACTGGATCCTGTAGAAGCAAATTTTGAGGGAACCCCTGAAGAGGTCCGGCTCGACCCCTCGGATGCTGACTTTGTTGATGTGATTCACACAGATGCAGCTCCCTTGATCCCATTCTTGGG actctgaactctcatgctgctacatttgttgttgatgaatttccttttagGACTGGATTCTGTAGAAGCAAATTTTGAGGGAACCCCTGAAGAGATTCGGCTGGACCCCTCAGATGCTGACTTTGTCGATGTGATTCACACAGATGCAGCTGCCCTTGGTCCCATCCTTGGgtgagtcctggctccctgtaatcttctaccaggtatagcaagacctgacc Alignment from Exonerate_coding2genome GACTGGATCCTGTAGAAGCAAATTTTGAGGGAACCCCTGAAGAGGTCCGGCTCGACCCCTCGGATGCTGACTTTGTTGATGTGATTCACACAGATGCAGCTCCCTTGATCCCATTCTTGGG actctgaactctcatgctgctacatttgttgttgatgaatttccttttagGACTGGATTCTGTAGAAGCAAATTTTGAGGGAACCCCTGAAGAGATTCGGCTGGACCCCTCAGATGCTGACTTTGTCGATGTGATTCACACAGATGCAGCTGCCCTTGGTCCCATCCTTGGgtgagtcctggctccctgtaatcttctaccaggtatagcaagacctgacc Alignment from GeneWise GACTGGATCCTGTAGAAGCAAATTTTGAGGGAACCCCTGAAGAGGTCCGGCTCGACCCCTCGGATGCTGACTTTGTTGATGTGATTCACACAGATGCAGCTCCCTTGATCCCATTCTTG-- actctgaactctcatgctgctacatttgttgttgatgaatttccttttagGACTGGATTCTGTAGAAGCAAATTTTGAGGGAACCCCTGAAGAGATTCGGCTGGACCCCTCAGATGCTGACTTTGTCGATGTGATTCACACAGATGCAGCTGCCCTTGGTCCCATCCTTGGgtgagtcctggctccctgtaatcttctaccaggtatagcaagacctgacc #### Pola2_ID1324_16 --> 1 - 2 Original Alignment cTCTTCCGGGACGTCAGACAGATTCAGCCGAGTC-CTTAAGCATATCCTGACGCAGAGAag gatgaaatgatgaacttgccttattcccgtgctaatcttgtcacacccagcTCCTTGGGGACACCCGATAGATTCAGCAGAGTCCCTCAAGCACATACTGACACAGAGGaggtcagttaaacagcaaagtgaatcatacgtactagcaaggacatttaaac Alignment from CESAR cTCTTCCGGGACGTCAGACAGATTCAGCCGAGTC-CTTAAGCATATCCTGACGCAGAGAag gatgaaatgatgaacttgccttattcccgtgctaatcttgtcacacccagcTCCTTGGGGACACCCGATAGATTCAGCAGAGTCCCTCAAGCACATACTGACACAGAGGaggtcagttaaacagcaaagtgaatcatacgtactagcaaggacatttaaac Alignment from Spaln_aa2Genome CTCTTCCGGGACGTCAGACAGATTCAGCCGAGTC-CTTAAGCATATCCTGACGCAGAGAAG gatgaaatgatgaacttgccttattcccgtgctaatcttgtcacacccagCTCCTTGGGGACACCCGATAGATTCAGCAGAGTCcCTCAAGCACATACTGACACAGAGGAGgtcagttaaacagcaaagtgaatcatacgtactagcaaggacatttaaac Alignment from Spaln_nt2Genome CTCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTT-AAGCATATCCTGACGCAGAGAAG gatgaaatgatgaacttgccttattcccgtgctaatcttgtcacacccagCTCCTTGGGGACACCCGATAGATTCAGCAGAGTCCCTCAAGCACATACTGACACAGAGGAGgtcagttaaacagcaaagtgaatcatacgtactagcaaggacatttaaac Alignment from Pairagon CTCTTCCGGGACGTCAGACAGATTCAGCCGAGT-CCTTAAGCATATCCTGACGCAGAGAAG gatgaaatgatgaacttgccttattcccgtgctaatcttgtcacacccagCTCCTTGGGGACACCCGATAGATTCAGCAGAGTCCCTCAAGCACATACTGACACAGAGGAGgtcagttaaacagcaaagtgaatcatacgtactagcaaggacatttaaac Alignment from Exonerate_protein2genome CTCTTCCGGGACGTCAGACAGATTCAGCCGAGTC-CTTAAGCATATCCTGACGCAGAGAAG gatgaaatgatgaacttgccttattcccgtgctaatcttgtcacacccagCTCCTTGGGGACACCCGATAGATTCAGCAGAGTCCCTCAAGCACATACTGACACAGAGGAGgtcagttaaacagcaaagtgaatcatacgtactagcaaggacatttaaac Alignment from Exonerate_coding2genome gatgaaatgatgaacttgccttattcccgtgctaatcttgtcacacccagctccttggggacacccgatagattcagcagagtccctcaagcacatactgacacagaggaggtcagttaaacagcaaagtgaatcatacgtactagcaaggacatttaaac Alignment from GeneWise CTCTTCCGGGACGTCAGACAGATTCAGCCGA-GTCCTTAAGCATATCCTGACGCAGAGAAG gatgaaatgatgaacttgccttattcccgtgctaatcttgtcacacccagCTCCTTGGGGACACCCGATAGATTCAGCAGAGTCCCTCAAGCACATACTGACACAGAGGAGgtcagttaaacagcaaagtgaatcatacgtactagcaaggacatttaaac #### Pola2_ID1332_9 --> 0 - 0 Original Alignment GTTGTAATTATGGAAGGATTCAACACCACTGGTAGGAGACTT-ACTGCCACCAAACTCTATGAG atcctcaggtcacacctgtcatggccacttcctccttctttacctcctagGTTGTGATTATGGAAGGATTCAACACTACTGGTAAAAGACTTCACTGCCACCAAACTCTATGAGgtatgtaatgggccaacctttctctactacaaaataaaatgagtcaggta Alignment from CESAR GTTGTAATTATGGAAGGATTCAACACCACTGGTAGGAGACTT-ACTGCCACCAAACTCTATGAG atcctcaggtcacacctgtcatggccacttcctccttctttacctcctagGTTGTGATTATGGAAGGATTCAACACTACTGGTAAAAGACTTCACTGCCACCAAACTCTATGAGgtatgtaatgggccaacctttctctactacaaaataaaatgagtcaggta Alignment from Spaln_aa2Genome GTTGTAATTATGGAAGGATTCAACACCACTGGTAGGAGACTT-ACTGCCACCAAACTCTATGAG atcctcaggtcacacctgtcatggccacttcctccttctttacctcctagGTTGTGATTATGGAAGGATTCAACACTACTGGTAAAAGACTTcACTGCCACCAAACTCTATGAGgtatgtaatgggccaacctttctctactacaaaataaaatgagtcaggta Alignment from Spaln_nt2Genome GTTGTAATTATGGAAGGATTCAACACCACTGGTAGGAGACTT-ACTGCCACCAAACTCTATGAG atcctcaggtcacacctgtcatggccacttcctccttctttacctcctagGTTGTGATTATGGAAGGATTCAACACTACTGGTAAAAGACTTCACTGCCACCAAACTCTATGAGgtatgtaatgggccaacctttctctactacaaaataaaatgagtcaggta Alignment from Pairagon GTTGTAATTATGGAAGGATTCAACACCACTGGTAGGAGACTT-ACTGCCACCAAACTCTATGAG atcctcaggtcacacctgtcatggccacttcctccttctttacctcctagGTTGTGATTATGGAAGGATTCAACACTACTGGTAAAAGACTTCACTGCCACCAAACTCTATGAGgtatgtaatgggccaacctttctctactacaaaataaaatgagtcaggta Alignment from Exonerate_protein2genome GTTGTAATTATGGAAGGATTCAACACCACTGGTAGGAGACTT-ACTGCCACCAAACTCTATGAGGGCGTGCCACTTCCGTTCTATCAGCCTACTGAA atcctcaggtcacacctgtcatggccacttcctccttctttacctcctagGTTGTGATTATGGAAGGATTCAACACTACTGGTAAAAGACTTCACTGCCACCAAACTCTATGAGGTATGTAATGGGCCAACCTTTCTCTACTACAAAataaaatgagtcaggta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTTGTAATTATGGAAGGATTCAACACCACTGGTAGGAGA-CTTACTGCCACCAAACTCTATGAG atcctcaggtcacacctgtcatggccacttcctccttctttacctcctagGTTGTGATTATGGAAGGATTCAACACTACTGGTAAAAGACTTCACTGCCACCAAACTCTATGAGgtatgtaatgggccaacctttctctactacaaaataaaatgagtcaggta #### Pold4_ID437_2 --> 2 - 1 Original Alignment ggGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTG-AGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAg taggcagataagaagattagacagttcatttctctcttcctgatccctagggGAAGACACACAGTCCCTCAGCCAGGAGGCGACTGCATTGGAGTTTCTACCGGCAATCTGACTTGACATGGCAATATGGGCCTTGTACAggtgaggaacccggcttcccggcttctgcatagcaaaaggcaactaccgtc Alignment from CESAR ggGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTG-AGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAg taggcagataagaagattagacagttcatttctctcttcctgatccctagggGAAGACACACAGTCCCTCAGCCAGGAGGCGACTGCATTGGAGTTTCTACCGGCAATCTGACTTGACATGGCAATATGGGCCTTGTACAggtgaggaacccggcttcccggcttctgcatagcaaaaggcaactaccgtc Alignment from Spaln_aa2Genome GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTG-AGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG taggcagataagaagattagacagttcatttctctcttcctgatccctagGGGAAGACACACAGTCCCTCAGCCAGGAGGCGACTGCATTGGAGTTTCTAcCGGCAATCTGACTTGACATGGCAATATGGGCCTTGTACAGgtgaggaacccggcttcccggcttctgcatagcaaaaggcaactaccgtc Alignment from Spaln_nt2Genome GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGA-GGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG taggcagataagaagattagacagttcatttctctcttcctgatccctagGGGAAGACACACAGTCCCTCAGCCAGGAGGCGACTGCATTGGAGTTTCTACCGGCAATCTGACTTGACATGGCAATATGGGCCTTGTACAGgtgaggaacccggcttcccggcttctgcatagcaaaaggcaactaccgtc Alignment from Pairagon GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGA-------------------GGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG taggcagataagaagattagacagttcatttctctcttcctgatccctagGGGAAGACACACAGTCCCTCAGCCAGGAGG------------------CGACTGCATTGGAGTTTCTACCGGCAATCTGACTTGACATGGCAATATGGGCCTTGTACAGgtgaggaacccggcttcccggcttctgcatagcaaaaggcaactaccgtc Alignment from Exonerate_protein2genome GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTG-AGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG taggcagataagaagattagacagttcatttctctcttcctgatccctagGGGAAGACACACAGTCCCTCAGCCAGGAGGCGACTGCATTGGAGTTTCTACCGGCAATCTGACTTGACATGGCAATATGGGCCTTGTACAGgtgaggaacccggcttcccggcttctgcatagcaaaaggcaactaccgtc Alignment from Exonerate_coding2genome GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTG-AGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG taggcagataagaagattagacagttcatttctctcttcctgatccctagGGGAAGACACACAGTCCCTCAGCCAGGAGGCGACTGCATTGGAGTTTCTACCGGCAATCTGACTTGACATGGCAATATGGGCCTTGTACAGgtgaggaacccggcttcccggcttctgcatagcaaaaggcaactaccgtc Alignment from GeneWise GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTG-CTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG taggcagataagaagattagacagttcatttctctcttcctgatccctagGGGAAGACACACAGTCCCTCAGCCAGGAGGCGACTGCATTGGAGTTTCTACCGGCAATCTGACTTGACATGGCAATATGGGCCTTGTACAGgtgaggaacccggcttcccggcttctgcatagcaaaaggcaactaccgtc #### Ppp1r14b_ID1940_3 --> 0 - 0 Original Alignment GAGCTGTTAGTTGACTGT-TACAAACCCACTGAG gaagatactggtggcccttagaccccagcctaccttgtgtgtgttctcagCAACTGTTAGTTGACTGCCTATAAGACCACTGAGgtaagttactacccttcccccaaggtatgaagctgttcctctaattctga Alignment from CESAR GAGCTGTTAGTTGACTGT-TACAAACCCACTGAG gaagatactggtggcccttagaccccagcctaccttgtgtgtgttctcagCAACTGTTAGTTGACTGCCTATAAGACCACTGAGgtaagttactacccttcccccaaggtatgaagctgttcctctaattctcc Alignment from Spaln_aa2Genome GAGCTGTTAGTTGACTGT-TACAAACCCACTGAG gaagatactggtggcccttagaccccagcctaccttgtgtgtgttctcagCAACTGTTAGTTGACTGCcTATAAGACCACTGAGgtaagttactacccttcccccaaggtatgaagctgttcctctaattctga Alignment from Spaln_nt2Genome GAGCTGTTAGTTGACTGT-TACAAACCCACTGAG gaagatactggtggcccttagaccccagcctaccttgtgtgtgttctcagCAACTGTTAGTTGACTGCCTATAAGACCACTGAGgtaagttactacccttcccccaaggtatgaagctgttcctctaattctga Alignment from Pairagon GAGCTGTTAGTTGACTG-TTACAAACCCACTGAG gaagatactggtggcccttagaccccagcctaccttgtgtgtgttctcagCAACTGTTAGTTGACTGCCTATAAGACCACTGAGgtaagttactacccttcccccaaggtatgaagctgttcctctaattctga Alignment from Exonerate_protein2genome GAGCTGTTAGTTGACTGT-TACAAACCCACTGAG gaagatactggtggcccttagaccccagcctaccttgtgtgtgttctcagCAACTGTTAGTTGACTGCCTATAAGACCACTGAGgtaagttactacccttcccccaaggtatgaagctgttcctctaattctga Alignment from Exonerate_coding2genome GAGCTGTTAGTTG gaagatactggtggcccttagaccccagcctaccttgtgtgtgttctcagcaactgttagttgactgcctataagaccactgaggtaagttactacccttcccccaaggtatgaagctgttCCTCTAATTCTGA Alignment from GeneWise ----------------CTGTTAGTTG gaagatactggtggcccttagaccccagcctaccttgtgtgtgttctcagcaactgttagttgactgcctataagaccactgaggtaagttactacccttcccccaagGTATGAAGCTGTTCCTCTAATTCTGA #### Ppp1r32_ID2842_9 --> 0 - 0 Original Alignment GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAG-TCTGTGGGGAACAAG ccacctctcatagtgtccaattgtacctccaccatgctgccctcacgcagGTTCCTGCGTTGGCACGTCAGTCTGCCAGCATTAGCCATAGATTCTACCGTGCTCCGCAGCGAATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGCACTGTGGGGAATAAAgtgagacctcaaacacaagtcctatggtggcatcccagattatgggatac Alignment from CESAR GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAG-TCTGTGGGGAACAAG ccacctctcatagtgtccaattgtacctccaccatgctgccctcacgcagGTTCCTGCGTTGGCACGTCAGTCTGCCAGCATTAGCCATAGATTCTACCGTGCTCCGCAGCGAATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGCACTGTGGGGAATAAAgtgagacctcaaacacaagtcctatggtggcatcccagattatgggatac Alignment from Spaln_aa2Genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAG-TCTGTGGGGAACAAG ccacctctcatagtgtccaattgtacctccaccatgctgccctcacgcagGTTCCTGCGTTGGCACGTCAGTCTGCCAGCATTAGCCATAGATTCTACCGTGCTCCGCAGCGAATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGcACTGTGGGGAATAAAgtgagacctcaaacacaagtcctatggtggcatcccagattatgggatac Alignment from Spaln_nt2Genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGT-CTGTGGGGAACAAG ccacctctcatagtgtccaattgtacctccaccatgctgccctcacgcagGTTCCTGCGTTGGCACGTCAGTCTGCCAGCATTAGCCATAGATTCTACCGTGCTCCGCAGCGAATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGCACTGTGGGGAATAAAgtgagacctcaaacacaagtcctatggtggcatcccagattatgggatac Alignment from Pairagon GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGT-CTGTGGGGAACAAG ccacctctcatagtgtccaattgtacctccaccatgctgccctcacgcagGTTCCTGCGTTGGCACGTCAGTCTGCCAGCATTAGCCATAGATTCTACCGTGCTCCGCAGCGAATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGCACTGTGGGGAATAAAgtgagacctcaaacacaagtcctatggtggcatcccagattatgggatac Alignment from Exonerate_protein2genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAG-TCTGTGGGGAACAAG ccacctctcatagtgtccaattgtacctccaccatgctgccctcacgcagGTTCCTGCGTTGGCACGTCAGTCTGCCAGCATTAGCCATAGATTCTACCGTGCTCCGCAGCGAATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGCACTGTGGGGAATAAAgtgagacctcaaacacaagtcctatggtggcatcccagattatgggatac Alignment from Exonerate_coding2genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAGG ccacctctcatagtgtccaattgtacctccaccatgctgccctcacgcagGTTCCTGCGTTGGCACGTCAGTCTGCCAGCATTAGCCATAGATTCTACCGTGCTCCGCAGCGAATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGCACTGTGGGGAATAAAgtgagacctcaaacacaagtcctatggtggcatcccagattatgggatac Alignment from GeneWise GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAG-TCTGTGGGGAACAAG ccacctctcatagtgtccaattgtacctccaccatgctgccctcacgcagGTTCCTGCGTTGGCACGTCAGTCTGCCAGCATTAGCCATAGATTCTACCGTGCTCCGCAGCGAATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGCACTGTGGGGAATAAAgtgagacctcaaacacaagtcctatggtggcatcccagattatgggatac #### Ppp1r32_ID2846_5 --> 0 - 1 Original Alignment GGTCCACGCTTCATG-ACTTCTGAATACAATTCCAAGTATATCAAGGAGTCTCCAAACCACCCAg gcagttggtcgaactcggattctatgaactgagacctatcccacccacagGGACCATGGTTCATGCCCTTCTGAATACAATGCTAAGTATATAAGGGAATCACCAATTCACCCTggtaaggccttgcaatttgcttttgtttgtgtactatcaaggcccagaagt Alignment from CESAR GGTCCACGCTTCATG-ACTTCTGAATACAATTCCAAGTATATCAAGGAGTCTCCAAACCACCCAg gcagttggtcgaactcggattctatgaactgagacctatcccacccacagGGACCATGGTTCATGCCCTTCTGAATACAATGCTAAGTATATAAGGGAATCACCAATTCACCCTggtaaggccttgcaatttgcttttgtttgtgtactatcaaggcccagaagt Alignment from Spaln_aa2Genome GGTCCACGCTTCATG-ACTTCTGAATACAATTCCAAGTATATCAAGGAGTCTCCAAACCACCCAG gcagttggtcgaactcggattctatgaactgagacctatcccacccacagGGACCATGGTTCATGcCCTTCTGAATACAATGCTAAGTATATAAGGGAATCACCAATTCACCCTGgtaaggccttgcaatttgcttttgtttgtgtactatcaaggcccagaagt Alignment from Spaln_nt2Genome GGTCCACGCTTCATGAC-TTCTGAATACAATTCCAAGTATATCAAGGAGTCTCCAAACCACCCAG gcagttggtcgaactcggattctatgaactgagacctatcccacccacagGGACCATGGTTCATGCCCTTCTGAATACAATGCTAAGTATATAAGGGAATCACCAATTCACCCTGgtaaggccttgcaatttgcttttgtttgtgtactatcaaggcccagaagt Alignment from Pairagon GGTCCACGCTTCATG-ACTTCTGAATACAATTCCAAGTATATCAAGGAGTCTCCAAACCACCCAG gcagttggtcgaactcggattctatgaactgagacctatcccacccacagGGACCATGGTTCATGCCCTTCTGAATACAATGCTAAGTATATAAGGGAATCACCAATTCACCCTGgtaaggccttgcaatttgcttttgtttgtgtactatcaaggcccagaagt Alignment from Exonerate_protein2genome GGTCCACGCTTCATG-ACTTCTGAATACAATTCCAAGTATATCAAGGAGTCTCCAAACCACCCAG gcagttggtcgaactcggattctatgaactgagacctatcccacccacagGGACCATGGTTCATGCCCTTCTGAATACAATGCTAAGTATATAAGGGAATCACCAATTCACCCTGgtaaggccttgcaatttgcttttgtttgtgtactatcaaggcccagaagt Alignment from Exonerate_coding2genome GGTCCACGCTTCATG-ACTTCTGAATACAATTCCAAGTATATCAAGGAGTCTCCAAACCACCCAG gcagttggtcgaactcggattctatgaactgagacctatcccacccacagGGACCATGGTTCATGCCCTTCTGAATACAATGCTAAGTATATAAGGGAATCACCAATTCACCCTGgtaaggccttgcaatttgcttttgtttgtgtactatcaaggcccagaagt Alignment from GeneWise GGTCCACGCTTCATG-ACTTCTGAATACAATTCCAAGTATATCAAGGAGTCTCCAAACCACCCAG gcagttggtcgaactcggattctatgaactgagacctatcccacccacagGGACCATGGTTCATGCCCTTCTGAATACAATGCTAAGTATATAAGGGAATCACCAATTCACCCTGgtaaggccttgcaatttgcttttgtttgtgtactatcaaggcccagaagt #### Pprc1_ID9716_4 --> 0 - 0 Original Alignment TGCTCGTGTCCCCTCGGGAGAGCTCCTCT CTGCACAAGCTGCTCAATCTCTCTCGGACACCC-CCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG TACTGGTGTCAGCTGGGGAGAGCTCTTCtgtaagatcaccctccctttatgagtcaccctttctctttcagTTGCACAAGCTCCCTGAATTTATACCACACACCTCCAGAATGTGATCTTGTTACCCCAATTGACCCTCTGGGGCCTAGCACTGGGAGTAGTCGAGTGAGTGGTgtacacatctactcaccacatcttcctct Alignment from CESAR ACACCATTCCTGATTCAGAGCTGCTCGTGTCCCCTCGGGAGAGCTC CTGCACAAGCTG-CTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG ACACTATCTCTGATTCTGGGCTACTGGTGTCAGCTGGGGAGAGCTCttatgagtcaccctttctctttcagTTGCACAAGCTCCCTGAATTTATACCACACACCTCCAGAATGTGATCTTGTTACCCCAATTGACCCTCTGGGGCCTAGCACTGGGAGTAGTCGAGTGAGTGGTgtacacatctactcaccacatcttcctct Alignment from Spaln_aa2Genome TGCTCGTGTCCCCTCGGGAGAGCTCCTCT CTGCACAAGCTG-CTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG TACTGGTGTCAGCTGGGGAGAGCTCTTCTgtaagatcaccctccctttatgagtcaccctttctctttcagTTGCACAAGCTCcCTGAATTTATACCACACACCTCCAGAATGTGATCTTGTTACCCCAATTGACCCTCTGGGGCCTAGCACTGGGAGTAGTCGAGTGAGTGGTgtacacatctactcaccacatcttcctct Alignment from Spaln_nt2Genome TGCTCGTGTCCCCTCGGGAGAGCTCCTCT CTGCACAAGCTGC-TCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG TACTGGTGTCAGCTGGGGAGAGCTCTTCTgtaagatcaccctccctttatgagtcaccctttctctttcagTTGCACAAGCTCCCTGAATTTATACCACACACCTCCAGAATGTGATCTTGTTACCCCAATTGACCCTCTGGGGCCTAGCACTGGGAGTAGTCGAGTGAGTGGTgtacacatctactcaccacatcttcctct Alignment from Pairagon TGCTCGTGTCCCCTCGGGAGAGCTCCTCT CTGCACAAGCT-GCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG TACTGGTGTCAGCTGGGGAGAGCTCTTCTgtaagatcaccctccctttatgagtcaccctttctctttcagTTGCACAAGCTCCCTGAATTTATACCACACACCTCCAGAATGTGATCTTGTTACCCCAATTGACCCTCTGGGGCCTAGCACTGGGAGTAGTCGAGTGAGTGGTgtacacatctactcaccacatcttcctct Alignment from Exonerate_protein2genome TGCTCGTGTCCCCTCGGGAGAGCTCCTCT CTGCACAAGCTG-CTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG TACTGGTGTCAGCTGGGGAGAGCTCTTCTgtaagatcaccctccctttatgagtcaccctttctctttcagTTGCACAAGCTCCCTGAATTTATACCACACACCTCCAGAATGTGATCTTGTTACCCCAATTGACCCTCTGGGGCCTAGCACTGGGAGTAGTCGAGTGAGTGGTgtacacatctactcaccacatcttcctct Alignment from Exonerate_coding2genome TGCTCGTGTCCCCTCGGGAGAGCTCCTCT CTGCACAAGCTG-CTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG TACTGGTGTCAGCTGGGGAGAGCTCTTCTgtaagatcaccctccctttatgagtcaccctttctctttcagTTGCACAAGCTCCCTGAATTTATACCACACACCTCCAGAATGTGATCTTGTTACCCCAATTGACCCTCTGGGGCCTAGCACTGGGAGTAGTCGAGTGAGTGGTgtacacatctactcaccacatcttcctct Alignment from GeneWise TGCTCGTGTCCCCTCGGGAGAGCTCCTCT------------------------------------------CTGCACAAGCTG-CTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG TACTGGTGTCAGCTGGGGAGAGCTCTTCTGTAAGATCACCCTCCCTTTATGAGTCACCCTTTCTCTTTCAGTTGCACAAGCTCCCTGAATTTATACCACACACCTCCAGAATGTGATCTTGTTACCCCAATTGACCCTCTGGGGCCTAGCACTGGGAGTAGTCGAGTGAGTGGTgtacacatctactcaccacatcttcctct #### Prdx5_ID1854_3 --> 0 - 0 Original Alignment ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGA-GCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG gctagccccagggcatgcactgatagtgtaaggtcccaccctgcccccagGCCCACCTGCCTGGCTTGGTAGAACAGGCTGGACGCCCGGAAAGCTAAAGGTGCACAGGTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCCCATGAAGCAGAAGGTAAAgtgagtgatccttcagctagttgtgatagcctaggaccagattatgattt Alignment from CESAR ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGA-GCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG gctagccccagggcatgcactgatagtgtaaggtcccaccctgcccccagGCCCACCTGCCTGGCTTGGTAGAACAGGCTGGACGCCCGGAAAGCTAAAGGTGCACAGGTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCCCATGAAGCAGAAGGTAAAgtgagtgatccttcagctagttgtgatagcctaggaccagattatgattt Alignment from Spaln_aa2Genome ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGA-GCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG gctagccccagggcatgcactgatagtgtaaggtcccaccctgcccccagGCCCACCTGCCTGGCTTGGTAGAACAGGCTGGAcGCCCGGAAAGCTAAAGGTGCACAGGTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCCCATGAAGCAGAAGGTAAAgtgagtgatccttcagctagttgtgatagcctaggaccagattatgattt Alignment from Spaln_nt2Genome ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGA-GCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG gctagccccagggcatgcactgatagtgtaaggtcccaccctgcccccagGCCCACCTGCCTGGCTTGGTAGAACAGGCTGGACGCCCGGAAAGCTAAAGGTGCACAGGTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCCCATGAAGCAGAAGGTAAAgtgagtgatccttcagctagttgtgatagcctaggaccagattatgattt Alignment from Pairagon ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGA-GCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG gctagccccagggcatgcactgatagtgtaaggtcccaccctgcccccagGCCCACCTGCCTGGCTTGGTAGAACAGGCTGGACGCCCGGAAAGCTAAAGGTGCACAGGTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCCCATGAAGCAGAAGGTAAAgtgagtgatccttcagctagttgtgatagcctaggaccagattatgattt Alignment from Exonerate_protein2genome ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGA-GCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG gctagccccagggcatgcactgatagtgtaaggtcccaccctgcccccagGCCCACCTGCCTGGCTTGGTAGAACAGGCTGGACGCCCGGAAAGCTAAAGGTGCACAGGTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCCCATGAAGCAGAAGGTAAAgtgagtgatccttcagctagttgtgatagcctaggaccagattatgattt Alignment from Exonerate_coding2genome ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGA-GCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG gctagccccagggcatgcactgatagtgtaaggtcccaccctgcccccagGCCCACCTGCCTGGCTTGGTAGAACAGGCTGGACGCCCGGAAAGCTAAAGGTGCACAGGTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCCCATGAAGCAGAAGGTAAAgtgagtgatccttcagctagttgtgatagcctaggaccagattatgattt Alignment from GeneWise ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCT-CTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG gctagccccagggcatgcactgatagtgtaaggtcccaccctgcccccagGCCCACCTGCCTGGCTTGGTAGAACAGGCTGGACGCCCGGAAAGCTAAAGGTGCACAGGTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCCCATGAAGCAGAAGGTAAAgtgagtgatccttcagctagttgtgatagcctaggaccagattatgattt #### Prpf19_ID3044_3 --> 2 - 0 Original Alignment ttGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTG-CAGGATGAGTGG GATGCAGTCATGCTGCA gatgtgagagtttgcatgcaaggatatcatctttctcctctggattgcagttGCACATCCAATTCGACCCAAGCCTCCCTCTGCAACCAGTATTCCAGCTATCCTAAAGGCCTTACCAAGATGAATGGgtaaggaaactgctggcctatcccaacccacagGATGCAGTCATGCTGCA Alignment from CESAR ttGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTG-CAGGATGAGTGG GATGCAGTCATGCTGCA gatgtgagagtttgcatgcaaggatatcatctttctcctctggattgcagttGCACATCCAATTCGACCCAAGCCTCCCTCTGCAACCAGTATTCCAGCTATCCTAAAGGCCTTACCAAGATGAATGGgtaaggaaacttttcccttttgttctcctccagGATGCAGTCATGCTGCA Alignment from Spaln_aa2Genome TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTG-CAGGATGAGTGG GATGCAGTCATGCTGCA gatgtgagagtttgcatgcaaggatatcatctttctcctctggattgcagTTGCACATCCAATTCGACCCAAGCCTCCCTCTGCAACCAGTATTCCAGCTATCCTAAAGGCCTTAcCAAGATGAATGGgtaaggaaactgctggcctatcccaacccacagGATGCAGTCATGCTGCA Alignment from Spaln_nt2Genome TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGC-AGGATGAGTGG GATGCAGTCATGCTGCA gatgtgagagtttgcatgcaaggatatcatctttctcctctggattgcagTTGCACATCCAATTCGACCCAAGCCTCCCTCTGCAACCAGTATTCCAGCTATCCTAAAGGCCTTACCAAGATGAATGGgtaaggaaactgctggcctatcccaacccacagGATGCAGTCATGCTGCA Alignment from Pairagon TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTG-CAGGATGAGTGG GATGCAGTCATGCTGCA gatgtgagagtttgcatgcaaggatatcatctttctcctctggattgcagTTGCACATCCAATTCGACCCAAGCCTCCCTCTGCAACCAGTATTCCAGCTATCCTAAAGGCCTTACCAAGATGAATGGgtaaggaaactgctggcctatcccaacccacagGATGCAGTCATGCTGCA Alignment from Exonerate_protein2genome TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTG-CAGGATGAGTGG GATGCAGTCATGCTGCA gatgtgagagtttgcatgcaaggatatcatctttctcctctggattgcagTTGCACATCCAATTCGACCCAAGCCTCCCTCTGCAACCAGTATTCCAGCTATCCTAAAGGCCTTACCAAGATGAATGGgtaaggaaactgctggcctatcccaacccacagGATGCAGTCATGCTGCA Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCC-TTGCAGGATGAGTGG---------------------------------GATGCAGTCATGCTGCA gatgtgagagtttgcatgcaaggatatcatctttctcctctggattgcagTTGCACATCCAATTCGACCCAAGCCTCCCTCTGCAACCAGTATTCCAGCTATCCTAAAGGCCTTACCAAGATGAATGGGTAAGGAAACTGCTGGCCTATCCCAACCCACAGGATGCAGTCATGCTGCA #### Prpf19_ID3045_4 --> 0 - 1 Original Alignment CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAG-CAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAg ctCTGGCTA CCTTACAAGATGAATGGgtgagcaaacttttcccttttgttctcctccagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAACCAACTGCAAACTACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAggtgagtctcattctactgtatggcccccttctttattgcagctTTGGCCA Alignment from CESAR CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAG-CAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAg ctCTGGCTA CCTTACAAGATGAATGGgtaaggaaacttttcccttttgttctcctccagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAACCAACTGCAAACTACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAggtgagtctcattctactgtcagtgatgtcacctgtccccagctTTGGCCA Alignment from Spaln_aa2Genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAG-CAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CTCTGGCTA CCTTACAAGATGAATGGgtgagcaaacttttcccttttgttctcctccagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAAcCAACTGCAAACTACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtgagtctcattctactgtatggcccccttctttattgcagCTTTGGCCA Alignment from Spaln_nt2Genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGC-AACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CTCTGGCTA CCTTACAAGATGAATGGgtgagcaaacttttcccttttgttctcctccagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAACCAACTGCAAACTACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtgagtctcattctactgtatggcccccttctttattgcagCTTTGGCCA Alignment from Pairagon CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAG-CAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CTCTGGCTA CCTTACAAGATGAATGGgtgagcaaacttttcccttttgttctcctccagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAACCAACTGCAAACTACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtgagtctcattctactgtatggcccccttctttattgcagCTTTGGCCA Alignment from Exonerate_protein2genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAG-CAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CTCTGGCTA CCTTACAAGATGAATGGgtgagcaaacttttcccttttgttctcctccagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAACCAACTGCAAACTACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtgagtctcattctactgtatggcccccttctttattgcagCTTTGGCCA Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCTTGCAGGATGAGTGG---------------------------------GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAG-CAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CTCTGGCTA CCTTACAAGATGAATGGGTGAGCAAACTTTTCCCTTTTGTTCTCCTCCAGGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAACCAACTGCAAACTACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtgagtctcattctactgtatggcccccttctttattgcagCTTTGGCCA #### Prpf19_ID3054_13 --> 2 - 0 Original Alignment ctCTTACCTGTGCACAGTTCCACCCTGATGGGCTC-ATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG gggagattgtgaaatatgaaccctacataactttccccttctgaattcagccCTTACCTGTGCACAGTTCCACCCTGATGGTCTCCACCTTTGGAAGTGGCACTATGGACTCCCAAATTAGAATTTGGGACCTCAAGgtatgtcatcacaggcagaaacagcagctcacagtggggagttgatctcg Alignment from CESAR ctCTTACCTGTGCACAGTTCCACCCTGATGGGCTC-ATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG gggagattgtgaaatatgaaccctacataactttccccttctgaattcagccCTTACCTGTGCACAGTTCCACCCTGATGGTCTCCACCTTTGGAAGTGGCACTATGGACTCCCAAATTAGAATTTGGGACCTCAAGgtatgtcatcacaggcagaaacagcagctcacagtggggagttgatctcg Alignment from Spaln_aa2Genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTC-ATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG gggagattgtgaaatatgaaccctacataactttccccttctgaattcagCCCTTACCTGTGCACAGTTCCACCCTGATGGTCTCcACCTTTGGAAGTGGCACTATGGACTCCCAAATTAGAATTTGGGACCTCAAGgtatgtcatcacaggcagaaacagcagctcacagtggggagttgatctcg Alignment from Spaln_nt2Genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTC-ATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG gggagattgtgaaatatgaaccctacataactttccccttctgaattcagCCCTTACCTGTGCACAGTTCCACCCTGATGGTCTCCACCTTTGGAAGTGGCACTATGGACTCCCAAATTAGAATTTGGGACCTCAAGgtatgtcatcacaggcagaaacagcagctcacagtggggagttgatctcg Alignment from Pairagon CTCTTACCTGTGCACAGTTCCACCCTGATGGGCT-CATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG gggagattgtgaaatatgaaccctacataactttccccttctgaattcagCCCTTACCTGTGCACAGTTCCACCCTGATGGTCTCCACCTTTGGAAGTGGCACTATGGACTCCCAAATTAGAATTTGGGACCTCAAGgtatgtcatcacaggcagaaacagcagctcacagtggggagttgatctcg Alignment from Exonerate_protein2genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTC-ATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG gggagattgtgaaatatgaaccctacataactttccccttctgaattcagCCCTTACCTGTGCACAGTTCCACCCTGATGGTCTCCACCTTTGGAAGTGGCACTATGGACTCCCAAATTAGAATTTGGGACCTCAAGgtatgtcatcacaggcagaaacagcagctcacagtggggagttgatctcg Alignment from Exonerate_coding2genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTC-ATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG gggagattgtgaaatatgaaccctacataactttccccttctgaattcagCCCTTACCTGTGCACAGTTCCACCCTGATGGTCTCCACCTTTGGAAGTGGCACTATGGACTCCCAAATTAGAATTTGGGACCTCAAGgtatgtcatcacaggcagaaacagcagctcacagtggggagttgatctcg Alignment from GeneWise CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTC-ATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG gggagattgtgaaatatgaaccctacataactttccccttctgaattcagCCCTTACCTGTGCACAGTTCCACCCTGATGGTCTCCACCTTTGGAAGTGGCACTATGGACTCCCAAATTAGAATTTGGGACCTCAAGgtatgtcatcacaggcagaaacagcagctcacagtggggagttgatctcg #### Pygm_ID1679_3 --> 0 - 1 Original Alignment CTGGGCTTGGACATGGAG-GAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCAg tgtgagcatttgagctttataaatgccactgctgggtgttacccccctagCTGGGCTTAGACATGGAGCGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGAAATGGTGGCCTGGGACGCCTAGCAggtactgccttacagaaaagtattagtagtcttcaagtctttgtaactgtt Alignment from CESAR CTGGGCTTGGACATGGAG-GAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCAg tgtgagcatttgagctttataaatgccactgctgggtgttacccccctagCTGGGCTTAGACATGGAGCGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGAAATGGTGGCCTGGGACGCCTAGCAggtactgccttacagaaaagtattagtagtcttcaagtctttgtgtcctcc Alignment from Spaln_aa2Genome CTGGGCTTGGACATGGAG-GAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCAG tgtgagcatttgagctttataaatgccactgctgggtgttacccccctagCTGGGCTTAGACATGGAGcGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGAAATGGTGGCCTGGGACGCCTAGCAGgtactgccttacagaaaagtattagtagtcttcaagtctttgtaactgtt Alignment from Spaln_nt2Genome CTGGGCTTGGACATGGAG-GAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCAG tgtgagcatttgagctttataaatgccactgctgggtgttacccccctagCTGGGCTTAGACATGGAGCGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGAAATGGTGGCCTGGGACGCCTAGCAGgtactgccttacagaaaagtattagtagtcttcaagtctttgtaactgtt Alignment from Pairagon CTGGGCTTGGACATGGAG-GAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCAG tgtgagcatttgagctttataaatgccactgctgggtgttacccccctagCTGGGCTTAGACATGGAGCGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGAAATGGTGGCCTGGGACGCCTAGCAGgtactgccttacagaaaagtattagtagtcttcaagtctttgtaactgtt Alignment from Exonerate_protein2genome CTGGGCTTGGACATGGAG-GAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCAG tgtgagcatttgagctttataaatgccactgctgggtgttacccccctagCTGGGCTTAGACATGGAGCGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGAAATGGTGGCCTGGGACGCCTAGCAGgtactgccttacagaaaagtattagtagtcttcaagtctttgtaactgtt Alignment from Exonerate_coding2genome tgtgagcatttgagctttataaatgccactgctgggtgttacccccctagctgggcttagacatggagcgagttggaggagattgaggaggatgcagggttgggaaatggtggcctgggacgcctagcaggtactgccttacagaaaagtattagtagtcttcaagtctttgtaactgtt Alignment from GeneWise - -GAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCAG TgtgagcatttgagctttataaatgccactgctgggtgttacccccctagctgggcttagacatggagCGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGAAATGGTGGCCTGGGACGCCTAGCAGgtactgccttacagaaaagtattagtagtcttcaagtctttgtaactgtt #### Pygm_ID1684_8 --> 0 - 0 Original Alignment TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACA-AACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgccacctgtccctcctcacacagTTTTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTGCCAGCCTTCAAGACATCATCCGATGTTTCAAGTCCTCTAAGTTAGGAAGCCGTGATCCTGTGCGCACACAACTTTGATGCCTTCCCTGATAAAgtaggttctggatcaagttaataaattacccaccacctcacaatgtattt Alignment from CESAR TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACA-AACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgccacctgtccctcctcacacagTTTTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTGCCAGCCTTCAAGACATCATCCGATGTTTCAAGTCCTCTAAGTTAGGAAGCCGTGATCCTGTGCGCACACAACTTTGATGCCTTCCCTGATAAAgtaggttctggatcaagttaataaattacccaccacctcacaatgtattt Alignment from Spaln_aa2Genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACA-AACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgccacctgtccctcctcacacagTTTTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTGCCAGCCTTCAAGACATCATCCGATGTTTCAAGTCCTCTAAGTTAGGAAGCCGTGATCCTGTGCGCACAcAACTTTGATGCCTTCCCTGATAAAgtaggttctggatcaagttaataaattacccaccacctcacaatgtattt Alignment from Spaln_nt2Genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACA-AACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgccacctgtccctcctcacacagTTTTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTGCCAGCCTTCAAGACATCATCCGATGTTTCAAGTCCTCTAAGTTAGGAAGCCGTGATCCTGTGCGCACACAACTTTGATGCCTTCCCTGATAAAgtaggttctggatcaagttaataaattacccaccacctcacaatgtattt Alignment from Pairagon TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACA-AACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgccacctgtccctcctcacacagTTTTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTGCCAGCCTTCAAGACATCATCCGATGTTTCAAGTCCTCTAAGTTAGGAAGCCGTGATCCTGTGCGCACACAACTTTGATGCCTTCCCTGATAAAgtaggttctggatcaagttaataaattacccaccacctcacaatgtattt Alignment from Exonerate_protein2genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACA-AACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgccacctgtccctcctcacacagTTTTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTGCCAGCCTTCAAGACATCATCCGATGTTTCAAGTCCTCTAAGTTAGGAAGCCGTGATCCTGTGCGCACACAACTTTGATGCCTTCCCTGATAAAgtaggttctggatcaagttaataaattacccaccacctcacaatgtattt Alignment from Exonerate_coding2genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACA-AACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgccacctgtccctcctcacacagTTTTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTGCCAGCCTTCAAGACATCATCCGATGTTTCAAGTCCTCTAAGTTAGGAAGCCGTGATCCTGTGCGCACACAACTTTGATGCCTTCCCTGATAAAgtaggttctggatcaagttaataaattacccaccacctcacaatgtattt Alignment from GeneWise TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGC-ACAAACTTCGATGCCTTCCCTGATAAG agttgtgaccatctgacatgatatgatgccacctgtccctcctcacacagTTTTTTGAAGGGAAGGAGCTGCGGCTTAAACAGGAGTACTTGGTGGTGGCTGCCAGCCTTCAAGACATCATCCGATGTTTCAAGTCCTCTAAGTTAGGAAGCCGTGATCCTGTGCGCACACAACTTTGATGCCTTCCCTGATAAAgtaggttctggatcaagttaataaattacccaccacctcacaatgtattt #### Pygm_ID1685_9 --> 0 - 0 Original Alignment GTGGCCATCCAGCTCAATGACACCCAC-CCCTCTTTG---GCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG gatggagtggtcacaaatattcccctgcttcaattattttgattttttagGTGGTGATACAACTTAATGACACACGTCCATTCTTTGGCTACCATTCCTGAGCTGATGAGGATCCCAGTATACCTTGAACAACTAGACTGGGATAAAgtgggtttttcctcaagaatcgacaggttcatctccggtgggagggtagt Alignment from CESAR GTGGCCATCCAGCTCAATGACACCCACCCC-TCTTTGGCC---ATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG gatggagtggtcacaaatattcccctgcttcaattattttgattttttagGTGGTGATACAACTTAATGACACACGTCCATTCTTTGGCTACCATTCCTGAGCTGATGAGGATCCCAGTATACCTTGAACAACTAGACTGGGATAAAgtgggtttttcctcaagaatcgacaggttcatctccggtgggagggtagt Alignment from Spaln_aa2Genome GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTG----GCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG gatggagtggtcacaaatattcccctgcttcaattattttgattttttagGTGGTGATACAACTTAATGACACACGTCCATTCTTTGGCtACCATTCCTGAGCTGATGAGGATCCCAGTATACCTTGAACAACTAGACTGGGATAAAgtgggtttttcctcaagaatcgacaggttcatctccggtgggagggtagt Alignment from Spaln_nt2Genome GTGGCCATCCAGCTCAATGACACCCACCCCT-CTTTGGC---CATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG gatggagtggtcacaaatattcccctgcttcaattattttgattttttagGTGGTGATACAACTTAATGACACACGTCCATTCTTTGGCTACCATTCCTGAGCTGATGAGGATCCCAGTATACCTTGAACAACTAGACTGGGATAAAgtgggtttttcctcaagaatcgacaggttcatctccggtgggagggtagt Alignment from Pairagon GTGGCCATCCAGCTCAATGACACCCACCC-CTCTTTGG---CCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG gatggagtggtcacaaatattcccctgcttcaattattttgattttttagGTGGTGATACAACTTAATGACACACGTCCATTCTTTGGCTACCATTCCTGAGCTGATGAGGATCCCAGTATACCTTGAACAACTAGACTGGGATAAAgtgggtttttcctcaagaatcgacaggttcatctccggtgggagggtagt Alignment from Exonerate_protein2genome GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTG----GCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG gatggagtggtcacaaatattcccctgcttcaattattttgattttttagGTGGTGATACAACTTAATGACACACGTCCATTCTTTGGCTACCATTCCTGAGCTGATGAGGATCCCAGTATACCTTGAACAACTAGACTGGGATAAAgtgggtttttcctcaagaatcgacaggttcatctccggtgggagggtagt Alignment from Exonerate_coding2genome GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTG----GCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG gatggagtggtcacaaatattcccctgcttcaattattttgattttttagGTGGTGATACAACTTAATGACACACGTCCATTCTTTGGCTACCATTCCTGAGCTGATGAGGATCCCAGTATACCTTGAACAACTAGACTGGGATAAAgtgggtttttcctcaagaatcgacaggttcatctccggtgggagggtagt Alignment from GeneWise GTGGCCATCCAGCTCAATGACACCCACCCC-TCTTTGGCC---ATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG gatggagtggtcacaaatattcccctgcttcaattattttgattttttagGTGGTGATACAACTTAATGACACACGTCCATTCTTTGGCTACCATTCCTGAGCTGATGAGGATCCCAGTATACCTTGAACAACTAGACTGGGATAAAgtgggtttttcctcaagaatcgacaggttcatctccggtgggagggtagt #### Pygm_ID1686_10 --> 0 - 0 Original Alignment GCCTGGGACGTAACAGTGAAGACCTGTGCCTAC-ACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC acaaagacgaatggagggtgactaatgctccatttatttatttattttagGCCTGGGATGTTACAGTAAAGACCTGCATCTACCACTAACCACACAGTGCTGCCTGAAGCTCTAGAGCGATGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGACACCTGCAGATAATTTATGAGATTAATCAATGTTTCTTGAATgtaagaacagaatgatgatgaggaacctgaggagctggagtatgatgtat Alignment from CESAR GCCTGGGACGTAACAGTGAAGACCTGTGCCTAC-ACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC acaaagacgaatggagggtgactaatgctccatttatttatttattttagGCCTGGGATGTTACAGTAAAGACCTGCATCTACCACTAACCACACAGTGCTGCCTGAAGCTCTAGAGCGATGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGACACCTGCAGATAATTTATGAGATTAATCAATGTTTCTTGAATgtaagaacagaatgatgatgaggaacctgaggagctggagtatgatgtat Alignment from Spaln_aa2Genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTAC-ACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC acaaagacgaatggagggtgactaatgctccatttatttatttattttagGCCTGGGATGTTACAGTAAAGACCTGCATCTACcACTAACCACACAGTGCTGCCTGAAGCTCTAGAGCGATGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGACACCTGCAGATAATTTATGAGATTAATCAATGTTTCTTGAATgtaagaacagaatgatgatgaggaacctgaggagctggagtatgatgtat Alignment from Spaln_nt2Genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTAC-ACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC acaaagacgaatggagggtgactaatgctccatttatttatttattttagGCCTGGGATGTTACAGTAAAGACCTGCATCTACCACTAACCACACAGTGCTGCCTGAAGCTCTAGAGCGATGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGACACCTGCAGATAATTTATGAGATTAATCAATGTTTCTTGAATgtaagaacagaatgatgatgaggaacctgaggagctggagtatgatgtat Alignment from Pairagon GCCTGGGACGTAACAGTGAAGACCTGTGCCTA-CACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC acaaagacgaatggagggtgactaatgctccatttatttatttattttagGCCTGGGATGTTACAGTAAAGACCTGCATCTACCACTAACCACACAGTGCTGCCTGAAGCTCTAGAGCGATGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGACACCTGCAGATAATTTATGAGATTAATCAATGTTTCTTGAATgtaagaacagaatgatgatgaggaacctgaggagctggagtatgatgtat Alignment from Exonerate_protein2genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTAC-ACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC acaaagacgaatggagggtgactaatgctccatttatttatttattttagGCCTGGGATGTTACAGTAAAGACCTGCATCTACCACTAACCACACAGTGCTGCCTGAAGCTCTAGAGCGATGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGACACCTGCAGATAATTTATGAGATTAATCAATGTTTCTTGAATgtaagaacagaatgatgatgaggaacctgaggagctggagtatgatgtat Alignment from Exonerate_coding2genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTAC-ACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC acaaagacgaatggagggtgactaatgctccatttatttatttattttagGCCTGGGATGTTACAGTAAAGACCTGCATCTACCACTAACCACACAGTGCTGCCTGAAGCTCTAGAGCGATGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGACACCTGCAGATAATTTATGAGATTAATCAATGTTTCTTGAATgtaagaacagaatgatgatgaggaacctgaggagctggagtatgatgtat Alignment from GeneWise GCCTGGGACGTAACAGTGAAGACCTGTGCCTAC-ACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC acaaagacgaatggagggtgactaatgctccatttatttatttattttagGCCTGGGATGTTACAGTAAAGACCTGCATCTACCACTAACCACACAGTGCTGCCTGAAGCTCTAGAGCGATGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGACACCTGCAGATAATTTATGAGATTAATCAATGTTTCTTGAATgtaagaacagaatgatgatgaggaacctgaggagctggagtatgatgtat #### Pygm_ID1691_15 --> 2 - 0 Original Alignment gcATCAAAAGGGAGCCCAATAGGTTTATG-GTGCCGAGGACTATCATGATTGGAGGCAAG attttccatattcagagcaagattgactatcattttctttttccttgtaggaATAAAAAGGGAGCTCAATCGGTTCATGCGTGCCAAAGACTATCATGATTGGAGGGAAAgtaagcatcgacctatgcatgaaaaaaggagattgatagtcgagaattaa Alignment from CESAR gcATCAAAAGGGAGCCCAATAGGTTTATG-GTGCCGAGGACTATCATGATTGGAGGCAAG attttccatattcagagcaagattgactatcattttctttttccttgtaggaATAAAAAGGGAGCTCAATCGGTTCATGCGTGCCAAAGACTATCATGATTGGAGGGAAAgtaagcatcgacctatgcatgaaaaaaggagattgatagtcgagaattaa Alignment from Spaln_aa2Genome GCATCAAAAGGGAGCCCAATAGGTTTATG-GTGCCGAGGACTATCATGATTGGAGGCAAG attttccatattcagagcaagattgactatcattttctttttccttgtagGAATAAAAAGGGAGCTCAATCGGTTCATGcGTGCCAAAGACTATCATGATTGGAGGGAAAgtaagcatcgacctatgcatgaaaaaaggagattgatagtcgagaattaa Alignment from Spaln_nt2Genome GCATCAAAAGGGAGCCCAATAGGTTTATG-GTGCCGAGGACTATCATGATTGGAGGCAAG attttccatattcagagcaagattgactatcattttctttttccttgtagGAATAAAAAGGGAGCTCAATCGGTTCATGCGTGCCAAAGACTATCATGATTGGAGGGAAAgtaagcatcgacctatgcatgaaaaaaggagattgatagtcgagaattaa Alignment from Pairagon GCATCAAAAGGGAGCCCAATAGGTTTATG-GTGCCGAGGACTATCATGATTGGAGGCAAG attttccatattcagagcaagattgactatcattttctttttccttgtagGAATAAAAAGGGAGCTCAATCGGTTCATGCGTGCCAAAGACTATCATGATTGGAGGGAAAgtaagcatcgacctatgcatgaaaaaaggagattgatagtcgagaattaa Alignment from Exonerate_protein2genome GCATCAAAAGGGAGCCCAATAGGTTTATG-GTGCCGAGGACTATCATGATTGGAGGCAAG attttccatattcagagcaagattgactatcattttctttttccttgtagGAATAAAAAGGGAGCTCAATCGGTTCATGCGTGCCAAAGACTATCATGATTGGAGGGAAAgtaagcatcgacctatgcatgaaaaaaggagattgatagtcgagaattaa Alignment from Exonerate_coding2genome GCATCAAAAGGGAGCCCAATAGGTTTATG-GTGCCGAGGACTATCATGATTGGAGGCAAG attttccatattcagagcaagattgactatcattttctttttccttgtagGAATAAAAAGGGAGCTCAATCGGTTCATGCGTGCCAAAGACTATCATGATTGGAGGGAAAgtaagcatcgacctatgcatgaaaaaaggagattgatagtcgagaattaa Alignment from GeneWise GCATCAAAAGGGAGCCCAATAGGTTTATG-GTGCCGAGGACTATCATGATTGGAGGCAAG attttccatattcagagcaagattgactatcattttctttttccttgtagGAATAAAAAGGGAGCTCAATCGGTTCATGCGTGCCAAAGACTATCATGATTGGAGGGAAAgtaagcatcgacctatgcatgaaaaaaggagattgatagtcgagaattaa #### Pygm_ID1695_19 --> 1 - 0 Original Alignment gTTTAAAGTCTTTGCAGATTATGAG-GAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aactttcctcttccaggtctgacacctgtgtctgtcttctctgccctcagcTTTAAAGTGTTTGTGGATCATGAGCGAGTATATTAAACGTCAGGATAAAGTCAGTGGATTATATAATgtgagttgttgttcaataacctgggcagggtataactcactggtctacag Alignment from CESAR gTTTAAAGTCTTTGCAGATTATGAG-GAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aactttcctcttccaggtctgacacctgtgtctgtcttctctgccctcagcTTTAAAGTGTTTGTGGATCATGAGCGAGTATATTAAACGTCAGGATAAAGTCAGTGGATTATATAATgtgagttgttgttcaataacctgggcagggtataactcactggtctacag Alignment from Spaln_aa2Genome GTTTAAAGTCTTTGCAGATTATGAG-GAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aactttcctcttccaggtctgacacctgtgtctgtcttctctgccctcagCTTTAAAGTGTTTGTGGATCATGAGcGAGTATATTAAACGTCAGGATAAAGTCAGTGGATTATATAATgtgagttgttgttcaataacctgggcagggtataactcactggtctacag Alignment from Spaln_nt2Genome aactttcctcttccaggtctgacacctgtgtctgtcttctctgccctcagctttaaagtgtttgtggatcatgagcgagtatattaaacgtcaggataaagtcagtggattatataatgtgagttgttgttcaataacctgggcagggtataactcactggtctacag Alignment from Pairagon GTTTAAAGTCTTTGCAGATTATGAG-GAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aactttcctcttccaggtctgacacctgtgtctgtcttctctgccctcagCTTTAAAGTGTTTGTGGATCATGAGCGAGTATATTAAACGTCAGGATAAAGTCAGTGGATTATATAATgtgagttgttgttcaataacctgggcagggtataactcactggtctacag Alignment from Exonerate_protein2genome GTTTAAAGTCTTTGCAGATTATGAG-GAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aactttcctcttccaggtctgacacctgtgtctgtcttctctgccctcagCTTTAAAGTGTTTGTGGATCATGAGCGAGTATATTAAACGTCAGGATAAAGTCAGTGGATTATATAATgtgagttgttgttcaataacctgggcagggtataactcactggtctacag Alignment from Exonerate_coding2genome aactttcctcttccaggtctgacacctgtgtctgtcttctctgccctcagctttaaagtgtttgtggatcatgagcgagtatattaaacgtcaggataaagtcagtggattatataatgtgagttgttgttcaataacctgggcagggtataactcactggtctacag Alignment from GeneWise aactttcctcttccaggtctgacacctgtgtctgtcttctctgccctcagctttaaagtgtttgtggatcatgagcgagtatattaaacgtcaggataaagtcagtggattatataatgtgagttgttgttcaataacctgggcagggtataactcactggtctacag #### Rab1b_ID845_3 --> 0 - 0 Original Alignment GATGACACTTACACAGAGAGC-TACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT gccaggtgttggcttgtttccatctcagctctgtgtgctttgacatttagGATGATACTCACACAGAGAGTCTACATCAGCACCATTGGGGTTGATTTTAAGATACGGACAATTAAACTGGATGGCAAAATCATCAAACTACAGATTgtacggtctaatatgctcctgttttcttgttgctcccactgttgtgcctc Alignment from CESAR GATGACACTTACACAGAGAGC-TACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT gccaggtgttggcttgtttccatctcagctctgtgtgctttgacatttagGATGATACTCACACAGAGAGTCTACATCAGCACCATTGGGGTTGATTTTAAGATACGGACAATTAAACTGGATGGCAAAATCATCAAACTACAGATTgtacggtctaatatgctcctgttttcttgttgctctgaggaccccttcct Alignment from Spaln_aa2Genome GATGACACTTACACAGAGAGC-TACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT gccaggtgttggcttgtttccatctcagctctgtgtgctttgacatttagGATGATACTCACACAGAGAGTcTACATCAGCACCATTGGGGTTGATTTTAAGATACGGACAATTAAACTGGATGGCAAAATCATCAAACTACAGATTgtacggtctaatatgctcctgttttcttgttgctcccactgttgtgcctc Alignment from Spaln_nt2Genome GATGACACTTACACAGAGAG-CTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT gccaggtgttggcttgtttccatctcagctctgtgtgctttgacatttagGATGATACTCACACAGAGAGTCTACATCAGCACCATTGGGGTTGATTTTAAGATACGGACAATTAAACTGGATGGCAAAATCATCAAACTACAGATTgtacggtctaatatgctcctgttttcttgttgctcccactgttgtgcctc Alignment from Pairagon GATGACACTTACACAGAGAG-CTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT gccaggtgttggcttgtttccatctcagctctgtgtgctttgacatttagGATGATACTCACACAGAGAGTCTACATCAGCACCATTGGGGTTGATTTTAAGATACGGACAATTAAACTGGATGGCAAAATCATCAAACTACAGATTgtacggtctaatatgctcctgttttcttgttgctcccactgttgtgcctc Alignment from Exonerate_protein2genome GATGACACTTACACAGAGAGC-TACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT gccaggtgttggcttgtttccatctcagctctgtgtgctttgacatttagGATGATACTCACACAGAGAGTCTACATCAGCACCATTGGGGTTGATTTTAAGATACGGACAATTAAACTGGATGGCAAAATCATCAAACTACAGATTgtacggtctaatatgctcctgttttcttgttgctcccactgttgtgcctc Alignment from Exonerate_coding2genome GATGACACTTACACAGAGAGC-TACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT gccaggtgttggcttgtttccatctcagctctgtgtgctttgacatttagGATGATACTCACACAGAGAGTCTACATCAGCACCATTGGGGTTGATTTTAAGATACGGACAATTAAACTGGATGGCAAAATCATCAAACTACAGATTgtacggtctaatatgctcctgttttcttgttgctcccactgttgtgcctc Alignment from GeneWise GATGACACTTACACAGAG-AGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT gccaggtgttggcttgtttccatctcagctctgtgtgctttgacatttagGATGATACTCACACAGAGAGTCTACATCAGCACCATTGGGGTTGATTTTAAGATACGGACAATTAAACTGGATGGCAAAATCATCAAACTACAGATTgtacggtctaatatgctcctgttttcttgttgctcccactgttgtgcctc #### Rab3il1_ID2648_4 --> 0 - 0 Original Alignment GAAGCTCACAAGATGGTTCGG-GAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG gggttaacaactcctggtgcttttacagctttctctcatcttggtcctagGAAGCCCACAAAATGGTCCAGCGAAGCAAACATGAAACAGGCAACATCAGAAAAACAGCTGAAGGAAGCATGGGGCAAGgttggttggagcaaaatgatcactaatgcagtctatccctttttccaagc Alignment from CESAR GAAGCTCACAAGATGGTTCGG-GAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG gggttaacaactcctggtgcttttacagctttctctcatcttggtcctagGAAGCCCACAAAATGGTCCAGCGAAGCAAACATGAAACAGGCAACATCAGAAAAACAGCTGAAGGAAGCATGGGGCAAGgttggttggagcaaaatgatcactaatgcagtctatccctttttccaagc Alignment from Spaln_aa2Genome GAAGCTCACAAGATGGTTCGG-GAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG gggttaacaactcctggtgcttttacagctttctctcatcttggtcctagGAAGCCCACAAAATGGTCCAGcGAAGCAAACATGAAACAGGCAACATCAGAAAAACAGCTGAAGGAAGCATGGGGCAAGgttggttggagcaaaatgatcactaatgcagtctatccctttttccaagc Alignment from Spaln_nt2Genome GAAGCTCACAAGATGGTTCGG-GAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG gggttaacaactcctggtgcttttacagctttctctcatcttggtcctagGAAGCCCACAAAATGGTCCAGCGAAGCAAACATGAAACAGGCAACATCAGAAAAACAGCTGAAGGAAGCATGGGGCAAGgttggttggagcaaaatgatcactaatgcagtctatccctttttccaagc Alignment from Pairagon GAAGCTCACAAGATGGTTCGG-GAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG gggttaacaactcctggtgcttttacagctttctctcatcttggtcctagGAAGCCCACAAAATGGTCCAGCGAAGCAAACATGAAACAGGCAACATCAGAAAAACAGCTGAAGGAAGCATGGGGCAAGgttggttggagcaaaatgatcactaatgcagtctatccctttttccaagc Alignment from Exonerate_protein2genome GAAGCTCACAAGATGGTTCGG-GAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG gggttaacaactcctggtgcttttacagctttctctcatcttggtcctagGAAGCCCACAAAATGGTCCAGCGAAGCAAACATGAAACAGGCAACATCAGAAAAACAGCTGAAGGAAGCATGGGGCAAGgttggttggagcaaaatgatcactaatgcagtctatccctttttccaagc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GAAGCTCACAAGATGGTT-CGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG gggttaacaactcctggtgcttttacagctttctctcatcttggtcctagGAAGCCCACAAAATGGTCCAGCGAAGCAAACATGAAACAGGCAACATCAGAAAAACAGCTGAAGGAAGCATGGGGCAAGgttggttggagcaaaatgatcactaatgcagtctatccctttttccaagc #### Rasgrp2_ID1706_5 --> 1 - 0 Original Alignment cCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCT-GTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattactgccttatttatttattgcttttgcagcCCTACTTATAAATGGAAGCGGCAGGGGACCCAGCGGAACCTTCGTGGAACAGAAGAAACCCAAGATGTCCTTATTGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtgagagttgaaggtctggttgtgggtatcaggcaggtcttttcaagtag Alignment from CESAR cCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCT-GTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattactgccttatttatttattgcttttgcagcCCTACTTATAAATGGAAGCGGCAGGGGACCCAGCGGAACCTTCGTGGAACAGAAGAAACCCAAGATGTCCTTATTGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtgagagttgaaggtctggttgtgggtatcaggcaggtcttttcaagtag Alignment from Spaln_aa2Genome CCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCT-GTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattactgccttatttatttattgcttttgcagCCCTACTTATAAATGGAAGCGGCAGGGGACCCAGCGGAACCTTcGTGGAACAGAAGAAACCCAAGATGTCCTTATTGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtgagagttgaaggtctggttgtgggtatcaggcaggtcttttcaagtag Alignment from Spaln_nt2Genome CCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCT-GTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattactgccttatttatttattgcttttgcagCCCTACTTATAAATGGAAGCGGCAGGGGACCCAGCGGAACCTTCGTGGAACAGAAGAAACCCAAGATGTCCTTATTGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtgagagttgaaggtctggttgtgggtatcaggcaggtcttttcaagtag Alignment from Pairagon CCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCT-GTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattactgccttatttatttattgcttttgcagCCCTACTTATAAATGGAAGCGGCAGGGGACCCAGCGGAACCTTCGTGGAACAGAAGAAACCCAAGATGTCCTTATTGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtgagagttgaaggtctggttgtgggtatcaggcaggtcttttcaagtag Alignment from Exonerate_protein2genome CCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCT-GTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattactgccttatttatttattgcttttgcagCCCTACTTATAAATGGAAGCGGCAGGGGACCCAGCGGAACCTTCGTGGAACAGAAGAAACCCAAGATGTCCTTATTGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtgagagttgaaggtctggttgtgggtatcaggcaggtcttttcaagtag Alignment from Exonerate_coding2genome CCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCT-GTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattactgccttatttatttattgcttttgcagCCCTACTTATAAATGGAAGCGGCAGGGGACCCAGCGGAACCTTCGTGGAACAGAAGAAACCCAAGATGTCCTTATTGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtgagagttgaaggtctggttgtgggtatcaggcaggtcttttcaagtag Alignment from GeneWise CCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGGAAC-CCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattactgccttatttatttattgcttttgcagCCCTACTTATAAATGGAAGCGGCAGGGGACCCAGCGGAACCTTCGTGGAACAGAAGAAACCCAAGATGTCCTTATTGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtgagagttgaaggtctggttgtgggtatcaggcaggtcttttcaagtag #### Rasgrp2_ID1711_10 --> 0 - 0 Original Alignment CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCA-GTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG atatgcacttctactatgacccctcgggtaccatgtccttgtgtgtccagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCAACCT---GTGTTTGAAGAGTGGACTTCACGCTGCTAAACCTAATCTTGATCAAGCCCTAGTGGCAGAGCATATTGAGAGGATGGTGGAGgtgagtccatgctaatttctcagagattctaccctgtccaatgaaaatga Alignment from CESAR CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCA-GTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG atatgcacttctactatgacccctcgggtaccatgtccttgtgtgtccagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCAA---CCTGTGTTTGAAGAGTGGACTTCACGCTGCTAAACCTAATCTTGATCAAGCCCTAGTGGCAGAGCATATTGAGAGGATGGTGGAGgtgagtccatgctaatttctcagagattctaccctgtccaatgaaaatga Alignment from Spaln_aa2Genome CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCA-GTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG atatgcacttctactatgacccctcgggtaccatgtccttgtgtgtccagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCAA---CCTGTGTTTGAAGAGTGGACTTCAcGCTGCTAAACCTAATCTTGATCAAGCCCTAGTGGCAGAGCATATTGAGAGGATGGTGGAGgtgagtccatgctaatttctcagagattctaccctgtccaatgaaaatga Alignment from Spaln_nt2Genome CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCA-GTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG atatgcacttctactatgacccctcgggtaccatgtccttgtgtgtccagCCTACCAGTCCAACAAGTTGTATGTCACCTCC---TCAACCTGTGTTTGAAGAGTGGACTTCACGCTGCTAAACCTAATCTTGATCAAGCCCTAGTGGCAGAGCATATTGAGAGGATGGTGGAGgtgagtccatgctaatttctcagagattctaccctgtccaatgaaaatga Alignment from Pairagon CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCA-GTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG atatgcacttctactatgacccctcgggtaccatgtccttgtgtgtccagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCAA---CCTGTGTTTGAAGAGTGGACTTCACGCTGCTAAACCTAATCTTGATCAAGCCCTAGTGGCAGAGCATATTGAGAGGATGGTGGAGgtgagtccatgctaatttctcagagattctaccctgtccaatgaaaatga Alignment from Exonerate_protein2genome CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCA-GTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG atatgcacttctactatgacccctcgggtaccatgtccttgtgtgtccagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCAA---CCTGTGTTTGAAGAGTGGACTTCACGCTGCTAAACCTAATCTTGATCAAGCCCTAGTGGCAGAGCATATTGAGAGGATGGTGGAGgtgagtccatgctaatttctcagagattctaccctgtccaatgaaaatga Alignment from Exonerate_coding2genome CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCA-GTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG atatgcacttctactatgacccctcgggtaccatgtccttgtgtgtccagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCAA---CCTGTGTTTGAAGAGTGGACTTCACGCTGCTAAACCTAATCTTGATCAAGCCCTAGTGGCAGAGCATATTGAGAGGATGGTGGAGgtgagtccatgctaatttctcagagattctaccctgtccaatgaaaatga Alignment from GeneWise CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCA-GTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG atatgcacttctactatgacccctcgggtaccatgtccttgtgtgtccagCCTACCAGTCCAACAAGTTGTATGTCACCTCCTCAACCT---GTGTTTGAAGAGTGGACTTCACGCTGCTAAACCTAATCTTGATCAAGCCCTAGTGGCAGAGCATATTGAGAGGATGGTGGAGgtgagtccatgctaatttctcagagattctaccctgtccaatgaaaatga #### Rbm20_ID11377_4 --> 1 - 1 Original Alignment tGCTGGCCTCCGG-AGTATACGTGCTTCA---GGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGg ctaatatgaaattaacaacgtaccattaaatacctatttctccttttcagtACTGGTCTCCAGCAGTATCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAGCTAATAGTACAGCCGTTTATAATCCAACAGGAAATGAGggtgagcaaggtgaatggtagggctctgtgctagccattagttgtatgcaa Alignment from CESAR tGCTGGCCTCCGG-AGTATACGT---GCTTCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGg ctaatatgaaattaacaacgtaccattaaatacctatttctccttttcagtACTGGTCTCCAGCAGTATCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAGCTAATAGTACAGCCGTTTATAATCCAACAGGAAATGAGggtgagcaaggtgaatggtagggctctgtgctagccattagttgtatgcaa Alignment from Spaln_aa2Genome TGCTGGCCTCCGGAGTATACGTGCTTCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGG ctaatatgaaattaacaacgtaccattaaatacctatttctccttttcagtactggtctccagcagTATCCGGGTA------------TCATCAGGAGAGGGGACACACTCTGCCTCAGCTAATAGTACAGCCGTTTATAATCCAACAGGAAATGAGGgtgagcaaggtgaatggtagggctctgtgctagccattagttgtatgcaa Alignment from Spaln_nt2Genome TGCTGGCCTCCGG-AGTATACGTG---CTTCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGG ctaatatgaaattaacaacgtaccattaaatacctatttctccttttcagTACTGGTCTCCAGCAGTATCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAGCTAATAGTACAGCCGTTTATAATCCAACAGGAAATGAGGgtgagcaaggtgaatggtagggctctgtgctagccattagttgtatgcaa Alignment from Pairagon TGCTGGCCTCCGG-AGTATACGTG---CTTCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGG ctaatatgaaattaacaacgtaccattaaatacctatttctccttttcagTACTGGTCTCCAGCAGTATCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAGCTAATAGTACAGCCGTTTATAATCCAACAGGAAATGAGGgtgagcaaggtgaatggtagggctctgtgctagccattagttgtatgcaa Alignment from Exonerate_protein2genome TGCTGGCCTCCGGAGTATACGT----GCTTCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGG ctaatatgaaattaacaacgtaccattaaatacctatttctccttttcagTACTGGTCTCCAGCAGTATCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAGCTAATAGTACAGCCGTTTATAATCCAACAGGAAATGAGGgtgagcaaggtgaatggtagggctctgtgctagccattagttgtatgcaa Alignment from Exonerate_coding2genome TGCTGGCCTCCGGAGTATACGT----GCTTCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGGATTATACCTCAAATCTTGGAACATCATATGCAGCCATTCCAACGAGGGCC ctaatatgaaattaacaacgtaccattaaatacctatttctccttttcagTACTGGTCTCCAGCAGTATCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAGCTAATAGTACAGCCGTTTATAATCCAACAGGAAATGAGGGTGAGCAAGGTGAATGGTAGGGCTCTGTGCTAGCCATTAGTTGTATGCAA Alignment from GeneWise TGCTGGCCTCCGGAGTATACGT---GCTTCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGG ctaatatgaaattaacaacgtaccattaaatacctatttctccttttcagtactggtctccagC------------AGTATCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAGCTAATAGTACAGCCGTTTATAATCCAACAGGAAATGAGGgtgagcaaggtgaatggtagggctctgtgctagccattagttgtatgcaa #### Rbp4_ID7524_3 --> 0 - 2 Original Alignment TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCT---GAGTTTTCTGTGGACGAG-AAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGag caaatttagttggggggtgagcttaggcgtgacattcttcttgtttccagTTTTCAGACCTCCTGTATACTATTGCA---AAGGGTCCGAAGGGGCTTTTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGACGAGCAAGGGGCATATGAGTACTACTGCCAAGGGACAGGTACATCTCCTGaggtaagagaacctgagtgcactactgtctctttagactaacaaagcccttc Alignment from CESAR TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATC---GCTGAGTTTTCTGTGGACGAG-AAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGag caaatttagttggggggtgagcttaggcgtgacattcttcttgtttccagTTTTCAGACCTCCTGTATACTATTGCA---AAGGGTCCGAAGGGGCTTTTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGACGAGCAAGGGGCATATGAGTACTACTGCCAAGGGACAGGTACATCTCCTGaggtaagagaacctgagtgcactactgtctctttagactaacaaagcccttc Alignment from Spaln_aa2Genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATC---GCTGAGTTTTCTGTGGACGAG-AAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG caaatttagttggggggtgagcttaggcgtgacattcttcttgtttccagTTTTCAGACCTCCTGTATACTATTGCA---AAGGGTCCGAAGGGGCTTTTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGACGAGcAAGGGGCATATGAGTACTACTGCCAAGGGACAGGTACATCTCCTGAGgtaagagaacctgagtgcactactgtctctttagactaacaaagcccttc Alignment from Spaln_nt2Genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATC---GCTGAGTTTTCTGTGGACGAGAAG-GGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG caaatttagttggggggtgagcttaggcgtgacattcttcttgtttccagTTTTCAGACCTCCTGTATACTATTGC---AAAGGGTCCGAAGGGGCTTTTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGACGAGCAAGGGGCATATGAGTACTACTGCCAAGGGACAGGTACATCTCCTGAGgtaagagaacctgagtgcactactgtctctttagactaacaaagcccttc Alignment from Pairagon TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCAT---CGCTGAGTTTTCTGTGGACGAG-AAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG caaatttagttggggggtgagcttaggcgtgacattcttcttgtttccagTTTTCAGACCTCCTGTATACTATTGC---AAAGGGTCCGAAGGGGCTTTTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGACGAGCAAGGGGCATATGAGTACTACTGCCAAGGGACAGGTACATCTCCTGAGgtaagagaacctgagtgcactactgtctctttagactaacaaagcccttc Alignment from Exonerate_protein2genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATC---GCTGAGTTTTCTGTGGACGAG-AAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG caaatttagttggggggtgagcttaggcgtgacattcttcttgtttccagTTTTCAGACCTCCTGTATACTATTGCA---AAGGGTCCGAAGGGGCTTTTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGACGAGCAAGGGGCATATGAGTACTACTGCCAAGGGACAGGTACATCTCCTGAGgtaagagaacctgagtgcactactgtctctttagactaacaaagcccttc Alignment from Exonerate_coding2genome CGTTTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATC---GCTGAGTTTTCTGTGGACGAG-AAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG caaatttagttggggggtgagcttaggcgtgacattcttcttgtttcCAGTTTTCAGACCTCCTGTATACTATTGCA---AAGGGTCCGAAGGGGCTTTTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGACGAGCAAGGGGCATATGAGTACTACTGCCAAGGGACAGGTACATCTCCTGAGgtaagagaacctgagtgcactactgtctctttagactaacaaagcccttc Alignment from GeneWise TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCT---GAGTTTTCTGTGGACGAG-AAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG caaatttagttggggggtgagcttaggcgtgacattcttcttgtttccagTTTTCAGACCTCCTGTATACTATTGCAAAG---GGTCCGAAGGGGCTTTTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGACGAGCAAGGGGCATATGAGTACTACTGCCAAGGGACAGGTACATCTCCTGAGgtaagagaacctgagtgcactactgtctctttagactaacaaagcccttc #### Rcor2_ID2098_9 --> 0 - 1 Original Alignment GCTAATACCAAGTTCAACTCCCGC-TGGACCACTGATGAGCAACTTCTAGCTGTTCAAg cttcacttctcgcatcttttcattgatactttgttctttgctctctccagGCTACTACCAAATTCAACTCCCGCCTGGACCACAGATGAGGAACTTTTAGCAGTTCAAggtgagataaactactgtgggtttcaaagagtcttggaaatgtttgcatca Alignment from CESAR GCTAATACCAAGTTCAACTCCCGC-TGGACCACTGATGAGCAACTTCTAGCTGTTCAAg cttcacttctcgcatcttttcattgatactttgttctttgctctctccagGCTACTACCAAATTCAACTCCCGCCTGGACCACAGATGAGGAACTTTTAGCAGTTCAAggtgagataaactactgtgggtttcaaagagtcttggaaatgtttgcatca Alignment from Spaln_aa2Genome GCTAATACCAAGTTCAACTCCCGC-TGGACCACTGATGAGCAACTTCTAGCTGTTCAAG cttcacttctcgcatcttttcattgatactttgttctttgctctctccagGCTACTACCAAATTCAACTCCCGCcTGGACCACAGATGAGGAACTTTTAGCAGTTCAAGgtgagataaactactgtgggtttcaaagagtcttggaaatgtttgcatca Alignment from Spaln_nt2Genome GCTAATACCAAGTTCAACTCCCG-CTGGACCACTGATGAGCAACTTCTAGCTGTTCAAG cttcacttctcgcatcttttcattgatactttgttctttgctctctccagGCTACTACCAAATTCAACTCCCGCCTGGACCACAGATGAGGAACTTTTAGCAGTTCAAGgtgagataaactactgtgggtttcaaagagtcttggaaatgtttgcatca Alignment from Pairagon GCTAATACCAAGTTCAACTCCCG-CTGGACCACTGATGAGCAACTTCTAGCTGTTCAAG cttcacttctcgcatcttttcattgatactttgttctttgctctctccagGCTACTACCAAATTCAACTCCCGCCTGGACCACAGATGAGGAACTTTTAGCAGTTCAAGgtgagataaactactgtgggtttcaaagagtcttggaaatgtttgcatca Alignment from Exonerate_protein2genome GCTAATACCAAGTTCAACTCCCGC-TGGACCACTGATGAGCAACTTCTAGCTGTTCAAG cttcacttctcgcatcttttcattgatactttgttctttgctctctccagGCTACTACCAAATTCAACTCCCGCCTGGACCACAGATGAGGAACTTTTAGCAGTTCAAGgtgagataaactactgtgggtttcaaagagtcttggaaatgtttgcatca Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GCTAATACCAAGTTCAACTCC-CGCTGGACCACTGATGAGCAACTTCTAGCTGTTCAAG cttcacttctcgcatcttttcattgatactttgttctttgctctctccagGCTACTACCAAATTCAACTCCCGCCTGGACCACAGATGAGGAACTTTTAGCAGTTCAAGgtgagataaactactgtgggtttcaaagagtcttggaaatgtttgcatca #### Rela_ID1128_5 --> 1 - 1 Original Alignment cTTCCAGAACCTGGGGATCCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACC-AACAATAACCCCTTTCACg gagaacatgctttccatagcaaatctaatttttttcctgtcctcttgcagcTTCCAGAATTTAGGCATACAGTGTGTGAAAAAACGTGACCTGGCACAAGCAATAAGTCAGCGAATTCAGACTCACCAATAACTCATTTCACggtaagcagcagggcggaaaggaattccatctctatataggccattaatct Alignment from CESAR cTTCCAGAACCTGGGGATCCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAAC-AATAACCCCTTTCACg gagaacatgctttccatagcaaatctaatttttttcctgtcctcttgcagcTTCCAGAATTTAGGCATACAGTGTGTGAAAAAACGTGACCTGGCACAAGCAATAAGTCAGCGAATTCAGACTCACCAATAACTCATTTCACggtaagcagcagggcggaaaggaattccatctctatataggccattaatct Alignment from Spaln_aa2Genome CTTCCAGAACCTGGGGATCCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACC-AACAATAACCCCTTTCACG gagaacatgctttccatagcaaatctaatttttttcctgtcctcttgcagCTTCCAGAATTTAGGCATACAGTGTGTGAAAAAACGTGACCTGGCACAAGCAATAAGTCAGCGAATTCAGACTcACCAATAACTCATTTCACGgtaagcagcagggcggaaaggaattccatctctatataggccattaatct Alignment from Spaln_nt2Genome CTTCCAGAACCTGGGGATCCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGAC-CAACAATAACCCCTTTCACG gagaacatgctttccatagcaaatctaatttttttcctgtcctcttgcagCTTCCAGAATTTAGGCATACAGTGTGTGAAAAAACGTGACCTGGCACAAGCAATAAGTCAGCGAATTCAGACTCACCAATAACTCATTTCACGgtaagcagcagggcggaaaggaattccatctctatataggccattaatct Alignment from Pairagon CTTCCAGAACCTGGGGATCCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGAC-CAACAATAACCCCTTTCACG gagaacatgctttccatagcaaatctaatttttttcctgtcctcttgcagCTTCCAGAATTTAGGCATACAGTGTGTGAAAAAACGTGACCTGGCACAAGCAATAAGTCAGCGAATTCAGACTCACCAATAACTCATTTCACGgtaagcagcagggcggaaaggaattccatctctatataggccattaatct Alignment from Exonerate_protein2genome CTTCCAGAACCTGGGGATCCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAAC-AATAACCCCTTTCACG gagaacatgctttccatagcaaatctaatttttttcctgtcctcttgcagCTTCCAGAATTTAGGCATACAGTGTGTGAAAAAACGTGACCTGGCACAAGCAATAAGTCAGCGAATTCAGACTCACCAATAACTCATTTCACGgtaagcagcagggcggaaaggaattccatctctatataggccattaatct Alignment from Exonerate_coding2genome gagaacatgctttccatagcaaatctaatttttttcctgtcctcttgcagcttccagaatttaggcatacagtgtgtgaaaaaacgtgacctggcacaagcaataagtcagcgaattcagactcaccaataactcatttcacggtaagcagcagggcggaaaggaattccatctctatataggccattaatct Alignment from GeneWise CTTCCAGAACCTGGGGATCCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACC-AACAATAACCCCTTTCACG gagaacatgctttccatagcaaatctaatttttttcctgtcctcttgcagCTTCCAGAATTTAGGCATACAGTGTGTGAAAAAACGTGACCTGGCACAAGCAATAAGTCAGCGAATTCAGACTCACCAATAACTCATTTCACGgtaagcagcagggcggaaaggaattccatctctatataggccattaatct #### Rin1_ID808_3 --> 0 - 1 Original Alignment G ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCA-GAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCg GgtcagtctcttagttacaagatcttaaaggttagcctttccttttatagACATTTGTTATATGCAAATACAACACTCGACAGTGCCAAGCTCTGTGTGTACGGTTACCACGAACCTAGTGGCCCAGCTTTTGTCTCTAGTCACTATATTGAGGAAGGTACTGGTggtaggaaaggtaataagtggggacacgtgtccctaggcacatgcatgaga Alignment from CESAR G ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCA-GAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCg GgtaagcctcttagttacaagatcttaaaggttagcctttccttttatagACATTTGTTATATGCAAATACAACACTCGACAGTGCCAAGCTCTGTGTGTACGGTTACCACGAACCTAGTGGCCCAGCTTTTGTCTCTAGTCACTATATTGAGGAAGGTACTGGTggtaggaaaggtaataagtggggacacgtgtccctaggcacatgcatgaga Alignment from Spaln_aa2Genome G ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCA-GAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG GgtcagtctcttagttacaagatcttaaaggttagcctttccttttatagACATTTGTTATATGCAAATACAACACTCGACAGTGCCAAGCTCTGTGTGTACGGTTACCAcGAACCTAGTGGCCCAGCTTTTGTCTCTAGTCACTATATTGAGGAAGGTACTGGTGgtaggaaaggtaataagtggggacacgtgtccctaggcacatgcatgaga Alignment from Spaln_nt2Genome G ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCA-GAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG GgtcagtctcttagttacaagatcttaaaggttagcctttccttttatagACATTTGTTATATGCAAATACAACACTCGACAGTGCCAAGCTCTGTGTGTACGGTTACCACGAACCTAGTGGCCCAGCTTTTGTCTCTAGTCACTATATTGAGGAAGGTACTGGTGgtaggaaaggtaataagtggggacacgtgtccctaggcacatgcatgaga Alignment from Pairagon G ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCA-GAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG GgtcagtctcttagttacaagatcttaaaggttagcctttccttttatagACATTTGTTATATGCAAATACAACACTCGACAGTGCCAAGCTCTGTGTGTACGGTTACCACGAACCTAGTGGCCCAGCTTTTGTCTCTAGTCACTATATTGAGGAAGGTACTGGTGgtaggaaaggtaataagtggggacacgtgtccctaggcacatgcatgaga Alignment from Exonerate_protein2genome G ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCA-GAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG GgtcagtctcttagttacaagatcttaaaggttagcctttccttttatagACATTTGTTATATGCAAATACAACACTCGACAGTGCCAAGCTCTGTGTGTACGGTTACCACGAACCTAGTGGCCCAGCTTTTGTCTCTAGTCACTATATTGAGGAAGGTACTGGTGgtaggaaaggtaataagtggggacacgtgtccctaggcacatgcatgaga Alignment from Exonerate_coding2genome ggtcagtctcttagttacaagatcttaaaggttagcctttccttttatagacatttgttatatgcaaatacaacactcgacagtgccaagctctgtgtgtacggttaccacgaacctagtggcccagcttttgtctctagtcactatattgaggaaggtactggtggtaggaaaggtaataagtggggacacgtgtccctaggcacatgcatgaga Alignment from GeneWise G ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAA-GCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG GgtcagtctcttagttacaagatcttaaaggttagcctttccttttatagACATTTGTTATATGCAAATACAACACTCGACAGTGCCAAGCTCTGTGTGTACGGTTACCACGAACCTAGTGGCCCAGCTTTTGTCTCTAGTCACTATATTGAGGAAGGTACTGGTGgtaggaaaggtaataagtggggacacgtgtccctaggcacatgcatgaga #### Rin1_ID810_5 --> 1 - 1 Original Alignment aGCCATTCATCAGGCAGCCACC-CACAAAGAGCTGGAGGCCATCTCCCATCTG------GGCATGg tttccccctcaatggcttttccccaggcctgtcccttcctctctttacagaGCAATTCATCAGGCAGCCACCCCACAAAGAGCTAGAAGCTATCTCCCATCTTCATCTGGGGATGggtatggatccccagtagtcatacaaaacatgctgggcttacttggttagg Alignment from CESAR aGCCATTCATCAGGCAGCCACC-CACAAAGAGCTGGAGGCCATCTCCCAT------CTGGGCATGg tttccccctcaatggcttttccccaggcctgtcccttcctctctttacagaGCAATTCATCAGGCAGCCACCCCACAAAGAGCTAGAAGCTATCTCCCATCTTCATCTGGGGATGggtatggatccccagtagtcatacaaaacatgctgggcttacttggttagg Alignment from Spaln_aa2Genome AGCCATTCATCAGGCAGCCACC-CACAAAGAGCTGGAGGCCATCTCC------CATCTGGGCATGG tttccccctcaatggcttttccccaggcctgtcccttcctctctttacagAGCAATTCATCAGGCAGCCACCcCACAAAGAGCTAGAAGCTATCTCCCATCTTCATCTGGGGATGGgtatggatccccagtagtcatacaaaacatgctgggcttacttggttagg Alignment from Spaln_nt2Genome AGCCATTCATCAGGCAGCCA-CCCACAAAGAGCTGGAGGCCATCTCCCATCT------GGGCATGG tttccccctcaatggcttttccccaggcctgtcccttcctctctttacagAGCAATTCATCAGGCAGCCACCCCACAAAGAGCTAGAAGCTATCTCCCATCTTCATCTGGGGATGGgtatggatccccagtagtcatacaaaacatgctgggcttacttggttagg Alignment from Pairagon AGCCATTCATCAGGCAGCCA-CCCACAAAGAGCTGGAGGCCATCTCC------CATCTGGGCATGG tttccccctcaatggcttttccccaggcctgtcccttcctctctttacagAGCAATTCATCAGGCAGCCACCCCACAAAGAGCTAGAAGCTATCTCCCATCTTCATCTGGGGATGGgtatggatccccagtagtcatacaaaacatgctgggcttacttggttagg Alignment from Exonerate_protein2genome AGCCATTCATCAGGCAGCCACC-CACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG tttccccctcaatggcttttccccaggcctgtcccttcctctctttacagAGCAATTCATCAGGCAGCCACCCCACAAAGAGCTAGAAGCTATCTCCCATCTTCATCTGGggatgggtatggatccccagtagtcatacaaaacatgctgggcttacttggttagg Alignment from Exonerate_coding2genome AGCCATTCATCAGGCAGCCACC-CACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG tttccccctcaatggcttttccccaggcctgtcccttcctctctttacagAGCAATTCATCAGGCAGCCACCCCACAAAGAGCTAGAAGCTATCTCCCATCTTCATCTGGggatgggtatggatccccagtagtcatacaaaacatgctgggcttacttggttagg Alignment from GeneWise tttccccctcaatggcttttccccaggcctgtcccttcctctctttacagagcaattcatcaggcagccaccccacaaagagctagaagctatctcccatcttcatctggggatgggtatggatccccagtagtcatacaaaacatgctgggcttacttggttagg #### Rin1_ID811_6 --> 2 - 1 Original Alignment agTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTC-TGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGg agaattacctgtacatactcccctccaaaacacattgcttctctctctagagTGCTGGAGCTCTTCCTTGAATACCAAGGACCAACAGAGACCCCCCGAAGCCTCACCAATACCTCAACTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTTTGCTTCTTCAACCCACCCTTATCAGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCTCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTACCC---TGGCAGCTACAACAGCGAGAAGGCTCAGTTGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTGCAAGAAGTAGACTGCTGTTCCCCCAGTAGTTCTGAGGAGGAAGGCTCCTCAGGA---CCAACAACCTCGCCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAAATCTATGAGTTCTGCTTTCCTGTTCTTTGCTTATACCAGAACAGCAGGTTGATTGGGCAGCCACAACACTAATGCAGACCCGATGCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCCTCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTATTGTTGCCAGAGTGGCTCagtaagccagtttggaaaggattccaacatcaaatcttccttcctccatct Alignment from CESAR agTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTC-TGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGg agaattacctgtacatactcccctccaaaacacattgcttctctctctagagTGCTGGAGCTCTTCCTTGAATACCAAGGACCAACAGAGACCCCCCGAAGCCTCACCAATACCTCAACTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTTTGCTTCTTCAACCCACCCTTATCAGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCTCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTACCC---TGGCAGCTACAACAGCGAGAAGGCTCAGTTGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTGCAAGAAGTAGACTGCTGTTCCCCCAGTAGTTCTGAGGAGGAAGGCTCCTCAGGA---CCAACAACCTCGCCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAAATCTATGAGTTCTGCTTTCCTGTTCTTTGCTTATACCAGAACAGCAGGTTGATTGGGCAGCCACAACACTAATGCAGACCCGATGCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCCTCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTATTGTTGCCAGAGTGGCTCagtaagccagtttggaaaggattccaacatcaaatcacaagaaaaattgtg Alignment from Spaln_aa2Genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTC-TGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG agaattacctgtacatactcccctccaaaacacattgcttctctctctagAGTGCTGGAGCTCTTCCTTGAATACCAAGGACCAACAGAGACCCCCCGAAGCCTCACCAATACCTCAACTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTTTGCTTCTTCAACCCACCCTTATCAGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCTCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTA---CCCTGGCAGCTACAACAGCGAGAAGGCTCAGTTGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTGCAAGAAGTAGACTGCTGTTCCCCCAGTAGTTCTGAGGAGGAAGGCTCCTCAGGA---CCAACAACCTCGCCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAAATCTATGAGTTCTGCTTTCcTGTTCTTTGCTTATACCAGAACAGCAGGTTGATTGGGCAGCCACAACACTAATGCAGACCCGATGCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCCTCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTATTGTTGCCAGAGTGGCTCAgtaagccagtttggaaaggattccaacatcaaatcttccttcctccatct Alignment from Spaln_nt2Genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTT-CTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG agaattacctgtacatactcccctccaaaacacattgcttctctctctagAGTGCTGGAGCTCTTCCTTGAATACCAAGGACCAACAGAGACCCCCCGAAGCCTCACCAATACCTCAACTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTTTGCTTCTTCAACCCACCCTTATCAGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCTCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTACCC---TGGCAGCTACAACAGCGAGAAGGCTCAGTTGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTGCAAGAAGTAGACTGCTGTTCCCCCAGTAGTTCTGAGGAGGAAGGCTCCTCAGGA---CCAACAACCTCGCCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAAATCTATGAGTTCTGCTTTCCTGTTCTTTGCTTATACCAGAACAGCAGGTTGATTGGGCAGCCACAACACTAATGCAGACCCGATGCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCCTCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTATTGTTGCCAGAGTGGCTCAgtaagccagtttggaaaggattccaacatcaaatcttccttcctccatct Alignment from Pairagon AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTT-CTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG agaattacctgtacatactcccctccaaaacacattgcttctctctctagAGTGCTGGAGCTCTTCCTTGAATACCAAGGACCAACAGAGACCCCCCGAAGCCTCACCAATACCTCAACTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTTTGCTTCTTCAACCCACCCTTATCAGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCTCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTACCC---TGGCAGCTACAACAGCGAGAAGGCTCAGTTGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTGCAAGAAGTAGACTGCTGTTCCCCCAGTAGTTCTGAGGAGGAAGGCTCCTCAGGA---CCAACAACCTCGCCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAAATCTATGAGTTCTGCTTTCCTGTTCTTTGCTTATACCAGAACAGCAGGTTGATTGGGCAGCCACAACACTAATGCAGACCCGATGCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCCTCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTATTGTTGCCAGAGTGGCTCAgtaagccagtttggaaaggattccaacatcaaatcttccttcctccatct Alignment from Exonerate_protein2genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTC-TGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG agaattacctgtacatactcccctccaaaacacattgcttctctctctagAGTGCTGGAGCTCTTCCTTGAATACCAAGGACCAACAGAGACCCCCCGAAGCCTCACCAATACCTCAACTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTTTGCTTCTTCAACCCACCCTTATCAGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCTCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTA---CCCTGGCAGCTACAACAGCGAGAAGGCTCAGTTGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTGCAAGAAGTAGACTGCTGTTCCCCCAGTAGTTCTGAGGAGGAAGGCTCCTCAGGA---CCAACAACCTCGCCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAAATCTATGAGTTCTGCTTTCCTGTTCTTTGCTTATACCAGAACAGCAGGTTGATTGGGCAGCCACAACACTAATGCAGACCCGATGCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCCTCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTATTGTTGCCAGAGTGGCTCAgtaagccagtttggaaaggattccaacatcaaatcttccttcctccatct Alignment from Exonerate_coding2genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTC-TGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG agaattacctgtacatactcccctccaaaacacattgcttctctctctagAGTGCTGGAGCTCTTCCTTGAATACCAAGGACCAACAGAGACCCCCCGAAGCCTCACCAATACCTCAACTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTTTGCTTCTTCAACCCACCCTTATCAGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCTCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTA---CCCTGGCAGCTACAACAGCGAGAAGGCTCAGTTGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTGCAAGAAGTAGACTGCTGTTCCCCCAGTAGTTCTGAGGAGGAAGGCTCCTCAGGA---CCAACAACCTCGCCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAAATCTATGAGTTCTGCTTTCCTGTTCTTTGCTTATACCAGAACAGCAGGTTGATTGGGCAGCCACAACACTAATGCAGACCCGATGCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCCTCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTATTGTTGCCAGAGTGGCTCAgtaagccagtttggaaaggattccaacatcaaatcttccttcctccatct Alignment from GeneWise AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCT-TTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG agaattacctgtacatactcccctccaaaacacattgcttctctctctagAGTGCTGGAGCTCTTCCTTGAATACCAAGGACCAACAGAGACCCCCCGAAGCCTCACCAATACCTCAACTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTTTGCTTCTTCAACCCACCCTTATCAGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCTCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTA---CCCTGGCAGCTACAACAGCGAGAAGGCTCAGTTGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTGCAAGAAGTAGACTGCTGTTCCCCCAGTAGTTCTGAGGAGGAAGGCTCCTCAGGA---CCAACAACCTCGCCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAAATCTATGAGTTCTGCTTTCCTGTTCTTTGCTTATACCAGAACAGCAGGTTGATTGGGCAGCCACAACACTAATGCAGACCCGATGCACAGTTGTGGGTCAACTGGCCCAGGACACCCTTTCACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCCTCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTATTGTTGCCAGAGTGGCTCAgtaagccagtttggaaaggattccaacatcaaatcttccttcctccatct #### Rin1_ID812_7 --> 2 - 1 Original Alignment aaTTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTAC-TCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAg cagtttggaaaggattccaacatcaaatcacaagaaaaattgtgtttcagaaTTGGTGCTGGAGAAGTCCCAACATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTGGGTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTTTGTCAGAAACTTCTACAGCTCCTACGTGCATACCTCGCCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAggtatcatatcaccaacttccccagggctagtgcacatacacacctttaga Alignment from CESAR aaTTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTAC-TCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAg cagtttggaaaggattccaacatcaaatcacaagaaaaattgtgtttcagaaTTGGTGCTGGAGAAGTCCCAACATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTGGGTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTTTGTCAGAAACTTCTACAGCTCCTACGTGCATACCTCGCCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAggtatcatatcaccaacttccccagggctagtgcacatacacacctttaga Alignment from Spaln_aa2Genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTAC-TCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG cagtttggaaaggattccaacatcaaatcacaagaaaaattgtgtttcagAATTGGTGCTGGAGAAGTCCCAACATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTGGGTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTTTGTCAGAAACTTCTACAGCTCCTACGTGCATACcTCGCCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAGgtatcatatcaccaacttccccagggctagtgcacatacacacctttaga Alignment from Spaln_nt2Genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTAC-TCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG cagtttggaaaggattccaacatcaaatcacaagaaaaattgtgtttcagAATTGGTGCTGGAGAAGTCCCAACATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTGGGTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTTTGTCAGAAACTTCTACAGCTCCTACGTGCATACCTCGCCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAGgtatcatatcaccaacttccccagggctagtgcacatacacacctttaga Alignment from Pairagon AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTA-CTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG cagtttggaaaggattccaacatcaaatcacaagaaaaattgtgtttcagAATTGGTGCTGGAGAAGTCCCAACATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTGGGTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTTTGTCAGAAACTTCTACAGCTCCTACGTGCATACCTCGCCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAGgtatcatatcaccaacttccccagggctagtgcacatacacacctttaga Alignment from Exonerate_protein2genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTAC-TCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG cagtttggaaaggattccaacatcaaatcacaagaaaaattgtgtttcagAATTGGTGCTGGAGAAGTCCCAACATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTGGGTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTTTGTCAGAAACTTCTACAGCTCCTACGTGCATACCTCGCCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAGgtatcatatcaccaacttccccagggctagtgcacatacacacctttaga Alignment from Exonerate_coding2genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTAC-TCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG cagtttggaaaggattccaacatcaaatcacaagaaaaattgtgtttcagAATTGGTGCTGGAGAAGTCCCAACATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTGGGTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTTTGTCAGAAACTTCTACAGCTCCTACGTGCATACCTCGCCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAGgtatcatatcaccaacttccccagggctagtgcacatacacacctttaga Alignment from GeneWise AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTAC-TCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG cagtttggaaaggattccaacatcaaatcacaagaaaaattgtgtttcagAATTGGTGCTGGAGAAGTCCCAACATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTGGGTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTTTGTCAGAAACTTCTACAGCTCCTACGTGCATACCTCGCCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAGgtatcatatcaccaacttccccagggctagtgcacatacacacctttaga #### Rin1_ID813_8 --> 2 - 1 Original Alignment gaGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTAT-ATGTCAGAGCTCCTGGAACCCACCCTGCTC---ACTGGAGAGg tctgggtgcaaaaattcaacattcagggcatttcctacttaacaacgcaggaGAAAATACAGGTGCTGATGAATTCCTCCCCCTGTTGAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTGTTGGAAGCTGAGTATCATGTCAGAGCTTCTTGAACCAACTTTACTAACTGCAGGTGAGggtgagtatcattcttacatagtgtatgaccgggtacttgttataggtcct Alignment from CESAR gaGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTAT-ATGTCAGAGCTCCTGGAACCCACCCTGCTCACT---GGAGAGg tctgggtgcaaaaattcaacattcagggcatttcctacttaacaacgcaggaGAAAATACAGGTGCTGATGAATTCCTCCCCCTGTTGAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTGTTGGAAGCTGAGTATCATGTCAGAGCTTCTTGAACCAACTTTACTAACTGCAGGTGAGggtgagtatcattcttacatagtgtatgaccgggtacttgttataggtcct Alignment from Spaln_aa2Genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTAT-ATGTCAGAGCTCCTGGAACCCACCCTGCTCACT---GGAGAGG tctgggtgcaaaaattcaacattcagggcatttcctacttaacaacgcagGAGAAAATACAGGTGCTGATGAATTCCTCCCCCTGTTGAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTGTTGGAAGCTGAGTATcATGTCAGAGCTTCTTGAACCAACTTTACTAACTGCAGGTGAGGgtgagtatcattcttacatagtgtatgaccgggtacttgttataggtcct Alignment from Spaln_nt2Genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTAT-ATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAG---AGG tctgggtgcaaaaattcaacattcagggcatttcctacttaacaacgcagGAGAAAATACAGGTGCTGATGAATTCCTCCCCCTGTTGAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTGTTGGAAGCTGAGTATCATGTCAGAGCTTCTTGAACCAACTTTACTAACTGCAGGTGAGGgtgagtatcattcttacatagtgtatgaccgggtacttgttataggtcct Alignment from Pairagon GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTAT-ATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGA---GAGG tctgggtgcaaaaattcaacattcagggcatttcctacttaacaacgcagGAGAAAATACAGGTGCTGATGAATTCCTCCCCCTGTTGAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTGTTGGAAGCTGAGTATCATGTCAGAGCTTCTTGAACCAACTTTACTAACTGCAGGTGAGGgtgagtatcattcttacatagtgtatgaccgggtacttgttataggtcct Alignment from Exonerate_protein2genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTAT-ATGTCAGAGCTCCTGGAACCCACCCTGCTCACT---GGAGAGG tctgggtgcaaaaattcaacattcagggcatttcctacttaacaacgcagGAGAAAATACAGGTGCTGATGAATTCCTCCCCCTGTTGAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTGTTGGAAGCTGAGTATCATGTCAGAGCTTCTTGAACCAACTTTACTAACTGCAGGTGAGGgtgagtatcattcttacatagtgtatgaccgggtacttgttataggtcct Alignment from Exonerate_coding2genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTAT-ATGTCAGAGCTCCTGGAACCCACCCTGCTCACT---GGAGAGG tctgggtgcaaaaattcaacattcagggcatttcctacttaacaacgcagGAGAAAATACAGGTGCTGATGAATTCCTCCCCCTGTTGAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTGTTGGAAGCTGAGTATCATGTCAGAGCTTCTTGAACCAACTTTACTAACTGCAGGTGAGGgtgagtatcattcttacatagtgtatgaccgggtacttgttataggtcct Alignment from GeneWise GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTAT-ATGTCAGAGCTCCTGGAACCCACCCTGCTCACT---GGAGAGG tctgggtgcaaaaattcaacattcagggcatttcctacttaacaacgcagGAGAAAATACAGGTGCTGATGAATTCCTCCCCCTGTTGAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTGTTGGAAGCTGAGTATCATGTCAGAGCTTCTTGAACCAACTTTACTAACTGCAGGTGAGGgtgagtatcattcttacatagtgtatgaccgggtacttgttataggtcct #### Rnaseh2c_ID1104_3 --> 0 - 0 Original Alignment GACCGCCTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTG-CATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG gtacaaatgtaaccaactaatgtacaaaatattttcctttctttgtatagGACCGCCTTATCGGGGCCACTGGGAGCTTCAGCCATTTTACCTTGTGGGATCTGGAAACAGTCCCAGGTCCAGATGCCATAGTGCCATAGGGCCCTAGGATGGCCCACCCTTGCGGCAGCAgtaagtagactgaagaaatttgcccccaagggctcataattcctttcacc Alignment from CESAR GACCGCCTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTG-CATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG gtacaaatgtaaccaactaatgtacaaaatattttcctttctttgtatagGACCGCCTTATCGGGGCCACTGGGAGCTTCAGCCATTTTACCTTGTGGGATCTGGAAACAGTCCCAGGTCCAGATGCCATAGTGCCATAGGGCCCTAGGATGGCCCACCCTTGCGGCAGCAgtaagtagactgaagaaatttgcccccaagggctcataattcctttcacc Alignment from Spaln_aa2Genome GACCGCCTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTG-CATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG gtacaaatgtaaccaactaatgtacaaaatattttcctttctttgtatagGACCGCCTTATCGGGGCCACTGGGAGCTTCAGCCATTTTACCTTGTGGGATCTGGAAACAGTCCCAGGTCCAGATGCCATAGTGcCATAGGGCCCTAGGATGGCCCACCCTTGCGGCAGCAgtaagtagactgaagaaatttgcccccaagggctcataattcctttcacc Alignment from Spaln_nt2Genome GACCGCCTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTG-CATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG gtacaaatgtaaccaactaatgtacaaaatattttcctttctttgtatagGACCGCCTTATCGGGGCCACTGGGAGCTTCAGCCATTTTACCTTGTGGGATCTGGAAACAGTCCCAGGTCCAGATGCCATAGTGCCATAGGGCCCTAGGATGGCCCACCCTTGCGGCAGCAgtaagtagactgaagaaatttgcccccaagggctcataattcctttcacc Alignment from Pairagon GACCGCCTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGC-ATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG gtacaaatgtaaccaactaatgtacaaaatattttcctttctttgtatagGACCGCCTTATCGGGGCCACTGGGAGCTTCAGCCATTTTACCTTGTGGGATCTGGAAACAGTCCCAGGTCCAGATGCCATAGTGCCATAGGGCCCTAGGATGGCCCACCCTTGCGGCAGCAgtaagtagactgaagaaatttgcccccaagggctcataattcctttcacc Alignment from Exonerate_protein2genome gtacaaatgtaaccaactaatgtacaaaatattttcctttctttgtataggaccgccttatcggggccactgggagcttcagccattttaccttgtgggatctggaaacagtcccaggtccagatgccatagtgccatagggccctaggatggcccacccttgcggcagcagtaagtagactgaagaaatttgcccccaagggctcataattcctttcacc Alignment from Exonerate_coding2genome GACCGCCTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTG-CATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCGATT gtacaaatgtaaccaactaatgtacaaaatattttcctttctttgtatagGACCGCCTTATCGGGGCCACTGGGAGCTTCAGCCATTTTACCTTGTGGGATCTGGAAACAGTCCCAGGTCCAGATGCCATAGTGCCATAGGGCCCTAGGATGGCCCACCCTTGCGGCAGCAGTAagtagactgaagaaatttgcccccaagggctcataattcctttcacc Alignment from GeneWise GACCGCCTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCC-AAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCGATTCACGCCCAGGTCCCTGAGGAC gtacaaatgtaaccaactaatgtacaaaatattttcctttctttgtatagGACCGCCTTATCGGGGCCACTGGGAGCTTCAGCCATTTTACCTTGTGGGATCTGGAAACAGTCCCAGGTCCAGATGCCATAGTGCCATAGGGCCCTAGGATGGCCCACCCTTGCGGCAGCAGTA---AGTAGACTGAAGAAATTTgcccccaagggctcataattcctttc #### Rps6kb2_ID375_7 --> 1 - 1 Original Alignment cTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCAT-CTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGg gtctgcaggatacctactgtagcgagtaccttacccagacccccactcagtTTCTACCTTGCGGAGATCACATTGGCATTAGGCCATCCTCCATTTCCATAGCATCATTTACCGTGATCACAAGCCAGGGAAA---ATGCTCACCAGTCAGggtaagattcacatcactgtatggtgataaaacttagttttcccagtgtca Alignment from CESAR cTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCAT-CTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGg gtctgcaggatacctactgtagcgagtaccttacccagacccccactcagtTTCTACCTTGCGGAGATCACATTGGCATTAGGCCATCCTCCATTTCCATAGCATCATTTACCGTGATCACAAGCCAGGGAAA---ATGCTCACCAGTCAGggtaagattcacatcactgtatggtgataaaacttagttttcccagtgtca Alignment from Spaln_aa2Genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCAT-CTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGG gtctgcaggatacctactgtagcgagtaccttacccagacccccactcagTTTCTACCTTGCGGAGATCACATTGGCATTAGGCCATcCTCCATTTCCATAGCATCATTTACCGTGATCACAAGCCAGGGAAA---ATGCTCACCAGTCAGGgtaagattcacatcactgtatggtgataaaacttagttttcccagtgtca Alignment from Spaln_nt2Genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATC-TCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGG gtctgcaggatacctactgtagcgagtaccttacccagacccccactcagTTTCTACCTTGCGGAGATCACATTGGCATTAGGCCATCCTCCATTTCCATAGCATCATTTACCGTGATCACAAGCCAGGGAA---AATGCTCACCAGTCAGGgtaagattcacatcactgtatggtgataaaacttagttttcccagtgtca Alignment from Pairagon CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCAT-CTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGG gtctgcaggatacctactgtagcgagtaccttacccagacccccactcagTTTCTACCTTGCGGAGATCACATTGGCATTAGGCCATCCTCCATTTCCATAGCATCATTTACCGTGATCACAAGCCAGGGAA---AATGCTCACCAGTCAGGgtaagattcacatcactgtatggtgataaaacttagttttcccagtgtca Alignment from Exonerate_protein2genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCAT-CTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGG gtctgcaggatacctactgtagcgagtaccttacccagacccccactcagTTTCTACCTTGCGGAGATCACATTGGCATTAGGCCATCCTCCATTTCCATAGCATCATTTACCGTGATCACAAGCCAGGGAAA---ATGCTCACCAGTCAGGgtaagattcacatcactgtatggtgataaaacttagttttcccagtgtca Alignment from Exonerate_coding2genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCAT-CTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGGGCCACATCAAACTGACA gtctgcaggatacctactgtagcgagtaccttacccagacccccactcagTTTCTACCTTGCGGAGATCACATTGGCATTAGGCCATCCTCCATTTCCATAGCATCATTTACCGTGATCACAAGCCAGGGAAA---ATGCTCACCAGTCAGGGTAAGATTCACATCACTgtatggtgataaaacttagttttcccagtgtca Alignment from GeneWise CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCAT-CTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGG gtctgcaggatacctactgtagcgagtaccttacccagacccccactcagTTTCTACCTTGCGGAGATCACATTGGCATTAGGCCATCCTCCATTTCCATAGCATCATTTACCGTGATCACAAGCCAGGGAAA---ATGCTCACCAGTCAGGgtaagattcacatcactgtatggtgataaaacttagttttcccagtgtca #### Rrp12_ID8301_22 --> 0 - 0 Original Alignment CCCCGTTTGAAGTGCCTCATACATATTGTG-AAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG ggggcatataggattgactattcaatgctcttcacttccttttaaaatagCCC---CTGAAATGTCTCATACATATTGTGCAAAACACTGTTAGCTGAACATGAAGAATTCACAGCTGCATTGATCCCTGAGgtaacgttgcaggtcagactctggactcctgaagccagacctaaggagga Alignment from CESAR CCCCGTTTGAAGTGCCTCATACATATTGTG-AAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG ggggcatataggattgactattcaatgctcttcacttccttttaaaatagCCC---CTGAAATGTCTCATACATATTGTGCAAAACACTGTTAGCTGAACATGAAGAATTCACAGCTGCATTGATCCCTGAGgtaacgttgcaggtcagactctggactcctgaagccagacctaaggagga Alignment from Spaln_aa2Genome CCCCGTTTGAAGTGCCTCATACATATTGTG-AAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG ggggcatataggattgactattcaatgctcttcacttccttttaaaatagCCC---CTGAAATGTCTCATACATATTGTGcAAAACACTGTTAGCTGAACATGAAGAATTCACAGCTGCATTGATCCCTGAGgtaacgttgcaggtcagactctggactcctgaagccagacctaaggagga Alignment from Spaln_nt2Genome CCCCGTTTGAAGTGCCTCATACATATTGTG-AAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG ggggcatataggattgactattcaatgctcttcacttccttttaaaatagCCCC---TGAAATGTCTCATACATATTGTGCAAAACACTGTTAGCTGAACATGAAGAATTCACAGCTGCATTGATCCCTGAGgtaacgttgcaggtcagactctggactcctgaagccagacctaaggagga Alignment from Pairagon CCCCGTTTGAAGTGCCTCATACATATTGTG-AAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG ggggcatataggattgactattcaatgctcttcacttccttttaaaatagCCCC---TGAAATGTCTCATACATATTGTGCAAAACACTGTTAGCTGAACATGAAGAATTCACAGCTGCATTGATCCCTGAGgtaacgttgcaggtcagactctggactcctgaagccagacctaaggagga Alignment from Exonerate_protein2genome CCCCGTTTGAAGTGCCTCATACATATTGTG-AAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG ggggcatataggattgactattcaatgctcttcacttccttttaaaaTAGCCCCTGAAATGTCTCATACATATTGTGCAAAACACTGTTAGCTGAACATGAAGAATTCACAGCTGCATTGATCCCTGAGgtaacgttgcaggtcagactctggactcctgaagccagacctaaggagga Alignment from Exonerate_coding2genome ggggcatataggattgactattcaatgctcttcacttccttttaaaatagcccctgaaatgtctcatacatattgtgcaaaacactgttagctgaacatgaagaattcacagctgcattgatccctgaggtaacgttgcaggtcagactctggactcctgaagccagacctaaggagga Alignment from GeneWise CCCCGTTTGAAGTGCCTCATACATATT-GTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG ggggcatataggattgactattcaatgctcttcacttccttttaaaatagCCC---CTGAAATGTCTCATACATATTGTGCAAAACACTGTTAGCTGAACATGAAGAATTCACAGCTGCATTGATCCCTGAGgtaacgttgcaggtcagactctggactcctgaagccagacctaaggagga #### Rrp12_ID8308_15 --> 1 - 1 Original Alignment gGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTC-TTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAg aactgaaacattgactgagctaactacaattttatatccatcccttctaggGAAAATCTGGATTTT---CAGAGCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCAGGCTTGGCTTCCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAggtagagaggtcttatccttataagatacaggtcacagaagaaatatcagc Alignment from CESAR gGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTC-TTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAg aactgaaacattgactgagctaactacaattttatatccatcccttctaggGAAAATCTGGATTTT---CAGAGCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCAGGCTTGGCTTCCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAggtagagaggtcttatccttataagatacaggtcacagaagaaatatcagc Alignment from Spaln_aa2Genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTC-TTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG aactgaaacattgactgagctaactacaattttatatccatcccttctagGGAAAATCTGGATTTT---CAGAGCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCAGGCTTGGCTTCcTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtagagaggtcttatccttataagatacaggtcacagaagaaatatcagc Alignment from Spaln_nt2Genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTC-TTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG aactgaaacattgactgagctaactacaattttatatccatcccttctagGGAAAATCTGGATTT---TCAGAGCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCAGGCTTGGCTTCCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtagagaggtcttatccttataagatacaggtcacagaagaaatatcagc Alignment from Pairagon GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGG-TTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG aactgaaacattgactgagctaactacaattttatatccatcccttctagGGAAAATCTGGATTTT---CAGAGCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCAGGCTTGGCTTCCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtagagaggtcttatccttataagatacaggtcacagaagaaatatcagc Alignment from Exonerate_protein2genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTC-TTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG aactgaaacattgactgagctaactacaattttatatccatcccttctagGGAAAATCTGGATTTT---CAGAGCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCAGGCTTGGCTTCCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtagagaggtcttatccttataagatacaggtcacagaagaaatatcagc Alignment from Exonerate_coding2genome aactgaaacattgactgagctaactacaattttatatccatcccttctagggaaaatctggattttcagagctggttgttgtctgtcatccgggattatgtccaggaaaccaggcttggcttccttcactacctatttcttgcccctagctacaacccttaagagaaaaggtagagaggtcttatccttataagatacaggtcacagaagaaatatcagc Alignment from GeneWise GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTC-TTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG aactgaaacattgactgagctaactacaattttatatccatcccttctagGGAAAATCTGGATTTT---CAGAGCTGGTTGTTGTCTGTCATCCGGGATTATGTCCAGGAAACCAGGCTTGGCTTCCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtagagaggtcttatccttataagatacaggtcacagaagaaatatcagc #### Sart1_ID956_19 --> 0 - 2 Original Alignment CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAG-ACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATgc ctgatatgccacaattggcagcattgactaactctttcttcatcttgtagCTTCATAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGCACACCTCAGATTGTACTCAGTGGCAGTGGTAAGAGCATGAATgcgttagtaggtaggagttttcagcttggactggtatgctgaacacaattat Alignment from CESAR CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAG-ACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATgc ctgatatgccacaattggcagcattgactaactctttcttcatcttgtagCTTCATAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGCACACCTCAGATTGTACTCAGTGGCAGTGGTAAGAGCATGAATgcgttagtaggtaggagttttcagcttggactggtatgctgaacacaattat Alignment from Spaln_aa2Genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAG-ACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGC ctgatatgccacaattggcagcattgactaactctttcttcatcttgtagCTTCATAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGcACACCTCAGATTGTACTCAGTGGCAGTGGTAAGAGCATGAATGCgttagtaggtaggagttttcagcttggactggtatgctgaacacaattat Alignment from Spaln_nt2Genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAG-ACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGC ctgatatgccacaattggcagcattgactaactctttcttcatcttgtagCTTCATAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGCACACCTCAGATTGTACTCAGTGGCAGTGGTAAGAGCATGAATGCgttagtaggtaggagttttcagcttggactggtatgctgaacacaattat Alignment from Pairagon CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAG-ACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGC ctgatatgccacaattggcagcattgactaactctttcttcatcttgtagCTTCATAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGCACACCTCAGATTGTACTCAGTGGCAGTGGTAAGAGCATGAATGCgttagtaggtaggagttttcagcttggactggtatgctgaacacaattat Alignment from Exonerate_protein2genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAG-ACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGCG ctgatatgccacaattggcagcattgactaactctttcttcatcttgtagCTTCATAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGCACACCTCAGATTGTACTCAGTGGCAGTGGTAAGAGCATGAATGCGttagtaggtaggagttttcagcttggactggtatgctgaacacaattat Alignment from Exonerate_coding2genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAG-ACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGCG ctgatatgccacaattggcagcattgactaactctttcttcatcttgtagCTTCATAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGCACACCTCAGATTGTACTCAGTGGCAGTGGTAAGAGCATGAATGCGttagtaggtaggagttttcagcttggactggtatgctgaacacaattat Alignment from GeneWise CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAG-AAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGCGAACACCATCACCAAA ctgatatgccacaattggcagcattgactaactctttcttcatcttgtagCTTCATAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGCACACCTCAGATTGTACTCAGTGGCAGTGGTAAGAGCATGAATGCGTTAGTAGGTAGGAGTtttcagcttggactggtatgctgaacacaattat #### Sart1_ID957_18 --> 0 - 0 Original Alignment GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAG-AAGCTGGATGAGGAGGCG cccatgtctagagggcccctgtaccctctgacttcccctgatctccctagGCTTTCCGGCAACTGTCCCACCGGTTCCATGGAAAGGGCTCAGGCAAGATGAAAACTGAGCGGTGGATGAAGCAAGCTGGATGAGGAGGCAgtaaggcaggagccattggctagtctgtatttcagtgaaatctgatatgc Alignment from CESAR GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAG-AAGCTGGATGAGGAGGCG cccatgtctagagggcccctgtaccctctgacttcccctgatctccctagGCTTTCCGGCAACTGTCCCACCGGTTCCATGGAAAGGGCTCAGGCAAGATGAAAACTGAGCGGTGGATGAAGCAAGCTGGATGAGGAGGCAgtaaggcaggagccattggctagtctgtatttcagtgaaatctgatatgc Alignment from Spaln_aa2Genome GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAG-AAGCTGGATGAGGAGGCG cccatgtctagagggcccctgtaccctctgacttcccctgatctccctagGCTTTCCGGCAACTGTCCCACCGGTTCCATGGAAAGGGCTCAGGCAAGATGAAAACTGAGCGGTGGATGAAGcAAGCTGGATGAGGAGGCAgtaaggcaggagccattggctagtctgtatttcagtgaaatctgatatgc Alignment from Spaln_nt2Genome GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAG-AAGCTGGATGAGGAGGCG cccatgtctagagggcccctgtaccctctgacttcccctgatctccctagGCTTTCCGGCAACTGTCCCACCGGTTCCATGGAAAGGGCTCAGGCAAGATGAAAACTGAGCGGTGGATGAAGCAAGCTGGATGAGGAGGCAgtaaggcaggagccattggctagtctgtatttcagtgaaatctgatatgc Alignment from Pairagon GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAG-AAGCTGGATGAGGAGGCG cccatgtctagagggcccctgtaccctctgacttcccctgatctccctagGCTTTCCGGCAACTGTCCCACCGGTTCCATGGAAAGGGCTCAGGCAAGATGAAAACTGAGCGGTGGATGAAGCAAGCTGGATGAGGAGGCAgtaaggcaggagccattggctagtctgtatttcagtgaaatctgatatgc Alignment from Exonerate_protein2genome GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAG-AAGCTGGATGAGGAGGCG cccatgtctagagggcccctgtaccctctgacttcccctgatctccctagGCTTTCCGGCAACTGTCCCACCGGTTCCATGGAAAGGGCTCAGGCAAGATGAAAACTGAGCGGTGGATGAAGCAAGCTGGATGAGGAGGCAgtaaggcaggagccattggctagtctgtatttcagtgaaatctgatatgc Alignment from Exonerate_coding2genome GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAG-AAGCTGGATGAGGAGGCG cccatgtctagagggcccctgtaccctctgacttcccctgatctccctagGCTTTCCGGCAACTGTCCCACCGGTTCCATGGAAAGGGCTCAGGCAAGATGAAAACTGAGCGGTGGATGAAGCAAGCTGGATGAGGAGGCAgtaaggcaggagccattggctagtctgtatttcagtgaaatctgatatgc Alignment from GeneWise GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAG-AAGCTGGATGAGGAGGCG cccatgtctagagggcccctgtaccctctgacttcccctgatctccctagGCTTTCCGGCAACTGTCCCACCGGTTCCATGGAAAGGGCTCAGGCAAGATGAAAACTGAGCGGTGGATGAAGCAAGCTGGATGAGGAGGCAgtaaggcaggagccattggctagtctgtatttcagtgaaatctgatatgc #### Sart1_ID961_14 --> 0 - 0 Original Alignment GACTTTGAAAGGGATGAGGAG-CGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagctacaggtggaatctgtgcatttgatgctctcccatcttggcagGACTTTGAGAGGGATGAGGAACCACTCAGCTAATGGAGGATCTGAATCAGATGGGGAAGAGAACATTGGTTGGAGCACAATCAACCTCGAC------GAACAGCCTCAGGATgtactgcctcatgtctataggtggagggcagtggggatcccccataggtt Alignment from CESAR GACTTTGAAAGGGATGAGGAG-CGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagctacaggtggaatctgtgcatttgatgctctcccatcttggcagGACTTTGAGAGGGATGAGGAACCACTCAGCTAATGGAGGATCTGAATCAGATGGGGAAGAGAACATTGGTTGGAGCACAATCAACCTCGACGAA------CAGCCTCAGGATgtactgcctcatgtctataggtggagggcagtggggatcccccataggtt Alignment from Spaln_aa2Genome GACTTTGAAAGGGATGAGGAG-CGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagctacaggtggaatctgtgcatttgatgctctcccatcttggcagGACTTTGAGAGGGATGAGGAAcCACTCAGCTAATGGAGGATCTGAATCAGATGGGGAAGAGAACATTGGTTGGAGCACAATCAACCTCGACGAA------CAGCCTCAGGATgtactgcctcatgtctataggtggagggcagtggggatcccccataggtt Alignment from Spaln_nt2Genome GACTTTGAAAGGGATGAGGAGCG-CTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagctacaggtggaatctgtgcatttgatgctctcccatcttggcagGACTTTGAGAGGGATGAGGAACCACTCAGCTAATGGAGGATCTGAATCAGATGGGGAAGAGAACATTGGTTGGAGCACAATCAACCTCGACG------AACAGCCTCAGGATgtactgcctcatgtctataggtggagggcagtggggatcccccataggtt Alignment from Pairagon GACTTTGAAAGGGATGAGGAG-CGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagctacaggtggaatctgtgcatttgatgctctcccatcttggcagGACTTTGAGAGGGATGAGGAACCACTCAGCTAATGGAGGATCTGAATCAGATGGGGAAGAGAACATTGGTTGGAGCACAATCAACCTCGACG------AACAGCCTCAGGATgtactgcctcatgtctataggtggagggcagtggggatcccccataggtt Alignment from Exonerate_protein2genome GACTTTGAAAGGGATGAGGAG-CGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAG tgtgagctacaggtggaatctgtgcatttgatgctctcccatcttggcagGACTTTGAGAGGGATGAGGAACCACTCAGCTAATGGAGGATCTGAATCAGATGGGGAAGAGAACATTGGTTGGAGCACAATCAACCTCGACGAACAGCCTCAGgatgtactgcctcatgtctataggtggagggcagtggggatcccccataggtt Alignment from Exonerate_coding2genome GACTTTGAAAGGGATGAGGAG-CGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAG tgtgagctacaggtggaatctgtgcatttgatgctctcccatcttggcagGACTTTGAGAGGGATGAGGAACCACTCAGCTAATGGAGGATCTGAATCAGATGGGGAAGAGAACATTGGTTGGAGCACAATCAACCTCGACGAACAGCCTCAGgatgtactgcctcatgtctataggtggagggcagtggggatcccccataggtt Alignment from GeneWise GACTTTGAAAGGGATGAGGAG-CGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tgtgagctacaggtggaatctgtgcatttgatgctctcccatcttggcagGACTTTGAGAGGGATGAGGAACCACTCAGCTAATGGAGGATCTGAATCAGATGGGGAAGAGAACATTGGTTGGAGCACAATCAACCTCGACGAA------CAGCCTCAGGATgtactgcctcatgtctataggtggagggcagtggggatcccccataggtt #### Sart1_ID962_13 --> 0 - 0 Original Alignment GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCC-ACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgataccatttccctactgcctataactgtcattattattcctttctagGTGCTGGAAATTGTGAAGAAGCTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAGGGGAACATCAGTTTTCAATGCCCCCATCAGAATTTTGCTGTATACTAGGGGAGTCCCCCACATACGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtgagtcaattgattcttagatcaatcaattcttatagctttcaatgtaa Alignment from CESAR GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCC-ACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgataccatttccctactgcctataactgtcattattattcctttctagGTGCTGGAAATTGTGAAGAAGCTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAGGGGAACATCAGTTTTCAATGCCCCCATCAGAATTTTGCTGTATACTAGGGGAGTCCCCCACATACGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtgagtcaattgattcttagatcaatcaattcttatagctttcaatgtaa Alignment from Spaln_aa2Genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCC-ACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgataccatttccctactgcctataactgtcattattattcctttctagGTGCTGGAAATTGTGAAGAAGCTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAGGGGAACATCAGTTTTCAATGCCcCCATCAGAATTTTGCTGTATACTAGGGGAGTCCCCCACATACGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtgagtcaattgattcttagatcaatcaattcttatagctttcaatgtaa Alignment from Spaln_nt2Genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATG-CCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgataccatttccctactgcctataactgtcattattattcctttctagGTGCTGGAAATTGTGAAGAAGCTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAGGGGAACATCAGTTTTCAATGCCCCCATCAGAATTTTGCTGTATACTAGGGGAGTCCCCCACATACGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtgagtcaattgattcttagatcaatcaattcttatagctttcaatgtaa Alignment from Pairagon GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACT-TCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgataccatttccctactgcctataactgtcattattattcctttctagGTGCTGGAAATTGTGAAGAAGCTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAGGGGAACATCAGTTTTCAATGCCCCCATCAGAATTTTGCTGTATACTAGGGGAGTCCCCCACATACGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtgagtcaattgattcttagatcaatcaattcttatagctttcaatgtaa Alignment from Exonerate_protein2genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCC-ACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgataccatttccctactgcctataactgtcattattattcctttctagGTGCTGGAAATTGTGAAGAAGCTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAGGGGAACATCAGTTTTCAATGCCCCCATCAGAATTTTGCTGTATACTAGGGGAGTCCCCCACATACGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtgagtcaattgattcttagatcaatcaattcttatagctttcaatgtaa Alignment from Exonerate_coding2genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCC-ACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgataccatttccctactgcctataactgtcattattattcctttctagGTGCTGGAAATTGTGAAGAAGCTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAGGGGAACATCAGTTTTCAATGCCCCCATCAGAATTTTGCTGTATACTAGGGGAGTCCCCCACATACGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtgagtcaattgattcttagatcaatcaattcttatagctttcaatgtaa Alignment from GeneWise GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCC-ACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgataccatttccctactgcctataactgtcattattattcctttctagGTGCTGGAAATTGTGAAGAAGCTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAGGGGAACATCAGTTTTCAATGCCCCCATCAGAATTTTGCTGTATACTAGGGGAGTCCCCCACATACGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtgagtcaattgattcttagatcaatcaattcttatagctttcaatgtaa #### Sart1_ID964_11 --> 1 - 1 Original Alignment gCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAG---GCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAG-CCGCCACCATCGGATGACACT---------CGAGTAGAGAACATGGACATCAGTGATGAAg agatggagaaattcaaaggacatagtttaagaagtgcttttctgttttagaCTTCAGGGACAGGGAAGGCATCAAGTTACC------AAGGAGGAGACAACACTTGAAGATGAGGGGAAGGATCTCGTTGCCAAGCCCACCTCCATCGGATGACACTCGAGTCATTCAAGTC------ATGGACATCAGTGATGAAggtatgttattgctgagtggggatccatggtgaatctgcaggcaggtctaa Alignment from CESAR gCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAG-CCGCCACCATCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAAg agatggagaaattcaaaggacatagtttaagaagtgcttttctgttttagaCTTCAGGGACAGGGAAGGCATCAAGTTACCAAG---GAGGAGACAACACTTGAAGATGAGGGGAAGGATCTCGTTGCCAAGCCCACCTCCATCGGATGACACTCGAGTCATTCAAGTCATGGACATCAGTGATGAAggtatgttattgctgagtggggatccatggtgaatctgcaggcaggtctaa Alignment from Spaln_aa2Genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAG-CCGCCACCATCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAAG agatggagaaattcaaaggacatagtttaagaagtgcttttctgttttagACTTCAGGGACAGGGAAGGCATCAAGTTACCAAG---GAGGAGACAACACTTGAAGATGAGGGGAAGGATCTCGTTGCCAAGcCCACCTCCATCGGATGACACTCGAGTCATTCAAGTCATGGACATCAGTGATGAAGgtatgttattgctgagtggggatccatggtgaatctgcaggcaggtctaa Alignment from Spaln_nt2Genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCG-CCACCATCGGATGACACTCGAGT-AGAGAA--CATGGACATCAGTGATGAAG agatggagaaattcaaaggacatagtttaagaagtgcttttctgttttagACTTCAGGGACAGGGAAGGCATCAAGTTACCAA---GGAGGAGACAACACTTGAAGATGAGGGGAAGGATCTCGTTGCCAAGCCCACCTCCATCGGATGACACTCGAGTCATTCAAGTCATGGACATCAGTGATGAAGgtatgttattgctgagtggggatccatggtgaatctgcaggcaggtctaa Alignment from Pairagon GGACTTTGGATCCAGGCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGG------------------AGGAGG------CCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAG-CCGCCACCATCGGATGACACTCGAGT------AGAGAACATGGACATCAGTGATGAAG agatggagaaattcaaaggacatagtttaagaagtgcttttctgttttagacttcagGGAC-------------------------------------------------AGGGAAGGCATCAAGTTACCAAGGAGGAGACAACACTTGAAGATGAGGGGAAGGATCTCGTTGCCAAGCCCACCTCCATCGGATGACACTCGAGTCATTCAAG---TCATGGACATCAGTGATGAAGgtatgttattgctgagtggggatccatggtgaatctgcaggcaggtctaa Alignment from Exonerate_protein2genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAG-CCGCCACCATCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAAG agatggagaaattcaaaggacatagtttaagaagtgcttttctgttttagACTTCAGGGACAGGGAAGGCATCAAGTTACCAAG---GAGGAGACAACACTTGAAGATGAGGGGAAGGATCTCGTTGCCAAGCCCACCTCCATCGGATGACACTCGAGTCATTCAAGTCATGGACATCAGTGATGAAGgtatgttattgctgagtggggatccatggtgaatctgcaggcaggtctaa Alignment from Exonerate_coding2genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAG-CCGCCACCATCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAAG agatggagaaattcaaaggacatagtttaagaagtgcttttctgttttagACTTCAGGGACAGGGAAGGCATCAAGTTACCAAG---GAGGAGACAACACTTGAAGATGAGGGGAAGGATCTCGTTGCCAAGCCCACCTCCATCGGATGACACTCGAGTCATTCAAGTCATGGACATCAGTGATGAAGgtatgttattgctgagtggggatccatggtgaatctgcaggcaggtctaa Alignment from GeneWise GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCC-CAGCCGCCACCATCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAAG agatggagaaattcaaaggacatagtttaagaagtgcttttctgttttagACTTCAGGGACAGGGAAGGCATCAAGTTACCAAG---GAGGAGACAACACTTGAAGATGAGGGGAAGGATCTCGTTGCCAAGCCCACCTCCATCGGATGACACTCGAGTCATTCAAGTCATGGACATCAGTGATGAAGgtatgttattgctgagtggggatccatggtgaatctgcaggcaggtctaa #### Sart1_ID966_9 --> 0 - 0 Original Alignment ACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTG-AGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG ACAGgtgagtgtaatcagtctgtgagaacactctccccctttcttcctagCGGAGACCTTGTTCTATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGTATGGCTGATGGTCTACCGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCAGCCCAATCACTAAGTTTAATGGGTCCCAGACTTAGTACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcggtaggttatggtcatcaatacagtcctgtttacacttacacc Alignment from CESAR ACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTG-AGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG ACAGgtatgcgtaatcagtctgtgagaacactctccccctttcttcctagCGGAGACCTTGTTCTATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGTATGGCTGATGGTCTACCGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCAGCCCAATCACTAAGTTTAATGGGTCCCAGACTTAGTACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcggtaggttatggtcatcaatacagtcctgtttacacttacacc Alignment from Spaln_aa2Genome ACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTG-AGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG ACAGgtgagtgtaatcagtctgtgagaacactctccccctttcttcctagCGGAGACCTTGTTCTATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGTATGGCTGATGGTCTAcCGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCAGCCCAATCACTAAGTTTAATGGGTCCCAGACTTAGTACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcggtaggttatggtcatcaatacagtcctgtttacacttacacc Alignment from Spaln_nt2Genome ACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGA-GGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG ACAGgtgagtgtaatcagtctgtgagaacactctccccctttcttcctagCGGAGACCTTGTTCTATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGTATGGCTGATGGTCTACCGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCAGCCCAATCACTAAGTTTAATGGGTCCCAGACTTAGTACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcggtaggttatggtcatcaatacagtcctgtttacacttacacc Alignment from Pairagon ACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTG-AGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG ACAGgtgagtgtaatcagtctgtgagaacactctccccctttcttcctagCGGAGACCTTGTTCTATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGTATGGCTGATGGTCTACCGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCAGCCCAATCACTAAGTTTAATGGGTCCCAGACTTAGTACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcggtaggttatggtcatcaatacagtcctgtttacacttacacc Alignment from Exonerate_protein2genome ACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTG-AGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG ACAGgtgagtgtaatcagtctgtgagaacactctccccctttcttcctagCGGAGACCTTGTTCTATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGTATGGCTGATGGTCTACCGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCAGCCCAATCACTAAGTTTAATGGGTCCCAGACTTAGTACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcggtaggttatggtcatcaatacagtcctgtttacacttacacc Alignment from Exonerate_coding2genome ACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTG-AGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG ACAGgtgagtgtaatcagtctgtgagaacactctccccctttcttcctagCGGAGACCTTGTTCTATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGTATGGCTGATGGTCTACCGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCAGCCCAATCACTAAGTTTAATGGGTCCCAGACTTAGTACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcggtaggttatggtcatcaatacagtcctgtttacacttacacc Alignment from GeneWise ACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGC-CTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG ACAGgtgagtgtaatcagtctgtgagaacactctccccctttcttcctagCGGAGACCTTGTTCTATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGTATGGCTGATGGTCTACCGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCAGCCCAATCACTAAGTTTAATGGGTCCCAGACTTAGTACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcggtaggttatggtcatcaatacagtcctgtttacacttacacc #### Sart1_ID967_8 --> 2 - 0 Original Alignment ggGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTG-GACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG CAAA agtgaagtgctgctttcactgccagctagttttgttttgttttgttttaggtGTACTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAATATGGTGCGACAAAGAACACGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCAGACTACCTAAGCTATGTTGAGGATGAGGGTGTGGATGACCTAGCACAGgtatgcgtaatcagtctgtgagaagcttcctcattctacctcccagCGGA Alignment from CESAR ggGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTG-GACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG CAAA agtgaagtgctgctttcactgccagctagttttgttttgttttgttttaggtGTACTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAATATGGTGCGACAAAGAACACGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCAGACTACCTAAGCTATGTTGAGGATGAGGGTGTGGATGACCTAGCACAGgtatgcgtaatcagtctgtgagaacactctccccctttcttcctagCGGA Alignment from Spaln_aa2Genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTG-GACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG CAAA agtgaagtgctgctttcactgccagctagttttgttttgttttgttttagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAATATGGTGcGACAAAGAACACGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCAGACTACCTAAGCTATGTTGAGGATGAGGGTGTGGATGACCTAGCACAGgtatgcgtaatcagtctgtgagaagcttcctcattctacctcccagCGGA Alignment from Spaln_nt2Genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTG-GACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG CAAA agtgaagtgctgctttcactgccagctagttttgttttgttttgttttagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAATATGGTGCGACAAAGAACACGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCAGACTACCTAAGCTATGTTGAGGATGAGGGTGTGGATGACCTAGCACAGgtatgcgtaatcagtctgtgagaagcttcctcattctacctcccagCGGA Alignment from Pairagon GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTG-GACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG CAAA agtgaagtgctgctttcactgccagctagttttgttttgttttgttttagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAATATGGTGCGACAAAGAACACGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCAGACTACCTAAGCTATGTTGAGGATGAGGGTGTGGATGACCTAGCACAGgtatgcgtaatcagtctgtgagaagcttcctcattctacctcccagCGGA Alignment from Exonerate_protein2genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTG-GACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG CAAA agtgaagtgctgctttcactgccagctagttttgttttgttttgttttagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAATATGGTGCGACAAAGAACACGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCAGACTACCTAAGCTATGTTGAGGATGAGGGTGTGGATGACCTAGCACAGgtatgcgtaatcagtctgtgagaagcttcctcattctacctcccagCGGA Alignment from Exonerate_coding2genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTG-GACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG CAAA agtgaagtgctgctttcactgccagctagttttgttttgttttgttttagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAATATGGTGCGACAAAGAACACGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCAGACTACCTAAGCTATGTTGAGGATGAGGGTGTGGATGACCTAGCACAGgtatgcgtaatcagtctgtgagaagcttcctcattctacctcccagCGGA Alignment from GeneWise GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATG-GTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG CAAA agtgaagtgctgctttcactgccagctagttttgttttgttttgttttagGTGTACTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAATATGGTGCGACAAAGAACACGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCAGACTACCTAAGCTATGTTGAGGATGAGGGTGTGGATGACCTAGCACAGgtatgcgtaatcagtctgtgagaagcttcctcattctacctcccagCGGA #### Sart1_ID968_7 --> 0 - 1 Original Alignment GACCTGTACAGTGCCCGG-GACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAg agagaactagcttttgttcttatttcgacatgtccttctccttctactagGACCTGTACAGTGCCCGCCGACCTGCAGGGCCTCACTGTGGAACGTGCTATTGATTCTTTTCAAGAGGGGGAGACTGTGGTTGTCACCCTCAAAGACAAAggtgggcggtatctgggagtggcttgattgggtagcctgtggctaaagatt Alignment from CESAR GACCTGTACAGTGCCCGG-GACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAg agagaactagcttttgttcttatttcgacatgtccttctccttctactagGACCTGTACAGTGCCCGCCGACCTGCAGGGCCTCACTGTGGAACGTGCTATTGATTCTTTTCAAGAGGGGGAGACTGTGGTTGTCACCCTCAAAGACAAAggtgggcggtatctgggagtggcttgattgggtagcctgtggctaaagatt Alignment from Spaln_aa2Genome GACCTGTACAGTGCCCGG-GACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAG agagaactagcttttgttcttatttcgacatgtccttctccttctactagGACCTGTACAGTGCCCGCcGACCTGCAGGGCCTCACTGTGGAACGTGCTATTGATTCTTTTCAAGAGGGGGAGACTGTGGTTGTCACCCTCAAAGACAAAGgtgggcggtatctgggagtggcttgattgggtagcctgtggctaaagatt Alignment from Spaln_nt2Genome GACCTGTACAGTGCCCGG-GACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAG agagaactagcttttgttcttatttcgacatgtccttctccttctactagGACCTGTACAGTGCCCGCCGACCTGCAGGGCCTCACTGTGGAACGTGCTATTGATTCTTTTCAAGAGGGGGAGACTGTGGTTGTCACCCTCAAAGACAAAGgtgggcggtatctgggagtggcttgattgggtagcctgtggctaaagatt Alignment from Pairagon GACCTGTACAGTGCCCG-GGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAG agagaactagcttttgttcttatttcgacatgtccttctccttctactagGACCTGTACAGTGCCCGCCGACCTGCAGGGCCTCACTGTGGAACGTGCTATTGATTCTTTTCAAGAGGGGGAGACTGTGGTTGTCACCCTCAAAGACAAAGgtgggcggtatctgggagtggcttgattgggtagcctgtggctaaagatt Alignment from Exonerate_protein2genome GACCTGTACAGTGCCCGG-GACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAG agagaactagcttttgttcttatttcgacatgtccttctccttctactagGACCTGTACAGTGCCCGCCGACCTGCAGGGCCTCACTGTGGAACGTGCTATTGATTCTTTTCAAGAGGGGGAGACTGTGGTTGTCACCCTCAAAGACAAAGgtgggcggtatctgggagtggcttgattgggtagcctgtggctaaagatt Alignment from Exonerate_coding2genome GACCTGTACAGTGCCCGG-GACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAG agagaactagcttttgttcttatttcgacatgtccttctccttctactagGACCTGTACAGTGCCCGCCGACCTGCAGGGCCTCACTGTGGAACGTGCTATTGATTCTTTTCAAGAGGGGGAGACTGTGGTTGTCACCCTCAAAGACAAAGgtgggcggtatctgggagtggcttgattgggtagcctgtggctaaagatt Alignment from GeneWise GACCTGTACAGTGCC-CGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAG agagaactagcttttgttcttatttcgacatgtccttctccttctactagGACCTGTACAGTGCCCGCCGACCTGCAGGGCCTCACTGTGGAACGTGCTATTGATTCTTTTCAAGAGGGGGAGACTGTGGTTGTCACCCTCAAAGACAAAGgtgggcggtatctgggagtggcttgattgggtagcctgtggctaaagatt #### Sart1_ID970_5 --> 1 - 0 Original Alignment gAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAG-CTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG tcttcacatgcccacagttctggaagacgccactttcatttgttctctagtAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGGACGATACAGCAGCATGGATAGAGAGGAGC------CCTACAGAAAGAGAAGGATTTGGCAAAAAAGAGGgtaaagacaaatgggtatttaaaatctatctattaagtcccaaacctttt Alignment from CESAR gAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG tcttcacatgcccacagttctggaagacgccactttcatttgttctctagtAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGGACGATACAGCAGCATGGATAGAGAGGAGC-----CCTACAGAAAGAGAAGGATTTGGCAAAAAAGAGGgtaaagacaaatgggtatttaaaatctatctattaagtcccaaacctttt Alignment from Spaln_aa2Genome GAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG tcttcacatgcccacagttctggaagacgccactttcatttgttctctagTAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGGACGATACAGCAGCATGGATAGAGAGGAGCC-----CTACAGAAAGAGAAGGATTTGGCAAAAAAGAGGgtaaagacaaatgggtatttaaaatctatctattaagtcccaaacctttt Alignment from Spaln_nt2Genome GAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG tcttcacatgcccacagttctggaagacgccactttcatttgttctctagTAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGGACGATACAGCAGCATGGATAGAGAGGAGCC-----CTACAGAAAGAGAAGGATTTGGCAAAAAAGAGGgtaaagacaaatgggtatttaaaatctatctattaagtcccaaacctttt Alignment from Pairagon GAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG tcttcacatgcccacagttctggaagacgccactttcatttgttctctagTAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGGACGATACAGCAGCATGGATAGAGAGGAGCC-----CTACAGAAAGAGAAGGATTTGGCAAAAAAGAGGgtaaagacaaatgggtatttaaaatctatctattaagtcccaaacctttt Alignment from Exonerate_protein2genome GAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGG-CAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG tcttcacatgcccacagttctggaagacgccactttcatttgttctctagTAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGGACGATACAGCAGCATGGATAGAG------AGGAGCCCTACAGAAAGAGAAGGATTTGGCAAAAAAGAGGgtaaagacaaatgggtatttaaaatctatctattaagtcccaaacctttt Alignment from Exonerate_coding2genome GAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGG-CAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG tcttcacatgcccacagttctggaagacgccactttcatttgttctctagTAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGGACGATACAGCAGCATGGATAGAG------AGGAGCCCTACAGAAAGAGAAGGATTTGGCAAAAAAGAGGgtaaagacaaatgggtatttaaaatctatctattaagtcccaaacctttt Alignment from GeneWise GAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG tcttcacatgcccacagttctggaagacgccactttcatttgttctctagTAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGGACGATACAGCAGCATGGATAGAGAGGAGCC-----CTACAGAAAGAGAAGGATTTGGCAAAAAAGAGGgtaaagacaaatgggtatttaaaatctatctattaagtcccaaacctttt #### Sec31b_ID9031_21 --> 2 - 0 Original Alignment gaCCCCAGGACTCCTGGAAAGTTTCTCCAGCC-TCCCAGGGAAACCTCCAAAGGAAAAAG cattaaagttgtcggtgatgagcaaccaatttattctcctttgcccttagggCCTCAGGACTCATGGAAAGTTACACCAGGCCTCTGAGGGCAATCTTCAAAGGAAGAAAgtgccagcctttccataaccatcagcctagtccatccctatgttcttact Alignment from CESAR gaCCCCAGGACTCCTGGAAAGTTTCTCCA-GCCTCCCAGGGAAACCTCCAAAGGAAAAAG cattaaagttgtcggtgatgagcaaccaatttattctcctttgcccttagggCCTCAGGACTCATGGAAAGTTACACCAGGCCTCTGAGGGCAATCTTCAAAGGAAGAAAgtgccagcctttccataaccatcagcctagtccatccctatgttcttact Alignment from Spaln_aa2Genome GACCCCAGGACTCCTGGAAAGTTTCTCCA-GCCTCCCAGGGAAACCTCCAAAGGAAAAAG cattaaagttgtcggtgatgagcaaccaatttattctcctttgcccttagGGCCTCAGGACTCATGGAAAGTTACACCAgGCCTCTGAGGGCAATCTTCAAAGGAAGAAAgtgccagcctttccataaccatcagcctagtccatccctatgttcttact Alignment from Spaln_nt2Genome GACCCCAGGACTCCTGGAAAGTTTCTCCAG-CCTCCCAGGGAAACCTCCAAAGGAAAAAG cattaaagttgtcggtgatgagcaaccaatttattctcctttgcccttagGGCCTCAGGACTCATGGAAAGTTACACCAGGCCTCTGAGGGCAATCTTCAAAGGAAGAAAgtgccagcctttccataaccatcagcctagtccatccctatgttcttact Alignment from Pairagon GACCCCAGGACTCCTGGAAAGTTTCTCCA-GCCTCCCAGGGAAACCTCCAAAGGAAAAAG cattaaagttgtcggtgatgagcaaccaatttattctcctttgcccttagGGCCTCAGGACTCATGGAAAGTTACACCAGGCCTCTGAGGGCAATCTTCAAAGGAAGAAAgtgccagcctttccataaccatcagcctagtccatccctatgttcttact Alignment from Exonerate_protein2genome GACCCCAGGACTCCTGGAAAGTTTCTCCA-GCCTCCCAGGGAAACCTCCAAAGGAAAAAG cattaaagttgtcggtgatgagcaaccaatttattctcctttgcccttagGGCCTCAGGACTCATGGAAAGTTACACCAGGCCTCTGAGGGCAATCTTCAAAGGAAGAAAgtgccagcctttccataaccatcagcctagtccatccctatgttcttact Alignment from Exonerate_coding2genome cattaaagttgtcggtgatgagcaaccaatttattctcctttgcccttagggcctcaggactcatggaaagttacaccaggcctctgagggcaatcttcaaaggaagaaagtgccagcctttccataaccatcagcctagtccatccctatgttcttact Alignment from GeneWise GACCCCAGGACTCCTGGAAAGTTTCTCCA-GCCTCCCAGGGAAACCTCCAAAGGAAAAAG cattaaagttgtcggtgatgagcaaccaatttattctcctttgcccttagGGCCTCAGGACTCATGGAAAGTTACACCAGGCCTCTGAGGGCAATCTTCAAAGGAAGAAAgtgccagcctttccataaccatcagcctagtccatccctatgttcttact #### Sec31b_ID9037_15 --> 0 - 1 Original Alignment CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAAC-TGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTg cactcttctaatggatcagtccataggtgaccgtgatgttcttcttctagTTCCTAGCCTGCATTATAAAAAAG---AGGAAGGACCTTGTGTGTGCTTTTTGCCTG---AACCTGGAGAGACACACTTGCTTTGCTACTAACACATTCAGGTCCTAAAAAGTTTCCAGAACTTTGTggtacagatgagattaatatgattcattgtatttatgccaagcaaggcagc Alignment from CESAR CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTg cactcttctaatggatcagtccataggtgaccgtgatgttcttcttctagTTCCTAGCCTGCATTATAAAAAAG---AGGAAGGACCTTGTGTGTGCTTTTTGCCTG--AACCTGGAGAGACACACTTGCTTTGCTACTAACACATTCAGGTCCTAAAAAGTTTCCAGAACTTTGTggtacagatgagattaatatgattcattgtatttatgccaagcaaggcagc Alignment from Spaln_aa2Genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG cactcttctaatggatcagtccataggtgaccgtgatgttcttcttctagTTCCTAGCCTGCATTATAAAAAAG---AGGAAGGACCTTGTGTGTGCTTTTTGCCTGAACC--TGGAGAGACACACTTGCTTTGCTACTAACACATTCAGGTCCTAAAAAGTTTCCAGAACTTTGTGgtacagatgagattaatatgattcattgtatttatgccaagcaaggcagc Alignment from Spaln_nt2Genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG cactcttctaatggatcagtccataggtgaccgtgatgttcttcttctagTTCCTAGCCTGCATTATAAAAAAGA---GGAAGGACCTTGTGTGTGCTTTTTGCCTGA--ACCTGGAGAGACACACTTGCTTTGCTACTAACACATTCAGGTCCTAAAAAGTTTCCAGAACTTTGTGgtacagatgagattaatatgattcattgtatttatgccaagcaaggcagc Alignment from Pairagon CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG cactcttctaatggatcagtccataggtgaccgtgatgttcttcttctagTTCCTAGCCTGCATTATAAAAAAGA---GGAAGGACCTTGTGTGTGCTTTTTGCCTGA--ACCTGGAGAGACACACTTGCTTTGCTACTAACACATTCAGGTCCTAAAAAGTTTCCAGAACTTTGTGgtacagatgagattaatatgattcattgtatttatgccaagcaaggcagc Alignment from Exonerate_protein2genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAAC-TGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG cactcttctaatggatcagtccataggtgaccgtgatgttcttcttctagTTCCTAGCCTGCATTATAAAAAAGAGG---AAGGACCTTGTGTGTGCTTTTTGCCTG---AACCTGGAGAGACACACTTGCTTTGCTACTAACACATTCAGGTCCTAAAAAGTTTCCAGAACTTTGTGgtacagatgagattaatatgattcattgtatttatgccaagcaaggcagc Alignment from Exonerate_coding2genome cactcttctaatggatcagtccataggtgaccgtgatgttcttcttctagttcctagcctgcattataaaaaagaggaaggaccttgtgtgtgctttttgcctgaacctggagagacacacttgctttgctactaacacattcaggtcctaaaaagtttccagaactttgtggtacagatgagattaatatgattcattgtatttatgccaagcaaggcagc Alignment from GeneWise CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG cactcttctaatggatcagtccataggtgaccgtgatgttcttcttctagTTCCTAGCCTGCATTATAAAAAAGAGG---AAGGACCTTGTGTGTGCTTTTTGCCTGA--ACCTGGAGAGACACACTTGCTTTGCTACTAACACATTCAGGTCCTAAAAAGTTTCCAGAACTTTGTGgtacagatgagattaatatgattcattgtatttatgccaagcaaggcagc #### Sec31b_ID9040_12 --> 0 - 0 Original Alignment GTGGACACTTGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGAC-CTCAAAAGTGACAGAGCACACAGCCCTTGCGCCCAG tgcaggcaaccttggtggccagccttctttcccatctcttccctgctcagGTAGCCACCTGCCTAAAAAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCAGTCGACCCTCAAAAGTGATAGAGCACATAGCCCTTGTGCTCAGgtaagatgaaagtcttaactatttgcctttcagggccaacatgttcccta Alignment from CESAR GTGGACACTTGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGAC-CTCAAAAGTGACAGAGCACACAGCCCTTGCGCCCAG tgcaggcaaccttggtggccagccttctttcccatctcttccctgctcagGTAGCCACCTGCCTAAAAAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCAGTCGACCCTCAAAAGTGATAGAGCACATAGCCCTTGTGCTCAGgtaagatgaaagtcttaactatttgcctttcagggccaacatgttcccta Alignment from Spaln_aa2Genome GTGGACACTTGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGAC-CTCAAAAGTGACAGAGCACACAGCCCTTGCGCCCAG tgcaggcaaccttggtggccagccttctttcccatctcttccctgctcagGTAGCCACCTGCCTAAAAAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCAGTCGACcCTCAAAAGTGATAGAGCACATAGCCCTTGTGCTCAGgtaagatgaaagtcttaactatttgcctttcagggccaacatgttcccta Alignment from Spaln_nt2Genome GTGGACACTTGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGAC-CTCAAAAGTGACAGAGCACACAGCCCTTGCGCCCAG tgcaggcaaccttggtggccagccttctttcccatctcttccctgctcagGTAGCCACCTGCCTAAAAAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCAGTCGACCCTCAAAAGTGATAGAGCACATAGCCCTTGTGCTCAGgtaagatgaaagtcttaactatttgcctttcagggccaacatgttcccta Alignment from Pairagon GTGGACACTTGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGA-CCTCAAAAGTGACAGAGCACACAGCCCTTGCGCCCAG tgcaggcaaccttggtggccagccttctttcccatctcttccctgctcagGTAGCCACCTGCCTAAAAAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCAGTCGACCCTCAAAAGTGATAGAGCACATAGCCCTTGTGCTCAGgtaagatgaaagtcttaactatttgcctttcagggccaacatgttcccta Alignment from Exonerate_protein2genome GTGGACACTTGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGAC-CTCAAAAGTGACAGAGCACACAGCCCTTGCGCCCAG tgcaggcaaccttggtggccagccttctttcccatctcttccctgctcagGTAGCCACCTGCCTAAAAAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCAGTCGACCCTCAAAAGTGATAGAGCACATAGCCCTTGTGCTCAGgtaagatgaaagtcttaactatttgcctttcagggccaacatgttcccta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ACACTTGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGAC-CTCAAAAGTGACAGAGCACACAGCCCTTGCGCCCAG tgcaggcaaccttggtggccagccttctttcccatctcttccctgctcaggtagCCACCTGCCTAAAAAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCAGTCGACCCTCAAAAGTGATAGAGCACATAGCCCTTGTGCTCAGgtaagatgaaagtcttaactatttgcctttcagggccaacatgttcccta #### Sema4g_ID9244_2 --> 2 - 0 Original Alignment agCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAG-AGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcgtgccttattcctcagaactagtttcctgtctctttgtggtagaaGTTTCACAAGTACAACGCTTTAGGGAGGAGGCCCAAATTCATTCAACATTGCTGTTGGAGGAGGCTTCTGAACAGGTTGTCAGCAGGTGCGCGGGGTCCATTGTTCTCCCTC------AGTGAAATCAGAGAGAGAACACATAAAGAAgtgcgttgctgttactggatttacaggaccccagactttgcgtctggtct Alignment from CESAR agCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAG-AGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcgtgccttattcctcagaactagtttcctgtctctttgtggtagaaGTTTCACAAGTACAACGCTTTAGGGAGGAGGCCCAAATTCATTCAACATTGCTGTTGGAGGAGGCTTCTGAACAGGTTGTCAGCAGGTGCGCGGGGTCCATTGTTCTCCCTCAGT------GAAATCAGAGAGAGAACACATAAAGAAgtgcgttgctgttactggatttacaggaccccagactttgcgtctggtct Alignment from Spaln_aa2Genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAG-AGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcgtgccttattcctcagaactagtttcctgtctctttgtggtagAAGTTTCACAAGTACAACGCTTTAGGGAGGAGGCCCAAATTCATTCAACATTGCTGTTGGAGGAGGCTTCTGAAcAGGTTGTCAGCAGGTGCGCGGGGTCCATTGTTCTCCCTCAGT------GAAATCAGAGAGAGAACACATAAAGAAgtgcgttgctgttactggatttacaggaccccagactttgcgtctggtct Alignment from Spaln_nt2Genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAG-AGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcgtgccttattcctcagaactagtttcctgtctctttgtggtagAAGTTTCACAAGTACAACGCTTTAGGGAGGAGGCCCAAATTCATTCAACATTGCTGTTGGAGGAGGCTTCTGAACAGGTTGTCAGCAGGTGCGCGGGGTCCATTGTTCTCCCTCA------GTGAAATCAGAGAGAGAACACATAAAGAAgtgcgttgctgttactggatttacaggaccccagactttgcgtctggtct Alignment from Pairagon GGCACTTCAAGGGCCAAACCCAGAACT-----------------------------------------------------------------ATTCAACACTGCTGCTGGAGGAGGCTTCTGAG-AGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG -----------------------AACTAGTTTCCTGTCTCTTTGTGGTAGAAGTTTCACAAGTACAACGCTTTAGGGAGGAGGCCCAAATTCATTCAACATTGCTGTTGGAGGAGGCTTCTGAACAGGTTGTCAGCAGGTGCGCGGGGTCCATTGTTCTCCCTCA------GTGAAATCAGAGAGAGAACACATAAAGAAgtgcgttgctgttactggatttacaggaccccagactttgcgtctggtct Alignment from Exonerate_protein2genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAG-AGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcgtgccttattcctcagaactagtttcctgtctctttgtggtagAAGTTTCACAAGTACAACGCTTTAGGGAGGAGGCCCAAATTCATTCAACATTGCTGTTGGAGGAGGCTTCTGAACAGGTTGTCAGCAGGTGCGCGGGGTCCATTGTTCTCCCTCAGT------GAAATCAGAGAGAGAACACATAAAGAAgtgcgttgctgttactggatttacaggaccccagactttgcgtctggtct Alignment from Exonerate_coding2genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAG-AGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcgtgccttattcctcagaactagtttcctgtctctttgtggtagAAGTTTCACAAGTACAACGCTTTAGGGAGGAGGCCCAAATTCATTCAACATTGCTGTTGGAGGAGGCTTCTGAACAGGTTGTCAGCAGGTGCGCGGGGTCCATTGTTCTCCCTCAGT------GAAATCAGAGAGAGAACACATAAAGAAgtgcgttgctgttactggatttacaggaccccagactttgcgtctggtct Alignment from GeneWise AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTG-GTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG cttgctcgtgccttattcctcagaactagtttcctgtctctttgtggtagAAGTTTCACAAGTACAACGCTTTAGGGAGGAGGCCCAAATTCATTCAACATTGCTGTTGGAGGAGGCTTCTGAACAGGTTGTCAGCAGGTGCGCGGGGTCCATTGTTCTCCCTCAGT------GAAATCAGAGAGAGAACACATAAAGAAgtgcgttgctgttactggatttacaggaccccagactttgcgtctggtct #### Sema4g_ID9247_5 --> 0 - 1 Original Alignment GATGCTGAAACCTTC-ATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTg agttataaacctgctctcatctaagctggttgtcttttctcatttgctagGATTCTGAAACCTTCCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCATTATTATTggtttggaaaatgtaactgatccatcacaattctaagccatgaacattgtt Alignment from CESAR GATGCTGAAACCTTC-ATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTg tcctataaacctgctctcatctaagctggttgtcttttctcatttgctagGATTCTGAAACCTTCCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCATTATTATTggtttggaaaatgtaactgatccatcacaattctaagccatgaacattgtt Alignment from Spaln_aa2Genome GATGCTGAAACCTTC-ATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG agttataaacctgctctcatctaagctggttgtcttttctcatttgctagGATTCTGAAACCTTCcATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCATTATTATTGgtttggaaaatgtaactgatccatcacaattctaagccatgaacattgtt Alignment from Spaln_nt2Genome GATGCTGAAACCTTC-ATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG agttataaacctgctctcatctaagctggttgtcttttctcatttgctagGATTCTGAAACCTTCCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCATTATTATTGgtttggaaaatgtaactgatccatcacaattctaagccatgaacattgtt Alignment from Pairagon GATGCTGAAACCTT-CATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG agttataaacctgctctcatctaagctggttgtcttttctcatttgctagGATTCTGAAACCTTCCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCATTATTATTGgtttggaaaatgtaactgatccatcacaattctaagccatgaacattgtt Alignment from Exonerate_protein2genome GATGCTGAAACCTTC-ATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG agttataaacctgctctcatctaagctggttgtcttttctcatttgctagGATTCTGAAACCTTCCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCATTATTATTGgtttggaaaatgtaactgatccatcacaattctaagccatgaacattgtt Alignment from Exonerate_coding2genome GATGCTGAAACCTTC-ATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG agttataaacctgctctcatctaagctggttgtcttttctcatttgctagGATTCTGAAACCTTCCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCATTATTATTGgtttggaaaatgtaactgatccatcacaattctaagccatgaacattgtt Alignment from GeneWise GATGCTGAAACCTTC-ATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG agttataaacctgctctcatctaagctggttgtcttttctcatttgctagGATTCTGAAACCTTCCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCATTATTATTGgtttggaaaatgtaactgatccatcacaattctaagccatgaacattgtt #### Sema4g_ID9249_7 --> 2 - 0 Original Alignment atGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTC-ATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gcatagtctgtgagtctgtgaaccaagaataaatgtttttatcttgttagatGCAGAAGTTGTATTCTCTGTACTGGTGCGACAGAGTGAAACAAGTACTGTTGGTGGCGAGGACAGGATTTATTTTTTCTTCCAAGGAACATGAGGAAGGTTCTAGTAATTTCACACAGAGTTGCAGCAGCCACAGGGTAGCTAGAGCACCTCGTGTTTGCAAGgtgccactgatgtacttctagaccagtgtaattcaagaagacgttcactc Alignment from CESAR atGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTC-ATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gcatagtctgtgagtctgtgaaccaagaataaatgtttttatcttgttagatGCAGAAGTTGTATTCTCTGTACTGGTGCGACAGAGTGAAACAAGTACTGTTGGTGGCGAGGACAGGATTTATTTTTTCTTCCAAGGAACATGAGGAAGGTTCTAGTAATTTCACACAGAGTTGCAGCAGCCACAGGGTAGCTAGAGCACCTCGTGTTTGCAAGgtgccactgatgtacttctagaccagtgtaattcaagaagacgttcactc Alignment from Spaln_aa2Genome ATGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTC-ATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gcatagtctgtgagtctgtgaaccaagaataaatgtttttatcttgttagATGCAGAAGTTGTATTCTCTGTACTGGTGCGACAGAGTGAAACAAGTACTGTTGGTGGCGAGGACAGGATTTATTTTTTCTTCcAAGGAACATGAGGAAGGTTCTAGTAATTTCACACAGAGTTGCAGCAGCCACAGGGTAGCTAGAGCACCTCGTGTTTGCAAGgtgccactgatgtacttctagaccagtgtaattcaagaagacgttcactc Alignment from Spaln_nt2Genome ATGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTC-ATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gcatagtctgtgagtctgtgaaccaagaataaatgtttttatcttgttagATGCAGAAGTTGTATTCTCTGTACTGGTGCGACAGAGTGAAACAAGTACTGTTGGTGGCGAGGACAGGATTTATTTTTTCTTCCAAGGAACATGAGGAAGGTTCTAGTAATTTCACACAGAGTTGCAGCAGCCACAGGGTAGCTAGAGCACCTCGTGTTTGCAAGgtgccactgatgtacttctagaccagtgtaattcaagaagacgttcactc Alignment from Pairagon ATGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTT-CATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gcatagtctgtgagtctgtgaaccaagaataaatgtttttatcttgttagATGCAGAAGTTGTATTCTCTGTACTGGTGCGACAGAGTGAAACAAGTACTGTTGGTGGCGAGGACAGGATTTATTTTTTCTTCCAAGGAACATGAGGAAGGTTCTAGTAATTTCACACAGAGTTGCAGCAGCCACAGGGTAGCTAGAGCACCTCGTGTTTGCAAGgtgccactgatgtacttctagaccagtgtaattcaagaagacgttcactc Alignment from Exonerate_protein2genome ATGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATG-GAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gcatagtctgtgagtctgtgaaccaagaataaatgtttttatcttgttagATGCAGAAGTTGTATTCTCTGTACTGGTGCGACAGAGTGAAACAAGTACTGTTGGTGGCGAGGACAGGATTTATTTTTTCTTCCAAGGAACATGAGGAAGGTTCTAGTAATTTCACACAGAGTTGCAGCAGCCACAGGGTAGCTAGAGCACCTCGTGTTTGCAAGgtgccactgatgtacttctagaccagtgtaattcaagaagacgttcactc Alignment from Exonerate_coding2genome ATGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATG-GAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gcatagtctgtgagtctgtgaaccaagaataaatgtttttatcttgttagATGCAGAAGTTGTATTCTCTGTACTGGTGCGACAGAGTGAAACAAGTACTGTTGGTGGCGAGGACAGGATTTATTTTTTCTTCCAAGGAACATGAGGAAGGTTCTAGTAATTTCACACAGAGTTGCAGCAGCCACAGGGTAGCTAGAGCACCTCGTGTTTGCAAGgtgccactgatgtacttctagaccagtgtaattcaagaagacgttcactc Alignment from GeneWise ATGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTC-ATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gcatagtctgtgagtctgtgaaccaagaataaatgtttttatcttgttagATGCAGAAGTTGTATTCTCTGTACTGGTGCGACAGAGTGAAACAAGTACTGTTGGTGGCGAGGACAGGATTTATTTTTTCTTCCAAGGAACATGAGGAAGGTTCTAGTAATTTCACACAGAGTTGCAGCAGCCACAGGGTAGCTAGAGCACCTCGTGTTTGCAAGgtgccactgatgtacttctagaccagtgtaattcaagaagacgttcactc #### Sema4g_ID9251_9 --> 1 - 0 Original Alignment gAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGC-CGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG agagagaagtggataagttcattggtgtaatggccccgtgtctctgccaggAAAACACTGGAGGCGTCAGAGATATGCCGGCATGATTTGGCAGAGATTCATGCTGTTTTC---AGTCCCTTTATGGAGTACCAGGATGGTGCCCGCTGCTGGGGGCTGTTATGGGGGTGGAGTACATCAACCCCAACCAGGCTTAgtaagtacctaaaatttggagcacactatgtgaaaacatagtaacagggt Alignment from CESAR gAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGG-GGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG agagagaagtggataagttcattggtgtaatggccccgtgtctctgccaggAAAACACTGGAGGCGTCAGAGATATGCCGGCATGATTTGGCAGAGATTCATGCTGTTTTC---AGTCCCTTTATGGAGTACCAGGATGGTGCCCGCTGCTGGGGGCTGTTATGGGGGTGGAGTACATCAACCCCAACCAGGCTTAgtaagtacctaaaatttggagcacactatgtgaaaacatagtaacagggt Alignment from Spaln_aa2Genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGC-CGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG agagagaagtggataagttcattggtgtaatggccccgtgtctctgccagGAAAACACTGGAGGCGTCAGAGATATGCCGGCATGATTTGGCAGAGATTCATGCTGTTTTCAGT---CCCTTTATGGAGTACCAGGATGGTGCCCGCTGCTGGGGGcTGTTATGGGGGTGGAGTACATCAACCCCAACCAGGCTTAgtaagtacctaaaatttggagcacactatgtgaaaacatagtaacagggt Alignment from Spaln_nt2Genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCC-GCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG agagagaagtggataagttcattggtgtaatggccccgtgtctctgccagGAAAACACTGGAGGCGTCAGAGATATGCCGGCATGATTTGGCAGAGATTCATGCTGTTTTCA---GTCCCTTTATGGAGTACCAGGATGGTGCCCGCTGCTGGGGGCTGTTATGGGGGTGGAGTACATCAACCCCAACCAGGCTTAgtaagtacctaaaatttggagcacactatgtgaaaacatagtaacagggt Alignment from Pairagon GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCT-GGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG agagagaagtggataagttcattggtgtaatggccccgtgtctctgccagGAAAACACTGGAGGCGTCAGAGATATGCCGGCATGATTTGGCAGAGATTCATGCTGTTTTCA---GTCCCTTTATGGAGTACCAGGATGGTGCCCGCTGCTGGGGGCTGTTATGGGGGTGGAGTACATCAACCCCAACCAGGCTTAgtaagtacctaaaatttggagcacactatgtgaaaacatagtaacagggt Alignment from Exonerate_protein2genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGC-TATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG agagagaagtggataagttcattggtgtaatggccccgtgtctctgccagGAAAACACTGGAGGCGTCAGAGATATGCCGGCATGATTTGGCAGAGATTCATGCTGTTTTCAGT---CCCTTTATGGAGTACCAGGATGGTGCCCGCTGCTGGGGGCTGTTATGGGGGTGGAGTACATCAACCCCAACCAGGCTTAgtaagtacctaaaatttggagcacactatgtgaaaacatagtaacagggt Alignment from Exonerate_coding2genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGC-TATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG agagagaagtggataagttcattggtgtaatggccccgtgtctctgccagGAAAACACTGGAGGCGTCAGAGATATGCCGGCATGATTTGGCAGAGATTCATGCTGTTTTCAGT---CCCTTTATGGAGTACCAGGATGGTGCCCGCTGCTGGGGGCTGTTATGGGGGTGGAGTACATCAACCCCAACCAGGCTTAgtaagtacctaaaatttggagcacactatgtgaaaacatagtaacagggt Alignment from GeneWise GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGC-CGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG agagagaagtggataagttcattggtgtaatggccccgtgtctctgccagGAAAACACTGGAGGCGTCAGAGATATGCCGGCATGATTTGGCAGAGATTCATGCTGTTTTCAGT---CCCTTTATGGAGTACCAGGATGGTGCCCGCTGCTGGGGGCTGTTATGGGGGTGGAGTACATCAACCCCAACCAGGCTTAgtaagtacctaaaatttggagcacactatgtgaaaacatagtaacagggt #### Sema4g_ID9252_10 --> 0 - 1 Original Alignment TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTG-GACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAg actatgtgaaaacatagtaacagggtccttgcttccctctatttccacagTGCATCTCTGATTCTCTGCGGAGCGAAGGATACAACTCC---CAAGATTTGCCTTCACTTGTCCTTCGATTCTGTGAAGCTACATCCACCACTGACGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACACGTCAGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAggtgagctaaccccaccctgcacctgcctccacctagtggggatacaatga Alignment from CESAR TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTG-GACTTTGTGAAGTTGCATCCC---CTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAg actatgtgaaaacatagtaacagggtccttgcttccctctatttccacagTGCATCTCTGATTCTCTGCGGAGCGAAGGATACAAC---TCCCAAGATTTGCCTTCACTTGTCCTTCGATTCTGTGAAGCTACATCCACCACTGACGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACACGTCAGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAggtgagctaaccccaccctgcacctgcctccacctagtggggatacaatga Alignment from Spaln_aa2Genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTT-GTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG actatgtgaaaacatagtaacagggtccttgcttccctctatttccacagTGCATCTCTGATTCTCTGCGGAGCGAAGGATACAAC---TCCCAAGATTTGCCTTCACTTGTCCTTCGATTCtGTGAAGCTACATCCACCACTGACGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACACGTCAGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAGgtgagctaaccccaccctgcacctgcctccacctagtggggatacaatga Alignment from Spaln_nt2Genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTG-GACTTTGTGAAGTTGCATCCCC---TGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG actatgtgaaaacatagtaacagggtccttgcttccctctatttccacagTGCATCTCTGATTCTCTGCGGAGCGAAGGATACAAC---TCCCAAGATTTGCCTTCACTTGTCCTTCGATTCTGTGAAGCTACATCCACCACTGACGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACACGTCAGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAGgtgagctaaccccaccctgcacctgcctccacctagtggggatacaatga Alignment from Pairagon TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTC-TGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG actatgtgaaaacatagtaacagggtccttgcttccctctatttccacagTGCATCTCTGATTCTCTGCGGAGCGAAGGATACAAC---TCCCAAGATTTGCCTTCACTTGTCCTTCGATTCTGTGAAGCTACATCCACCACTGACGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACACGTCAGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAGgtgagctaaccccaccctgcacctgcctccacctagtggggatacaatga Alignment from Exonerate_protein2genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTG-GACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG actatgtgaaaacatagtaacagggtccttgcttccctctatttccacagTGCATCTCTGATTCTCTGCGGAGCGAAGGATACAAC---TCCCAAGATTTGCCTTCACTTGTCCTTCGATTCTGTGAAGCTACATCCACCACTGACGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACACGTCAGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAGgtgagctaaccccaccctgcacctgcctccacctagtggggatacaatga Alignment from Exonerate_coding2genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTG-GACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG actatgtgaaaacatagtaacagggtccttgcttccctctatttccacagTGCATCTCTGATTCTCTGCGGAGCGAAGGATACAAC---TCCCAAGATTTGCCTTCACTTGTCCTTCGATTCTGTGAAGCTACATCCACCACTGACGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACACGTCAGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAGgtgagctaaccccaccctgcacctgcctccacctagtggggatacaatga Alignment from GeneWise TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTT-GTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG actatgtgaaaacatagtaacagggtccttgcttccctctatttccacagTGCATCTCTGATTCTCTGCGGAGCGAAGGATACAAC---TCCCAAGATTTGCCTTCACTTGTCCTTCGATTCTGTGAAGCTACATCCACCACTGACGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACACGTCAGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAGgtgagctaaccccaccctgcacctgcctccacctagtggggatacaatga #### Sf1_ID1664_5 --> 1 - 2 Original Alignment gCCTCCAGCAACACGT-GTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCCag cctagaaaaagctggatacaagtgaggtcatatgtgttcgtttcccctaggCCTCCAGCAAAGCGTCGTGAGTGATAAAGTCATGATACCACAATATGAATATCCAGAAATTAACTTTGTGAGCCTTCTCATTGGCCCTaggtatgtagtggttagcagacgatcgtttcccttgttgatcaagattttga Alignment from CESAR gCCTCCAGCAACACGT-GTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCCag cctagaaaaagctggatacaagtgaggtcatatgtgttcgtttcccctaggCCTCCAGCAAAGCGTCGTGAGTGATAAAGTCATGATACCACAATATGAATATCCAGAAATTAACTTTGTGAGCCTTCTCATTGGCCCTaggtatgtagtggttagcagacgatcgtttcccttgttgatcaagattttga Alignment from Spaln_aa2Genome GCCTCCAGCAACACGT-GTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCCAG cctagaaaaagctggatacaagtgaggtcatatgtgttcgtttcccctagGCCTCCAGCAAAGCGTcGTGAGTGATAAAGTCATGATACCACAATATGAATATCCAGAAATTAACTTTGTGAGCCTTCTCATTGGCCCTAGgtatgtagtggttagcagacgatcgtttcccttgttgatcaagattttga Alignment from Spaln_nt2Genome GCCTCCAGCAACACGT-GTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCCAG cctagaaaaagctggatacaagtgaggtcatatgtgttcgtttcccctagGCCTCCAGCAAAGCGTCGTGAGTGATAAAGTCATGATACCACAATATGAATATCCAGAAATTAACTTTGTGAGCCTTCTCATTGGCCCTAGgtatgtagtggttagcagacgatcgtttcccttgttgatcaagattttga Alignment from Pairagon GCCTCCAGCAACACGT-GTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCCAG cctagaaaaagctggatacaagtgaggtcatatgtgttcgtttcccctagGCCTCCAGCAAAGCGTCGTGAGTGATAAAGTCATGATACCACAATATGAATATCCAGAAATTAACTTTGTGAGCCTTCTCATTGGCCCTAGgtatgtagtggttagcagacgatcgtttcccttgttgatcaagattttga Alignment from Exonerate_protein2genome GCCTCCAGCAACACGT-GTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCCAG cctagaaaaagctggatacaagtgaggtcatatgtgttcgtttcccctagGCCTCCAGCAAAGCGTCGTGAGTGATAAAGTCATGATACCACAATATGAATATCCAGAAATTAACTTTGTGAGCCTTCTCATTGGCCCTAGgtatgtagtggttagcagacgatcgtttcccttgttgatcaagattttga Alignment from Exonerate_coding2genome GCCTCCAGCAACACGT-GTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCCAG cctagaaaaagctggatacaagtgaggtcatatgtgttcgtttcccctagGCCTCCAGCAAAGCGTCGTGAGTGATAAAGTCATGATACCACAATATGAATATCCAGAAATTAACTTTGTGAGCCTTCTCATTGGCCCTAGgtatgtagtggttagcagacgatcgtttcccttgttgatcaagattttga Alignment from GeneWise GCCTCCAGCAACACGTGTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCCAG cctagaaaaagctggatacaagtgaggtcatatgtgttcgtttcccctaggcctccagcaaagCGTC------------GTGAGTGATAAAGTCATGATACCACAATATGAATATCCAGAAATTAACTTTGTGAGCCTTCTCATTGGCCCTAGgtatgtagtggttagcagacgatcgtttcccttgttgatcaagattttga #### Sf1_ID1666_7 --> 0 - 2 Original Alignment ATCAGAAACATCCTGAAG-CAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATag agccaaagtgccatgtttctgaataagggttaacttgttttgtcatttagATGCGAAATATGCTAAAGCCAAGGTATTAAGACCCCTAAAGGCCAAAATGATCTACATAAGATGCAGCTTCGGGAACTGGCTCACCTAAATGGCACTCTTCGGGAGGAA---GCAcagtcagtttgaatgttgaagaaaaggcacagggaggtatcagttttaatgg Alignment from CESAR ATCAGAAACATCCTGAAG-CAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATag agccaaagtgccatgtttctgaataagggttaacttgttttgtcatttagATGCGAAATATGCTAAAGCCAAGGTATTAAGACCCCTAAAGGCCAAAATGATCTACATAAGATGCAGCTTCGGGAACTGGCTCACCTAAATGGCACTCTTCGGGAG---GAAGCAcagtcagtttgaatgttgaagaaaaggcacagggaggtatcagttttaatgg Alignment from Spaln_aa2Genome ATCAGAAACATCCTGAAG-CAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG agccaaagtgccatgtttctgaataagggttaacttgttttgtcatttagATGCGAAATATGCTAAAGcCAAGGTATTAAGACCCCTAAAGGCCAAAATGATCTACATAAGATGCAGCTTCGGGAACTGGCTCACCTAAATGGCACTCTTCGGGAG---GAAGCACAgtcagtttgaatgttgaagaaaaggcacagggaggtatcagttttaatgg Alignment from Spaln_nt2Genome ATCAGAAACATCCTGAAGC-AGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATG-ATAATAG agccaaagtgccatgtttctgaataagggttaacttgttttgtcatttagATGCGAAATATGCTAAAGCCAAGGTATTAAGACCCCTAAAGGCCAAAATGATCTACATAAGATGCAGCTTCGGGAACTGGCTCACCTAAATGGCACTCTTCGGGAGGAAGCACAGTCAgtttgaatgttgaagaaaaggcacagggaggtatcagttttaatgg Alignment from Pairagon ATCAGAAACATCCTGAAG-CAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAG--------------------------------------------------------- agccaaagtgccatgtttctgaataagggttaacttgttttgtcatttagATGCGAAATATGCTAAAGCCAAGGTATTAAGACCCCTAAAGGCCAAAATGATCTACATAAGATGCAGCTTCGGGAACTGGCTCACCTAAATGGCACTCTTCGGGAGGAAGCACAGTCAGTTTGAATGTTGAAGAAAAGGCACAGGGAGGTATCAGTTTTAATGG Alignment from Exonerate_protein2genome ATCAGAAACATCCTGAAG-CAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG agccaaagtgccatgtttctgaataagggttaacttgttttgtcatttagATGCGAAATATGCTAAAGCCAAGGTATTAAGACCCCTAAAGGCCAAAATGATCTACATAAGATGCAGCTTCGGGAACTGGCTCACCTAAATGGCACTCTTCGGGAG---GAAGCACAgtcagtttgaatgttgaagaaaaggcacagggaggtatcagttttaatgg Alignment from Exonerate_coding2genome ATCAGAAACATCCTGAAG-CAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG agccaaagtgccatgtttctgaataagggttaacttgttttgtcatttagATGCGAAATATGCTAAAGCCAAGGTATTAAGACCCCTAAAGGCCAAAATGATCTACATAAGATGCAGCTTCGGGAACTGGCTCACCTAAATGGCACTCTTCGGGAG---GAAGCACAgtcagtttgaatgttgaagaaaaggcacagggaggtatcagttttaatgg Alignment from GeneWise ATCAGAAACATCCTG-AAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAA agccaaagtgccatgtttctgaataagggttaacttgttttgtcatttagATGCGAAATATGCTAAAGCCAAGGTATTAAGACCCCTAAAGGCCAAAATGATCTACATAAGATGCAGCTTCGGGAACTGGCTCACCTAAATGGCACTCTTCGGGAGGAAGCACAgtcagtttgaatgttgaagaaaaggcacagggaggtatcagttttaatgg #### Sf1_ID1670_11 --> 2 - 1 Original Alignment atCAGTACCTGGGAAGTACG-CCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAg tagtcttagatgccctcccattgatttctttctctcctgatgttttccagacCAGTATCAAGGGAGTACACCCCGTGGCCTCGGGAGTTTATCATTTGCATCAAGGAAAGggtgagtctataacttttgatggtgtctctcatgattggggccaattggca Alignment from CESAR atCAGTACCTGGGAAGTACGCCT-GTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAg tagtcttagatgccctcccattgatttctttctctcctgatgttttccagacCAGTATCAAGGGAGTACACCCCGTGGCCTCGGGAGTTTATCATTTGCATCAAGGAAAGggtgagtctataacttttgatggtgtctctcatgattggggccaattggca Alignment from Spaln_aa2Genome GTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG tagtcttagatgccctcccattgatttctttctctcctgatgttttccagaccagTATCAAGGGAGTACACCCCGTGGCCTCGGGAGTTTATCATTTGCATCAAGGAAAGGgtgagtctataacttttgatggtgtctctcatgattggggccaattggca Alignment from Spaln_nt2Genome ATCAGTACCTGGGAAGTACGCCT-GTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG tagtcttagatgccctcccattgatttctttctctcctgatgttttccagACCAGTATCAAGGGAGTACACCCCGTGGCCTCGGGAGTTTATCATTTGCATCAAGGAAAGGgtgagtctataacttttgatggtgtctctcatgattggggccaattggca Alignment from Pairagon ATCAGTACCTGGGAAGTACG-CCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG tagtcttagatgccctcccattgatttctttctctcctgatgttttccagACCAGTATCAAGGGAGTACACCCCGTGGCCTCGGGAGTTTATCATTTGCATCAAGGAAAGGgtgagtctataacttttgatggtgtctctcatgattggggccaattggca Alignment from Exonerate_protein2genome ATCAGTACCTGGGAAGTACG-CCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG tagtcttagatgccctcccattgatttctttctctcctgatgttttccagACCAGTATCAAGGGAGTACACCCCGTGGCCTCGGGAGTTTATCATTTGCATCAAGGAAAGGgtgagtctataacttttgatggtgtctctcatgattggggccaattggca Alignment from Exonerate_coding2genome ATCAGTACCTGGGAAGTACG-CCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG tagtcttagatgccctcccattgatttctttctctcctgatgttttccagACCAGTATCAAGGGAGTACACCCCGTGGCCTCGGGAGTTTATCATTTGCATCAAGGAAAGGgtgagtctataacttttgatggtgtctctcatgattggggccaattggca Alignment from GeneWise GTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG tagtcttagatgccctcccattgatttctttctctcctgatgttttccagaccagTATCAAGGGAGTACACCCCGTGGCCTCGGGAGTTTATCATTTGCATCAAGGAAAGGgtgagtctataacttttgatggtgtctctcatgattggggccaattggca #### Sf3b2_ID898_20 --> 0 - 0 Original Alignment GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAG-AAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG caggtggggtcattgatctataagattttcagcctgtgtctttctcacagGTAATGAGCCAAAAGAGTGCTGCCTCTGAATTACAAGGTGTTGAGGTTGCATTGGCACCTGAAGAATTAGAGTTGGATTCTATGGCTACAATGCAGCAAGTACAAAGAACATGTTCAGGAGAAA------CAAGTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtacagatggtttatgtatacagcatgggggttattctctctagtgagat Alignment from CESAR GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAG-AAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG caggtggggtcattgatctataagattttcagcctgtgtctttctcacagGTAATGAGCCAAAAGAGTGCTGCCTCTGAATTACAAGGTGTTGAGGTTGCATTGGCACCTGAAGAATTAGAGTTGGATTCTATGGCTACAATGCAGCAAGTACAAAGAACATGTTCAGGAGAAA------CAAGTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtacagatggtttatgtatacagcatgggggttattctctctagtgagat Alignment from Spaln_aa2Genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAG-AAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG caggtggggtcattgatctataagattttcagcctgtgtctttctcacagGTAATGAGCCAAAAGAGTGCTGCCTCTGAATTACAAGGTGTTGAGGTTGCATTGGCACCTGAAGAATTAGAGTTGGATTCTATGGCTACAATGCAGcAAGTACAAAGAACATGTTCAGGAGAAA------CAAGTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtacagatggtttatgtatacagcatgggggttattctctctagtgagat Alignment from Spaln_nt2Genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAG-AAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGACATG---GTGGCTGAGCATGCTGCTAAGCAGAAG caggtggggtcattgatctataagattttcagcctgtgtctttctcacagGTAATGAGCCAAAAGAGTGCTGCCTCTGAATTACAAGGTGTTGAGGTTGCATTGGCACCTGAAGAATTAGAGTTGGATTCTATGGCTACAATGCAGCAAGTACAAAGAACATGTTCAGGAGAA------ACAAGTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtacagatggtttatgtatacagcatgggggttattctctctagtgagat Alignment from Pairagon GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAG-AAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG caggtggggtcattgatctataagattttcagcctgtgtctttctcacagGTAATGAGCCAAAAGAGTGCTGCCTCTGAATTACAAGGTGTTGAGGTTGCATTGGCACCTGAAGAATTAGAGTTGGATTCTATGGCTACAATGCAGCAAGTACAAAGAACATGTTCAGGAGAA------ACAAGTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtacagatggtttatgtatacagcatgggggttattctctctagtgagat Alignment from Exonerate_protein2genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAG-AAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG caggtggggtcattgatctataagattttcagcctgtgtctttctcacagGTAATGAGCCAAAAGAGTGCTGCCTCTGAATTACAAGGTGTTGAGGTTGCATTGGCACCTGAAGAATTAGAGTTGGATTCTATGGCTACAATGCAGCAAGTACAAAGAACATGTTCAGGAGAAA------CAAGTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtacagatggtttatgtatacagcatgggggttattctctctagtgagat Alignment from Exonerate_coding2genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAG-AAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG caggtggggtcattgatctataagattttcagcctgtgtctttctcacagGTAATGAGCCAAAAGAGTGCTGCCTCTGAATTACAAGGTGTTGAGGTTGCATTGGCACCTGAAGAATTAGAGTTGGATTCTATGGCTACAATGCAGCAAGTACAAAGAACATGTTCAGGAGAAA------CAAGTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtacagatggtttatgtatacagcatgggggttattctctctagtgagat Alignment from GeneWise GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATG-ACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG caggtggggtcattgatctataagattttcagcctgtgtctttctcacagGTAATGAGCCAAAAGAGTGCTGCCTCTGAATTACAAGGTGTTGAGGTTGCATTGGCACCTGAAGAATTAGAGTTGGATTCTATGGCTACAATGCAGCAAGTACAAAGAACATGTTCAGGAGAAACAA------GTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtacagatggtttatgtatacagcatgggggttattctctctagtgagat #### Sf3b2_ID908_10 --> 0 - 0 Original Alignment CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAG-AAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG ggttgaggcagagactgtattatgcctgctcctgccctctgaccctacagTTAACAGATGAGGTCAGGAAAGAGAAAGAAAAGGAGCCTGAGCAAGCTTGACACAATGGAAAGCCCTACAGTTCCAAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtaagagatatgcaattatgaattgagttatgtgattatggatttttgat Alignment from CESAR CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAG-AAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG ggttgaggcagagactgtattatgcctgctcctgccctctgaccctacagTTAACAGATGAGGTCAGGAAAGAGAAAGAAAAGGAGCCTGAGCAAGCTTGACACAATGGAAAGCCCTACAGTTCCAAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtaagagatatgcaattatgaattgagttatgtgattatggatttttgat Alignment from Spaln_aa2Genome CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAG-AAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG ggttgaggcagagactgtattatgcctgctcctgccctctgaccctacagTTAACAGATGAGGTCAGGAAAGAGAAAGAAAAGGAGCCTGAGcAAGCTTGACACAATGGAAAGCCCTACAGTTCCAAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtaagagatatgcaattatgaattgagttatgtgattatggatttttgat Alignment from Spaln_nt2Genome CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAG-AAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG ggttgaggcagagactgtattatgcctgctcctgccctctgaccctacagTTAACAGATGAGGTCAGGAAAGAGAAAGAAAAGGAGCCTGAGCAAGCTTGACACAATGGAAAGCCCTACAGTTCCAAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtaagagatatgcaattatgaattgagttatgtgattatggatttttgat Alignment from Pairagon CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAG-AAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG ggttgaggcagagactgtattatgcctgctcctgccctctgaccctacagTTAACAGATGAGGTCAGGAAAGAGAAAGAAAAGGAGCCTGAGCAAGCTTGACACAATGGAAAGCCCTACAGTTCCAAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtaagagatatgcaattatgaattgagttatgtgattatggatttttgat Alignment from Exonerate_protein2genome CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAG-AAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG ggttgaggcagagactgtattatgcctgctcctgccctctgaccctacagTTAACAGATGAGGTCAGGAAAGAGAAAGAAAAGGAGCCTGAGCAAGCTTGACACAATGGAAAGCCCTACAGTTCCAAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtaagagatatgcaattatgaattgagttatgtgattatggatttttgat Alignment from Exonerate_coding2genome ggttgaggcagagactgtattatgcctgctcctgccctctgaccctacagttaacagatgaggtcaggaaagagaaagaaaaggagcctgagcaagcttgacacaatggaaagccctacagttccaaagaaaaagggctatgaagaggagcgtaaggaaagcgatgatgatagcagtgatgatgaacaagtaagagatatgcaattatgaattgagttatgtgattatggatttttgat Alignment from GeneWise CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAG-AAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG ggttgaggcagagactgtattatgcctgctcctgccctctgaccctacagTTAACAGATGAGGTCAGGAAAGAGAAAGAAAAGGAGCCTGAGCAAGCTTGACACAATGGAAAGCCCTACAGTTCCAAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtaagagatatgcaattatgaattgagttatgtgattatggatttttgat #### Sfxn3_ID9285_3 --> 1 - 2 Original Alignment gAAGACTCCGACTGTGGTGTTC-TGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGca ttgagaatcttatacatctgaacccagtaacacttcctttcttcccacagaAAGACTCCTACTGTGGTGTTTCTGGCAGTGGGTGAATAAATCATTTAATGCTATTATTAACTACTCTAATCGGAGTGGAGATGCCCCTATCACTGTCaggtgagacacaactgtacactaacaaccccagtccccatggttatggttgt Alignment from CESAR gAAGACTCCGACTGTGGTG-TTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGca ttgagaatcttatacatctgaacccagtaacacttcctttcttcccacagaAAGACTCCTACTGTGGTGTTTCTGGCAGTGGGTGAATAAATCATTTAATGCTATTATTAACTACTCTAATCGGAGTGGAGATGCCCCTATCACTGTCaggtgagacacaactgtacactaacaaccccagtccccatggttatggttgt Alignment from Spaln_aa2Genome GAAGACTCCGACTGTGGTGTTC-TGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGCA ttgagaatcttatacatctgaacccagtaacacttcctttcttcccacagAAAGACTCCTACTGTGGTGTTTcTGGCAGTGGGTGAATAAATCATTTAATGCTATTATTAACTACTCTAATCGGAGTGGAGATGCCCCTATCACTGTCAGgtgagacacaactgtacactaacaaccccagtccccatggttatggttgt Alignment from Spaln_nt2Genome GAAGACTCCGACTGTGGTG-TTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGCA ttgagaatcttatacatctgaacccagtaacacttcctttcttcccacagAAAGACTCCTACTGTGGTGTTTCTGGCAGTGGGTGAATAAATCATTTAATGCTATTATTAACTACTCTAATCGGAGTGGAGATGCCCCTATCACTGTCAGgtgagacacaactgtacactaacaaccccagtccccatggttatggttgt Alignment from Pairagon GAAGACTCCGACTGTGGTG-TTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGCA ttgagaatcttatacatctgaacccagtaacacttcctttcttcccacagAAAGACTCCTACTGTGGTGTTTCTGGCAGTGGGTGAATAAATCATTTAATGCTATTATTAACTACTCTAATCGGAGTGGAGATGCCCCTATCACTGTCAGgtgagacacaactgtacactaacaaccccagtccccatggttatggttgt Alignment from Exonerate_protein2genome GAAGACTCCGACTGTGGTG-TTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGCA ttgagaatcttatacatctgaacccagtaacacttcctttcttcccacagAAAGACTCCTACTGTGGTGTTTCTGGCAGTGGGTGAATAAATCATTTAATGCTATTATTAACTACTCTAATCGGAGTGGAGATGCCCCTATCACTGTCAGgtgagacacaactgtacactaacaaccccagtccccatggttatggttgt Alignment from Exonerate_coding2genome GAAGACTCCGACTGTGGTG-TTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGCA ttgagaatcttatacatctgaacccagtaacacttcctttcttcccacagAAAGACTCCTACTGTGGTGTTTCTGGCAGTGGGTGAATAAATCATTTAATGCTATTATTAACTACTCTAATCGGAGTGGAGATGCCCCTATCACTGTCAGgtgagacacaactgtacactaacaaccccagtccccatggttatggttgt Alignment from GeneWise GAAGACTCCGACTGTG-GTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGCA ttgagaatcttatacatctgaacccagtaacacttcctttcttcccacagAAAGACTCCTACTGTGGTGTTTCTGGCAGTGGGTGAATAAATCATTTAATGCTATTATTAACTACTCTAATCGGAGTGGAGATGCCCCTATCACTGTCAGgtgagacacaactgtacactaacaaccccagtccccatggttatggttgt #### Sfxn3_ID9290_8 --> 0 - 2 Original Alignment CGCCGTCCCTGGCTGGGGGCGCCCCTG-CAGGTGGGACTGGTAGGCTTCtg aacaaagtagtactagtgcaccgcagtatcacccacctctccctttgcagGGCTGCCCCTGGCTTGGGACTCCTCTGCCAGGTGGGTCTGGTAGACTTCtggtaagatggacggtgtttatcaagaagccctcactgtttaggaggccatg Alignment from CESAR CGCCGTCCCTGGCTGGGGGCGCCCCTG-CAGGTGGGACTGGTAGGCTTCtg aacaaagtagtactagtgcaccgcagtatcacccacctctccctttgcagGGCTGCCCCTGGCTTGGGACTCCTCTGCCAGGTGGGTCTGGTAGACTTCtggtaagatggacggtgtttatcaagaagccctcactgtttaggaggccatg Alignment from Spaln_aa2Genome CGCCGTCCCTGGCTGGGGGCGCCCCTG-CAGGTGGGACTGGTAGGCTTCTG aacaaagtagtactagtgcaccgcagtatcacccacctctccctttgcagGGCTGCCCCTGGCTTGGGACTCCTCTGcCAGGTGGGTCTGGTAGACTTCTGgtaagatggacggtgtttatcaagaagccctcactgtttaggaggccatg Alignment from Spaln_nt2Genome CGCCGTCCCTGGCTGGGGGCGCCCCTGC-AGGTGGGACTGGTAGGCTTCTG aacaaagtagtactagtgcaccgcagtatcacccacctctccctttgcagGGCTGCCCCTGGCTTGGGACTCCTCTGCCAGGTGGGTCTGGTAGACTTCTGgtaagatggacggtgtttatcaagaagccctcactgtttaggaggccatg Alignment from Pairagon CGCCGTCCCTGGCTGGGGGCGCCCCTG-CAGGTGGGACTGGTAGGCTTCTG aacaaagtagtactagtgcaccgcagtatcacccacctctccctttgcagGGCTGCCCCTGGCTTGGGACTCCTCTGCCAGGTGGGTCTGGTAGACTTCTGgtaagatggacggtgtttatcaagaagccctcactgtttaggaggccatg Alignment from Exonerate_protein2genome CGCCGTCCCTGGCTGGGGGCGCCCCTG-CAGGTGGGACTGGTAGGCTTCTG aacaaagtagtactagtgcaccgcagtatcacccacctctccctttgcagGGCTGCCCCTGGCTTGGGACTCCTCTGCCAGGTGGGTCTGGTAGACTTCTGgtaagatggacggtgtttatcaagaagccctcactgtttaggaggccatg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GCGCCC aacaaagtagtactagtgcaccgcagtatcacccacctctccctttgcagggctgcccctggcttgggactcctctgccaggtgggtctggtagacttctggtaagatggacggtgtttatcaagaagccctcactgtttaggagGCCATG #### Shoc2_ID11421_7 --> 0 - 1 Original Alignment AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTT-ACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCg agtactgaatatacaacatgtttttcagttacaacccaactgtgttttagGAGTTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCCACTAACCTCACTCACCTCGGTCTAGGTGAGAACCTACTCACTCACCTGCCTGAAGAAATTggtaagaactgggattagactgaacaatcttgtacatctgacatataacaa Alignment from CESAR AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTT-ACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCg agtactgaatatacaacatgtttttcagttacaacccaactgtgttttagGAGTTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCCACTAACCTCACTCACCTCGGTCTAGGTGAGAACCTACTCACTCACCTGCCTGAAGAAATTggtaagaactgggattagactgaacaatcttgtacatctgacatataacaa Alignment from Spaln_aa2Genome AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTT-ACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG agtactgaatatacaacatgtttttcagttacaacccaactgtgttttagGAGTTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCcACTAACCTCACTCACCTCGGTCTAGGTGAGAACCTACTCACTCACCTGCCTGAAGAAATTGgtaagaactgggattagactgaacaatcttgtacatctgacatataacaa Alignment from Spaln_nt2Genome AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTT-ACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG agtactgaatatacaacatgtttttcagttacaacccaactgtgttttagGAGTTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCCACTAACCTCACTCACCTCGGTCTAGGTGAGAACCTACTCACTCACCTGCCTGAAGAAATTGgtaagaactgggattagactgaacaatcttgtacatctgacatataacaa Alignment from Pairagon AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCT-TACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG agtactgaatatacaacatgtttttcagttacaacccaactgtgttttagGAGTTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCCACTAACCTCACTCACCTCGGTCTAGGTGAGAACCTACTCACTCACCTGCCTGAAGAAATTGgtaagaactgggattagactgaacaatcttgtacatctgacatataacaa Alignment from Exonerate_protein2genome AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTT-ACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG agtactgaatatacaacatgtttttcagttacaacccaactgtgttttagGAGTTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCCACTAACCTCACTCACCTCGGTCTAGGTGAGAACCTACTCACTCACCTGCCTGAAGAAATTGgtaagaactgggattagactgaacaatcttgtacatctgacatataacaa Alignment from Exonerate_coding2genome AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTT-ACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG agtactgaatatacaacatgtttttcagttacaacccaactgtgttttagGAGTTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCCACTAACCTCACTCACCTCGGTCTAGGTGAGAACCTACTCACTCACCTGCCTGAAGAAATTGgtaagaactgggattagactgaacaatcttgtacatctgacatataacaa Alignment from GeneWise AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCAC-CTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATC- agtactgaatatacaacatgtttttcagttacaacccaactgtgttttagGAGTTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCCACTAACCTCACTCACCTCGGTCTAGGTGAGAACCTACTCACTCACCTGCCTGAAGAAATTGgtaagaactgggattagactgaacaatcttgtacatctgacatataacaa #### Sipa1_ID1140_12 --> 2 - 1 Original Alignment ttATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCC-TCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGg taggttgataccattgtgtttgctcttgaagagcccttttctggtttcagttATGCCGGAAGCTGCCACTGAAACATTGGAT---GAATGGCAGTCCATATCTGCAATTTCCCTCCACTTGCAACACAATCCTGGAGTCCCTGTCTCGGGAAggtgagttccgtgtcttgggaaggggatgctgttcattgggcttttgcaac Alignment from CESAR ttATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCC-TCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGg taggttgataccattgtgtttgctcttgaagagcccttttctggtttcagttATGCCGGAAGCTGCCACTGAAACATTG---GATGAATGGCAGTCCATATCTGCAATTTCCCTCCACTTGCAACACAATCCTGGAGTCCCTGTCTCGGGAAggtgagttccgtgtcttgggaaggggatgctgttcattgggcttttgcaag Alignment from Spaln_aa2Genome TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATC-GCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG taggttgataccattgtgtttgctcttgaagagcccttttctggtttcagTTATGCCGGAAGCTGCCACTGAAACATTG---GATGAATGGCAGTCCATATCTGCAATTtCCCTCCACTTGCAACACAATCCTGGAGTCCCTGTCTCGGGAAGgtgagttccgtgtcttgggaaggggatgctgttcattgggcttttgcaac Alignment from Spaln_nt2Genome TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCC-TCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG taggttgataccattgtgtttgctcttgaagagcccttttctggtttcagTTATGCCGGAAGCTGCCACTGAAACATT---GGATGAATGGCAGTCCATATCTGCAATTTCCCTCCACTTGCAACACAATCCTGGAGTCCCTGTCTCGGGAAGgtgagttccgtgtcttgggaaggggatgctgttcattgggcttttgcaac Alignment from Pairagon TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATC--------GCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG taggttgataccattgtgtttgctcttgaagagcccttttctggtttcagTTATGCCGGAAGCTGCCACTGAAACATT---GGATGAATGGCAGTCCAT-------ATCTGCAATTTCCCTCCACTTGCAACACAATCCTGGAGTCCCTGTCTCGGGAAGgtgagttccgtgtcttgggaaggggatgctgttcattgggcttttgcaac Alignment from Exonerate_protein2genome TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCC-TCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG taggttgataccattgtgtttgctcttgaagagcccttttctggtttcagTTATGCCGGAAGCTGCCACTGAAACATTG---GATGAATGGCAGTCCATATCTGCAATTTCCCTCCACTTGCAACACAATCCTGGAGTCCCTGTCTCGGGAAGgtgagttccgtgtcttgggaaggggatgctgttcattgggcttttgcaac Alignment from Exonerate_coding2genome TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCC-TCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG taggttgataccattgtgtttgctcttgaagagcccttttctggtttcagTTATGCCGGAAGCTGCCACTGAAACATTG---GATGAATGGCAGTCCATATCTGCAATTTCCCTCCACTTGCAACACAATCCTGGAGTCCCTGTCTCGGGAAGgtgagttccgtgtcttgggaaggggatgctgttcattgggcttttgcaac Alignment from GeneWise TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATC-GCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG taggttgataccattgtgtttgctcttgaagagcccttttctggtttcagTTATGCCGGAAGCTGCCACTGAAACATTG---GATGAATGGCAGTCCATATCTGCAATTTCCCTCCACTTGCAACACAATCCTGGAGTCCCTGTCTCGGGAAGgtgagttccgtgtcttgggaaggggatgctgttcattgggcttttgcaac #### Sipa1_ID1141_11 --> 0 - 1 Original Alignment GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAA-CTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGa gtctaataacccatagcccactaacaatttccttctggaatcccttccagGATCAATCAGGAAGCCCTAGTAGTCATGGGGATACCAGTGACTCTGGTCCAGAACTTAAGGGCCCCAATCTTGCCTAGAACCTTATCAGTACGAAATACCATCAGTAAAagtatcccaggtgacacaggtaaggaacagcctcctattcatgccctgcct Alignment from CESAR GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTG-AGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGa gtctaataacccatagcccactaacaatttccttctggaatcccttccagGATCAATCAGGAAGCCCTAGTAGTCATGGGGATACCAGTGACTCTGGTCCAGAACTTAAGGGCCCCAATCTTGCCTAGAACCTTATCAGTACGAAATACCATCAGTAAAagtatcccaggtgacacaggtaaggaacagcctcctattcatgccctgcct Alignment from Spaln_aa2Genome GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTG-AGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtctaataacccatagcccactaacaatttccttctggaatcccttccagGATCAATCAGGAAGCCCTAGTAGTCATGGGGATACCAGTGACTCTGGTCCAGAACTTaAGGGCCCCAATCTTGCCTAGAACCTTATCAGTACGAAATACCATCAGTAAAAgtatcccaggtgacacaggtaaggaacagcctcctattcatgccctgcct Alignment from Spaln_nt2Genome GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGC-CTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtctaataacccatagcccactaacaatttccttctggaatcccttccagGATCAATCAGGAAGCCCTAGTAGTCATGGGGATACCAGTGACTCTGGTCCAGAACTTAAGGGCCCCAATCTTGCCTAGAACCTTATCAGTACGAAATACCATCAGTAAAAgtatcccaggtgacacaggtaaggaacagcctcctattcatgccctgcct Alignment from Pairagon GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAAC-TGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtctaataacccatagcccactaacaatttccttctggaatcccttccagGATCAATCAGGAAGCCCTAGTAGTCATGGGGATACCAGTGACTCTGGTCCAGAACTTAAGGGCCCCAATCTTGCCTAGAACCTTATCAGTACGAAATACCATCAGTAAAAgtatcccaggtgacacaggtaaggaacagcctcctattcatgccctgcct Alignment from Exonerate_protein2genome GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAA-CTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtctaataacccatagcccactaacaatttccttctggaatcccttccagGATCAATCAGGAAGCCCTAGTAGTCATGGGGATACCAGTGACTCTGGTCCAGAACTTAAGGGCCCCAATCTTGCCTAGAACCTTATCAGTACGAAATACCATCAGTAAAAgtatcccaggtgacacaggtaaggaacagcctcctattcatgccctgcct Alignment from Exonerate_coding2genome --GCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAGGACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAA-CTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA GTCTAATAACCCATAGCCCACTAACAATTTCCTTCTGGAATCCCTTCCAGGATCAATCAGGAAGCCCTAGTAGTCATGGGGATACCAGTGACTCTGGTCCAGAACTTAAGGGCCCCAATCTTGCCTAGAACCTTATCAGTACGAAATACCATCAGTAAAAgtatcccaggtgacacaggtaaggaacagcctcctattcatgccctgcct Alignment from GeneWise GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAA-CTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtctaataacccatagcccactaacaatttccttctggaatcccttccagGATCAATCAGGAAGCCCTAGTAGTCATGGGGATACCAGTGACTCTGGTCCAGAACTTAAGGGCCCCAATCTTGCCTAGAACCTTATCAGTACGAAATACCATCAGTAAAAgtatcccaggtgacacaggtaaggaacagcctcctattcatgccctgcct #### Sipa1_ID1145_7 --> 1 - 0 Original Alignment gGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTG-CCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttgtctgggcactcaaacttccctgtgatcactgatgtccccacaggGTTGCGGTGAGTTGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGTGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAGGCAGCTGGCCACACAAGGCAGTTCCATGCCATGACTACATGTACACGGCAACAG---CTGCAAGAGTTGGCAAAAAATGAGGTGAGTACTACTTTGCTAGACCTGGCCTCCCGATCTGGGTTACCGTCCCTTGGTGGCAGAGACCAC------CCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCGGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCCTTGTTTATTGGGTATTTCTGCTGAGACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACGTGTCGAGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGACCTATACCATGGGCGTGGGAAAGCAATTACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTGGTGGCACGTCTGCAAgtgaggtgcaactacacaggagaaaggtacaatgcaattactggagtaag Alignment from CESAR gGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCC-TGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttgtctgggcactcaaacttccctgtgatcactgatgtccccacaggGTTGCGGTGAGTTGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGTGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAGGCAGCTGGCCACACAAGGCAGTTCCATGCCATGACTACATGTACACGGCAACAG---CTGCAAGAGTTGGCAAAAAATGAGGTGAGTACTACTTTGCTAGACCTGGCCTCCCGATCTGGGTTACCGTCCCTTGGTGGCAGAGACCAC------CCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCGGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCCTTGTTTATTGGGTATTTCTGCTGAGACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACGTGTCGAGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGACCTATACCATGGGCGTGGGAAAGCAATTACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTGGTGGCACGTCTGCAAgtgaggtgcaactacacaggagaaaggtacaatgcaattactggagtaag Alignment from Spaln_aa2Genome GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCC-TGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttgtctgggcactcaaacttccctgtgatcactgatgtccccacagGGTTGCGGTGAGTTGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGTGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAGGCAGCTGGCCACACAAGGCAGTTCCATGCCATGACTACATGTACACGGCAACAG---CTGCAAGAGTTGGCAAAAAATGAGGTGAGTACTACTTTGCTAGACCTGGCCTCCCGATCTGGGTTACCGTCCCTTGGTGGCAGAGACCAC------CCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCGGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCCtTGTTTATTGGGTATTTCTGCTGAGACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACGTGTCGAGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGACCTATACCATGGGCGTGGGAAAGCAATTACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTGGTGGCACGTCTGCAAgtgaggtgcaactacacaggagaaaggtacaatgcaattactggagtaag Alignment from Spaln_nt2Genome GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCT-GCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttgtctgggcactcaaacttccctgtgatcactgatgtccccacagGGTTGCGGTGAGTTGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGTGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAGGCAGCTGGCCACACAAGGCAGTTCCATGCCATGACTACATGTACACGGCAACAG---CTGCAAGAGTTGGCAAAAAATGAGGTGAGTACTACTTTGCTAGACCTGGCCTCCCGATCTGGGTTACCGTCCCTTGGTGGCAGAGACC------ACCCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCGGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCCTTGTTTATTGGGTATTTCTGCTGAGACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACGTGTCGAGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGACCTATACCATGGGCGTGGGAAAGCAATTACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTGGTGGCACGTCTGCAAgtgaggtgcaactacacaggagaaaggtacaatgcaattactggagtaag Alignment from Pairagon GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCA-------------GGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCC-TGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttgtctgggcactcaaacttccctgtgatcactgatgtccccacagGGTTGCGGTGAGTTGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGTGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAGGCAGCTGGCCACACAAGGCAGTTCCATGCCATGACTACATGTACACGGCAACAG---CTGCAAGAGTTGGCAAAAAATGAGGTGAGTACTACTTTGCTAGACCTGGCCTCCCGATCTGGGTTACCGTCCCTTGGTGGCA-------------------GAGACCACCCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCGGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCCTTGTTTATTGGGTATTTCTGCTGAGACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACGTGTCGAGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGACCTATACCATGGGCGTGGGAAAGCAATTACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTGGTGGCACGTCTGCAAgtgaggtgcaactacacaggagaaaggtacaatgcaattactggagtaag Alignment from Exonerate_protein2genome GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTG-CCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttgtctgggcactcaaacttccctgtgatcactgatgtccccacagGGTTGCGGTGAGTTGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGTGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAGGCAGCTGGCCACACAAGGCAGTTCCATGCCATGACTACATGTACACGGCAACAG---CTGCAAGAGTTGGCAAAAAATGAGGTGAGTACTACTTTGCTAGACCTGGCCTCCCGATCTGGGTTACCGTCCCTTGGTGGCAGAGACCAC------CCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCGGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCCTTGTTTATTGGGTATTTCTGCTGAGACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACGTGTCGAGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGACCTATACCATGGGCGTGGGAAAGCAATTACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTGGTGGCACGTCTGCAAgtgaggtgcaactacacaggagaaaggtacaatgcaattactggagtaag Alignment from Exonerate_coding2genome GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTG-CCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttgtctgggcactcaaacttccctgtgatcactgatgtccccacagGGTTGCGGTGAGTTGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGTGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAGGCAGCTGGCCACACAAGGCAGTTCCATGCCATGACTACATGTACACGGCAACAG---CTGCAAGAGTTGGCAAAAAATGAGGTGAGTACTACTTTGCTAGACCTGGCCTCCCGATCTGGGTTACCGTCCCTTGGTGGCAGAGACCAC------CCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCGGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCCTTGTTTATTGGGTATTTCTGCTGAGACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACGTGTCGAGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGACCTATACCATGGGCGTGGGAAAGCAATTACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTGGTGGCACGTCTGCAAgtgaggtgcaactacacaggagaaaggtacaatgcaattactggagtaag Alignment from GeneWise GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAG-GTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttgtctgggcactcaaacttccctgtgatcactgatgtccccacagGGTTGCGGTGAGTTGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGTGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAGGCAGCTGGCCACACAAGGCAGTTCCATGCCATGACTACATGTACACGGCAACAG---CTGCAAGAGTTGGCAAAAAATGAGGTGAGTACTACTTTGCTAGACCTGGCCTCCCGATCTGGGTTACCGTCCCTTGGTGGCAGAGACCAC------CCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCGGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCCTTGTTTATTGGGTATTTCTGCTGAGACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACGTGTCGAGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGACCTATACCATGGGCGTGGGAAAGCAATTACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTGGTGGCACGTCTGCAAgtgaggtgcaactacacaggagaaaggtacaatgcaattactggagtaag #### Sipa1_ID1146_6 --> 0 - 2 Original Alignment CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCC-TGCACCCCACACACCTCATACag cttgagccactgaagctcaggtatttttattgatttgtttctttgcacagCTATTAAGGAAATGTCACATCAGTAACTACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAACCATTCTGTCCTAAGACAGTATGCTCTCACTTCCCACATGTTTTCTTGGTGGTGCGAGCATTTGCTTCTCTGCACTCCCCACACATCATACaggtaagtacttggttaagctgggatctcagggatgggtaaattgtcatggt Alignment from CESAR CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCC-TGCACCCCACACACCTCATACag cttgagccactgaagctcaggtatttttattgatttgtttctttgcacagCTATTAAGGAAATGTCACATCAGTAACTACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAACCATTCTGTCCTAAGACAGTATGCTCTCACTTCCCACATGTTTTCTTGGTGGTGCGAGCATTTGCTTCTCTGCACTCCCCACACATCATACaggtaagtacttggttaagctgggatctcagggatgggtaaattgtcatggt Alignment from Spaln_aa2Genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCC-TGCACCCCACACACCTCATACAG cttgagccactgaagctcaggtatttttattgatttgtttctttgcacagCTATTAAGGAAATGTCACATCAGTAACTACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAACCATTCTGTCCTAAGACAGTATGCTCTCACTTCCCACATGTTTTCTTGGTGGTGCGAGCATTTGCTTCTcTGCACTCCCCACACATCATACAGgtaagtacttggttaagctgggatctcagggatgggtaaattgtcatggt Alignment from Spaln_nt2Genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCC-CTGCACCCCACACACCTCATACAG cttgagccactgaagctcaggtatttttattgatttgtttctttgcacagCTATTAAGGAAATGTCACATCAGTAACTACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAACCATTCTGTCCTAAGACAGTATGCTCTCACTTCCCACATGTTTTCTTGGTGGTGCGAGCATTTGCTTCTCTGCACTCCCCACACATCATACAGgtaagtacttggttaagctgggatctcagggatgggtaaattgtcatggt Alignment from Pairagon CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGC-TCCCTGCACCCCACACACCTCATACAG cttgagccactgaagctcaggtatttttattgatttgtttctttgcacagCTATTAAGGAAATGTCACATCAGTAACTACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAACCATTCTGTCCTAAGACAGTATGCTCTCACTTCCCACATGTTTTCTTGGTGGTGCGAGCATTTGCTTCTCTGCACTCCCCACACATCATACAGgtaagtacttggttaagctgggatctcagggatgggtaaattgtcatggt Alignment from Exonerate_protein2genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCC-TGCACCCCACACACCTCATACAG cttgagccactgaagctcaggtatttttattgatttgtttctttgcacagCTATTAAGGAAATGTCACATCAGTAACTACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAACCATTCTGTCCTAAGACAGTATGCTCTCACTTCCCACATGTTTTCTTGGTGGTGCGAGCATTTGCTTCTCTGCACTCCCCACACATCATACAGgtaagtacttggttaagctgggatctcagggatgggtaaattgtcatggt Alignment from Exonerate_coding2genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCC-TGCACCCCACACACCTCATACAG cttgagccactgaagctcaggtatttttattgatttgtttctttgcacagCTATTAAGGAAATGTCACATCAGTAACTACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAACCATTCTGTCCTAAGACAGTATGCTCTCACTTCCCACATGTTTTCTTGGTGGTGCGAGCATTTGCTTCTCTGCACTCCCCACACATCATACAGgtaagtacttggttaagctgggatctcagggatgggtaaattgtcatggt Alignment from GeneWise CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCT-CCCTGCACCCCACACACCTCATACAG cttgagccactgaagctcaggtatttttattgatttgtttctttgcacagCTATTAAGGAAATGTCACATCAGTAACTACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAACCATTCTGTCCTAAGACAGTATGCTCTCACTTCCCACATGTTTTCTTGGTGGTGCGAGCATTTGCTTCTCTGCACTCCCCACACATCATACAGgtaagtacttggttaagctgggatctcagggatgggtaaattgtcatggt #### Slc18a2_ID12939_7 --> 2 - 0 Original Alignment ctATTCAGCTCTTTGTGCTCCAGCCATCC-CGAGTGCAGCCAGAA tgccaagtatgggatacatgtgtatgatctacatggcccctcacccctagccATTCAACTCTTTGTGATTCAA---TCCCTGCAGACTTCCGGATgtaagtagctgggaattcagcctagtgtctttcccgtgctacatatcaca Alignment from CESAR ctATTCAGCTCTTTGTGCTCCAG-CCATCCCGAGTGCAGCCAGAA tgccaagtatgggatacatgtgtatgatctacatggcccctcacccctagccATTCAACTCTTTGTGATTCAATCCCTGCAGACTT---CCGGATgtaagtagctgggaattcagcctagtgtctttcccgtgctacatatcaca Alignment from Spaln_aa2Genome CTATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAAAG tgccaagtatgggatacatgtgtatgatctacatggcccctcacccctagCCATTCAACTCTTTGTGATTCAATCCCTGCAGACTTCCGGATGTAAgtagctgggaattcagcctagtgtctttcccgtgctacatatcaca Alignment from Spaln_nt2Genome CTATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAG----CCAGAA tgccaagtatgggatacatgtgtatgatctacatggcccctcacccctagCCATTCAACTCTTTGTGATTCA---ATCCC---TGCAGACTTCCGGATgtaagtagctgggaattcagcctagtgtctttcccgtgctacatatcaca Alignment from Pairagon tgccaagtatgggatacatgtgtatgatctacatggcccctcacccctagccattcaactctttgtgattcaatccctgcagacttccggatgtaagtagctgggaattcagcctagtgtctttcccgtgctacatatcaca Alignment from Exonerate_protein2genome CTATTCAGCTCTTTGTGCTCCAG-CCATCCCGAGTGCAGCCAGAA tgccaagtatgggatacatgtgtatgatctacatggcccctcacccctagCCATTCAACTCTTTGTGATTCAATCCCTGCAGACTT---CCGGATgtaagtagctgggaattcagcctagtgtctttcccgtgctacatatcaca Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise tgccaagtatgggatacatgtgtatgatctacatggcccctcacccctagccattcaactctttgtgattcaatccctgcagacttccggatgtaagtagctgggaattcagcctagtgtctttcccgtgctacatatcaca #### Slc22a12_ID1790_7 --> 1 - 1 Original Alignment gTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTC-TGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATg ggtcaaggtcagggctattttaagtattgcctccctgaccttttccctaggTTTTCCATAGGCTTCACCTTTTATGGACTAGCTATTGAC---------CTTGGGAGCAACATATTCCTCCTCCAATCGATCATTGGGATTGTGGATTTCCCAGTAAAGACAGGTAGTTTGCTCCTGATTACACATTTGGGCCAACACCTCCTGTCAGGTCAGTTTTTTGGTT---CCTGGACTATGTATACTTTCCAATGTATTG------GATggtatgtctataatcgcttactgagtaaaaatgtttgacagaaaagagagg Alignment from CESAR gTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTC-TGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATg ggtcaaggtcagggctattttaagtattgcctccctgaccttttccctaggTTTTCCATAGGCTTCACCTTTTATGGACTAGCTATTGAC---------CTTGGGAGCAACATATTCCTCCTCCAATCGATCATTGGGATTGTGGATTTCCCAGTAAAGACAGGTAGTTTGCTCCTGATTACACATTTGGGCCAACACCTCCTGTCAGGTCAGTTTTTTGGTT---CCTGGACTATGTATACTTTCCAATGTATTG------GATggtatgtctataatcgcttactgagtaaaaatgtttgacagaaaagagagg Alignment from Spaln_aa2Genome GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTC-TGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG ggtcaaggtcagggctattttaagtattgcctccctgaccttttccctagGTTTTCCATAGGCTTCACCTTTTATGGACTAGCTATTGAC---------CTTGGGAGCAACATATTCCTCCTCCAATCGATCATTGGGATTGTGGATTTCCCAGTAAAGACAGGTAGTTTGCTCCTGATTACACATTTGGGCCAACACCTCcTGTCAGGTCAGTTTTTTGGTT---CCTGGACTATGTATACTTTCCAATGTATTG------GATGgtatgtctataatcgcttactgagtaaaaatgtttgacagaaaagagagg Alignment from Spaln_nt2Genome GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTC-TGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG ggtcaaggtcagggctattttaagtattgcctccctgaccttttccctagGTTTTCCATAGGCTTCACCTTTTATGGACTAGCTATTGA---------CCTTGGGAGCAACATATTCCTCCTCCAATCGATCATTGGGATTGTGGATTTCCCAGTAAAGACAGGTAGTTTGCTCCTGATTACACATTTGGGCCAACACCTCCTGTCAGGTCAGTTTTTTGG---TTCCTGGACTATGTATACTTTCCAATGTATTGG------ATGgtatgtctataatcgcttactgagtaaaaatgtttgacagaaaagagagg Alignment from Pairagon GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCT-CTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG ggtcaaggtcagggctattttaagtattgcctccctgaccttttccctagGTTTTCCATAGGCTTCACCTTTTATGGACTAGCTATTGA---------CCTTGGGAGCAACATATTCCTCCTCCAATCGATCATTGGGATTGTGGATTTCCCAGTAAAGACAGGTAGTTTGCTCCTGATTACACATTTGGGCCAACACCTCCTGTCAGGTCAGTTTTTTGG---TTCCTGGACTATGTATACTTTCCAATGTATTGG------ATGgtatgtctataatcgcttactgagtaaaaatgtttgacagaaaagagagg Alignment from Exonerate_protein2genome GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTC-TGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG ggtcaaggtcagggctattttaagtattgcctccctgaccttttccctagGTTTTCCATAGGCTTCACCTTTTATGGACTAGCTATTGAC---------CTTGGGAGCAACATATTCCTCCTCCAATCGATCATTGGGATTGTGGATTTCCCAGTAAAGACAGGTAGTTTGCTCCTGATTACACATTTGGGCCAACACCTCCTGTCAGGTCAGTTTTTTGGTT---CCTGGACTATGTATACTTTCCAATGTATTG------GATGgtatgtctataatcgcttactgagtaaaaatgtttgacagaaaagagagg Alignment from Exonerate_coding2genome ggtcaaggtcagggctattttaagtattgcctccctgaccttttccctaggttttccataggcttcaccttttatggactagctattgaccttgggagcaacatattcctcctccaatcgatcattgggattgtggatttcccagtaaagacaggtagtttgctcctgattacacatttgggccaacacctcctgtcaggtcagttttttggttcctggactatgtatactttccaatgtattggatggtatgtctataatcgcttactgagtaaaaatgtttgacagaaaagagagg Alignment from GeneWise GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGC-CTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAAC ggtcaaggtcagggctattttaagtattgcctccctgaccttttccctagGTTTTCCATAGGCTTCACCTTTTATGGACTAGCTATTGACCTT---------GGGAGCAACATATTCCTCCTCCAATCGATCATTGGGATTGTGGATTTCCCAGTAAAGACAGGTAGTTTGCTCCTGATTACACATTTGGGCCAACACCTCCTGTCAGGTCAGTTTTTTGGTT---CCTGGACTATGTATACTTTCCAATgtattggatggtatgtctataatcgcttactgagtaaaaatgtttgacagaaaagagagg #### Slc22a12_ID1792_5 --> 1 - 0 Original Alignment gTGGCTACCAGAATCGGCACGCTGGCTCATCACGGTAGGCAAGCTGGACCAGGGCCTGCAG-GAACTACAGAGGGTAGCTGCTGTCAACAGGAGGAAGGCAGAGGGAGACACGTTGACCATGGAG tttcacctgaaggtctgctcctcaccaggacatgtctggcttaacttaaggTGGTTGCCAGAATCTACACAGTGGCTTATAACAGTGGGTAAGCTAGATCAAAGTTTGCAGCGAGCTACAAAAGACATCTGCAGTCAATAGAAGGAAAGCAGAGGGAGATACCCTGACAATGGAGgtaagtagataaggagtattatgcctcaaatgcctccctatagagaccct Alignment from CESAR gTGGCTACCAGAATCGGCACGCTGGCTCATCACGGTAGGCAAGCTGGACCAGGGCCTGCAG-GAACTACAGAGGGTAGCTGCTGTCAACAGGAGGAAGGCAGAGGGAGACACGTTGACCATGGAG tttcacctgaaggtctgctcctcaccaggacatgtctggcttaacttaaggTGGTTGCCAGAATCTACACAGTGGCTTATAACAGTGGGTAAGCTAGATCAAAGTTTGCAGCGAGCTACAAAAGACATCTGCAGTCAATAGAAGGAAAGCAGAGGGAGATACCCTGACAATGGAGgtaagtagataaggagtattatgcctcaaatgcctccctatagagaccct Alignment from Spaln_aa2Genome GTGGCTACCAGAATCGGCACGCTGGCTCATCACGGTAGGCAAGCTGGACCAGGGCCTGCAG-GAACTACAGAGGGTAGCTGCTGTCAACAGGAGGAAGGCAGAGGGAGACACGTTGACCATGGAG tttcacctgaaggtctgctcctcaccaggacatgtctggcttaacttaagGTGGTTGCCAGAATCTACACAGTGGCTTATAACAGTGGGTAAGCTAGATCAAAGTTTGCAGcGAGCTACAAAAGACATCTGCAGTCAATAGAAGGAAAGCAGAGGGAGATACCCTGACAATGGAGgtaagtagataaggagtattatgcctcaaatgcctccctatagagaccct Alignment from Spaln_nt2Genome GTGGCTACCAGAATCGGCACGCTGGCTCATCACGGTAGGCAAGCTGGACCAGGGCCTGCAG-GAACTACAGAGGGTAGCTGCTGTCAACAGGAGGAAGGCAGAGGGAGACACGTTGACCATGGAG tttcacctgaaggtctgctcctcaccaggacatgtctggcttaacttaagGTGGTTGCCAGAATCTACACAGTGGCTTATAACAGTGGGTAAGCTAGATCAAAGTTTGCAGCGAGCTACAAAAGACATCTGCAGTCAATAGAAGGAAAGCAGAGGGAGATACCCTGACAATGGAGgtaagtagataaggagtattatgcctcaaatgcctccctatagagaccct Alignment from Pairagon GTGGCTACCAGAATCGGCACGCTGGCTCATCACGGTAGGCAAGCTGGACCAGGGCCTGCAG-GAACTACAGAGGGTAGCTGCTGTCAACAGGAGGAAGGCAGAGGGAGACACGTTGACCATGGAG tttcacctgaaggtctgctcctcaccaggacatgtctggcttaacttaagGTGGTTGCCAGAATCTACACAGTGGCTTATAACAGTGGGTAAGCTAGATCAAAGTTTGCAGCGAGCTACAAAAGACATCTGCAGTCAATAGAAGGAAAGCAGAGGGAGATACCCTGACAATGGAGgtaagtagataaggagtattatgcctcaaatgcctccctatagagaccct Alignment from Exonerate_protein2genome GTGGCTACCAGAATCGGCACGCTGGCTCATCACGGTAGGCAAGCTGGACCAGGGCCTGCAG-GAACTACAGAGGGTAGCTGCTGTCAACAGGAGGAAGGCAGAGGGAGACACGTTGACCATGGAG tttcacctgaaggtctgctcctcaccaggacatgtctggcttaacttaagGTGGTTGCCAGAATCTACACAGTGGCTTATAACAGTGGGTAAGCTAGATCAAAGTTTGCAGCGAGCTACAAAAGACATCTGCAGTCAATAGAAGGAAAGCAGAGGGAGATACCCTGACAATGGAGgtaagtagataaggagtattatgcctcaaatgcctccctatagagaccct Alignment from Exonerate_coding2genome tttcacctgaaggtctgctcctcaccaggacatgtctggcttaacttaaggtggttgccagaatctacacagtggcttataacagtgggtaagctagatcaaagtttgcagcgagctacaaaagacatctgcagtcaatagaaggaaagcagagggagataccctgacaatggaggtaagtagataaggagtattatgcctcaaatgcctccctatagagaccct Alignment from GeneWise GTGGCTACCAGAATCGGCACGCTGGCTCATCACGGTAGGCAAGCTGGACCAGGGCCTGCAG-GAACTACAGAGGGTAGCTGCTGTCAACAGGAGGAAGGCAGAGGGAGACACGTTGACCATGGAG tttcacctgaaggtctgctcctcaccaggacatgtctggcttaacttaagGTGGTTGCCAGAATCTACACAGTGGCTTATAACAGTGGGTAAGCTAGATCAAAGTTTGCAGCGAGCTACAAAAGACATCTGCAGTCAATAGAAGGAAAGCAGAGGGAGATACCCTGACAATGGAGgtaagtagataaggagtattatgcctcaaatgcctccctatagagaccct #### Slc22a20_ID1345_8 --> 2 - 2 Original Alignment atCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTC-TATCCCACAGAGATCag attggtattaaagaggagggtttgatacacttttccttcctcatccacaggtCAGCAAATGTTGCGAACTGTGCAAGCCGAATTAGGGAAGGGCTGTCTCTTGAGTTCATTTATCTGTGTTTACCTCTTTATAGGGGGACTACTATCCA------ATCaggtaagaccaggactcaatcatctctagaccaggtccttctaattggcctc Alignment from CESAR atCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTC-TATCCCACAGAGATCag attggtattaaagaggagggtttgatacacttttccttcctcatccacaggtCAGCAAATGTTGCGAACTGTGCAAGCCGAATTAGGGAAGGGCTGTCTCTTGAGTTCATTTATCTGTGTTTACCTCTTTATAGGGGGACTACTATCCA------ATCaggtaagaccaggactcaatcatctctagaccaggtcctttcttttctgttg Alignment from Spaln_aa2Genome ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTC-TATCCCACAGAGATCAG attggtattaaagaggagggtttgatacacttttccttcctcatccacagGTCAGCAAATGTTGCGAACTGTGCAAGCCGAATTAGGGAAGGGCTGTCTCTTGAGTTCATTTATCTGTGTTTACCTCTTTATAGGGGGACTAcTATCCA------ATCAGgtaagaccaggactcaatcatctctagaccaggtccttctaattggcctc Alignment from Spaln_nt2Genome ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACT-CTATCCCACAGAGATCAG attggtattaaagaggagggtttgatacacttttccttcctcatccacagGTCAGCAAATGTTGCGAACTGTGCAAGCCGAATTAGGGAAGGGCTGTCTCTTGAGTTCATTTATCTGTGTTTACCTCTTTATAGGGGGACTACTATCC------AATCAGgtaagaccaggactcaatcatctctagaccaggtccttctaattggcctc Alignment from Pairagon attggtattaaagaggagggtttgatacacttttccttcctcatccacaggtcagcaaatgttgcgaactgtgcaagccgaattagggaagggctgtctcttgagttcatttatctgtgtttacctctttatagggggactactatccaatcaggtaagaccaggactcaatcatctctagaccaggtccttctaattggcctc Alignment from Exonerate_protein2genome ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCAG attggtattaaagaggagggtttgatacacttttccttcctcatccacagGTCAGCAAATGTTGCGAACTGTGCAAGCCGAATTAGGGAAGGGCTGTCTCTTGAGTTCATTTATCTGTGTTTACCTCTTTATAGGGGGACTACTATCCAATCAGGTAAGaccaggactcaatcatctctagaccaggtccttctaattggcctc Alignment from Exonerate_coding2genome attggtattaaagaggagggtttgatacacttttccttcctcatccacaggtcagcaaatgttgcgaactgtgcaagccgaattagggaagggctgtctcttgagttcatttatctgtgtttacctctttatagggggactactatccaatcaggtaagaccaggactcaatcatctctagaccaggtccttctaattggcctc Alignment from GeneWise ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTC---------------------------------------------------------TATCC attggtattaaagaggagggtttgatacacttttccttcctcatccacagGTCAGCAAATGTTGCGAACTGTGCAAGCCGAATTAGGGAAGGGCTGTCTCTTGAGTTCATTTATCTGTGTTTACCTCTTTATAGGGGGACTACTATCCAATCAGGTAAGACCAG--GACTCAATCATCTCTAGACCAGGTCCTTCTAATTGGCC #### Slc22a20_ID1351_2 --> 0 - 2 Original Alignment TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAG-TCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACag gcctaaccacacaaccatagtgcagtgcaaccttgtcacatttcttgcagTGGGATCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCACTCTATCTATATGTCTGGAATATCAGTAGGCGCTGCCTTGTTTGGTTGTGTAGCAGACaggtacgagacttggatgaggaactctattcccttactcttaattgtaagtt Alignment from CESAR TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCT-CAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACag gcctaaccacacaaccatagtgcagtgcaaccttgtcacatttcttgcagTGGGATCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCACTCTATCTATATGTCTGGAATATCAGTAGGCGCTGCCTTGTTTGGTTGTGTAGCAGACaggtacgagacttggatgaggaactctattcccttactcttaattgtaagtt Alignment from Spaln_aa2Genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCT-CAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcctaaccacacaaccatagtgcagtgcaaccttgtcacatttcttgcagTGGGATCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCcCACTCTATCTATATGTCTGGAATATCAGTAGGCGCTGCCTTGTTTGGTTGTGTAGCAGACAGgtacgagacttggatgaggaactctattcccttactcttaattgtaagtt Alignment from Spaln_nt2Genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTC-AGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcctaaccacacaaccatagtgcagtgcaaccttgtcacatttcttgcagTGGGATCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCACTCTATCTATATGTCTGGAATATCAGTAGGCGCTGCCTTGTTTGGTTGTGTAGCAGACAGgtacgagacttggatgaggaactctattcccttactcttaattgtaagtt Alignment from Pairagon TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGG-CTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcctaaccacacaaccatagtgcagtgcaaccttgtcacatttcttgcagTGGGATCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCACTCTATCTATATGTCTGGAATATCAGTAGGCGCTGCCTTGTTTGGTTGTGTAGCAGACAGgtacgagacttggatgaggaactctattcccttactcttaattgtaagtt Alignment from Exonerate_protein2genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCT-CAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcctaaccacacaaccatagtgcagtgcaaccttgtcacatttcttgcagTGGGATCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCACTCTATCTATATGTCTGGAATATCAGTAGGCGCTGCCTTGTTTGGTTGTGTAGCAGACAGgtacgagacttggatgaggaactctattcccttactcttaattgtaagtt Alignment from Exonerate_coding2genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCT-CAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcctaaccacacaaccatagtgcagtgcaaccttgtcacatttcttgcagTGGGATCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCACTCTATCTATATGTCTGGAATATCAGTAGGCGCTGCCTTGTTTGGTTGTGTAGCAGACAGgtacgagacttggatgaggaactctattcccttactcttaattgtaagtt Alignment from GeneWise TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCT-CAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcctaaccacacaaccatagtgcagtgcaaccttgtcacatttcttgcagTGGGATCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCACTCTATCTATATGTCTGGAATATCAGTAGGCGCTGCCTTGTTTGGTTGTGTAGCAGACAGgtacgagacttggatgaggaactctattcccttactcttaattgtaagtt #### Slc22a8_ID2270_3 --> 1 - 1 Original Alignment gTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCC---AGCCTCACTGTC---TATATGATC-TTCCGATTCCTGTGTGGCTGCAGCATCTCGGGCATTTCTCTG---AGCACCATTATCTTGa gatggtcccaaaagcatgctctcaagccatgtcctttctgcccccaacaggTTTGGTCACCAGCCCATTCTCACCTGGAGTTATTCATTGTTAACTGCAAGTGCTTGCAGTGGTGTCCTTAGCCCAACTAGCCTTACCATTTTTTATATTCTTCTTCCAAGTTCTATGCAGTTGCAGCATCTCAGGCATTTCTTTGAGGTGTACAACTACTCTAagtaatttcatagtattgccagaccaggcattttgtgtggccttgggtagg Alignment from CESAR gTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCC---AGCCTCACTGTC---TATATGATC-TTCCGATTCCTGTGTGGCTGCAGCATCTCGGGCATTTCTCTG---AGCACCATTATCTTGa gatggtcccaaaagcatgctctcaagccatgtcctttctgcccccaacaggTTTGGTCACCAGCCCATTCTCACCTGGAGTTATTCATTGTTAACTGCAAGTGCTTGCAGTGGTGTCCTTAGCCCAACTAGCCTTACCATTTTTTATATTCTTCTTCCAAGTTCTATGCAGTTGCAGCATCTCAGGCATTTCTTTGAGGTGTACAACTACTCTAagtaatttcatagtattgccagaccaggcattttgtgtggccttgggtagg Alignment from Spaln_aa2Genome GTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCC---AGCCTCACTGTCTATATGATC----TTCCGATTCCTGTGTGGCTGCAGCATCTCGGGCATTTCTCTG---AGCACCATTATCTTGA gatggtcccaaaagcatgctctcaagccatgtcctttctgcccccaacagGTTTGGTCACCAGCCCATTCTCACCTGGAGTTATTCATTGTTAACTGCAAGTGCTTGCAGTGGTGTCCTTAGCCCAACTAGCCTTACCATTTTTTATATTCTTcTTCCAAGTTCTATGCAGTTGCAGCATCTCAGGCATTTCTTTGAGGTGTACAACTACTCTAAgtaatttcatagtattgccagaccaggcattttgtgtggccttgggtagg Alignment from Spaln_nt2Genome GTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCCA---GCCTCAC---TGTCTATATGAT-CTTCCGATTCCTGTGTGGCTGCAGCATCTCGGGCATTTCTCTGAGC---ACCATTATCTTGA gatggtcccaaaagcatgctctcaagccatgtcctttctgcccccaacagGTTTGGTCACCAGCCCATTCTCACCTGGAGTTATTCATTGTTAACTGCAAGTGCTTGCAGTGGTGTCCTTAGCCCAACTAGCCTTACCATTTTTTATATTCTTCTTCCAAGTTCTATGCAGTTGCAGCATCTCAGGCATTTCTTTGAGGTGTACAACTACTCTAAgtaatttcatagtattgccagaccaggcattttgtgtggccttgggtagg Alignment from Pairagon GTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCCAGCCTCACTGTCTATATGA--------------------------TCTTCCGATTCCTGTGTGGCTGCAGCATCTCGGGCATTTCTCTGAG gatggtcccaaaagcatgctctcaagccatgtcctttctgcccccaacagGTTTGGTCACCAGCCCATTCTCACCTGGAGTTATTCATTGTTAACTGCAAGTGCTTGCAGTGGTGTCCTTAGCCC-------------------AACTAGCCTTACCATTTTTTATATTCTTCTTCCAAGTTCTATGCAGTTGCAGCATCTCAGGCATTTCTTTGAGgtgtacaactactctaagtaatttcatagtattgccagaccaggcattttgtgtggccttgggtagg Alignment from Exonerate_protein2genome GTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCC---AGCCTCACTGTCTATATGATC----TTCCGATTCCTGTGTGGCTGCAGCATCTCGGGCATTTCTCTG---AGCACCATTATCTTGA gatggtcccaaaagcatgctctcaagccatgtcctttctgcccccaacagGTTTGGTCACCAGCCCATTCTCACCTGGAGTTATTCATTGTTAACTGCAAGTGCTTGCAGTGGTGTCCTTAGCCCAACTAGCCTTACCATTTTTTATATTCTTCTTCCAAGTTCTATGCAGTTGCAGCATCTCAGGCATTTCTTTGAGGTGTACAACTACTCTAAgtaatttcatagtattgccagaccaggcattttgtgtggccttgggtagg Alignment from Exonerate_coding2genome gatggtcccaaaagcatgctctcaagccatgtcctttctgcccccaacaggtttggtcaccagcccattctcacctggagttattcattgttaactgcaagtgcttgcagtggtgtccttagcccaactagccttaccattttttatattcttcttccaagttctatgcagttgcagcatctcaggcatttctttgaggtgtacaactactctaagtaatttcatagtattgccagaccaggcattttgtgtggccttgggtagg Alignment from GeneWise GTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCC---AGCCTCACTGTC---TATATG-ATCTTCCGATTCCTGTGTGGCTGCAGCATCTCGGGCATTTCTCTGAGC---ACCATTATCTTGA gatggtcccaaaagcatgctctcaagccatgtcctttctgcccccaacagGTTTGGTCACCAGCCCATTCTCACCTGGAGTTATTCATTGTTAACTGCAAGTGCTTGCAGTGGTGTCCTTAGCCCAACTAGCCTTACCATTTTTTATATTCTTCTTCCAAGTTCTATGCAGTTGCAGCATCTCAGGCATTTCTTTGAGGTGTACAACTACTCTAAgtaatttcatagtattgccagaccaggcattttgtgtggccttgggtagg #### Slc22a8_ID2276_9 --> 1 - 2 Original Alignment gCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATC-GAGGACATACAAGACtg aattcagtatgagtgagccagactctcttggttctgctttctttccaaaggCAAACGGGCATGGGTATCAGTAATATATGGGCTCGGGTAGGAAGTATGATAGCCCCCCTGGTCAAAGTCACTGGTGAACTGCAGCTTTTCACTCCTAATGTTATCTTCGGTACCATG---CTACTTGGAGGCAGTGCTGCTTTCTTTCTACTTGAAACCTTAAATAGATCTCTACCAGAGACCATACAAGGACATTCAAGATtggtgtgttcccttagccccttgacttttgtcacacacagttaccccagtag Alignment from CESAR gCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATC-GAGGACATACAAGACtg aattcagtatgagtgagccagactctcttggttctgctttctttccaaaggCAAACGGGCATGGGTATCAGTAATATATGGGCTCGGGTAGGAAGTATGATAGCCCCCCTGGTCAAAGTCACTGGTGAACTGCAGCTTTTCACTCCTAATGTTATCTTCGGTACCATG---CTACTTGGAGGCAGTGCTGCTTTCTTTCTACTTGAAACCTTAAATAGATCTCTACCAGAGACCATACAAGGACATTCAAGATtggtgtgttcccttagccccttgacttttgtcacacacagttaccccagtag Alignment from Spaln_aa2Genome GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAG-GACATACAAGACTG aattcagtatgagtgagccagactctcttggttctgctttctttccaaagGCAAACGGGCATGGGTATCAGTAATATATGGGCTCGGGTAGGAAGTATGATAGCCCCCCTGGTCAAAGTCACTGGTGAACTGCAGCTTTTCACTCCTAATGTTATCTTCGGTACCATG---CTACTTGGAGGCAGTGCTGCTTTCTTTCTACTTGAAACCTTAAATAGATCTCTACCAGAGACCATACAAgGACATTCAAGATTGgtgtgttcccttagccccttgacttttgtcacacacagttaccccagtag Alignment from Spaln_nt2Genome GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTAT-CGAGGACATACAAGACTG aattcagtatgagtgagccagactctcttggttctgctttctttccaaagGCAAACGGGCATGGGTATCAGTAATATATGGGCTCGGGTAGGAAGTATGATAGCCCCCCTGGTCAAAGTCACTGGTGAACTGCAGCTTTTCACTCCTAATGTTATCTTCGGTACCATG---CTACTTGGAGGCAGTGCTGCTTTCTTTCTACTTGAAACCTTAAATAGATCTCTACCAGAGACCATACAAGGACATTCAAGATTGgtgtgttcccttagccccttgacttttgtcacacacagttaccccagtag Alignment from Pairagon GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTAT-CGAGGACATACAAGACTG aattcagtatgagtgagccagactctcttggttctgctttctttccaaagGCAAACGGGCATGGGTATCAGTAATATATGGGCTCGGGTAGGAAGTATGATAGCCCCCCTGGTCAAAGTCACTGGTGAACTGCAGCTTTTCACTCCTAATGTTATCTTCGGTACCATG---CTACTTGGAGGCAGTGCTGCTTTCTTTCTACTTGAAACCTTAAATAGATCTCTACCAGAGACCATACAAGGACATTCAAGATTGgtgtgttcccttagccccttgacttttgtcacacacagttaccccagtag Alignment from Exonerate_protein2genome GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAG-GACATACAAGACTG aattcagtatgagtgagccagactctcttggttctgctttctttccaaagGCAAACGGGCATGGGTATCAGTAATATATGGGCTCGGGTAGGAAGTATGATAGCCCCCCTGGTCAAAGTCACTGGTGAACTGCAGCTTTTCACTCCTAATGTTATCTTCGGTACCATG---CTACTTGGAGGCAGTGCTGCTTTCTTTCTACTTGAAACCTTAAATAGATCTCTACCAGAGACCATACAAGGACATTCAAGATTGgtgtgttcccttagccccttgacttttgtcacacacagttaccccagtag Alignment from Exonerate_coding2genome GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAG-GACATACAAGACTG aattcagtatgagtgagccagactctcttggttctgctttctttccaaagGCAAACGGGCATGGGTATCAGTAATATATGGGCTCGGGTAGGAAGTATGATAGCCCCCCTGGTCAAAGTCACTGGTGAACTGCAGCTTTTCACTCCTAATGTTATCTTCGGTACCATG---CTACTTGGAGGCAGTGCTGCTTTCTTTCTACTTGAAACCTTAAATAGATCTCTACCAGAGACCATACAAGGACATTCAAGATTGgtgtgttcccttagccccttgacttttgtcacacacagttaccccagtag Alignment from GeneWise GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTGG-- aattcagtatgagtgagccagactctcttggttctgctttctttccaaagGCAAACGGGCATGGGTATCAGTAATATATGGGCTCGGGTAGGAAGTATGATAGCCCCCCTGGTCAAAGTCACTGGTGAACTGCAGCTTTTCACTCCTAATGTTATCTTCGGTACCATG---CTACTTGGAGGCAGTGCTGCTTTCTTTCTACTTGAAACCTTAAATAGATCTCTACCAGAGACCATACAAGGACATTCAAGATTGGTgtgttcccttagccccttgacttttgtcacacacagttaccccagtag #### Slc29a2_ID788_2 --> 1 - 0 Original Alignment cTACCACCTGGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTT-CTCCCCTGGAACTTCTTCATTACCGCCATCCCG gcgacatctgatggatggctggcagctactctcccctctgctctttccagcTACCACCTTGCTGGCATCAGCTTTTTCATTCTGGGACTGGGCACCCTTCCTCCCCTGGAATTTCTTCATTACGGCAATCCCAgtgggttagtgcaatatggccaccttttcacaggctaagccttcttgaga Alignment from CESAR cTACCACCTGGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTT-CTCCCCTGGAACTTCTTCATTACCGCCATCCCG gcgacatctgatggatggctggcagctactctcccctctgctctttccagcTACCACCTTGCTGGCATCAGCTTTTTCATTCTGGGACTGGGCACCCTTCCTCCCCTGGAATTTCTTCATTACGGCAATCCCAgtgggttagtgcaatatggccaccttttcacaggctaagccttcttgaga Alignment from Spaln_aa2Genome CTACCACCTGGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTT-CTCCCCTGGAACTTCTTCATTACCGCCATCCCG gcgacatctgatggatggctggcagctactctcccctctgctctttccagCTACCACCTTGCTGGCATCAGCTTTTTCATTCTGGGACTGGGCACCCTTcCTCCCCTGGAATTTCTTCATTACGGCAATCCCAgtgggttagtgcaatatggccaccttttcacaggctaagccttcttgaga Alignment from Spaln_nt2Genome CTACCACCTGGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTT-CTCCCCTGGAACTTCTTCATTACCGCCATCCCG gcgacatctgatggatggctggcagctactctcccctctgctctttccagCTACCACCTTGCTGGCATCAGCTTTTTCATTCTGGGACTGGGCACCCTTCCTCCCCTGGAATTTCTTCATTACGGCAATCCCAgtgggttagtgcaatatggccaccttttcacaggctaagccttcttgaga Alignment from Pairagon CTACCACCTGGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTT-CTCCCCTGGAACTTCTTCATTACCGCCATCCCG gcgacatctgatggatggctggcagctactctcccctctgctctttccagCTACCACCTTGCTGGCATCAGCTTTTTCATTCTGGGACTGGGCACCCTTCCTCCCCTGGAATTTCTTCATTACGGCAATCCCAgtgggttagtgcaatatggccaccttttcacaggctaagccttcttgaga Alignment from Exonerate_protein2genome CTACCACCTGGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTT-CTCCCCTGGAACTTCTTCATTACCGCCATCCCG gcgacatctgatggatggctggcagctactctcccctctgctctttccagCTACCACCTTGCTGGCATCAGCTTTTTCATTCTGGGACTGGGCACCCTTCCTCCCCTGGAATTTCTTCATTACGGCAATCCCAgtgggttagtgcaatatggccaccttttcacaggctaagccttcttgaga Alignment from Exonerate_coding2genome GACAGCTACCACCTGGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTT-CTCCCCTGGAACTTCTTCATTACCGCCATCCCG gcgacatctgatggatggctggcagctactctcccctctgctcttTCCAGCTACCACCTTGCTGGCATCAGCTTTTTCATTCTGGGACTGGGCACCCTTCCTCCCCTGGAATTTCTTCATTACGGCAATCCCAgtgggttagtgcaatatggccaccttttcacaggctaagccttcttgaga Alignment from GeneWise GCGCGGGGAAACGCCCCTCGGGACAGCTACCACCTGGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTT-CTCCCCTGGAACTTCTTCATTACCGCCATCCCG gcgacatctgatggatggctggcaGCTACTCTCCCCTCTGCTCTTTCCAGCTACCACCTTGCTGGCATCAGCTTTTTCATTCTGGGACTGGGCACCCTTCCTCCCCTGGAATTTCTTCATTACGGCAATCCCAgtgggttagtgcaatatggccaccttttcacaggctaagccttcttgaga #### Slc29a2_ID792_6 --> 2 - 0 Original Alignment gtGGCGTGGATGCCCAGACCTCTGCTCTTGGA-TACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG acaaacgaagctggaatgggggacatttcagttctgttccttccctacaggtGATGTGGATGCCCAAACCTCTGCTCTGGGACTACTTCATCACACCTTGTGTGGGCATCCTACTCCCCATTGTATGTTACCTTAGCTTGCCACACCTGgtaaattgcttcataatttatgtgatgcatggaccgcttaaatataaaac Alignment from CESAR gtGGCGTGGATGCCCAGACCTCTGCTCTTGGA-TACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG acaaacgaagctggaatgggggacatttcagttctgttccttccctacaggtGATGTGGATGCCCAAACCTCTGCTCTGGGACTACTTCATCACACCTTGTGTGGGCATCCTACTCCCCATTGTATGTTACCTTAGCTTGCCACACCTGgtaaattgcttcataatttatgtgatgcatggaccgcttaaatataaaac Alignment from Spaln_aa2Genome GTGGCGTGGATGCCCAGACCTCTGCTCTTGGA-TACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG acaaacgaagctggaatgggggacatttcagttctgttccttccctacagGTGATGTGGATGCCCAAACCTCTGCTCTGGGAcTACTTCATCACACCTTGTGTGGGCATCCTACTCCCCATTGTATGTTACCTTAGCTTGCCACACCTGgtaaattgcttcataatttatgtgatgcatggaccgcttaaatataaaac Alignment from Spaln_nt2Genome GTGGCGTGGATGCCCAGACCTCTGCTCTTGGA-TACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG acaaacgaagctggaatgggggacatttcagttctgttccttccctacagGTGATGTGGATGCCCAAACCTCTGCTCTGGGACTACTTCATCACACCTTGTGTGGGCATCCTACTCCCCATTGTATGTTACCTTAGCTTGCCACACCTGgtaaattgcttcataatttatgtgatgcatggaccgcttaaatataaaac Alignment from Pairagon GTGGCGTGGATGCCCAGACCTCTGCTCTTGGA-TACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG acaaacgaagctggaatgggggacatttcagttctgttccttccctacagGTGATGTGGATGCCCAAACCTCTGCTCTGGGACTACTTCATCACACCTTGTGTGGGCATCCTACTCCCCATTGTATGTTACCTTAGCTTGCCACACCTGgtaaattgcttcataatttatgtgatgcatggaccgcttaaatataaaac Alignment from Exonerate_protein2genome GTGGCGTGGATGCCCAGACCTCTGCTCTTGGA-TACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG acaaacgaagctggaatgggggacatttcagttctgttccttccctacagGTGATGTGGATGCCCAAACCTCTGCTCTGGGACTACTTCATCACACCTTGTGTGGGCATCCTACTCCCCATTGTATGTTACCTTAGCTTGCCACACCTGgtaaattgcttcataatttatgtgatgcatggaccgcttaaatataaaac Alignment from Exonerate_coding2genome GTGGCGTGGATGCCCAGACCTCTGCTCTTGGA-TACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG acaaacgaagctggaatgggggacatttcagttctgttccttccctacagGTGATGTGGATGCCCAAACCTCTGCTCTGGGACTACTTCATCACACCTTGTGTGGGCATCCTACTCCCCATTGTATGTTACCTTAGCTTGCCACACCTGgtaaattgcttcataatttatgtgatgcatggaccgcttaaatataaaac Alignment from GeneWise GTGGCGTGGATGCCCAGACCTCTGCTCTT-GGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG acaaacgaagctggaatgggggacatttcagttctgttccttccctacagGTGATGTGGATGCCCAAACCTCTGCTCTGGGACTACTTCATCACACCTTGTGTGGGCATCCTACTCCCCATTGTATGTTACCTTAGCTTGCCACACCTGgtaaattgcttcataatttatgtgatgcatggaccgcttaaatataaaac #### Slc29a2_ID793_7 --> 0 - 1 Original Alignment AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAG-CTCCTCCAAGCTg aagagcccaggaactgtattgcacacaggccttctgttttctctctgtagAAGTTTCCACGCTACTACCTAACTAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAGGCAGAACCTCCTTCAAGCAggtaagggcttggctgcaacttactctttcttttttagagggatgatgact Alignment from CESAR AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAG-CTCCTCCAAGCTg aagagcccaggaactgtattgcacacaggccttctgttttctctctgtagAAGTTTCCACGCTACTACCTAACTAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAGGCAGAACCTCCTTCAAGCAggtaagggcttggctgcaacttactctttcttttttagagggatgatgact Alignment from Spaln_aa2Genome AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGCTG aagagcccaggaactgtattgcacacaggccttctgttttctctctgtagAAGTTTCCACGCTACTACCTAACTAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAGGCAGAA---CCTCCTTCAAgcaggtaagggcttggctgcaacttactctttcttttttagagggatgatgact Alignment from Spaln_nt2Genome AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGC-TCCTCCAAGCTG aagagcccaggaactgtattgcacacaggccttctgttttctctctgtagAAGTTTCCACGCTACTACCTAACTAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAGGCAGAACCTCCTTCAAGCAGgtaagggcttggctgcaacttactctttcttttttagagggatgatgact Alignment from Pairagon AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAG-CTCCTCCAAGCTG aagagcccaggaactgtattgcacacaggccttctgttttctctctgtagAAGTTTCCACGCTACTACCTAACTAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAGGCAGAACCTCCTTCAAGCAGgtaagggcttggctgcaacttactctttcttttttagagggatgatgact Alignment from Exonerate_protein2genome AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAG-CTCCTCCAAGCTG aagagcccaggaactgtattgcacacaggccttctgttttctctctgtagAAGTTTCCACGCTACTACCTAACTAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAGGCAGAACCTCCTTCAAGCAGgtaagggcttggctgcaacttactctttcttttttagagggatgatgact Alignment from Exonerate_coding2genome AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAG-CTCCTCCAAGCTG aagagcccaggaactgtattgcacacaggccttctgttttctctctgtagAAGTTTCCACGCTACTACCTAACTAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAGGCAGAACCTCCTTCAAGCAGgtaagggcttggctgcaacttactctttcttttttagagggatgatgact Alignment from GeneWise AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAG-CTCCTCCAAGCTG aagagcccaggaactgtattgcacacaggccttctgttttctctctgtagAAGTTTCCACGCTACTACCTAACTAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAGGCAGAACCTCCTTCAAGCAGgtaagggcttggctgcaacttactctttcttttttagagggatgatgact #### Slc29a2_ID794_8 --> 2 - 0 Original Alignment atGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGAT-CTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatggtagtttttagagccataatgttcctgcgctctccacttctcagatGCAAAGAATGGACTACCAGTCAGCCCACAGCAGGCAAGCCCAACTCTTGAGCCTGGACCCTGAAACAGAGCCAGACCCAGAGCAGCCACAAAAGCCCGGTAAACCTTCAGTCTTTGTTGTTCTCAAGAAAgtgagttttaatgtacagacagggctggaagcagtgggttgtttgaccta Alignment from CESAR atGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGAT-CTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatggtagtttttagagccataatgttcctgcgctctccacttctcagatGCAAAGAATGGACTACCAGTCAGCCCACAGCAGGCAAGCCCAACTCTTGAGCCTGGACCCTGAAACAGAGCCAGACCCAGAGCAGCCACAAAAGCCCGGTAAACCTTCAGTCTTTGTTGTTCTCAAGAAAgtgagttttaatgtacagacagggctggaagcagtgggttgtttgaccta Alignment from Spaln_aa2Genome ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGAT-CTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatggtagtttttagagccataatgttcctgcgctctccacttctcagATGCAAAGAATGGACTACCAGTCAGCCCACAGCAGGCAAGCCCAACTCTTGAGcCTGGACCCTGAAACAGAGCCAGACCCAGAGCAGCCACAAAAGCCCGGTAAACCTTCAGTCTTTGTTGTTCTCAAGAAAgtgagttttaatgtacagacagggctggaagcagtgggttgtttgaccta Alignment from Spaln_nt2Genome ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTG-ACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatggtagtttttagagccataatgttcctgcgctctccacttctcagATGCAAAGAATGGACTACCAGTCAGCCCACAGCAGGCAAGCCCAACTCTTGAGCCTGGACCCTGAAACAGAGCCAGACCCAGAGCAGCCACAAAAGCCCGGTAAACCTTCAGTCTTTGTTGTTCTCAAGAAAgtgagttttaatgtacagacagggctggaagcagtgggttgtttgaccta Alignment from Pairagon ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGA-TCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatggtagtttttagagccataatgttcctgcgctctccacttctcagATGCAAAGAATGGACTACCAGTCAGCCCACAGCAGGCAAGCCCAACTCTTGAGCCTGGACCCTGAAACAGAGCCAGACCCAGAGCAGCCACAAAAGCCCGGTAAACCTTCAGTCTTTGTTGTTCTCAAGAAAgtgagttttaatgtacagacagggctggaagcagtgggttgtttgaccta Alignment from Exonerate_protein2genome ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGAT-CTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatggtagtttttagagccataatgttcctgcgctctccacttctcagATGCAAAGAATGGACTACCAGTCAGCCCACAGCAGGCAAGCCCAACTCTTGAGCCTGGACCCTGAAACAGAGCCAGACCCAGAGCAGCCACAAAAGCCCGGTAAACCTTCAGTCTTTGTTGTTCTCAAGAAAgtgagttttaatgtacagacagggctggaagcagtgggttgtttgaccta Alignment from Exonerate_coding2genome ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGAT-CTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatggtagtttttagagccataatgttcctgcgctctccacttctcagATGCAAAGAATGGACTACCAGTCAGCCCACAGCAGGCAAGCCCAACTCTTGAGCCTGGACCCTGAAACAGAGCCAGACCCAGAGCAGCCACAAAAGCCCGGTAAACCTTCAGTCTTTGTTGTTCTCAAGAAAgtgagttttaatgtacagacagggctggaagcagtgggttgtttgaccta Alignment from GeneWise ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTG-GATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatggtagtttttagagccataatgttcctgcgctctccacttctcagATGCAAAGAATGGACTACCAGTCAGCCCACAGCAGGCAAGCCCAACTCTTGAGCCTGGACCCTGAAACAGAGCCAGACCCAGAGCAGCCACAAAAGCCCGGTAAACCTTCAGTCTTTGTTGTTCTCAAGAAAgtgagttttaatgtacagacagggctggaagcagtgggttgtttgaccta #### Slit1_ID8222_17 --> 1 - 2 Original Alignment aCGACTGAACAACAATGAGATTTCT-ATCCTAGAGGCCACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAat gggagagctagggggagctaggggttgacttccctcttgcatccccacagtCGGCTGAACAACAATGAGATCTCTCATCCTAGAGGCCACAGGTTTATTTAGGAAGCTCACACATCTGGAGAAGatgtgagtatagattcgattctgagcattggttgtatgaggcatgactaact Alignment from CESAR aCGACTGAACAACAATGAGATTTCT-ATCCTAGAGGCCACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAat gggagagctagggggagctaggggttgacttccctcttgcatccccacagtCGGCTGAACAACAATGAGATCTCTCATCCTAGAGGCCACAGGTTTATTTAGGAAGCTCACACATCTGGAGAAGatgtgagtatagattcgattctgagcattggttgtatgaggcatgactaact Alignment from Spaln_aa2Genome ACGACTGAACAACAATGAGATTTCT-ATCCTAGAGGCCACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAAT gggagagctagggggagctaggggttgacttccctcttgcatccccacagTCGGCTGAACAACAATGAGATCTCTcATCCTAGAGGCCACAGGTTTATTTAGGAAGCTCACACATCTGGAGAAGATgtgagtatagattcgattctgagcattggttgtatgaggcatgactaact Alignment from Spaln_nt2Genome ACGACTGAACAACAATGAGATTTCT-ATCCTAGAGGCCACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAAT gggagagctagggggagctaggggttgacttccctcttgcatccccacagTCGGCTGAACAACAATGAGATCTCTCATCCTAGAGGCCACAGGTTTATTTAGGAAGCTCACACATCTGGAGAAGATgtgagtatagattcgattctgagcattggttgtatgaggcatgactaact Alignment from Pairagon ACGACTGAACAACAATGAGATTTCT-ATCCTAGAGGCCACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAAT gggagagctagggggagctaggggttgacttccctcttgcatccccacagTCGGCTGAACAACAATGAGATCTCTCATCCTAGAGGCCACAGGTTTATTTAGGAAGCTCACACATCTGGAGAAGATgtgagtatagattcgattctgagcattggttgtatgaggcatgactaact Alignment from Exonerate_protein2genome ACGACTGAACAACAATGAGATTTCT-ATCCTAGAGGCCACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAAT gggagagctagggggagctaggggttgacttccctcttgcatccccacagTCGGCTGAACAACAATGAGATCTCTCATCCTAGAGGCCACAGGTTTATTTAGGAAGCTCACACATCTGGAGAAGATgtgagtatagattcgattctgagcattggttgtatgaggcatgactaact Alignment from Exonerate_coding2genome ACGACTGAACAACAATGAGATTTCT-ATCCTAGAGGCCACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAAT gggagagctagggggagctaggggttgacttccctcttgcatccccacagTCGGCTGAACAACAATGAGATCTCTCATCCTAGAGGCCACAGGTTTATTTAGGAAGCTCACACATCTGGAGAAGATgtgagtatagattcgattctgagcattggttgtatgaggcatgactaact Alignment from GeneWise ACGACTGAACAACAATGAGATT-TCTATCCTAGAGGCCACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAAT gggagagctagggggagctaggggttgacttccctcttgcatccccacagTCGGCTGAACAACAATGAGATCTCTCATCCTAGAGGCCACAGGTTTATTTAGGAAGCTCACACATCTGGAGAAGATgtgagtatagattcgattctgagcattggttgtatgaggcatgactaact #### Slit1_ID8233_6 --> 1 - 2 Original Alignment aCAGCTGGACAAGAAC-CGGATCAGCTGCATCGAGGAAGGGGCCTTCCGTGCCCTACGGGGACTGGAGGTTct tgccaaaactattcttgtggtcactttcgaaactcatttacttccaacagaCAGCTGGACAAGAACCCGCATTAGCTGCATCAAGGAAGGGGCCCTCCGTGCCCTACGTGGATTGGATGTTctgtaagaggagtatgaagatgaaattagtgcatcaacattgttatccaatg Alignment from CESAR aCAGCTGGACAAGAAC-CGGATCAGCTGCATCGAGGAAGGGGCCTTCCGTGCCCTACGGGGACTGGAGGTTct tgccaaaactattcttgtggtcactttcgaaactcatttacttccaacagaCAGCTGGACAAGAACCCGCATTAGCTGCATCAAGGAAGGGGCCCTCCGTGCCCTACGTGGATTGGATGTTctgtaagaggagtatgaagatgaaattagtgcatcaacattgttatccaatg Alignment from Spaln_aa2Genome ACAGCTGGACAAGAACCGGATCAGCTGCATCGAGGAAGGGGCCTTCCGTGCCCTACGGGGACTGGAGGTTCT tgccaaaactattcttgtggtcactttcgaaactcatttacttccaacagacagC---TGGACAAGAACCCGCATTAGCTGCATCAAGGAAGGGGCCCTCCGTGCCCTACGTGGATTGGATGTTCTgtaagaggagtatgaagatgaaattagtgcatcaacattgttatccaatg Alignment from Spaln_nt2Genome ACAGCTGGACAAGAACCGG-ATCAGCTGCATCGAGGAAGGGGCCTTCCGTGCCCTACGGGGACTGGAGGTTCT tgccaaaactattcttgtggtcactttcgaaactcatttacttccaacagACAGCTGGACAAGAACCCGCATTAGCTGCATCAAGGAAGGGGCCCTCCGTGCCCTACGTGGATTGGATGTTCTgtaagaggagtatgaagatgaaattagtgcatcaacattgttatccaatg Alignment from Pairagon ACAGCTGGACAAGAA-CCGGATCAGCTGCATCGAGGAAGGGGCCTTCCGTGCCCTACGGGGACTGGAGGTTCT tgccaaaactattcttgtggtcactttcgaaactcatttacttccaacagACAGCTGGACAAGAACCCGCATTAGCTGCATCAAGGAAGGGGCCCTCCGTGCCCTACGTGGATTGGATGTTCTgtaagaggagtatgaagatgaaattagtgcatcaacattgttatccaatg Alignment from Exonerate_protein2genome ACAGCTGGACAAGAAC-CGGATCAGCTGCATCGAGGAAGGGGCCTTCCGTGCCCTACGGGGACTGGAGGTTCT tgccaaaactattcttgtggtcactttcgaaactcatttacttccaacagACAGCTGGACAAGAACCCGCATTAGCTGCATCAAGGAAGGGGCCCTCCGTGCCCTACGTGGATTGGATGTTCTgtaagaggagtatgaagatgaaattagtgcatcaacattgttatccaatg Alignment from Exonerate_coding2genome tgccaaaactattcttgtggtcactttcgaaactcatttacttccaacagacagctggacaagaacccgcattagctgcatcaaggaaggggccctccgtgccctacgtggattggatgttctgtaagaggagtatgaagatgaaattagtgcatcaacattgttatccaatg Alignment from GeneWise ACAGCTGGACAAGAACCGGATCAGCTGCATCGAGGAAGGGGCCTTCCGTGCCCTACGGGGACTGGAGGTTCT tgccaaaactattcttgtggtcactttcgaaactcatttacttccaacagacagCTGGACA---AGAACCCGCATTAGCTGCATCAAGGAAGGGGCCCTCCGTGCCCTACGTGGATTGGATGTTCTgtaagaggagtatgaagatgaaattagtgcatcaacattgttatccaatg #### Smarca2_ID5734_15 --> 1 - 0 Original Alignment gACTCTGTCTAAC-TGGACATATGAATTTGACAAATGGGCTCCTTCTGTGGTGAAAATTTCTTACAAG agcagatctgcttgctagtttcttaactaacctgtcattatgttttataggAGCTTGTTTAATCTGGACATATGAGTTTGACAGATGGGCCCCTACAGTGGTGAAAATTGCTTACAAGgcaagtatcacacgctataacaaatcacatgctacaacatatgtggaata Alignment from CESAR gACTCTGTCTAAC-TGGACATATGAATTTGACAAATGGGCTCCTTCTGTGGTGAAAATTTCTTACAAG agcagatctgcttgctagtttcttaactaacctgtcattatgttttataggAGCTTGTTTAATCTGGACATATGAGTTTGACAGATGGGCCCCTACAGTGGTGAAAATTGCTTACAAGgcaagtatcacacgctataacaaatcacatgctacaacatatgtggaata Alignment from Spaln_aa2Genome GACTCTGTCTAAC-TGGACATATGAATTTGACAAATGGGCTCCTTCTGTGGTGAAAATTTCTTACAAG agcagatctgcttgctagtttcttaactaacctgtcattatgttttatagGAGCTTGTTTAATcTGGACATATGAGTTTGACAGATGGGCCCCTACAGTGGTGAAAATTGCTTACAAGgcaagtatcacacgctataacaaatcacatgctacaacatatgtggaata Alignment from Spaln_nt2Genome GACTCTGTCTAA-CTGGACATATGAATTTGACAAATGGGCTCCTTCTGTGGTGAAAATTTCTTACAAG agcagatctgcttgctagtttcttaactaacctgtcattatgttttatagGAGCTTGTTTAATCTGGACATATGAGTTTGACAGATGGGCCCCTACAGTGGTGAAAATTGCTTACAAGgcaagtatcacacgctataacaaatcacatgctacaacatatgtggaata Alignment from Pairagon GACTCTGTCTAA-CTGGACATATGAATTTGACAAATGGGCTCCTTCTGTGGTGAAAATTTCTTACAAG agcagatctgcttgctagtttcttaactaacctgtcattatgttttatagGAGCTTGTTTAATCTGGACATATGAGTTTGACAGATGGGCCCCTACAGTGGTGAAAATTGCTTACAAGgcaagtatcacacgctataacaaatcacatgctacaacatatgtggaata Alignment from Exonerate_protein2genome GACTCTGTCTAAC-TGGACATATGAATTTGACAAATGGGCTCCTTCTGTGGTGAAAATTTCTTACAAG agcagatctgcttgctagtttcttaactaacctgtcattatgttttatagGAGCTTGTTTAATCTGGACATATGAGTTTGACAGATGGGCCCCTACAGTGGTGAAAATTGCTTACAAGgcaagtatcacacgctataacaaatcacatgctacaacatatgtggaata Alignment from Exonerate_coding2genome GACTCTGTCTAAC-TGGACATATGAATTTGACAAATGGGCTCCTTCTGTGGTGAAAATTTCTTACAAG agcagatctgcttgctagtttcttaactaacctgtcattatgttttatagGAGCTTGTTTAATCTGGACATATGAGTTTGACAGATGGGCCCCTACAGTGGTGAAAATTGCTTACAAGgcaagtatcacacgctataacaaatcacatgctacaacatatgtggaata Alignment from GeneWise GACTCTGTCTAAC---------------------------------TGGACATATGAATTTGACAAATGGGCTCCTTCTGTGGTGAAAATTTCTTACAAG------------------------------------------ agcagatctgcttgctagTTTCTTAACTAACCTGTCATTATGTTTTATAGGAGCTTGTTTAATCTGGACATATGAGTTTGACAGATGGGCCCCTACAGTGGTGAAAATTGCTTACAAGGCAAGTATCACACGCTATAACAAATCACATGCTACAACATATgtggaata #### Smc3_ID11323_11 --> 0 - 0 Original Alignment GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATT-AAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG gagataatgtccaagagcactttgcatgatttctgaaaatctattttaagGATACCGAACGCCAGGTCCGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTCAAGCAAAGGACAAAGTTGGAACTGAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGAgtaagtcatagtgtacagcacaaaaagaaaactggtcagatttctgtgta Alignment from CESAR GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATT-AAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG gagataatgtccaagagcactttgcatgatttctgaaaatctattttaagGATACCGAACGCCAGGTCCGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTCAAGCAAAGGACAAAGTTGGAACTGAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGAgtaagtcatagtgtacagcacaaaaagaaaactggtcagatttctgtgta Alignment from Spaln_aa2Genome GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATT-AAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG gagataatgtccaagagcactttgcatgatttctgaaaatctattttaagGATACCGAACGCCAGGTCCGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTcAAGCAAAGGACAAAGTTGGAACTGAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGAgtaagtcatagtgtacagcacaaaaagaaaactggtcagatttctgtgta Alignment from Spaln_nt2Genome GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATT-AAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG gagataatgtccaagagcactttgcatgatttctgaaaatctattttaagGATACCGAACGCCAGGTCCGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTCAAGCAAAGGACAAAGTTGGAACTGAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGAgtaagtcatagtgtacagcacaaaaagaaaactggtcagatttctgtgta Alignment from Pairagon GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATT-AAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG gagataatgtccaagagcactttgcatgatttctgaaaatctattttaagGATACCGAACGCCAGGTCCGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTCAAGCAAAGGACAAAGTTGGAACTGAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGAgtaagtcatagtgtacagcacaaaaagaaaactggtcagatttctgtgta Alignment from Exonerate_protein2genome GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATT-AAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG gagataatgtccaagagcactttgcatgatttctgaaaatctattttaagGATACCGAACGCCAGGTCCGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTCAAGCAAAGGACAAAGTTGGAACTGAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGAgtaagtcatagtgtacagcacaaaaagaaaactggtcagatttctgtgta Alignment from Exonerate_coding2genome GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATT-AAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG gagataatgtccaagagcactttgcatgatttctgaaaatctattttaagGATACCGAACGCCAGGTCCGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTCAAGCAAAGGACAAAGTTGGAACTGAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGAgtaagtcatagtgtacagcacaaaaagaaaactggtcagatttctgtgta Alignment from GeneWise GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAG-ATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG gagataatgtccaagagcactttgcatgatttctgaaaatctattttaagGATACCGAACGCCAGGTCCGAGAACTGAAAACAAAAATTTCGGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTCAAGCAAAGGACAAAGTTGGAACTGAAGGCCAAGGATTTGCATGTTGAGCTTGCTGGAAACAGTGAACAGCGAgtaagtcatagtgtacagcacaaaaagaaaactggtcagatttctgtgta #### Smc3_ID11337_25 --> 0 - 0 Original Alignment TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTAC-AAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaagctctgaaacctacaatccttatctgtctttaccttcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACACATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTGAACTTCTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAGGTT---AGC---CATCAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACACGAAGCTGTTCATTTAACTTTCAAGCAAgtaagaaatagtttcttctaatgcacagcattaatggatacacaggttgc Alignment from CESAR TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTAC-AAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaagctctgaaacctacaatccttatctgtctttaccttcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACACATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTGAACTTCTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAGGTT------AGCCATCAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACACGAAGCTGTTCATTTAACTTTCAAGCAAgtaagaaatagtttcttctaatgcacagcattaatggatacacaggttgc Alignment from Spaln_aa2Genome TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaagctctgaaacctacaatccttatctgtctttaccttcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACACATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTGAACTTCTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAGGTTAGCCATC-----AAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACACGAAGCTGTTCATTTAACTTTCAAGCAAgtaagaaatagtttcttctaatgcacagcattaatggatacacaggttgc Alignment from Spaln_nt2Genome TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaagctctgaaacctacaatccttatctgtctttaccttcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACACATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTGAACTTCTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGA---GGTT--AGCCATCAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACACGAAGCTGTTCATTTAACTTTCAAGCAAgtaagaaatagtttcttctaatgcacagcattaatggatacacaggttgc Alignment from Pairagon GAGTGTATGAAGAAGATCCGGGAGCTGGGGTCCCTCCCCCAGGAAGCGTTTGAGAAGTACCAGACACTGAGCCTGAAGCAGTTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTA-----CAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaagctctgaaacctacaatccttatctgtctttaccttcagG---------------------------------------------------------------------------------TGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACACATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTGAACTTCTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAG----------GAGGTTAGCCATCAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACACGAAGCTGTTCATTTAACTTTCAAGCAAgtaagaaatagtttcttctaatgcacagcattaatggatacacaggttgc Alignment from Exonerate_protein2genome GCGTTTGAGAAGTACCAGACACTGAGCCTG---AAGCAGTTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTG attatattaaaGCTCTGAAACCTACAATCCTTATCTGTCTTTACCTTCAGGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACACATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTGAACTTCTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAGGTTagccatcaagtcagtcatggaactgatgaatgtactggaactaaagaaacacgaagctgttcatttaactttcaagcaagtaagaaatagtttcttctaatgcacagcattaatggatacacaggttgc Alignment from Exonerate_coding2genome GCGTTTGAGAAGTACCAGACACTGAGCCTG---AAGCAGTTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaaGCTCTGAAACCTACAATCCTTATCTGTCTTTACCTTCAGGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACACATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTGAACTTCTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAGGTTAGCCAT-----CAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACACGAAGCTGTTCATTTAACTTT----CAAgcaagtaagaaatagtttcttctaatgcacagcattaatggatacacaggttgc Alignment from GeneWise TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaagctctgaaacctacaatccttatctgtctttaccttcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACACATAGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTGAACTTCTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAGGTTAGCCATC-----AAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACACGAAGCTGTTCATTTAACTTTCAAGCAAgtaagaaatagtttcttctaatgcacagcattaatggatacacaggttgc #### Smc3_ID11338_26 --> 0 - 0 Original Alignment GTATCTAAGAACTTCAGTGAA-GTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG tcatttaaaaaagaggcatgccacctagctgacccacacatcctctgcagGTCTCTAAGAACTTTAGTGAACATCTTCCAGAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATGTGGAGAGCAGTGAGTCTAAGGACAAAGGGGAGGGGAGTGGCGAGAGTGAGCGAGGATCTGGGTCACAGTGCAGTGTTCCGTCAGTTGACCAATTCACAGGAATTGGGATCAGTgtaattacttattatacttagtttctcatgtacctttttactttaaaaac Alignment from CESAR GTATCTAAGAACTTCAGTGAA-GTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG tcatttaaaaaagaggcatgccacctagctgacccacacatcctctgcagGTCTCTAAGAACTTTAGTGAACATCTTCCAGAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATGTGGAGAGCAGTGAGTCTAAGGACAAAGGGGAGGGGAGTGGCGAGAGTGAGCGAGGATCTGGGTCACAGTGCAGTGTTCCGTCAGTTGACCAATTCACAGGAATTGGGATCAGTgtaattacttattatacttagtttctcatgtacctttttactttaaaaac Alignment from Spaln_aa2Genome GTATCTAAGAACTTCAGTGAA-GTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG tcatttaaaaaagaggcatgccacctagctgacccacacatcctctgcagGTCTCTAAGAACTTTAGTGAAcATCTTCCAGAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATGTGGAGAGCAGTGAGTCTAAGGACAAAGGGGAGGGGAGTGGCGAGAGTGAGCGAGGATCTGGGTCACAGTGCAGTGTTCCGTCAGTTGACCAATTCACAGGAATTGGGATCAGTgtaattacttattatacttagtttctcatgtacctttttactttaaaaac Alignment from Spaln_nt2Genome GTATCTAAGAACTTCAGTGAAGTT-TTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG tcatttaaaaaagaggcatgccacctagctgacccacacatcctctgcagGTCTCTAAGAACTTTAGTGAACATCTTCCAGAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATGTGGAGAGCAGTGAGTCTAAGGACAAAGGGGAGGGGAGTGGCGAGAGTGAGCGAGGATCTGGGTCACAGTGCAGTGTTCCGTCAGTTGACCAATTCACAGGAATTGGGATCAGTgtaattacttattatacttagtttctcatgtacctttttactttaaaaac Alignment from Pairagon GTATCTAAGAACTTCAGTGAA-GTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAG--------------------------------------------------- tcatttaaaaaagaggcatgccacctagctgacccacacatcctctgcagGTCTCTAAGAACTTTAGTGAACATCTTCCAGAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATGTGGAGAGCAGTGAGTCTAAGGACAAAGGGGAGGGGAGTGGCGAGAGTGAGCGAGGATCTGGGTCACAGTGCAGTGTTCCGTCAGTTGACCAATTCACAGGAATTGGGATCAGTGTAATTACTTATTATACTTAGTTTCTCATGTACCTTTTTACTTTAAAAAC Alignment from Exonerate_protein2genome GTATCTAAGAACTTCAGTGAA-GTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGAT tcatttaaaaaagaggcatgccacctagctgacccacacatcctctgcagGTCTCTAAGAACTTTAGTGAACATCTTCCAGAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATGTGGAGAGCAGTGAGTCTAAGGACAAAGGGGAGGGGAGTGGCGAGAGTGAGCGAGGATCTGGGTCACAGTGCAGTGTTCCGTCAGTTGACCAATTCACAGGAATTGGGATcagtgtaattacttattatacttagtttctcatgtacctttttactttaaaaac Alignment from Exonerate_coding2genome GTATCTAAGAACTTCAGTGAA-GTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGAT tcatttaaaaaagaggcatgccacctagctgacccacacatcctctgcagGTCTCTAAGAACTTTAGTGAACATCTTCCAGAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATGTGGAGAGCAGTGAGTCTAAGGACAAAGGGGAGGGGAGTGGCGAGAGTGAGCGAGGATCTGGGTCACAGTGCAGTGTTCCGTCAGTTGACCAATTCACAGGAATTGGGATcagtgtaattacttattatacttagtttctcatgtacctttttactttaaaaac Alignment from GeneWise GTATCTAAGAACTTCAGTGAA-GTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG tcatttaaaaaagaggcatgccacctagctgacccacacatcctctgcagGTCTCTAAGAACTTTAGTGAACATCTTCCAGAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATGTGGAGAGCAGTGAGTCTAAGGACAAAGGGGAGGGGAGTGGCGAGAGTGAGCGAGGATCTGGGTCACAGTGCAGTGTTCCGTCAGTTGACCAATTCACAGGAATTGGGATCAGTgtaattacttattatacttagtttctcatgtacctttttactttaaaaac #### Smc5_ID5113_20 --> 0 - 0 Original Alignment GCTTTTCAAGATCTC-CCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacgcctgttttctttcttttgtagGCATTTGAAGATCTTCCTAAACACATTGGATGAAACTGATGCATTATTAACTGCAGAAAGATCAAGGGCTTCATGCTTCACAGAATTCAATCCTTCGgtaagactccatattgtttttgttcaccctatttccaaatgactggattc Alignment from CESAR GCTTTTCAAGATCTCCCA-AACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacgcctgttttctttcttttgtagGCATTTGAAGATCTTCCTAAACACATTGGATGAAACTGATGCATTATTAACTGCAGAAAGATCAAGGGCTTCATGCTTCACAGAATTCAATCCTTCGgtaagactccatattgtttttgttcaccctatttccaaatgactggattc Alignment from Spaln_aa2Genome GCTTTTCAAGATCTCCCA-AACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacgcctgttttctttcttttgtagGCATTTGAAGATCTTCCTaAACACATTGGATGAAACTGATGCATTATTAACTGCAGAAAGATCAAGGGCTTCATGCTTCACAGAATTCAATCCTTCGgtaagactccatattgtttttgttcaccctatttccaaatgactggattc Alignment from Spaln_nt2Genome GCTTTTCAAGATCTCCC-AAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacgcctgttttctttcttttgtagGCATTTGAAGATCTTCCTAAACACATTGGATGAAACTGATGCATTATTAACTGCAGAAAGATCAAGGGCTTCATGCTTCACAGAATTCAATCCTTCGgtaagactccatattgtttttgttcaccctatttccaaatgactggattc Alignment from Pairagon GCTTTTCAAGATC-TCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacgcctgttttctttcttttgtagGCATTTGAAGATCTTCCTAAACACATTGGATGAAACTGATGCATTATTAACTGCAGAAAGATCAAGGGCTTCATGCTTCACAGAATTCAATCCTTCGgtaagactccatattgtttttgttcaccctatttccaaatgactggattc Alignment from Exonerate_protein2genome GCTTTTCAAGATCTCCCA-AACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacgcctgttttctttcttttgtagGCATTTGAAGATCTTCCTAAACACATTGGATGAAACTGATGCATTATTAACTGCAGAAAGATCAAGGGCTTCATGCTTCACAGAATTCAATCCTTCGgtaagactccatattgtttttgttcaccctatttccaaatgactggattc Alignment from Exonerate_coding2genome ATGGCTTTTCAAGATCTCCCA-AACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacgcctgttttctttcttttgTAGGCATTTGAAGATCTTCCTAAACACATTGGATGAAACTGATGCATTATTAACTGCAGAAAGATCAAGGGCTTCATGCTTCACAGAATTCAATCCTTCGgtaagactccatattgtttttgttcaccctatttccaaatgactggattc Alignment from GeneWise GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacgcctgttttctttcttttgtaggcatttgaagATCTTCCTA---------AACACATTGGATGAAACTGATGCATTATTAACTGCAGAAAGATCAAGGGCTTCATGCTTCACAGAATTCAATCCTTCGgtaagactccatattgtttttgttcaccctatttccaaatgactggattc #### Snx15_ID1466_6 --> 2 - 1 Original Alignment tgGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAA-GCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGg atatcttcatcacctggataagtcttggttttctttttttaaatcttcagtaGACCCCCTACCATCTGGTCCAGCTCATGAGGCTCTCGAATATCTCTTCAGCTGTGACAGTACAGAGGAGCGCCTCTGGAACTCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTAACACTTTTTGACCCTTACTCAAAAGTGagtaggattggatggaggggcagacattaatgtgctacaggactctattag Alignment from CESAR tgGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAA-GCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGg atatcttcatcacctggataagtcttggttttctttttttaaatcttcagtaGACCCCCTACCATCTGGTCCAGCTCATGAGGCTCTCGAATATCTCTTCAGCTGTGACAGTACAGAGGAGCGCCTCTGGAACTCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTAACACTTTTTGACCCTTACTCAAAAGTGagtaggattggatggaggggcagacattaatgtgctacaggactctattag Alignment from Spaln_aa2Genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAA-GCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atatcttcatcacctggataagtcttggttttctttttttaaatcttcagTAGACCCCCTACCATCTGGTCCAGCTCATGAGGCTCTCGAATATCTCTTCAGCTGTGACAGTACAGAGGAGcGCCTCTGGAACTCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTAACACTTTTTGACCCTTACTCAAAAGTGAgtaggattggatggaggggcagacattaatgtgctacaggactctattag Alignment from Spaln_nt2Genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAA-GCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atatcttcatcacctggataagtcttggttttctttttttaaatcttcagTAGACCCCCTACCATCTGGTCCAGCTCATGAGGCTCTCGAATATCTCTTCAGCTGTGACAGTACAGAGGAGCGCCTCTGGAACTCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTAACACTTTTTGACCCTTACTCAAAAGTGAgtaggattggatggaggggcagacattaatgtgctacaggactctattag Alignment from Pairagon TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCC---------CTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAA atatcttcatcacctggataagtcttggttttctttttttaaatcttcagTAGACCCCCTACCATCTGGTCCAGCTCATGAGGCTCTCGAATATCTCTTCAGCTGTGACAGTACAGAGG--------AGCGCCTCTGGAACTCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTAACACTTTTTGACCCTTACTCAAAAgtgagtaggattggatggaggggcagacattaatgtgctacaggactctattag Alignment from Exonerate_protein2genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAA-GCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atatcttcatcacctggataagtcttggttttctttttttaaatcttcagTAGACCCCCTACCATCTGGTCCAGCTCATGAGGCTCTCGAATATCTCTTCAGCTGTGACAGTACAGAGGAGCGCCTCTGGAACTCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTAACACTTTTTGACCCTTACTCAAAAGTGAgtaggattggatggaggggcagacattaatgtgctacaggactctattag Alignment from Exonerate_coding2genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAA-GCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atatcttcatcacctggataagtcttggttttctttttttaaatcttcagTAGACCCCCTACCATCTGGTCCAGCTCATGAGGCTCTCGAATATCTCTTCAGCTGTGACAGTACAGAGGAGCGCCTCTGGAACTCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTAACACTTTTTGACCCTTACTCAAAAGTGAgtaggattggatggaggggcagacattaatgtgctacaggactctattag Alignment from GeneWise TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAA-GCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atatcttcatcacctggataagtcttggttttctttttttaaatcttcagTAGACCCCCTACCATCTGGTCCAGCTCATGAGGCTCTCGAATATCTCTTCAGCTGTGACAGTACAGAGGAGCGCCTCTGGAACTCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTAACACTTTTTGACCCTTACTCAAAAGTGAgtaggattggatggaggggcagacattaatgtgctacaggactctattag #### Snx32_ID1066_12 --> 2 - 0 Original Alignment AACAAg agCTCATGGACTTCAAGTCTCGCAGGGTC-TCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG AACAAggtatggcccacaggagtgtaagggctgaccaccatgtcccacagaaCTTATGGACTTCAAATCTCACAGGGTCCTCCTCTTTCCGTAAGAACCTCATCGAGTTGACTGAGCTGGAGCTCAAGCAGGCCAAGgtagcctggtattcaagttacatcaaaaagaactcaatctgctcattcta Alignment from CESAR AACAAg agCTCATGGACTTCAAGTCTCGCAGGGTC-TCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG AACAAggtaagtcccacaggagtgtaagggctgaccaccatgtcccacagaaCTTATGGACTTCAAATCTCACAGGGTCCTCCTCTTTCCGTAAGAACCTCATCGAGTTGACTGAGCTGGAGCTCAAGCAGGCCAAGgtagcctggtattcaagttacatcaaaaagaactcaatctgctcattcta Alignment from Spaln_aa2Genome AACAAG AGCTCATGGACTTCAAGTCTCGCAGGGTC-TCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG AACAAGgtatggcccacaggagtgtaagggctgaccaccatgtcccacagAACTTATGGACTTCAAATCTCACAGGGTCcTCCTCTTTCCGTAAGAACCTCATCGAGTTGACTGAGCTGGAGCTCAAGCAGGCCAAGgtagcctggtattcaagttacatcaaaaagaactcaatctgctcattcta Alignment from Spaln_nt2Genome AACAAG AGCTCATGGACTTCAAGTCTCGCAGGGTC-TCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG AACAAGgtatggcccacaggagtgtaagggctgaccaccatgtcccacagAACTTATGGACTTCAAATCTCACAGGGTCCTCCTCTTTCCGTAAGAACCTCATCGAGTTGACTGAGCTGGAGCTCAAGCAGGCCAAGgtagcctggtattcaagttacatcaaaaagaactcaatctgctcattcta Alignment from Pairagon AACAAG AGCTCATGGACTTCAAGTCTCGCAGGGT-CTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG AACAAGgtatggcccacaggagtgtaagggctgaccaccatgtcccacagAACTTATGGACTTCAAATCTCACAGGGTCCTCCTCTTTCCGTAAGAACCTCATCGAGTTGACTGAGCTGGAGCTCAAGCAGGCCAAGgtagcctggtattcaagttacatcaaaaagaactcaatctgctcattcta Alignment from Exonerate_protein2genome AACAAG AGCTCATGGACTTCAAGTCTCGCAGGGTC-TCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG AACAAGgtatggcccacaggagtgtaagggctgaccaccatgtcccacagAACTTATGGACTTCAAATCTCACAGGGTCCTCCTCTTTCCGTAAGAACCTCATCGAGTTGACTGAGCTGGAGCTCAAGCAGGCCAAGgtagcctggtattcaagttacatcaaaaagaactcaatctgctcattcta Alignment from Exonerate_coding2genome aacaaggtatggcccacaggagtgtaagggctgaccaccatgtcccacagaacttatggacttcaaatctcacagggtcctcctctttccgtaagaacctcatcgagttgactgagctggagctcaagcaggccaaggtagcctggtattcaagttacatcaaaaagaactcaatctgctcattcta Alignment from GeneWise AACAAGAGCTCATGGACTTCAAGTCTCGCAGG---------------------------------------------GTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAGGCCAGC AACAAGGTATGGCCCACAGGAGTGTAAGGGCTGACCACCATGTCCCACAGAACTTATGGACTTCAAATCTCACAGGGTCCTCCTCTTTCCGTAAGAACCTCATCGAGTTGACTGAGCTGGAGCTCAAGCAGGCCAAGGTAGCCtggtattcaagttacatcaaaaagaactcaatctgctcattcta #### Snx32_ID1071_7 --> 0 - 1 Original Alignment GAGGTAGATGACTTCTTT-GAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGt ccaggtttaccgccctccttaatcccggcattctccttcattcatcgcagGAGCTAGATGATTTTTTCCGAACATGAAAGACCTTTCCTAGTTCAATATAAAACCCGGATTTGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAAcgtaatctatctttaggctagaacattgaatgtgcacatagcttgaattgc Alignment from CESAR GAGGTAGATGACTTCTTT-GAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGt ccaggtttaccgccctccttaatcccggcattctccttcattcatcgcagGAGCTAGATGATTTTTTCCGAACATGAAAGACCTTTCCTAGTTCAATATAAAACCCGGATTTGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAAcgtaatctatctttaggctagaacattgaatgtgcacatagcttgaattgc Alignment from Spaln_aa2Genome GAGGTAGATGACTTCTTT-GAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGT ccaggtttaccgccctccttaatcccggcattctccttcattcatcgcagGAGCTAGATGATTTTTTCcGAACATGAAAGACCTTTCCTAGTTCAATATAAAACCCGGATTTGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAACgtaatctatctttaggctagaacattgaatgtgcacatagcttgaattgc Alignment from Spaln_nt2Genome GAGGTAGATGACTTCTTT-GAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGT ccaggtttaccgccctccttaatcccggcattctccttcattcatcgcagGAGCTAGATGATTTTTTCCGAACATGAAAGACCTTTCCTAGTTCAATATAAAACCCGGATTTGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAACgtaatctatctttaggctagaacattgaatgtgcacatagcttgaattgc Alignment from Pairagon GAGGTAGATGACTTCTT-TGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGT ccaggtttaccgccctccttaatcccggcattctccttcattcatcgcagGAGCTAGATGATTTTTTCCGAACATGAAAGACCTTTCCTAGTTCAATATAAAACCCGGATTTGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAACgtaatctatctttaggctagaacattgaatgtgcacatagcttgaattgc Alignment from Exonerate_protein2genome GAGGTAGATGACTTCTTT-GAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGT ccaggtttaccgccctccttaatcccggcattctccttcattcatcgcagGAGCTAGATGATTTTTTCCGAACATGAAAGACCTTTCCTAGTTCAATATAAAACCCGGATTTGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAACgtaatctatctttaggctagaacattgaatgtgcacatagcttgaattgc Alignment from Exonerate_coding2genome ccaggtttaccgccctccttaatcccggcattctccttcattcatcgcaggagctagatgattttttccgaacatgaaagacctttcctagttcaatataaaacccggatttgtgacagctgccaaagagcagaccgcattatacactcccacaaacgtaatctatctttaggctagaacattgaatgtgcacatagcttgaattgc Alignment from GeneWise GATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGT ccaggtttaccgccctccttaatcccggcattctccttcattcatcgcaggagctagATGATTTTTTCCGAACATGAAAGACCTTTCCTAGTTCAATATAAAACCCGGATTTGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAACgtaatctatctttaggctagaacattgaatgtgcacatagcttgaattgc #### Snx32_ID1072_6 --> 0 - 0 Original Alignment CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAA-GTCCTCATCACC---GGCATATCAGGGCTCAAG acaacattattaagagtatccaagtctcacgcagccctgctgtctcctagCTGAGTGTCCATGAGAAGAACAGAAAGGAGGTTTCCGGG------CTGCGAGGT---GTTAGGTATGCAGATGAACAGCATCATCACTGGTGGCATCTCAGGGCTCAAAgtaagtgtagcgtctgttgtgctgggggcatcctgccaatccctccaggt Alignment from CESAR CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAA-GTCCTCATCACC---GGCATATCAGGGCTCAAG acaacattattaagagtatccaagtctcacgcagccctgctgtctcctagCTGAGTGTCCATGAGAAGAACAGAAAGGAGGTTTCCGGG------CTGCGAGGT---GTTAGGTATGCAGATGAACAGCATCATCACTGGTGGCATCTCAGGGCTCAAAgtaagtgtagcgtctgttgtgctgggggcatcctgccaatccctccaggt Alignment from Spaln_aa2Genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAA----GTCCTCATCACCGGCATATCAGGGCTCAAG acaacattattaagagtatccaagtctcacgcagccctgctgtctcctagCTGAGTGTCCATGAGAAGAACAGAAAGGAGGTTTCCGGG------CTGCGAGGT---GTTAGGTATGCAGATGAACAGcATCATCACTGGTGGCATCTCAGGGCTCAAAgtaagtgtagcgtctgttgtgctgggggcatcctgccaatccctccaggt Alignment from Spaln_nt2Genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCC-TCATCACCGG---CATATCAGGGCTCAAG acaacattattaagagtatccaagtctcacgcagccctgctgtctcctagCTGAGTGTCCATGAGAAGAACAGAAAGGAGGTTT---CCGGGCTGC-GAGG-----TGTTAGGTATGCAGATGAACAGCATCATCACTGGTGGCATCTCAGGGCTCAAAgtaagtgtagcgtctgttgtgctgggggcatcctgccaatccctccaggt Alignment from Pairagon CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCT------TGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC------GGCATATCAGGGCTCAAG acaacattattaagagtatccaagtctcacgcagccctgctgtctcctagCTGAGTGTCCATGAGAAGAACAGAAAGGAGGTTTCCGGGCTGCGAGG---------------TGTTAGGTATGCAGATGAA--CAGCATCATCACTGGTGGCATCTCAGGGCTCAAAgtaagtgtagcgtctgttgtgctgggggcatcctgccaatccctccaggt Alignment from Exonerate_protein2genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAA----GTCCTCATCACCGGCATATCAGGGCTCAAG acaacattattaagagtatccaagtctcacgcagccctgctgtctcctagCTGAGTGTCCATGAGAAGAACAGAAAGGAGGTTTCCGGG------CTGCGAGGT---GTTAGGTATGCAGATGAACAGCATCATCACTGGTGGCATCTCAGGGCTCAAAgtaagtgtagcgtctgttgtgctgggggcatcctgccaatccctccaggt Alignment from Exonerate_coding2genome acaacattattaagagtatccaagtctcacgcagccctgctgtctcctagctgagtgtccatgagaagaacagaaaggaggtttccgggctgcgaggtgttaggtatgcagatgaacagcatcatcactggtggcatctcagggctcaaagtaagtgtagcgtctgttgtgctgggggcatcctgccaatccctccaggt Alignment from GeneWise CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAA-GTCCTCATCACCGGC---ATATCAGGGCTCAAG acaacattattaagagtatccaagtctcacgcagccctgctgtctcctagCTGAGTGTCCATGAGAAGAACAGAAAGGAGGTTTCCGGG------CTGCGAGGT---GTTAGGTATGCAGATGAACAGCATCATCACTGGTGGCATCTCAGGGCTCAAAgtaagtgtagcgtctgttgtgctgggggcatcctgccaatccctccaggt #### Snx32_ID1073_5 --> 1 - 0 Original Alignment gGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGAC-CACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT acttttccagcaacaagtaatatagcatactctgcatatcactatttcaggGAATACTTGGCCATTTTTAAGAAGATTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCAGCCCATCCCACCCTCCGTAGGGATCCACAACTTCTCCATCTTCTTGGAATATAGCCAGGATgtaagtttgttgaatcatgacaataaaatgaagggctgatggcatgtgat Alignment from CESAR gGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGAC-CACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT acttttccagcaacaagtaatatagcatactctgcatatcactatttcaggGAATACTTGGCCATTTTTAAGAAGATTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCAGCCCATCCCACCCTCCGTAGGGATCCACAACTTCTCCATCTTCTTGGAATATAGCCAGGATgtaagtttgttgaatcatgacaataaaatgaagggctgatggcatgtgat Alignment from Spaln_aa2Genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGAC-CACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT acttttccagcaacaagtaatatagcatactctgcatatcactatttcagGGAATACTTGGCCATTTTTAAGAAGATTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCAGCCCATCCCACCCTCCGTAGGGATcCACAACTTCTCCATCTTCTTGGAATATAGCCAGGATgtaagtttgttgaatcatgacaataaaatgaagggctgatggcatgtgat Alignment from Spaln_nt2Genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGA-CCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT acttttccagcaacaagtaatatagcatactctgcatatcactatttcagGGAATACTTGGCCATTTTTAAGAAGATTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCAGCCCATCCCACCCTCCGTAGGGATCCACAACTTCTCCATCTTCTTGGAATATAGCCAGGATgtaagtttgttgaatcatgacaataaaatgaagggctgatggcatgtgat Alignment from Pairagon GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGA-CCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT acttttccagcaacaagtaatatagcatactctgcatatcactatttcagGGAATACTTGGCCATTTTTAAGAAGATTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCAGCCCATCCCACCCTCCGTAGGGATCCACAACTTCTCCATCTTCTTGGAATATAGCCAGGATgtaagtttgttgaatcatgacaataaaatgaagggctgatggcatgtgat Alignment from Exonerate_protein2genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGAC-CACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT acttttccagcaacaagtaatatagcatactctgcatatcactatttcagGGAATACTTGGCCATTTTTAAGAAGATTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCAGCCCATCCCACCCTCCGTAGGGATCCACAACTTCTCCATCTTCTTGGAATATAGCCAGGATgtaagtttgttgaatcatgacaataaaatgaagggctgatggcatgtgat Alignment from Exonerate_coding2genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGAC-CACAACTTCTCCGTCTTCTTGGAATACAGCCAGGATCTGAGTGTTCGAGAGAAGAACAGGAAG acttttccagcaacaagtaatatagcatactctgcatatcactatttcagGGAATACTTGGCCATTTTTAAGAAGATTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCAGCCCATCCCACCCTCCGTAGGGATCCACAACTTCTCCATCTTCTTGGAATATAGCCAGGATGTAAGTTTGTTGAATCATGACAATAAAatgaagggctgatggcatgtgat Alignment from GeneWise GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGG-GACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT acttttccagcaacaagtaatatagcatactctgcatatcactatttcagGGAATACTTGGCCATTTTTAAGAAGATTGTTGCTATGCATGAAGTCTTTCTCCAACGCCTGGCAGCCCATCCCACCCTCCGTAGGGATCCACAACTTCTCCATCTTCTTGGAATATAGCCAGGATgtaagtttgttgaatcatgacaataaaatgaagggctgatggcatgtgat #### Snx32_ID1075_3 --> 0 - 0 Original Alignment AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACAT-GACACCTATGTGGAAAACGAA------GAGTACGCCGGCCTCATC gagaagtaacttgaggtaacaagaaattctctggctctttccacctgcagGGTGGGCTCCCCCACTCTGCCCAGTCTGAATTCTCAGTCGTTTGCCAGCATAAAGAGTTCATCTGGCTGCACCGACACTTATGTAGAGAATGAAGAGTATGAATATAACAGCCTTGTTgtaaggtacaatagagcatggttgcagtgaaaaaagaccagggaaaggtg Alignment from CESAR AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACAT-GACACCTATGTGGAAAACGAAGAG------TACGCCGGCCTCATC gagaagtaacttgaggtaacaagaaattctctggctctttccacctgcagGGTGGGCTCCCCCACTCTGCCCAGTCTGAATTCTCAGTCGTTTGCCAGCATAAAGAGTTCATCTGGCTGCACCGACACTTATGTAGAGAATGAAGAGTATGAATATAACAGCCTTGTTgtaaggtacaatagagcatggttgcagtgaaaaaagaccagggaaaggtg Alignment from Spaln_aa2Genome AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACAT-GACACCTATGTGGAAAACGAA------GAGTACGCCGGCCTCATC gagaagtaacttgaggtaacaagaaattctctggctctttccacctgcagGGTGGGCTCCCCCACTCTGCCCAGTCTGAATTCTCAGTCGTTTGCCAGCATAAAGAGTTCATCTGGCTGCACcGACACTTATGTAGAGAATGAAGAGTATGAATATAACAGCCTTGTTgtaaggtacaatagagcatggttgcagtgaaaaaagaccagggaaaggtg Alignment from Spaln_nt2Genome AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACAT-GACACCTATGTGGAAAACGAAGAGTACGC------CGGCCTCATC gagaagtaacttgaggtaacaagaaattctctggctctttccacctgcagGGTGGGCTCCCCCACTCTGCCCAGTCTGAATTCTCAGTCGTTTGCCAGCATAAAGAGTTCATCTGGCTGCACCGACACTTATGTAGAGAATGAAGAGTATGAATATAACAGCCTTGTTgtaaggtacaatagagcatggttgcagtgaaaaaagaccagggaaaggtg Alignment from Pairagon AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACA-TGACACCTATGTGGAAAACGAAGA gagaagtaacttgaggtaacaagaaattctctggctctttccacctgcagGGTGGGCTCCCCCACTCTGCCCAGTCTGAATTCTCAGTCGTTTGCCAGCATAAAGAGTTCATCTGGCTGCACCGACACTTATGTAGAGAATGAAGAgtatgaatataacagccttgttgtaaggtacaatagagcatggttgcagtgaaaaaagaccagggaaaggtg Alignment from Exonerate_protein2genome AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACAT-GACACCTATGTGGAAAACGAAGAGTACGCC------GGCCTCATC gagaagtaacttgaggtaacaagaaattctctggctctttccacctgcagGGTGGGCTCCCCCACTCTGCCCAGTCTGAATTCTCAGTCGTTTGCCAGCATAAAGAGTTCATCTGGCTGCACCGACACTTATGTAGAGAATGAAGAGTATGAATATAACAGCCTTGTTgtaaggtacaatagagcatggttgcagtgaaaaaagaccagggaaaggtg Alignment from Exonerate_coding2genome AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACAT-GACACCTATGTGGAAAACGAAGAGTACGCC------GGCCTCATC gagaagtaacttgaggtaacaagaaattctctggctctttccacctgcagGGTGGGCTCCCCCACTCTGCCCAGTCTGAATTCTCAGTCGTTTGCCAGCATAAAGAGTTCATCTGGCTGCACCGACACTTATGTAGAGAATGAAGAGTATGAATATAACAGCCTTGTTgtaaggtacaatagagcatggttgcagtgaaaaaagaccagggaaaggtg Alignment from GeneWise AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACAT-GACACCTATGTGGAAAACGAAGAGTACGCC------GGCCTCATC gagaagtaacttgaggtaacaagaaattctctggctctttccacctgcagGGTGGGCTCCCCCACTCTGCCCAGTCTGAATTCTCAGTCGTTTGCCAGCATAAAGAGTTCATCTGGCTGCACCGACACTTATGTAGAGAATGAAGAGTATGAATATAACAGCCTTGTTgtaaggtacaatagagcatggttgcagtgaaaaaagaccagggaaaggtg #### Sptbn2_ID609_4 --> 0 - 2 Original Alignment ATCCAAGACATCAGTGTGGAGACAGAAGACAAC-AAGGAGAAGAAGTCAGCCAAGGATGCCCTGCTGCTGTGGTGCCAGATGAAGACTGCAgg aTACCCCAATG tcggtacaaactctgttagttcttaacactgtttcgctcttctttttcagATACAAGACATCAGTGTGGAAACTGAAGATAATCAAGGAGAAGAAGTCAACTAAAGATGTCTTGCTGCTGTGGTGTCAGATGAAAACAGCTgggtgagttgatgtgaccatttaatgtcttttggtggacaggTACCCCAATG Alignment from CESAR ATCCAAGACATCAGTGTGGAGACAGAAGACAAC-AAGGAGAAGAAGTCAGCCAAGGATGCCCTGCTGCTGTGGTGCCAGATGAAGACTGCAgg aTACCCCAATG tcggtacaaactctgttagttcttaacactgtttcgctcttctttttcagATACAAGACATCAGTGTGGAAACTGAAGATAATCAAGGAGAAGAAGTCAACTAAAGATGTCTTGCTGCTGTGGTGTCAGATGAAAACAGCTgggtgagttgatgtgaccaggagttctgtttctctcctcaggTACCCCAATG Alignment from Spaln_aa2Genome ATCCAAGACATCAGTGTGGAGACAGAAGACAAC-AAGGAGAAGAAGTCAGCCAAGGATGCCCTGCTGCTGTGGTGCCAGATGAAGACTGCAGG ATACCCCAATG tcggtacaaactctgttagttcttaacactgtttcgctcttctttttcagATACAAGACATCAGTGTGGAAACTGAAGATAATcAAGGAGAAGAAGTCAACTAAAGATGTCTTGCTGCTGTGGTGTCAGATGAAAACAGCTGGgtgagttgatgtgaccatttaatgtcttttggtggacagGTACCCCAATG Alignment from Spaln_nt2Genome ATCCAAGACATCAGTGTGGAGACAGAAGACAA-CAAGGAGAAGAAGTCAGCCAAGGATGCCCTGCTGCTGTGGTGCCAGATGAAGACTGCAGG ATACCCCAATG tcggtacaaactctgttagttcttaacactgtttcgctcttctttttcagATACAAGACATCAGTGTGGAAACTGAAGATAATCAAGGAGAAGAAGTCAACTAAAGATGTCTTGCTGCTGTGGTGTCAGATGAAAACAGCTGGgtgagttgatgtgaccatttaatgtcttttggtggacagGTACCCCAATG Alignment from Pairagon ATCCAAGACATCAGTGTGGAGACAGAAGACAA-CAAGGAGAAGAAGTCAGCCAAGGATGCCCTGCTGCTGTGGTGCCAGATGAAGACTGCAGG ATACCCCAATG tcggtacaaactctgttagttcttaacactgtttcgctcttctttttcagATACAAGACATCAGTGTGGAAACTGAAGATAATCAAGGAGAAGAAGTCAACTAAAGATGTCTTGCTGCTGTGGTGTCAGATGAAAACAGCTGGgtgagttgatgtgaccatttaatgtcttttggtggacagGTACCCCAATG Alignment from Exonerate_protein2genome tcggtacaaactctgttagttcttaacactgtttcgctcttctttttcagatacaagacatcagtgtggaaactgaagataatcaaggagaagaagtcaactaaagatgtcttgctgctgtggtgtcagatgaaaacagctgggtgagttgatgtgaccatttaatgtcttttggtggacaggtaccccaatg Alignment from Exonerate_coding2genome tcggtacaaactctgttagttcttaacactgtttcgctcttctttttcagatacaagacatcagtgtggaaactgaagataatcaaggagaagaagtcaactaaagatgtcttgctgctgtggtgtcagatgaaaacagctgggtgagttgatgtgaccatttaatgtcttttggtggacaggtaccccaatg Alignment from GeneWise ATCCAAGACATCAGTGTGGAGACAGAAGACAAC-AAGGAGAAGAAGTCAGCCAAGGATGCCCTGCTGCTGTGGTGCCAGATGAAGACTGCAGG ATACCCCAATG tcggtacaaactctgttagttcttaacactgtttcgctcttctttttcagATACAAGACATCAGTGTGGAAACTGAAGATAATCAAGGAGAAGAAGTCAACTAAAGATGTCTTGCTGCTGTGGTGTCAGATGAAAACAGCTGGgtgagttgatgtgaccatttaatgtcttttggtggacagGTACCCCAATG #### Sptbn2_ID610_5 --> 1 - 2 Original Alignment AAGACTGCAgg aTACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCC-TTTAATGCCATTGTGCACAAACACcg AAAACAGCTgggtaagttgatgtgaccaggagttctgtttctctcctcaggTACCCCAATGTAAATGTGCATAACTTCACCACCAGCTGGAGAGATGGGCTAGCTCTTCAATGCCATCATACATAAACACcggtagaggtttgaggtcatagctacttctgatttacctatttatttgcatg Alignment from CESAR AAGACTGCAgg aTACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCC-TTTAATGCCATTGTGCACAAACACcg AAAACAGCTgggtgagttgatgtgaccaggagttctgtttctctcctcaggTACCCCAATGTAAATGTGCATAACTTCACCACCAGCTGGAGAGATGGGCTAGCTCTTCAATGCCATCATACATAAACACcggtagaggtttgaggtcatagctacttctgatttacctatttatttgcatg Alignment from Spaln_aa2Genome AAGACTGCAGG ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCC-TTTAATGCCATTGTGCACAAACACCG AAAACAGCTGGgtaagttgatgtgaccaggagttctgtttctctcctcagGTACCCCAATGTAAATGTGCATAACTTCACCACCAGCTGGAGAGATGGGCTAGCTcTTCAATGCCATCATACATAAACACCGgtagaggtttgaggtcatagctacttctgatttacctatttatttgcatg Alignment from Spaln_nt2Genome AAGACTGCAGG ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGC-CTTTAATGCCATTGTGCACAAACACCG AAAACAGCTGGgtaagttgatgtgaccaggagttctgtttctctcctcagGTACCCCAATGTAAATGTGCATAACTTCACCACCAGCTGGAGAGATGGGCTAGCTCTTCAATGCCATCATACATAAACACCGgtagaggtttgaggtcatagctacttctgatttacctatttatttgcatg Alignment from Pairagon AAGACTGCAGG ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGC-CTTTAATGCCATTGTGCACAAACACCG AAAACAGCTGGgtaagttgatgtgaccaggagttctgtttctctcctcagGTACCCCAATGTAAATGTGCATAACTTCACCACCAGCTGGAGAGATGGGCTAGCTCTTCAATGCCATCATACATAAACACCGgtagaggtttgaggtcatagctacttctgatttacctatttatttgcatg Alignment from Exonerate_protein2genome aaaacagctgggtaagttgatgtgaccaggagttctgtttctctcctcaggtaccccaatgtaaatgtgcataacttcaccaccagctggagagatgggctagctcttcaatgccatcatacataaacaccggtagaggtttgaggtcatagctacttctgatttacctatttatttgcatg Alignment from Exonerate_coding2genome aaaacagctgggtaagttgatgtgaccaggagttctgtttctctcctcaggtaccccaatgtaaatgtgcataacttcaccaccagctggagagatgggctagctcttcaatgccatcatacataaacaccggtagaggtttgaggtcatagctacttctgatttacctatttatttgcatg Alignment from GeneWise AAGACTGCAGG ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTG-GCCTTTAATGCCATTGTGCACAAACACCG AAAACAGCTGGgtaagttgatgtgaccaggagttctgtttctctcctcagGTACCCCAATGTAAATGTGCATAACTTCACCACCAGCTGGAGAGATGGGCTAGCTCTTCAATGCCATCATACATAAACACCGgtagaggtttgaggtcatagctacttctgatttacctatttatttgcatg #### Sptbn2_ID611_6 --> 1 - 1 Original Alignment gCCAGACCTGTTGGATTTTGAGTCCCTGAAGAAGTGTAATGCACACTACAATCTGCAGAATGCTTTCAATCTGGCT-GAAAAGGAACTTGGCCTGACGAAGCTCCTGGATCCTGAAg cagtcaaagtggcgatggcacaacaggaaggtgtctgtctctttttgtagtCCAGATCTGTTGGATTTTGAGTCCCTAAAAAAATGTAATGTCCACTACAATCTACAGAATGCTTTCAATCTTGCTCGAAAAGGAACTTGGCCTTAGAAGAATCCTGGATTCTGAGggtaggatgggttaagccagctggaagcaagatagagggtactatagggta Alignment from CESAR gCCAGACCTGTTGGATTTTGAGTCCCTGAAGAAGTGTAATGCACACTACAATCTGCAGAATGCTTTCAATCTGGCT-GAAAAGGAACTTGGCCTGACGAAGCTCCTGGATCCTGAAg cagtcaaagtggcgatggcacaacaggaaggtgtctgtctctttttgtagtCCAGATCTGTTGGATTTTGAGTCCCTAAAAAAATGTAATGTCCACTACAATCTACAGAATGCTTTCAATCTTGCTCGAAAAGGAACTTGGCCTTAGAAGAATCCTGGATTCTGAGggtaggatgggttaagccagctggaagcaagatagagggtactatagggta Alignment from Spaln_aa2Genome GCCAGACCTGTTGGATTTTGAGTCCCTGAAGAAGTGTAATGCACACTACAATCTGCAGAATGCTTTCAATCTGGCT-GAAAAGGAACTTGGCCTGACGAAGCTCCTGGATCCTGAAG cagtcaaagtggcgatggcacaacaggaaggtgtctgtctctttttgtagTCCAGATCTGTTGGATTTTGAGTCCCTAAAAAAATGTAATGTCCACTACAATCTACAGAATGCTTTCAATCTTGCTcGAAAAGGAACTTGGCCTTAGAAGAATCCTGGATTCTGAGGgtaggatgggttaagccagctggaagcaagatagagggtactatagggta Alignment from Spaln_nt2Genome GCCAGACCTGTTGGATTTTGAGTCCCTGAAGAAGTGTAATGCACACTACAATCTGCAGAATGCTTTCAATCTGGCT-GAAAAGGAACTTGGCCTGACGAAGCTCCTGGATCCTGAAG cagtcaaagtggcgatggcacaacaggaaggtgtctgtctctttttgtagTCCAGATCTGTTGGATTTTGAGTCCCTAAAAAAATGTAATGTCCACTACAATCTACAGAATGCTTTCAATCTTGCTCGAAAAGGAACTTGGCCTTAGAAGAATCCTGGATTCTGAGGgtaggatgggttaagccagctggaagcaagatagagggtactatagggta Alignment from Pairagon GCCAGACCTGTTGGATTTTGAGTCCCTGAAGAAGTGTAATGCACACTACAATCTGCAGAATGCTTTCAATCTGGCT-GAAAAGGAACTTGGCCTGACGAAGCTCCTGGATCCTGAAG cagtcaaagtggcgatggcacaacaggaaggtgtctgtctctttttgtagTCCAGATCTGTTGGATTTTGAGTCCCTAAAAAAATGTAATGTCCACTACAATCTACAGAATGCTTTCAATCTTGCTCGAAAAGGAACTTGGCCTTAGAAGAATCCTGGATTCTGAGGgtaggatgggttaagccagctggaagcaagatagagggtactatagggta Alignment from Exonerate_protein2genome cagtcaaagtggcgatggcacaacaggaaggtgtctgtctctttttgtagtccagatctgttggattttgagtccctaaaaaaatgtaatgtccactacaatctacagaatgctttcaatcttgctcgaaaaggaacttggccttagaagaatcctggattctgagggtaggatgggttaagccagctggaagcaagatagagggtactatagggta Alignment from Exonerate_coding2genome cagtcaaagtggcgatggcacaacaggaaggtgtctgtctctttttgtagtccagatctgttggattttgagtccctaaaaaaatgtaatgtccactacaatctacagaatgctttcaatcttgctcgaaaaggaacttggccttagaagaatcctggattctgagggtaggatgggttaagccagctggaagcaagatagagggtactatagggta Alignment from GeneWise GCCAGACCTGTTGGATTTTGAGTCCCTGAAGAAGTGTAATGCACACTACAATCTGCAGAATGCTTTCAATCTG-GCTGAAAAGGAACTTGGCCTGACGAAGCTCCTGGATCCTGAAG cagtcaaagtggcgatggcacaacaggaaggtgtctgtctctttttgtagTCCAGATCTGTTGGATTTTGAGTCCCTAAAAAAATGTAATGTCCACTACAATCTACAGAATGCTTTCAATCTTGCTCGAAAAGGAACTTGGCCTTAGAAGAATCCTGGATTCTGAGGgtaggatgggttaagccagctggaagcaagatagagggtactatagggta #### Sptbn2_ID628_23 --> 0 - 2 Original Alignment GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAA-CAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGag cAC ctgttactcaagcaaacctgaattcatgctttttaccctggtgacaacagGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTGCTAGAACAAGCGCTAGCTGACTATGCCCAAACCATTAAACCAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAGCATCCAGAGaggtaagcccatatagttatctattacatagtaaccatttcctttatagcAC Alignment from CESAR GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAA-CAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGag cAC ctgttactcaagcaaacctgaattcatgctttttaccctggtgacaacagGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTGCTAGAACAAGCGCTAGCTGACTATGCCCAAACCATTAAACCAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAGCATCCAGAGaggtaagcccatatagttatctattactgctgacccttggttccctcagcAC Alignment from Spaln_aa2Genome GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAA-CAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG CAC ctgttactcaagcaaacctgaattcatgctttttaccctggtgacaacagGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTGCTAGAACAAGCGCTAGCTGACTATGCCCAAACCATTAAAcCAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAGCATCCAGAGAGgtaagcccatatagttatctattacatagtaaccatttcctttatagCAC Alignment from Spaln_nt2Genome GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAAC-AACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG CAC ctgttactcaagcaaacctgaattcatgctttttaccctggtgacaacagGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTGCTAGAACAAGCGCTAGCTGACTATGCCCAAACCATTAAACCAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAGCATCCAGAGAGgtaagcccatatagttatctattacatagtaaccatttcctttatagCAC Alignment from Pairagon ------------------------------------------------AGGATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAA-CAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG CAC CTGTTACTCAAGCAAACCTGAATTCATGCTTTTTACCCTGGTGACAACAGGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTGCTAGAACAAGCGCTAGCTGACTATGCCCAAACCATTAAACCAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAGCATCCAGAGAGgtaagcccatatagttatctattacatagtaaccatttcctttatagCAC Alignment from Exonerate_protein2genome GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAA-CAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG CAC ctgttactcaagcaaacctgaattcatgctttttaccctggtgacaacagGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTGCTAGAACAAGCGCTAGCTGACTATGCCCAAACCATTAAACCAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAGCATCCAGAGAGgtaagcccatatagttatctattacatagtaaccatttcctttatagCAC Alignment from Exonerate_coding2genome GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAA-CAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG CAC ctgttactcaagcaaacctgaattcatgctttttaccctggtgacaacagGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTGCTAGAACAAGCGCTAGCTGACTATGCCCAAACCATTAAACCAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAGCATCCAGAGAGgtaagcccatatagttatctattacatagtaaccatttcctttatagCAC Alignment from GeneWise GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATC-AAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG CAC ctgttactcaagcaaacctgaattcatgctttttaccctggtgacaacagGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTGCTAGAACAAGCGCTAGCTGACTATGCCCAAACCATTAAACCAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAGCATCCAGAGAGgtaagcccatatagttatctattacatagtaaccatttcctttatagCAC #### Sptbn2_ID631_26 --> 0 - 2 Original Alignment GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGA-CAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCcg tctgggatctaccatgtcttccaattcttttgtcttacaaacatttacagGTCCAACAAGTTCATGATGATGGTCCACGGCTACAAAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTTGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACCAGCTGCTACTAGACACAACGGATAAATTTCGGTTCTTTAAGGCTGTCCGAGAGTTGATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCcggtatttcttgtggtggatggtttcacccgactgctactatgttgggttgg Alignment from CESAR GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGA-CAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCcg tctgggatctaccatgtcttccaattcttttgtcttacaaacatttacagGTCCAACAAGTTCATGATGATGGTCCACGGCTACAAAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTTGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACCAGCTGCTACTAGACACAACGGATAAATTTCGGTTCTTTAAGGCTGTCCGAGAGTTGATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCcggtatttcttgtggtggatggtttcacccgactgctactatgttgggttgg Alignment from Spaln_aa2Genome GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGA-CAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG tctgggatctaccatgtcttccaattcttttgtcttacaaacatttacagGTCCAACAAGTTCATGATGATGGTCCACGGCTACAAAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTTGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGAcCAGCTGCTACTAGACACAACGGATAAATTTCGGTTCTTTAAGGCTGTCCGAGAGTTGATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtatttcttgtggtggatggtttcacccgactgctactatgttgggttgg Alignment from Spaln_nt2Genome GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGAC-AGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG tctgggatctaccatgtcttccaattcttttgtcttacaaacatttacagGTCCAACAAGTTCATGATGATGGTCCACGGCTACAAAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTTGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACCAGCTGCTACTAGACACAACGGATAAATTTCGGTTCTTTAAGGCTGTCCGAGAGTTGATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtatttcttgtggtggatggtttcacccgactgctactatgttgggttgg Alignment from Pairagon GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGA-CAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG tctgggatctaccatgtcttccaattcttttgtcttacaaacatttacagGTCCAACAAGTTCATGATGATGGTCCACGGCTACAAAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTTGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACCAGCTGCTACTAGACACAACGGATAAATTTCGGTTCTTTAAGGCTGTCCGAGAGTTGATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtatttcttgtggtggatggtttcacccgactgctactatgttgggttgg Alignment from Exonerate_protein2genome GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGA-CAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG tctgggatctaccatgtcttccaattcttttgtcttacaaacatttacagGTCCAACAAGTTCATGATGATGGTCCACGGCTACAAAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTTGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACCAGCTGCTACTAGACACAACGGATAAATTTCGGTTCTTTAAGGCTGTCCGAGAGTTGATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtatttcttgtggtggatggtttcacccgactgctactatgttgggttgg Alignment from Exonerate_coding2genome GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGA-CAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG tctgggatctaccatgtcttccaattcttttgtcttacaaacatttacagGTCCAACAAGTTCATGATGATGGTCCACGGCTACAAAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTTGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACCAGCTGCTACTAGACACAACGGATAAATTTCGGTTCTTTAAGGCTGTCCGAGAGTTGATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtatttcttgtggtggatggtttcacccgactgctactatgttgggttgg Alignment from GeneWise GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGA-CAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG tctgggatctaccatgtcttccaattcttttgtcttacaaacatttacagGTCCAACAAGTTCATGATGATGGTCCACGGCTACAAAAGGCCTATGCTGGAGACAAGGCTGAGGCAATTGGTCGTCATATGCAGGCAGTTGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACCAGCTGCTACTAGACACAACGGATAAATTTCGGTTCTTTAAGGCTGTCCGAGAGTTGATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtatttcttgtggtggatggtttcacccgactgctactatgttgggttgg #### Sptbn2_ID632_27 --> 1 - 0 Original Alignment gGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGG-CAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG ggttgggccagacttcaagattagctttacaatgggttttccttaaaaagtGAAGTGTCGTCTGCAGACTTAGTCATCAAGAACCAGCCAGGTATAAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGATATGGGACCAGGAACTGCTGGCTAGGAGCCATTATGCTGCCCAGGAAgtaagtaagggctggaaaatatcaatcctactaccaggcaagcaggtcca Alignment from CESAR gGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGG-CAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG ggttgggccagacttcaagattagctttacaatgggttttccttaaaaagtGAAGTGTCGTCTGCAGACTTAGTCATCAAGAACCAGCCAGGTATAAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGATATGGGACCAGGAACTGCTGGCTAGGAGCCATTATGCTGCCCAGGAAgtaagtaagggctggaaaatatcaatcctactaccaggcaagcaggtcca Alignment from Spaln_aa2Genome GGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGG-CAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG ggttgggccagacttcaagattagctttacaatgggttttccttaaaaagTGAAGTGTCGTCTGCAGACTTAGTCATCAAGAACCAGCCAGGTATAAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGATATGGGAcCAGGAACTGCTGGCTAGGAGCCATTATGCTGCCCAGGAAgtaagtaagggctggaaaatatcaatcctactaccaggcaagcaggtcca Alignment from Spaln_nt2Genome GGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGC-AGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG ggttgggccagacttcaagattagctttacaatgggttttccttaaaaagTGAAGTGTCGTCTGCAGACTTAGTCATCAAGAACCAGCCAGGTATAAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGATATGGGACCAGGAACTGCTGGCTAGGAGCCATTATGCTGCCCAGGAAgtaagtaagggctggaaaatatcaatcctactaccaggcaagcaggtcca Alignment from Pairagon ---------------------------------------------------GATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGG-CAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG GGTTGGGCCAGACTTCAAGATTAGCTTTACAATGGGTTTTCCTTAAAAAGTGAAGTGTCGTCTGCAGACTTAGTCATCAAGAACCAGCCAGGTATAAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGATATGGGACCAGGAACTGCTGGCTAGGAGCCATTATGCTGCCCAGGAAgtaagtaagggctggaaaatatcaatcctactaccaggcaagcaggtcca Alignment from Exonerate_protein2genome GGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGG-CAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG ggttgggccagacttcaagattagctttacaatgggttttccttaaaaagTGAAGTGTCGTCTGCAGACTTAGTCATCAAGAACCAGCCAGGTATAAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGATATGGGACCAGGAACTGCTGGCTAGGAGCCATTATGCTGCCCAGGAAgtaagtaagggctggaaaatatcaatcctactaccaggcaagcaggtcca Alignment from Exonerate_coding2genome GGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGG-CAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG ggttgggccagacttcaagattagctttacaatgggttttccttaaaaagTGAAGTGTCGTCTGCAGACTTAGTCATCAAGAACCAGCCAGGTATAAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGATATGGGACCAGGAACTGCTGGCTAGGAGCCATTATGCTGCCCAGGAAgtaagtaagggctggaaaatatcaatcctactaccaggcaagcaggtcca Alignment from GeneWise GGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGG-CAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG ggttgggccagacttcaagattagctttacaatgggttttccttaaaaagTGAAGTGTCGTCTGCAGACTTAGTCATCAAGAACCAGCCAGGTATAAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGATATGGGACCAGGAACTGCTGGCTAGGAGCCATTATGCTGCCCAGGAAgtaagtaagggctggaaaatatcaatcctactaccaggcaagcaggtcca #### Sptbn2_ID633_28 --> 0 - 1 Original Alignment ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGG-CGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTg ggcaggttcaaatgcatgtggaccctgagtctattgtttttttcttctagATTTCAGAGAAGCTTTCTCAGCTACAGTCCCGGCCGACAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGCTACAACTTggtaaccttggttagaacttggacagttaattgaaaacattatgggacata Alignment from CESAR ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGG-CGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTg ggcaggttcaaatgcatgtggaccctgagtctattgtttttttcttctagATTTCAGAGAAGCTTTCTCAGCTACAGTCCCGGCCGACAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGCTACAACTTggtaaccttggttagaacttggacagttaattgaaaacattatgggacata Alignment from Spaln_aa2Genome ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGG-CGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ggcaggttcaaatgcatgtggaccctgagtctattgtttttttcttctagATTTCAGAGAAGCTTTCTCAGCTACAGTCCCGGcCGACAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGCTACAACTTGgtaaccttggttagaacttggacagttaattgaaaacattatgggacata Alignment from Spaln_nt2Genome ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGC-GCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ggcaggttcaaatgcatgtggaccctgagtctattgtttttttcttctagATTTCAGAGAAGCTTTCTCAGCTACAGTCCCGGCCGACAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGCTACAACTTGgtaaccttggttagaacttggacagttaattgaaaacattatgggacata Alignment from Pairagon ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGG-CGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ggcaggttcaaatgcatgtggaccctgagtctattgtttttttcttctagATTTCAGAGAAGCTTTCTCAGCTACAGTCCCGGCCGACAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGCTACAACTTGgtaaccttggttagaacttggacagttaattgaaaacattatgggacata Alignment from Exonerate_protein2genome ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGG-CGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ggcaggttcaaatgcatgtggaccctgagtctattgtttttttcttctagATTTCAGAGAAGCTTTCTCAGCTACAGTCCCGGCCGACAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGCTACAACTTGgtaaccttggttagaacttggacagttaattgaaaacattatgggacata Alignment from Exonerate_coding2genome ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGG-CGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTT ggcaggttcaaatgcatgtggaccctgagtctattgtttttttcttctagATTTCAGAGAAGCTTTCTCAGCTACAGTCCCGGCCGACAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGCTACAACTTggtaaccttggttagaacttggacagttaattgaaaacattatgggacata Alignment from GeneWise ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGG-CGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ggcaggttcaaatgcatgtggaccctgagtctattgtttttttcttctagATTTCAGAGAAGCTTTCTCAGCTACAGTCCCGGCCGACAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGCTACAACTTGgtaaccttggttagaacttggacagttaattgaaaacattatgggacata #### Sptbn2_ID635_30 --> 0 - 2 Original Alignment CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAG-GAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATgg gataatatcctgcagagtgttttacaacccaatttttctttgtatcttagCTAGAAGAGAGGGAAATTGAACGCAAAAGAAAGAGGGAGGGGGAGCGAACAAAGGAGACAACCTTCCACTTCAGAGCCCATGGCTAGTCAGTTAGAAAGTAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCATGGGATgggtaagcaagtgttgctaatactggcagatgaccctattttttctcctttc Alignment from CESAR CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAG-GAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATgg gataatatcctgcagagtgttttacaacccaatttttctttgtatcttagCTAGAAGAGAGGGAAATTGAACGCAAAAGAAAGAGGGAGGGGGAGCGAACAAAGGAGACAACCTTCCACTTCAGAGCCCATGGCTAGTCAGTTAGAAAGTAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCATGGGATgggtaagcaagtgttgctaatactggcagatgaccctactgttccctctctc Alignment from Spaln_aa2Genome CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAG-GAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG gataatatcctgcagagtgttttacaacccaatttttctttgtatcttagCTAGAAGAGAGGGAAATTGAACGCAAAAGAAAGAGGGAGGGGGAGcGAACAAAGGAGACAACCTTCCACTTCAGAGCCCATGGCTAGTCAGTTAGAAAGTAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCATGGGATGGgtaagcaagtgttgctaatactggcagatgaccctattttttctcctttc Alignment from Spaln_nt2Genome CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAG-GAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG gataatatcctgcagagtgttttacaacccaatttttctttgtatcttagCTAGAAGAGAGGGAAATTGAACGCAAAAGAAAGAGGGAGGGGGAGCGAACAAAGGAGACAACCTTCCACTTCAGAGCCCATGGCTAGTCAGTTAGAAAGTAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCATGGGATGGgtaagcaagtgttgctaatactggcagatgaccctattttttctcctttc Alignment from Pairagon CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAG-GAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG gataatatcctgcagagtgttttacaacccaatttttctttgtatcttagCTAGAAGAGAGGGAAATTGAACGCAAAAGAAAGAGGGAGGGGGAGCGAACAAAGGAGACAACCTTCCACTTCAGAGCCCATGGCTAGTCAGTTAGAAAGTAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCATGGGATGGgtaagcaagtgttgctaatactggcagatgaccctattttttctcctttc Alignment from Exonerate_protein2genome CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAG-GAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG gataatatcctgcagagtgttttacaacccaatttttctttgtatcttagCTAGAAGAGAGGGAAATTGAACGCAAAAGAAAGAGGGAGGGGGAGCGAACAAAGGAGACAACCTTCCACTTCAGAGCCCATGGCTAGTCAGTTAGAAAGTAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCATGGGATGGgtaagcaagtgttgctaatactggcagatgaccctattttttctcctttc Alignment from Exonerate_coding2genome gataatatcctgcagagtgttttacaacccaatttttctttgtatcttagctagaagagagggaaattgaacgcaaaagaaagagggagggggagcgaacaaaggagacaaccttccacttcagagcccatggctagtcagttagaaagtagcctagtggatggccaaagagtactggacactgcatgggatgggtaagcaagtgttgctaatactggcagatgaccctattttttctcctttc Alignment from GeneWise CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAG-GAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG gataatatcctgcagagtgttttacaacccaatttttctttgtatcttagCTAGAAGAGAGGGAAATTGAACGCAAAAGAAAGAGGGAGGGGGAGCGAACAAAGGAGACAACCTTCCACTTCAGAGCCCATGGCTAGTCAGTTAGAAAGTAGCCTAGTGGATGGCCAAAGAGTACTGGACACTGCATGGGATGGgtaagcaagtgttgctaatactggcagatgaccctattttttctcctttc #### Sptbn2_ID637_32 --> 0 - 0 Original Alignment CCCCTGTTGGAACAGCAGAGACTTGAA-CAGAGCAATGTCCCCGAAGGACCT tgtctgttaactcagctaacatttaaatttatgatatatgatttaaacagCCCCTGTTAGAGCAGCAGAGGCTTGAACCGAGGTAACGTACCTGAGGGGCCTgtaagtttagctgggtgcacatgtgttattgaaaggtaatcttgcaggaa Alignment from CESAR CCCCTGTTGGAACAGCAGAGACTTGAA-CAGAGCAATGTCCCCGAAGGACCT tgtctgttaactcagctaacatttaaatttatgatatatgatttaaacagCCCCTGTTAGAGCAGCAGAGGCTTGAACCGAGGTAACGTACCTGAGGGGCCTgtaagtttagctgggtgcacatgtgttattgaaaggtaatcttgcaggaa Alignment from Spaln_aa2Genome CCCCTGTTGGAACAGCAGAGACTTGAA-CAGAGCAATGTCCCCGAAGGACCT tgtctgttaactcagctaacatttaaatttatgatatatgatttaaacagCCCCTGTTAGAGCAGCAGAGGCTTGAAcCGAGGTAACGTACCTGAGGGGCCTgtaagtttagctgggtgcacatgtgttattgaaaggtaatcttgcaggaa Alignment from Spaln_nt2Genome CCCCTGTTGGAACAGCAGAGACTTGAACAGAGC-AATGTCCCCGAAGGACCT tgtctgttaactcagctaacatttaaatttatgatatatgatttaaacagCCCCTGTTAGAGCAGCAGAGGCTTGAACCGAGGTAACGTACCTGAGGGGCCTgtaagtttagctgggtgcacatgtgttattgaaaggtaatcttgcaggaa Alignment from Pairagon ----------------------------------------------ACAGCCCCTGTTGGAACAGCAGAGACTTGAACAGA-GCAATGTCCCCGAAGGACCT TGTCTGTTAACTCAGCTAACATTTAAATTTATGATATATGATTTAAACAGCCCCTGTTAGAGCAGCAGAGGCTTGAACCGAGGTAACGTACCTGAGGGGCCTgtaagtttagctgggtgcacatgtgttattgaaaggtaatcttgcaggaa Alignment from Exonerate_protein2genome CCCCTGTTGGAACAGCAGAGACTTGAA-CAGAGCAATGTCCCCGAAGGACCT tgtctgttaactcagctaacatttaaatttatgatatatgatttaaacagCCCCTGTTAGAGCAGCAGAGGCTTGAACCGAGGTAACGTACCTGAGGGGCCTgtaagtttagctgggtgcacatgtgttattgaaaggtaatcttgcaggaa Alignment from Exonerate_coding2genome tgtctgttaactcagctaacatttaaatttatgatatatgatttaaacagcccctgttagagcagcagaggcttgaaccgaggtaacgtacctgaggggcctgtaagtttagctgggtgcacatgtgttattgaaaggtaatcttgcaggaa Alignment from GeneWise CCCCTGTTGGAACAGCAGAGACTTGAA-CAGAGCAATGTCCCCGAAGGACCT tgtctgttaactcagctaacatttaaatttatgatatatgatttaaacagCCCCTGTTAGAGCAGCAGAGGCTTGAACCGAGGTAACGTACCTGAGGGGCCTgtaagtttagctgggtgcacatgtgttattgaaaggtaatcttgcaggaa #### Sptbn2_ID639_34 --> 1 - 2 Original Alignment gTCATGGCAGAATGTGTACTGTGTACTT-CGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGgg cactccccctagcttctaacattgatagataactcttgctttcatttcaggTCATGGCAAAATGTGTATTGCGTACTTCAGGTGTGGAAGCCTTGGTTTCTACAAGGATGCAAAGGCCGCCAGTGCTGGGGTACCATAT------GAACTGCCCGTCAGCCTGGCTAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGAAAGCGCAAACATGTTTTCAAACTGgggtgagtttgtaggcttaacttagtgggcacgcacctatcctagggttttg Alignment from CESAR gTCATGGCAGAATGTGTACTGTGTACTT-CGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGgg cactccccctagcttctaacattgatagataactcttgctttcatttcaggTCATGGCAAAATGTGTATTGCGTACTTCAGGTGTGGAAGCCTTGGTTTCTACAAGGATGCAAAGGCCGCCAGTGCTGGGGTACCATAT------GAACTGCCCGTCAGCCTGGCTAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGAAAGCGCAAACATGTTTTCAAACTGgggtgagtttgtaggcttaacttagtgggcacgcacctatcctagggttttg Alignment from Spaln_aa2Genome GTCATGGCAGAATGTGTACTGTGTACTT-CGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGG cactccccctagcttctaacattgatagataactcttgctttcatttcagGTCATGGCAAAATGTGTATTGCGTACTTcAGGTGTGGAAGCCTTGGTTTCTACAAGGATGCAAAGGCCGCCAGTGCTGGGGTACCATAT------GAACTGCCCGTCAGCCTGGCTAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGAAAGCGCAAACATGTTTTCAAACTGGGgtgagtttgtaggcttaacttagtgggcacgcacctatcctagggttttg Alignment from Spaln_nt2Genome GTCATGGCAGAATGTGTACTGTGTACTTCG-GCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGG cactccccctagcttctaacattgatagataactcttgctttcatttcagGTCATGGCAAAATGTGTATTGCGTACTTCAGGTGTGGAAGCCTTGGTTTCTACAAGGATGCAAAGGCCGCCAGTGCTGGGGTACCATA------TGAACTGCCCGTCAGCCTGGCTAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGAAAGCGCAAACATGTTTTCAAACTGGGgtgagtttgtaggcttaacttagtgggcacgcacctatcctagggttttg Alignment from Pairagon GTCATGGCAGAATGTGTACTGTGTACTTC-GGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGG cactccccctagcttctaacattgatagataactcttgctttcatttcagGTCATGGCAAAATGTGTATTGCGTACTTCAGGTGTGGAAGCCTTGGTTTCTACAAGGATGCAAAGGCCGCCAGTGCTGGGGTACCATAT------GAACTGCCCGTCAGCCTGGCTAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGAAAGCGCAAACATGTTTTCAAACTGGGgtgagtttgtaggcttaacttagtgggcacgcacctatcctagggttttg Alignment from Exonerate_protein2genome GTCATGGCAGAATGTGTACTGTGTACTT-CGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGG cactccccctagcttctaacattgatagataactcttgctttcatttcagGTCATGGCAAAATGTGTATTGCGTACTTCAGGTGTGGAAGCCTTGGTTTCTACAAGGATGCAAAGGCCGCCAGTGCTGGGGTACCATAT------GAACTGCCCGTCAGCCTGGCTAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGAAAGCGCAAACATGTTTTCAAACTGGGgtgagtttgtaggcttaacttagtgggcacgcacctatcctagggttttg Alignment from Exonerate_coding2genome cactccccctagcttctaacattgatagataactcttgctttcatttcaggtcatggcaaaatgtgtattgcgtacttcaggtgtggaagccttggtttctacaaggatgcaaaggccgccagtgctggggtaccatatgaactgcccgtcagcctggctagggcccaaggtagtgtggcgtttgattatagaaagcgcaaacatgttttcaaactggggtgagtttgtaggcttaacttagtgggcacgcacctatcctagggttttg Alignment from GeneWise GTCATGGCAGAATGTGTACTGTGTACTTCGG-CGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGG cactccccctagcttctaacattgatagataactcttgctttcatttcagGTCATGGCAAAATGTGTATTGCGTACTTCAGGTGTGGAAGCCTTGGTTTCTACAAGGATGCAAAGGCCGCCAGTGCTGGGGTACCATAT------GAACTGCCCGTCAGCCTGGCTAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGAAAGCGCAAACATGTTTTCAAACTGGGgtgagtttgtaggcttaacttagtgggcacgcacctatcctagggttttg #### Ssh3_ID446_10 --> 0 - 2 Original Alignment TTG GGCTCTGAGTGGAATGCTGCCAAC-CTGGAGGAACTTCAGAAAAACag TTAgtaagaagtcttctattcattcttccatgtaataatttctcttctagGGCACTGAATGGAATGCTGCCAACCCTAGAAGAGCTCCAAAAAAACaggtaggttagcttgcaaactgttcgcccttattgacctcccctctcagctt Alignment from CESAR TTG GGCTCTGAGTGGAATGCTGCCAAC-CTGGAGGAACTTCAGAAAAACag TTAgtaatgagtcttctattcattcttccatgtaataatttctcttctagGGCACTGAATGGAATGCTGCCAACCCTAGAAGAGCTCCAAAAAAACaggtaggttagcttgcaaactgttcgcccttattgacctcccctctcagctt Alignment from Spaln_aa2Genome TTG GGCTCTGAGTGGAATGCTGCCAAC-CTGGAGGAACTTCAGAAAAACAG TTAgtaagaagtcttctattcattcttccatgtaataatttctcttctagGGCACTGAATGGAATGCTGCCAACcCTAGAAGAGCTCCAAAAAAACAGgtaggttagcttgcaaactgttcgcccttattgacctcccctctcagctt Alignment from Spaln_nt2Genome TTG GGCTCTGAGTGGAATGCTGCCAACC-TGGAGGAACTTCAGAAAAACAG TTAgtaagaagtcttctattcattcttccatgtaataatttctcttctagGGCACTGAATGGAATGCTGCCAACCCTAGAAGAGCTCCAAAAAAACAGgtaggttagcttgcaaactgttcgcccttattgacctcccctctcagctt Alignment from Pairagon TTG GGCTCTGAGTGGAATGCTGCCAA-CCTGGAGGAACTTCAGAAAAACAG TTAgtaagaagtcttctattcattcttccatgtaataatttctcttctagGGCACTGAATGGAATGCTGCCAACCCTAGAAGAGCTCCAAAAAAACAGgtaggttagcttgcaaactgttcgcccttattgacctcccctctcagctt Alignment from Exonerate_protein2genome TTG GGCTCTGAGTGGAATGCTGCCAAC-CTGGAGGAACTTCAGAAAAACAG TTAgtaagaagtcttctattcattcttccatgtaataatttctcttctagGGCACTGAATGGAATGCTGCCAACCCTAGAAGAGCTCCAAAAAAACAGgtaggttagcttgcaaactgttcgcccttattgacctcccctctcagctt Alignment from Exonerate_coding2genome TTG GGCTCTGAGTGGAATGCTGCCAAC-CTGGAGGAACTTCAGAAAAACAG TTAgtaagaagtcttctattcattcttccatgtaataatttctcttctagGGCACTGAATGGAATGCTGCCAACCCTAGAAGAGCTCCAAAAAAACAGgtaggttagcttgcaaactgttcgcccttattgacctcccctctcagctt Alignment from GeneWise TTG---------------------------------GGCTCTGAGTGGAATGCTGCCAAC---------------CTGGAGGAACTTCAGAAAAACAG TTAGTAAGAAGTCTTCTATTCATTCTTCCATGTAATAATTTCTCTTCTAGGGCACTGAATGGAATGCTGCCAACCCTAGAAGAGCTCCAAAAAAACAGgtaggttagcttgcaaactgttcgcccttattgacctcccctctcagctt #### Ssh3_ID450_6 --> 1 - 2 Original Alignment gGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTC-AAGCCTGTCTCTATCCAGACCATGtg gcctattgattaccttctctcaaagtctacctgttacctcttctcctaagtAGTTTGAGTGTGACACCCGGCGGCAAAAGCCGGATCTTCCAAGCCTCTCTCTATTCAGACCATGtggtaagtggtccaaattataagtttccaaggatacttggttgaccttctaa Alignment from CESAR gGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTC-AAGCCTGTCTCTATCCAGACCATGtg gcctattgattaccttctctcaaagtctacctgttacctcttctcctaagtAGTTTGAGTGTGACACCCGGCGGCAAAAGCCGGATCTTCCAAGCCTCTCTCTATTCAGACCATGtggtaagtggtccaaattataagtttccaaggatacttggttgaccttctaa Alignment from Spaln_aa2Genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTC-AAGCCTGTCTCTATCCAGACCATGTG gcctattgattaccttctctcaaagtctacctgttacctcttctcctaagTAGTTTGAGTGTGACACCCGGCGGCAAAAGCCGGATCTTCcAAGCCTCTCTCTATTCAGACCATGTGgtaagtggtccaaattataagtttccaaggatacttggttgaccttctaa Alignment from Spaln_nt2Genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTC-AAGCCTGTCTCTATCCAGACCATGTG gcctattgattaccttctctcaaagtctacctgttacctcttctcctaagTAGTTTGAGTGTGACACCCGGCGGCAAAAGCCGGATCTTCCAAGCCTCTCTCTATTCAGACCATGTGgtaagtggtccaaattataagtttccaaggatacttggttgaccttctaa Alignment from Pairagon GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTT-CAAGCCTGTCTCTATCCAGACCATGTG gcctattgattaccttctctcaaagtctacctgttacctcttctcctaagTAGTTTGAGTGTGACACCCGGCGGCAAAAGCCGGATCTTCCAAGCCTCTCTCTATTCAGACCATGTGgtaagtggtccaaattataagtttccaaggatacttggttgaccttctaa Alignment from Exonerate_protein2genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTC-AAGCCTGTCTCTATCCAGACCATGTG gcctattgattaccttctctcaaagtctacctgttacctcttctcctaagTAGTTTGAGTGTGACACCCGGCGGCAAAAGCCGGATCTTCCAAGCCTCTCTCTATTCAGACCATGTGgtaagtggtccaaattataagtttccaaggatacttggttgaccttctaa Alignment from Exonerate_coding2genome TGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGAT-GGGGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTC-AAGCCTGTCTCTATCCAGACCATGTG GCCTATTGATTACCTTCTCTCAAAGTCTACCTGTTACCTCTTCTCCTAAGTAGTTTGAGTGTGACACCCGGCGGCAAAAGCCGGATCTTCCAAGCCTCTCTCTATTCAGACCATGTGgtaagtggtccaaattataagtttccaaggatacttggttgaccttctaa Alignment from GeneWise gcctattgattaccttctctcaaagtctacctgttacctcttctcctaagtagtttgagtgtgacacccggcggcaaaagccggatcttccaagcctctctctattcagaccatgtggtaagtggtccaaattataagtttccaaggatacttggttgaccttctaa #### Stip1_ID1997_4 --> 2 - 2 Original Alignment agAGGAAATTCATGAATCCATTCAACTTGCCTAATCTATACCAAAAGTTGGAAAACGACCCCAGGACAAGGTCGCTGCTC-AGTGACCCCACCTACAGGGAGCTCATAGAACAGCTGCAGAACAAGCCGTCAGACCTGGGCac tttaccaaccagccccatgactcatatcttcctacctcctgaattttcagagAGGAAATTCATGAATCCATTTAACCTTCCAAACCTATATCAAAAGTTGGAAAATGACCCAGGTGCAAGGTCATTGCTACAGTGACCCTGCCTACCGGGAGCTCATAGAACAGCTGCAAAACAAGCCATCTGACTTGGGCacgtaaaacaatgatgcaccttaggagaactatctgcagtatctgagatctc Alignment from CESAR agAGGAAATTCATGAATCCATTCAACTTGCCTAATCTATACCAAAAGTTGGAAAACGACCCCAGGACAAGGTCGCTGCTC-AGTGACCCCACCTACAGGGAGCTCATAGAACAGCTGCAGAACAAGCCGTCAGACCTGGGCac tttaccaaccagccccatgactcatatcttcctacctcctgaattttcagagAGGAAATTCATGAATCCATTTAACCTTCCAAACCTATATCAAAAGTTGGAAAATGACCCAGGTGCAAGGTCATTGCTACAGTGACCCTGCCTACCGGGAGCTCATAGAACAGCTGCAAAACAAGCCATCTGACTTGGGCacgtaaaacaatgatgcaccttaggagaactatctgcagtatctgagatctc Alignment from Spaln_aa2Genome AGAGGAAATTCATGAATCCATTCAACTTGCCTAATCTATACCAAAAGTTGGAAAACGACCCCAGGACAAGGTCGCTGCTC-AGTGACCCCACCTACAGGGAGCTCATAGAACAGCTGCAGAACAAGCCGTCAGACCTGGGCAC tttaccaaccagccccatgactcatatcttcctacctcctgaattttcagAGAGGAAATTCATGAATCCATTTAACCTTCCAAACCTATATCAAAAGTTGGAAAATGACCCAGGTGCAAGGTCATTGCTAcAGTGACCCTGCCTACCGGGAGCTCATAGAACAGCTGCAAAACAAGCCATCTGACTTGGGCACgtaaaacaatgatgcaccttaggagaactatctgcagtatctgagatctc Alignment from Spaln_nt2Genome AGAGGAAATTCATGAATCCATTCAACTTGCCTAATCTATACCAAAAGTTGGAAAACGACCCCAGGACAAGGTCGCTGCT-CAGTGACCCCACCTACAGGGAGCTCATAGAACAGCTGCAGAACAAGCCGTCAGACCTGGGCAC tttaccaaccagccccatgactcatatcttcctacctcctgaattttcagAGAGGAAATTCATGAATCCATTTAACCTTCCAAACCTATATCAAAAGTTGGAAAATGACCCAGGTGCAAGGTCATTGCTACAGTGACCCTGCCTACCGGGAGCTCATAGAACAGCTGCAAAACAAGCCATCTGACTTGGGCACgtaaaacaatgatgcaccttaggagaactatctgcagtatctgagatctc Alignment from Pairagon AGAGGAAATTCATGAATCCATTCAACTTGCCTAATCTATACCAAAAGTTGGAAAACGACCCCAGGACAAGGTCGCTGCT-CAGTGACCCCACCTACAGGGAGCTCATAGAACAGCTGCAGAACAAGCCGTCAGACCTGGGCAC tttaccaaccagccccatgactcatatcttcctacctcctgaattttcagAGAGGAAATTCATGAATCCATTTAACCTTCCAAACCTATATCAAAAGTTGGAAAATGACCCAGGTGCAAGGTCATTGCTACAGTGACCCTGCCTACCGGGAGCTCATAGAACAGCTGCAAAACAAGCCATCTGACTTGGGCACgtaaaacaatgatgcaccttaggagaactatctgcagtatctgagatctc Alignment from Exonerate_protein2genome AGAGGAAATTCATGAATCCATTCAACTTGCCTAATCTATACCAAAAGTTGGAAAACGACCCCAGGACAAGGTCGCTGCTC-AGTGACCCCACCTACAGGGAGCTCATAGAACAGCTGCAGAACAAGCCGTCAGACCTGGGCAC tttaccaaccagccccatgactcatatcttcctacctcctgaattttcagAGAGGAAATTCATGAATCCATTTAACCTTCCAAACCTATATCAAAAGTTGGAAAATGACCCAGGTGCAAGGTCATTGCTACAGTGACCCTGCCTACCGGGAGCTCATAGAACAGCTGCAAAACAAGCCATCTGACTTGGGCACgtaaaacaatgatgcaccttaggagaactatctgcagtatctgagatctc Alignment from Exonerate_coding2genome AGAGGAAATTCATGAATCCATTCAACTTGCCTAATCTATACCAAAAGTTGGAAAACGACCCCAGGACAAGGTCGCTGCTC-AGTGACCCCACCTACAGGGAGCTCATAGAACAGCTGCAGAACAAGCCGTCAGACCTGGGCAC tttaccaaccagccccatgactcatatcttcctacctcctgaattttcagAGAGGAAATTCATGAATCCATTTAACCTTCCAAACCTATATCAAAAGTTGGAAAATGACCCAGGTGCAAGGTCATTGCTACAGTGACCCTGCCTACCGGGAGCTCATAGAACAGCTGCAAAACAAGCCATCTGACTTGGGCACgtaaaacaatgatgcaccttaggagaactatctgcagtatctgagatctc Alignment from GeneWise AGAGGAAATTCATGAATCCATTCAACTTGCCTAATCTATACCAAAAGTTGGAAAACGACCCCAGGACAAGGTCGCTGCTC-AGTGACCCCACCTACAGGGAGCTCATAGAACAGCTGCAGAACAAGCCGTCAGACCTGGGCAC tttaccaaccagccccatgactcatatcttcctacctcctgaattttcagAGAGGAAATTCATGAATCCATTTAACCTTCCAAACCTATATCAAAAGTTGGAAAATGACCCAGGTGCAAGGTCATTGCTACAGTGACCCTGCCTACCGGGAGCTCATAGAACAGCTGCAAAACAAGCCATCTGACTTGGGCACgtaaaacaatgatgcaccttaggagaactatctgcagtatctgagatctc #### Stx5a_ID2334_6 --> 0 - 0 Original Alignment TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCA-GTTCTAGAAGTGAGGACTGAG attggcggaggaacacaacgtaagtcagtccccgattgtttctgttgcagTCCAAGCTGGCTTCTATGTCCAATGACTTCAAGTCACGTTCTAGAAGTGAGGACTGATgtcttgtggataagatgctcactggtttttgattgtgcaatcttccccat Alignment from CESAR TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCA-GTTCTAGAAGTGAGGACTGAG attggcggaggaacacaacgtaagtcagtccccgattgtttctgttgcagTCCAAGCTGGCTTCTATGTCCAATGACTTCAAGTCACGTTCTAGAAGTGAGGACTGATgtcttgtggataagatgctcactggtttttgattgtgcaatcttccccat Alignment from Spaln_aa2Genome TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCA-GTTCTAGAAGTGAGGACTGAG attggcggaggaacacaacgtaagtcagtccccgattgtttctgttgcagTCCAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAcGTTCTAGAAGTGAGGACTGATgtcttgtggataagatgctcactggtttttgattgtgcaatcttccccat Alignment from Spaln_nt2Genome TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCA-GTTCTAGAAGTGAGGACTGAG attggcggaggaacacaacgtaagtcagtccccgattgtttctgttgcagTCCAAGCTGGCTTCTATGTCCAATGACTTCAAGTCACGTTCTAGAAGTGAGGACTGATgtcttgtggataagatgctcactggtttttgattgtgcaatcttccccat Alignment from Pairagon TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCA-GTTCTAGAAGTGAGGACTGAG attggcggaggaacacaacgtaagtcagtccccgattgtttctgttgcagTCCAAGCTGGCTTCTATGTCCAATGACTTCAAGTCACGTTCTAGAAGTGAGGACTGATgtcttgtggataagatgctcactggtttttgattgtgcaatcttccccat Alignment from Exonerate_protein2genome TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCA-GTTCTAGAAGTGAGGACTGAG attggcggaggaacacaacgtaagtcagtccccgattgtttctgttgcagTCCAAGCTGGCTTCTATGTCCAATGACTTCAAGTCACGTTCTAGAAGTGAGGACTGATgtcttgtggataagatgctcactggtttttgattgtgcaatcttccccat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise attggcggaggaacacaacgtaagtcagtccccgattgtttctgttgcagtccaagctggcttctatgtccaatgacttcaagtcacgttctagaagtgaggactgatgtcttgtggataagatgctcactggtttttgattgtgcaatcttccccat #### Stx5a_ID2335_7 --> 0 - 1 Original Alignment AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTG-CCTCTTGCCCCCAACAACCTTg ccatgtgcaaatgtctacagagccttggaaattctttgttttttttctagAATTTAAAACAGCAGAGGAATCGA---GCCCAGCTA---TGGGCCCCTGTGTCTGCCTTTCCCATTAGCACCCAATAACCTTggtaagattaccttatttagtatagtgggtctgacctgaactgctccaaaa Alignment from CESAR AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTG-CCTCTTGCCCCCAACAACCTTg ccatgtgcaaatgtctacagagccttggaaattctttgttttttttctagAATTTAAAACAGCAGAGGAATCGA---GCCCAGCTA---TGGGCCCCTGTGTCTGCCTTTCCCATTAGCACCCAATAACCTTggtaagattaccttatttagtatagtgggtctgacctgaactgctccaaaa Alignment from Spaln_aa2Genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTG-CCTCTTGCCCCCAACAACCTTG ccatgtgcaaatgtctacagagccttggaaattctttgttttttttctagAATTTAAAACAGCAGAGGAATCGAGCCCAG------CTATGGGCCCCTGTGTCTGCCTTTcCCATTAGCACCCAATAACCTTGgtaagattaccttatttagtatagtgggtctgacctgaactgctccaaaa Alignment from Spaln_nt2Genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTT-GCCCCCAACAACCTTG ccatgtgcaaatgtctacagagccttggaaattctttgttttttttctagAATTTAAAACAGCAGAGGAA---TCGAGCCCAGCTAT---GGGCCCCTGTGTCTGCCTTTCCCATTAGCACCCAATAACCTTGgtaagattaccttatttagtatagtgggtctgacctgaactgctccaaaa Alignment from Pairagon AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCC-------------------CTGCCTCTT------GCCCCCAACAACCTTG ccatgtgcaaatgtctacagagccttggaaattctttgttttttttctagAATTTAAAACAGCAGAGGAATCG------------------------------AGCCCAGCTATGGGCCCCTGTGTCTGCCTTTCCCATTAGCACCCAATAACCTTGgtaagattaccttatttagtatagtgggtctgacctgaactgctccaaaa Alignment from Exonerate_protein2genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCC-CTGCCTCTTGCCCCCAACAACCTTG ccatgtgcaaatgtctacagagccttggaaattctttgttttttttctagAATTTAAAACAGCAGAGGAATCGAGCCCAGCTATGG------GCCCCTGTGTCTGCCTTTCCCATTAGCACCCAATAACCTTGgtaagattaccttatttagtatagtgggtctgacctgaactgctccaaaa Alignment from Exonerate_coding2genome ccatgtgcaaatgtctacagagccttggaaattctttgttttttttctagaatttaaaacagcagaggaatcgagcccagctatgggcccctgtgtctgcctttcccattagcacccaataaccttggtaagattaccttatttagtatagtgggtctgacctgaactgctccaaaa Alignment from GeneWise ccatgtgcaaatgtctacagagccttggaaattctttgttttttttctagaatttaaaacagcagaggaatcgagcccagctatgggcccctgtgtctgcctttcccattagcacccaataaccttggtaagattaccttatttagtatagtgggtctgacctgaactgctccaaaa #### Stx5a_ID2336_8 --> 2 - 0 Original Alignment gaGGTGGTCCCATAATTTTGGGA-GCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aatgtcaagcttccacaaagtgccagaattctgtctgacttgctccctaggaGGGGGTACCATAATCCTGGGGCGCAGAATCACAAGCATCCAGTGATGTAGCGATTGATATGATGGACCCAAGAACAAGCCAACAGCTGCAGATCATTGATGAGCAGgtatgttacaccacattgtaaagctgatgtacaaccagggttccctttgg Alignment from CESAR gaGGTGGTCCCATAATTTTGGGA-GCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aatgtcaagcttccacaaagtgccagaattctgtctgacttgctccctaggaGGGGGTACCATAATCCTGGGGCGCAGAATCACAAGCATCCAGTGATGTAGCGATTGATATGATGGACCCAAGAACAAGCCAACAGCTGCAGATCATTGATGAGCAGgtatgttacaccacattgtaaagctgatgtacaaccagggttccctttgg Alignment from Spaln_aa2Genome GAGGTGGTCCCATAATTTTGGGA-GCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aatgtcaagcttccacaaagtgccagaattctgtctgacttgctccctagGAGGGGGTACCATAATCCTGGGGcGCAGAATCACAAGCATCCAGTGATGTAGCGATTGATATGATGGACCCAAGAACAAGCCAACAGCTGCAGATCATTGATGAGCAGgtatgttacaccacattgtaaagctgatgtacaaccagggttccctttgg Alignment from Spaln_nt2Genome GAGGTGGTCCCATAATTTTGGGA-GCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aatgtcaagcttccacaaagtgccagaattctgtctgacttgctccctagGAGGGGGTACCATAATCCTGGGGCGCAGAATCACAAGCATCCAGTGATGTAGCGATTGATATGATGGACCCAAGAACAAGCCAACAGCTGCAGATCATTGATGAGCAGgtatgttacaccacattgtaaagctgatgtacaaccagggttccctttgg Alignment from Pairagon GAGGTGGTCCCATAATTTTGGGA-GCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aatgtcaagcttccacaaagtgccagaattctgtctgacttgctccctagGAGGGGGTACCATAATCCTGGGGCGCAGAATCACAAGCATCCAGTGATGTAGCGATTGATATGATGGACCCAAGAACAAGCCAACAGCTGCAGATCATTGATGAGCAGgtatgttacaccacattgtaaagctgatgtacaaccagggttccctttgg Alignment from Exonerate_protein2genome GAGGTGGTCCCATAATTTTG-GGAGCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aatgtcaagcttccacaaagtgccagaattctgtctgacttgctccctagGAGGGGGTACCATAATCCTGGGGCGCAGAATCACAAGCATCCAGTGATGTAGCGATTGATATGATGGACCCAAGAACAAGCCAACAGCTGCAGATCATTGATGAGCAGgtatgttacaccacattgtaaagctgatgtacaaccagggttccctttgg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aatgtcaagcttccacaaagtgccagaattctgtctgacttgctccctaggagggggtaccataatcctggggcgcagAATCACAAGCATCCAGTGATGTAGCGATTGATATGATGGACCCAAGAACAAGCCAACAGCTGCAGATCATTGATGAGCAGgtatgttacaccacattgtaaagctgatgtacaaccagggttccctttgg #### Syvn1_ID1384_3 --> 0 - 0 Original Alignment CACCTTCTGGAACGGTCC-TGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT ttgccatgctggctgtcttacagcttcaaattctgtaatcatccttgcagCACCTGCTGGAACAGTCTCTGGTATGCTGTCACAGAAATCTGTTTGACCTTTACAGTTATTGGCGATGACTCAAGTCCCCAATTTGTCGCACTCTTCATGCTTCTTCTCTTCCTTAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTTGATTCTgtaggctcaatccactgatgaatatgcaggtgctcttcttgtttcacagg Alignment from CESAR CACCTTCTGGAACGGTCC-TGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT ttgccatgctggctgtcttacagcttcaaattctgtaatcatccttgcagCACCTGCTGGAACAGTCTCTGGTATGCTGTCACAGAAATCTGTTTGACCTTTACAGTTATTGGCGATGACTCAAGTCCCCAATTTGTCGCACTCTTCATGCTTCTTCTCTTCCTTAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTTGATTCTgtaggctcaatccactgatgaatatgcaggtgctcttcttgtttcacagg Alignment from Spaln_aa2Genome CACCTTCTGGAACGGTCC-TGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT ttgccatgctggctgtcttacagcttcaaattctgtaatcatccttgcagCACCTGCTGGAACAGTCTcTGGTATGCTGTCACAGAAATCTGTTTGACCTTTACAGTTATTGGCGATGACTCAAGTCCCCAATTTGTCGCACTCTTCATGCTTCTTCTCTTCCTTAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTTGATTCTgtaggctcaatccactgatgaatatgcaggtgctcttcttgtttcacagg Alignment from Spaln_nt2Genome CACCTTCTGGAACGGTC-CTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT ttgccatgctggctgtcttacagcttcaaattctgtaatcatccttgcagCACCTGCTGGAACAGTCTCTGGTATGCTGTCACAGAAATCTGTTTGACCTTTACAGTTATTGGCGATGACTCAAGTCCCCAATTTGTCGCACTCTTCATGCTTCTTCTCTTCCTTAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTTGATTCTgtaggctcaatccactgatgaatatgcaggtgctcttcttgtttcacagg Alignment from Pairagon CACCTTCTGGAACGGTC-CTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT ttgccatgctggctgtcttacagcttcaaattctgtaatcatccttgcagCACCTGCTGGAACAGTCTCTGGTATGCTGTCACAGAAATCTGTTTGACCTTTACAGTTATTGGCGATGACTCAAGTCCCCAATTTGTCGCACTCTTCATGCTTCTTCTCTTCCTTAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTTGATTCTgtaggctcaatccactgatgaatatgcaggtgctcttcttgtttcacagg Alignment from Exonerate_protein2genome CACCTTCTGGAACGGTCC-TGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT ttgccatgctggctgtcttacagcttcaaattctgtaatcatccttgcagCACCTGCTGGAACAGTCTCTGGTATGCTGTCACAGAAATCTGTTTGACCTTTACAGTTATTGGCGATGACTCAAGTCCCCAATTTGTCGCACTCTTCATGCTTCTTCTCTTCCTTAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTTGATTCTgtaggctcaatccactgatgaatatgcaggtgctcttcttgtttcacagg Alignment from Exonerate_coding2genome ttgccatgctggctgtcttacagcttcaaattctgtaatcatccttgcagcacctgctggaacagtctctggtatgctgtcacagaaatctgtttgacctttacagttattggcgatgactcaagtccccaatttgtcgcactcttcatgcttcttctcttccttaagtgcttccagtggttagctgcagatcatgttgattctgtaggctcaatccactgatgaatatgcaggtgctcttcttgtttcacagg Alignment from GeneWise CACCTTCTGGAACGG-TCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT ttgccatgctggctgtcttacagcttcaaattctgtaatcatccttgcagCACCTGCTGGAACAGTCTCTGGTATGCTGTCACAGAAATCTGTTTGACCTTTACAGTTATTGGCGATGACTCAAGTCCCCAATTTGTCGCACTCTTCATGCTTCTTCTCTTCCTTAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTTGATTCTgtaggctcaatccactgatgaatatgcaggtgctcttcttgtttcacagg #### Syvn1_ID1393_12 --> 2 - 1 Original Alignment ccGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCT-CTGCCTCCACCTTTTg gccaggaaaataactcacttccaatttgccctccctttttttccatgaagctGTCTCTCAGTATAGTGGAGCAGCAATGACTCCAGCTTCGAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGTCTGGTCCTGGCCCTGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCCTACCTCCACTGTTTggtactctacctgtcactcaactctcagatgtacaattctaaatggtaact Alignment from CESAR ccGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCT-CTGCCTCCACCTTTTg gccaggaaaataactcacttccaatttgccctccctttttttccatgaagctGTCTCTCAGTATAGTGGAGCAGCAATGACTCCAGCTTCGAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGTCTGGTCCTGGCCCTGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCCTACCTCCACTGTTTggtactctacctgtcactcaactctcagatgtacaattctaaatggtaact Alignment from Spaln_aa2Genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCT-CTGCCTCCACCTTTTG gccaggaaaataactcacttccaatttgccctccctttttttccatgaagCTGTCTCTCAGTATAGTGGAGCAGCAATGACTCCAGCTTCGAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGTCTGGTCCTGGCCCTGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTcCTACCTCCACTGTTTGgtactctacctgtcactcaactctcagatgtacaattctaaatggtaact Alignment from Spaln_nt2Genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTC-TGCCTCCACCTTTTG gccaggaaaataactcacttccaatttgccctccctttttttccatgaagCTGTCTCTCAGTATAGTGGAGCAGCAATGACTCCAGCTTCGAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGTCTGGTCCTGGCCCTGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCCTACCTCCACTGTTTGgtactctacctgtcactcaactctcagatgtacaattctaaatggtaact Alignment from Pairagon CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCT-CTGCCTCCACCTTTTG gccaggaaaataactcacttccaatttgccctccctttttttccatgaagCTGTCTCTCAGTATAGTGGAGCAGCAATGACTCCAGCTTCGAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGTCTGGTCCTGGCCCTGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCCTACCTCCACTGTTTGgtactctacctgtcactcaactctcagatgtacaattctaaatggtaact Alignment from Exonerate_protein2genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCT-CTGCCTCCACCTTTTG gccaggaaaataactcacttccaatttgccctccctttttttccatgaagCTGTCTCTCAGTATAGTGGAGCAGCAATGACTCCAGCTTCGAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGTCTGGTCCTGGCCCTGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCCTACCTCCACTGTTTGgtactctacctgtcactcaactctcagatgtacaattctaaatggtaact Alignment from Exonerate_coding2genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCT-CTGCCTCCACCTTTTG gccaggaaaataactcacttccaatttgccctccctttttttccatgaagCTGTCTCTCAGTATAGTGGAGCAGCAATGACTCCAGCTTCGAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGTCTGGTCCTGGCCCTGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCCTACCTCCACTGTTTGgtactctacctgtcactcaactctcagatgtacaattctaaatggtaact Alignment from GeneWise CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCT-CTGCCTCCACCTTTTG gccaggaaaataactcacttccaatttgccctccctttttttccatgaagCTGTCTCTCAGTATAGTGGAGCAGCAATGACTCCAGCTTCGAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGTCTGGTCCTGGCCCTGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCCTACCTCCACTGTTTGgtactctacctgtcactcaactctcagatgtacaattctaaatggtaact #### Syvn1_ID1395_14 --> 1 - 1 Original Alignment gCCCCCCAGGCCAGCTACTTCAGTGAAC-CCCACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCT------TCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTg gtacaacaattccacacagaatgctggattatctctacccttccccctagaCCCCCAAGATCAGCAACATCCGATAACCCACACTGAGGAAACTGCATCCTCTGTTGTATTTGCTGCACCCTCCAGTAGTACTCCTAGCTCTGAGGCTCCAACTCCTTCACCAGGGGCTAGAATATCCCCCCCGATTCTTGAAGCAGAAAAGCCTCCTggtaaagtctaaaaaaaaatcagccagcatgatctaggtggtatggcttga Alignment from CESAR gCCCCCCAGGCCAGCTACTTCAGTGAACCCC-ACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCT------TCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTg gtacaacaattccacacagaatgctggattatctctacccttccccctagaCCCCCAAGATCAGCAACATCCGATAACCCACACTGAGGAAACTGCATCCTCTGTTGTATTTGCTGCACCCTCCAGTAGTACTCCTAGCTCTGAGGCTCCAACTCCTTCACCAGGGGCTAGAATATCCCCCCCGATTCTTGAAGCAGAAAAGCCTCCTggtaaagtctaaaaaaaaatcagccagcatgatctaggtggtatggcttga Alignment from Spaln_aa2Genome GCCCCCCAGGCCAGCTACTTCAGTGAACCCC-ACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCT------TCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTG gtacaacaattccacacagaatgctggattatctctacccttccccctagACCCCCAAGATCAGCAACATCCGATAACCCAcACTGAGGAAACTGCATCCTCTGTTGTATTTGCTGCACCCTCCAGTAGTACTCCTAGCTCTGAGGCTCCAACTCCTTCACCAGGGGCTAGAATATCCCCCCCGATTCTTGAAGCAGAAAAGCCTCCTGgtaaagtctaaaaaaaaatcagccagcatgatctaggtggtatggcttga Alignment from Spaln_nt2Genome GCCCCCCAGGCCAGCTACTTCAGTGAACCC-CACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCT------TCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTG gtacaacaattccacacagaatgctggattatctctacccttccccctagACCCCCAAGATCAGCAACATCCGATAACCCACACTGAGGAAACTGCATCCTCTGTTGTATTTGCTGCACCCTCCAGTAGTACTCCTAGCTCTGAGGCTCCAACTCCTTCACCAGGGGCTAGAATATCCCCCCCGATTCTTGAAGCAGAAAAGCCTCCTGgtaaagtctaaaaaaaaatcagccagcatgatctaggtggtatggcttga Alignment from Pairagon GCCCCCCAGGCCAGCTACTTCAGTGAACCC-CACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCT------TCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTG gtacaacaattccacacagaatgctggattatctctacccttccccctagACCCCCAAGATCAGCAACATCCGATAACCCACACTGAGGAAACTGCATCCTCTGTTGTATTTGCTGCACCCTCCAGTAGTACTCCTAGCTCTGAGGCTCCAACTCCTTCACCAGGGGCTAGAATATCCCCCCCGATTCTTGAAGCAGAAAAGCCTCCTGgtaaagtctaaaaaaaaatcagccagcatgatctaggtggtatggcttga Alignment from Exonerate_protein2genome GCCCCCCAGGCCAGCTACTTCAGTGAACCCC-ACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCT------TCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTG gtacaacaattccacacagaatgctggattatctctacccttccccctagACCCCCAAGATCAGCAACATCCGATAACCCACACTGAGGAAACTGCATCCTCTGTTGTATTTGCTGCACCCTCCAGTAGTACTCCTAGCTCTGAGGCTCCAACTCCTTCACCAGGGGCTAGAATATCCCCCCCGATTCTTGAAGCAGAAAAGCCTCCTGgtaaagtctaaaaaaaaatcagccagcatgatctaggtggtatggcttga Alignment from Exonerate_coding2genome GCCCCCCAGGCCAGCTACTTCAGTGAACCCC-ACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCT------TCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTG gtacaacaattccacacagaatgctggattatctctacccttccccctagACCCCCAAGATCAGCAACATCCGATAACCCACACTGAGGAAACTGCATCCTCTGTTGTATTTGCTGCACCCTCCAGTAGTACTCCTAGCTCTGAGGCTCCAACTCCTTCACCAGGGGCTAGAATATCCCCCCCGATTCTTGAAGCAGAAAAGCCTCCTGgtaaagtctaaaaaaaaatcagccagcatgatctaggtggtatggcttga Alignment from GeneWise GCCCCCCAGGCCAGCTACTTCAGTGAACCCC-ACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCT------TCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTG gtacaacaattccacacagaatgctggattatctctacccttccccctagACCCCCAAGATCAGCAACATCCGATAACCCACACTGAGGAAACTGCATCCTCTGTTGTATTTGCTGCACCCTCCAGTAGTACTCCTAGCTCTGAGGCTCCAACTCCTTCACCAGGGGCTAGAATATCCCCCCCGATTCTTGAAGCAGAAAAGCCTCCTGgtaaagtctaaaaaaaaatcagccagcatgatctaggtggtatggcttga #### Taf5_ID10097_5 --> 1 - 0 Original Alignment aATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACC-AAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG acacgtgatttggctcaacaagctgtttcttctctttctgttcactgaagaAGTCCTCTCCCAGAACTAAAGGATTCTGACAAATTAGACAAAATAATGAATATGAAAGAAACTACCCAAACGAGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTACACCTTTGTTAATGCTTACCAGgtgagtaaaaaaatagatactgctatgtcacacagatagccacagttgca Alignment from CESAR aATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACC-AAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG acacgtgatttggctcaacaagctgtttcttctctttctgttcactgaagaAGTCCTCTCCCAGAACTAAAGGATTCTGACAAATTAGACAAAATAATGAATATGAAAGAAACTACCCAAACGAGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTACACCTTTGTTAATGCTTACCAGgtgagtaaaaaaatagatactgctatgtcacacagatagccacagttgca Alignment from Spaln_aa2Genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACC-AAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG acacgtgatttggctcaacaagctgtttcttctctttctgttcactgaagAAGTCCTCTCCCAGAACTAAAGGATTCTGACAAATTAGACAAAATAATGAATATGAAAGAAACTACCcAAACGAGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTACACCTTTGTTAATGCTTACCAGgtgagtaaaaaaatagatactgctatgtcacacagatagccacagttgca Alignment from Spaln_nt2Genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTA-CCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG acacgtgatttggctcaacaagctgtttcttctctttctgttcactgaagAAGTCCTCTCCCAGAACTAAAGGATTCTGACAAATTAGACAAAATAATGAATATGAAAGAAACTACCCAAACGAGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTACACCTTTGTTAATGCTTACCAGgtgagtaaaaaaatagatactgctatgtcacacagatagccacagttgca Alignment from Pairagon AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTA-CCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG acacgtgatttggctcaacaagctgtttcttctctttctgttcactgaagAAGTCCTCTCCCAGAACTAAAGGATTCTGACAAATTAGACAAAATAATGAATATGAAAGAAACTACCCAAACGAGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTACACCTTTGTTAATGCTTACCAGgtgagtaaaaaaatagatactgctatgtcacacagatagccacagttgca Alignment from Exonerate_protein2genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACC-AAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG acacgtgatttggctcaacaagctgtttcttctctttctgttcactgaagAAGTCCTCTCCCAGAACTAAAGGATTCTGACAAATTAGACAAAATAATGAATATGAAAGAAACTACCCAAACGAGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTACACCTTTGTTAATGCTTACCAGgtgagtaaaaaaatagatactgctatgtcacacagatagccacagttgca Alignment from Exonerate_coding2genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACC-AAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG acacgtgatttggctcaacaagctgtttcttctctttctgttcactgaagAAGTCCTCTCCCAGAACTAAAGGATTCTGACAAATTAGACAAAATAATGAATATGAAAGAAACTACCCAAACGAGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTACACCTTTGTTAATGCTTACCAGgtgagtaaaaaaatagatactgctatgtcacacagatagccacagttgca Alignment from GeneWise AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACC-AAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG acacgtgatttggctcaacaagctgtttcttctctttctgttcactgaagAAGTCCTCTCCCAGAACTAAAGGATTCTGACAAATTAGACAAAATAATGAATATGAAAGAAACTACCCAAACGAGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTACACCTTTGTTAATGCTTACCAGgtgagtaaaaaaatagatactgctatgtcacacagatagccacagttgca #### Tbc1d10c_ID398_6 --> 0 - 0 Original Alignment GAGGCCTTCTGGTGC-TTGGTGCAGATCTGCGAGGTCTACCTCCCTGGCTACTATGGGCCCCACATG ctttgtagttagacttccaacgacacatcactgagcagctcattttttagGAGGCCTTTTGGTGTCTTAGTGCAAATCTGTGAGGTTTACCTCCCAGGCTACTATGGGCCCCACATGgtgagtgcttgggtttagagagcaggtttatcaatcttgaatggacaaac Alignment from CESAR GAGGCCTTCTGGTGC-TTGGTGCAGATCTGCGAGGTCTACCTCCCTGGCTACTATGGGCCCCACATG ctttgtagttagacttccaacgacacatcactgagcagctcattttttagGAGGCCTTTTGGTGTCTTAGTGCAAATCTGTGAGGTTTACCTCCCAGGCTACTATGGGCCCCACATGgtgagtgcttgggtttagagagcaggtttatcaatcttgaatggacaaac Alignment from Spaln_aa2Genome GAGGCCTTCTGGTGCTTG-GTGCAGATCTGCGAGGTCTACCTCCCTGGCTACTATGGGCCCCACATG ctttgtagttagacttccaacgacacatcactgagcagctcattttttagGAGGCCTTTTGGTGTCTTaGTGCAAATCTGTGAGGTTTACCTCCCAGGCTACTATGGGCCCCACATGgtgagtgcttgggtttagagagcaggtttatcaatcttgaatggacaaac Alignment from Spaln_nt2Genome GAGGCCTTCTGGTG-CTTGGTGCAGATCTGCGAGGTCTACCTCCCTGGCTACTATGGGCCCCACATG ctttgtagttagacttccaacgacacatcactgagcagctcattttttagGAGGCCTTTTGGTGTCTTAGTGCAAATCTGTGAGGTTTACCTCCCAGGCTACTATGGGCCCCACATGgtgagtgcttgggtttagagagcaggtttatcaatcttgaatggacaaac Alignment from Pairagon GAGGCCTTCTGGTG-CTTGGTGCAGATCTGCGAGGTCTACCTCCCTGGCTACTATGGGCCCCACATG ctttgtagttagacttccaacgacacatcactgagcagctcattttttagGAGGCCTTTTGGTGTCTTAGTGCAAATCTGTGAGGTTTACCTCCCAGGCTACTATGGGCCCCACATGgtgagtgcttgggtttagagagcaggtttatcaatcttgaatggacaaac Alignment from Exonerate_protein2genome GAGGCCTTCTGGTGC-TTGGTGCAGATCTGCGAGGTCTACCTCCCTGGCTACTATGGGCCCCACATG ctttgtagttagacttccaacgacacatcactgagcagctcattttttagGAGGCCTTTTGGTGTCTTAGTGCAAATCTGTGAGGTTTACCTCCCAGGCTACTATGGGCCCCACATGgtgagtgcttgggtttagagagcaggtttatcaatcttgaatggacaaac Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise -GCCTTCTGGTGCTTGGTGCAGATCTGCGAGGTCTACCTCCCTGGCTACTATGGGCCCCACATG ctttgtagttagacttccaacgacacatcactgagcagctcattttttaggagGCCTTTTGGTGTCTTAGTGCAAATCTGTGAGGTTTACCTCCCAGGCTACTATGGGCCCCACATGgtgagtgcttgggtttagagagcaggtttatcaatcttgaatggacaaac #### Tbc1d10c_ID399_5 --> 1 - 0 Original Alignment gCAGCAGGGGCTGCTGCAG-GTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATAC------TGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG ttccaagggcctttatagactgtgcaatcacttcttttctgccctgccagaCAGCAAGGGTTTCTGCAGCGTTATGAAAGCCTATAACCTTCACCACCCGGAACAAGGATATTGTCACTGTCAAGCACAGGGACCTGTAGCTGCAGTTCTTCTCATGCATCTTCCTCCAGAGgtaacatccatttccctagatagaaacagtaatgtatatttactatgatg Alignment from CESAR gCAGCAGGGGCTGCTGCAG-GTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGC------CAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG ttccaagggcctttatagactgtgcaatcacttcttttctgccctgccagaCAGCAAGGGTTTCTGCAGCGTTATGAAAGCCTATAACCTTCACCACCCGGAACAAGGATATTGTCACTGTCAAGCACAGGGACCTGTAGCTGCAGTTCTTCTCATGCATCTTCCTCCAGAGgtaacatccatttccctagatagaaacagtaatgtatatttactatgatg Alignment from Spaln_aa2Genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATAC------TGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG ttccaagggcctttatagactgtgcaatcacttcttttctgccctgccagacagC---AAGGGTTTCTGCAGCGTTATGAAAGCCTATAACCTTCACCACCCGGAACAAGGATATTGTCACTGTCAAGCACAGGGACCTGTAGCTGCAGTTCTTCTCATGCATCTTCCTCCAGAGgtaacatccatttccctagatagaaacagtaatgtatatttactatgatg Alignment from Spaln_nt2Genome GCAGCAGGGGCTGCTGCAG-GTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATA------CTGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG ttccaagggcctttatagactgtgcaatcacttcttttctgccctgccagACAGCAAGGGTTTCTGCAGCGTTATGAAAGCCTATAACCTTCACCACCCGGAACAAGGATATTGTCACTGTCAAGCACAGGGACCTGTAGCTGCAGTTCTTCTCATGCATCTTCCTCCAGAGgtaacatccatttccctagatagaaacagtaatgtatatttactatgatg Alignment from Pairagon GCAGCAGGGGCTGCTGCAG-GTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGAT------ACTGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG ttccaagggcctttatagactgtgcaatcacttcttttctgccctgccagACAGCAAGGGTTTCTGCAGCGTTATGAAAGCCTATAACCTTCACCACCCGGAACAAGGATATTGTCACTGTCAAGCACAGGGACCTGTAGCTGCAGTTCTTCTCATGCATCTTCCTCCAGAGgtaacatccatttccctagatagaaacagtaatgtatatttactatgatg Alignment from Exonerate_protein2genome GCAGCAGGGGCTGCTGCAG-GTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATAC------TGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG ttccaagggcctttatagactgtgcaatcacttcttttctgccctgccagACAGCAAGGGTTTCTGCAGCGTTATGAAAGCCTATAACCTTCACCACCCGGAACAAGGATATTGTCACTGTCAAGCACAGGGACCTGTAGCTGCAGTTCTTCTCATGCATCTTCCTCCAGAGgtaacatccatttccctagatagaaacagtaatgtatatttactatgatg Alignment from Exonerate_coding2genome GCAGCAGGGGCTGCTGCAG-GTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATAC------TGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG ttccaagggcctttatagactgtgcaatcacttcttttctgccctgccagACAGCAAGGGTTTCTGCAGCGTTATGAAAGCCTATAACCTTCACCACCCGGAACAAGGATATTGTCACTGTCAAGCACAGGGACCTGTAGCTGCAGTTCTTCTCATGCATCTTCCTCCAGAGgtaacatccatttccctagatagaaacagtaatgtatatttactatgatg Alignment from GeneWise GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGC------CAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG ttccaagggcctttatagactgtgcaatcacttcttttctgccctgccagacagCAAG---GGTTTCTGCAGCGTTATGAAAGCCTATAACCTTCACCACCCGGAACAAGGATATTGTCACTGTCAAGCACAGGGACCTGTAGCTGCAGTTCTTCTCATGCATCTTCCTCCAGAGgtaacatccatttccctagatagaaacagtaatgtatatttactatgatg #### Tcirg1_ID172_15 --> 0 - 0 Original Alignment GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGC-CACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG GATGAGGAC gtaacaattcaataactatgaccccactctcttgttttgtgttttgtaagGAAGTGGTCCAGTATATCCTAGTCATCTTGGCACTAGCTACTGTCCCCATTTTGCTTCTT---ACCCCC------CTCCTACATGAGCACCAGCCATAGAAGAAACTCCCAAACACGG---GCAGGCCAACAAgttgagacatagtgttgaggagcacttctttgtgtccctagGATGAGGAC Alignment from CESAR GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGC-CACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG GATGAGGAC gtaacaattcaataactatgaccccactctcttgttttgtgttttgtaagGAAGTGGTCCAGTATATCCTAGTCATCTTGGCACTAGCTACTGTCCCCATTTTGCTTCTT---ACCCCC------CTCCTACATGAGCACCAGCCATAGAAGAAACTCCCAAACACGG---GCAGGCCAACAAgttgagacatagtgttgaggatggtttttattctatttcagGATGAGGAC Alignment from Spaln_aa2Genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGC-CACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG GATGAGGAC gtaacaattcaataactatgaccccactctcttgttttgtgttttgtaagGAAGTGGTCCAGTATATCCTAGTCATCTTGGCACTAGCTACTGTCCCCATTTTGCTTCTT---ACCCCC------CTCCTACATGAGCACCAGcCATAGAAGAAACTCCCAAACACGG---GCAGGCCAACAAgttgagacatagtgttgaggagcacttctttgtgtccctagGATGAGGAC Alignment from Spaln_nt2Genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACC-GCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG GATGAGGAC gtaacaattcaataactatgaccccactctcttgttttgtgttttgtaagGAAGTGGTCCAGTATATCCTAGTCATCTTGGCACTAGCTACTGTCCCCATTTTGCTTCT-----TACCC----CCCTCCTACATGAGCACCAGCCATAGAAGAAACTCCCAAACACGG---GCAGGCCAACAAgttgagacatagtgttgaggagcacttctttgtgtccctagGATGAGGAC Alignment from Pairagon GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGC----------------TGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGC-----------------------------------------AGGATGAGGAC gtaacaattcaataactatgaccccactctcttgttttgtgttttgtaagGAAGTGGTCCAGTATATCCTAGTCATCTTGGCACTAGCTACTGTCCCCATTTTGCTTCTTACCCCCCTCCTACATGAGCAC------------------------CAGCCATAGAAGAAACTCCCAAACACGG---GCAGGCCAACAAGTTGAGACATAGTGTTGAGGAGCACTTCTTTGTGTCCCTAGGATGAGGAC Alignment from Exonerate_protein2genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGC-CACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG GATGAGGAC gtaacaattcaataactatgaccccactctcttgttttgtgttttgtaagGAAGTGGTCCAGTATATCCTAGTCATCTTGGCACTAGCTACTGTCCCCATTTTGCTTCTT---ACCCCC------CTCCTACATGAGCACCAGCCATAGAAGAAACTCCCAAACACGG---GCAGGCCAACAAgttgagacatagtgttgaggagcacttctttgtgtccctagGATGAGGAC Alignment from Exonerate_coding2genome gtaacaattcaataactatgaccccactctcttgttttgtgttttgtaaggaagtggtccagtatatcctagtcatcttggcactagctactgtccccattttgcttcttacccccctcctacatgagcaccagccatagaagaaactcccaaacacgggcaggccaacaagttgagacatagtgttgaggagcacttctttgtgtccctaggatgaggac Alignment from GeneWise GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCAC-CGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG GATGAGGAC gtaacaattcaataactatgaccccactctcttgttttgtgttttgtaagGAAGTGGTCCAGTATATCCTAGTCATCTTGGCACTAGCTACTGTCCCCATTTTGCTTCTT---ACCCCCCTC------CTACATGAGCACCAGCCATAGAAGAAACTCCCAAACACGG---GCAGGCCAACAAgttgagacatagtgttgaggagcacttctttgtgtccctagGATGAGGAC #### Tcirg1_ID174_13 --> 0 - 2 Original Alignment ATCTGGAGCCTGGCCACGAAC-CACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACgt accaatgaagtgcgagttgcagtgtattcccgtctgttccccacgcctagCTCTGCAGTCTGGCCACAAACCCACCTGAGCTTTCTCAACTCTTTTAGGATGAAGACATCAGTCATCCTAGGAGTCATACACATGGCATTTGGGGTCTTCCTCAGCATCTTCAATCAGgtgtcagtcatttgattagggtgtagtatgtgctgagtcttgcctcatcctg Alignment from CESAR ATCTGGAGCCTGGCCACGAAC-CACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACgt accaatgaagtgcgagttgcagtgtattcccgtctgttccccacgcctagCTCTGCAGTCTGGCCACAAACCCACCTGAGCTTTCTCAACTCTTTTAGGATGAAGACATCAGTCATCCTAGGAGTCATACACATGGCATTTGGGGTCTTCCTCAGCATCTTCAATCAGgtgtcagtcatttgattagggtgtagtatgtgctgagtcttgcctcatcctg Alignment from Spaln_aa2Genome ATCTGGAGCCTGGCCACGAAC-CACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGT accaatgaagtgcgagttgcagtgtattcccgtctgttccccacgcctagCTCTGCAGTCTGGCCACAAACcCACCTGAGCTTTCTCAACTCTTTTAGGATGAAGACATCAGTCATCCTAGGAGTCATACACATGGCATTTGGGGTCTTCCTCAGCATCTTCAATCAGGTgtcagtcatttgattagggtgtagtatgtgctgagtcttgcctcatcctg Alignment from Spaln_nt2Genome ATCTGGAGCCTGGCCACGAACC-ACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGT accaatgaagtgcgagttgcagtgtattcccgtctgttccccacgcctagCTCTGCAGTCTGGCCACAAACCCACCTGAGCTTTCTCAACTCTTTTAGGATGAAGACATCAGTCATCCTAGGAGTCATACACATGGCATTTGGGGTCTTCCTCAGCATCTTCAATCAGGTgtcagtcatttgattagggtgtagtatgtgctgagtcttgcctcatcctg Alignment from Pairagon ATCTGGAGCCTGGCCACGAA-CCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGT accaatgaagtgcgagttgcagtgtattcccgtctgttccccacgcctagCTCTGCAGTCTGGCCACAAACCCACCTGAGCTTTCTCAACTCTTTTAGGATGAAGACATCAGTCATCCTAGGAGTCATACACATGGCATTTGGGGTCTTCCTCAGCATCTTCAATCAGGTgtcagtcatttgattagggtgtagtatgtgctgagtcttgcctcatcctg Alignment from Exonerate_protein2genome ATCTGGAGCCTGGCCACGAAC-CACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGT accaatgaagtgcgagttgcagtgtattcccgtctgttccccacgcctagCTCTGCAGTCTGGCCACAAACCCACCTGAGCTTTCTCAACTCTTTTAGGATGAAGACATCAGTCATCCTAGGAGTCATACACATGGCATTTGGGGTCTTCCTCAGCATCTTCAATCAGGTgtcagtcatttgattagggtgtagtatgtgctgagtcttgcctcatcctg Alignment from Exonerate_coding2genome accaatgaagtgcgagttgcagtgtattcccgtctgttccccacgcctagctctgcagtctggccacaaacccacctgagctttctcaactcttttaggatgaagacatcagtcatcctaggagtcatacacatggcatttggggtcttcctcagcatcttcaatcaggtgtcagtcatttgattagggtgtagtatgtgctgagtcttgcctcatcctg Alignment from GeneWise ATCTGGAGCCTGGCCACG-AACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGT accaatgaagtgcgagttgcagtgtattcccgtctgttccccacgcctagCTCTGCAGTCTGGCCACAAACCCACCTGAGCTTTCTCAACTCTTTTAGGATGAAGACATCAGTCATCCTAGGAGTCATACACATGGCATTTGGGGTCTTCCTCAGCATCTTCAATCAGGTgtcagtcatttgattagggtgtagtatgtgctgagtcttgcctcatcctg #### Tcirg1_ID181_6 --> 0 - 2 Original Alignment CAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAG-ATCGGACAGAAGATCCGAAAGATCACAGACtg CAGTGGCAgtgagtttagtggcaggacatgctcatggtgctttccactagGGTGAACCTGCAACCTGGATGACCTTTATCATTTCCTACTGGGGTGAGCAGCATTGGTCAGAAGATCCGAAAGATCACAGATtggtgagaaggtcagttgctgctcttggtgcattgattacttattgacaact Alignment from CESAR CAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAG-ATCGGACAGAAGATCCGAAAGATCACAGACtg CAGTGGCAgtactcttagtggcaggacatgctcatggtgctttccactagGGTGAACCTGCAACCTGGATGACCTTTATCATTTCCTACTGGGGTGAGCAGCATTGGTCAGAAGATCCGAAAGATCACAGATtggtgagaaggtcagttgctgctcttggtgcattgattacttattgacaact Alignment from Spaln_aa2Genome CAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAG-ATCGGACAGAAGATCCGAAAGATCACAGACTG CAGTGGCAgtgagtttagtggcaggacatgctcatggtgctttccactagGGTGAACCTGCAACCTGGATGACCTTTATCATTTCCTACTGGGGTGAGCAGcATTGGTCAGAAGATCCGAAAGATCACAGATTGgtgagaaggtcagttgctgctcttggtgcattgattacttattgacaact Alignment from Spaln_nt2Genome CAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAG-ATCGGACAGAAGATCCGAAAGATCACAGACTG CAGTGGCAgtgagtttagtggcaggacatgctcatggtgctttccactagGGTGAACCTGCAACCTGGATGACCTTTATCATTTCCTACTGGGGTGAGCAGCATTGGTCAGAAGATCCGAAAGATCACAGATTGgtgagaaggtcagttgctgctcttggtgcattgattacttattgacaact Alignment from Pairagon CAGTGAC------------------------------------------GGGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAG-ATCGGACAGAAGATCCGAAAGATCACAGACTG CAGTGGCAGTGAGTTTAGTGGCAGGACATGCTCATGGTGCTTTCCACTAGGGTGAACCTGCAACCTGGATGACCTTTATCATTTCCTACTGGGGTGAGCAGCATTGGTCAGAAGATCCGAAAGATCACAGATTGgtgagaaggtcagttgctgctcttggtgcattgattacttattgacaact Alignment from Exonerate_protein2genome CAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAG-ATCGGACAGAAGATCCGAAAGATCACAGACTG CAGTGGCAgtgagtttagtggcaggacatgctcatggtgctttccactagGGTGAACCTGCAACCTGGATGACCTTTATCATTTCCTACTGGGGTGAGCAGCATTGGTCAGAAGATCCGAAAGATCACAGATTGgtgagaaggtcagttgctgctcttggtgcattgattacttattgacaact Alignment from Exonerate_coding2genome CAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAG-ATCGGACAGAAGATCCGAAAGATCACAGACTG CAGTGGCAgtgagtttagtggcaggacatgctcatggtgctttccactagGGTGAACCTGCAACCTGGATGACCTTTATCATTTCCTACTGGGGTGAGCAGCATTGGTCAGAAGATCCGAAAGATCACAGATTGgtgagaaggtcagttgctgctcttggtgcattgattacttattgacaact Alignment from GeneWise CAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAG-ATCGGACAGAAGATCCGAAAGATCACAGACTG CAGTGGCAgtgagtttagtggcaggacatgctcatggtgctttccactagGGTGAACCTGCAACCTGGATGACCTTTATCATTTCCTACTGGGGTGAGCAGCATTGGTCAGAAGATCCGAAAGATCACAGATTGgtgagaaggtcagttgctgctcttggtgcattgattacttattgacaact #### Tcirg1_ID182_5 --> 1 - 0 Original Alignment tTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTT-CGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aaggagggggagtggagagaagtctacaaacccaccttcctttttttcagcTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTACAGCCTTGGAGCGTCTGCTGTGGAGAGCATGCCGTGGCTTTCTTATTGCAAGTTTTCCGTGAGACTGAAGGGCAGTTGAAGGATCCAGTGGCAgtactcttagtggcaggacatgaattctggttctggggacagGGTGAACC Alignment from CESAR tTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTT-CGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aaggagggggagtggagagaagtctacaaacccaccttcctttttttcagcTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTACAGCCTTGGAGCGTCTGCTGTGGAGAGCATGCCGTGGCTTTCTTATTGCAAGTTTTCCGTGAGACTGAAGGGCAGTTGAAGGATCCAGTGGCAgtactcttagtggcaggacatgctcatggtgctttccactagGGTGAACC Alignment from Spaln_aa2Genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTT-CGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aaggagggggagtggagagaagtctacaaacccaccttcctttttttcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTACAGCCTTGGAGCGTCTGCTGTGGAGAGCATGCCGTGGCTTTCTTATTGCAAGTTTTcCGTGAGACTGAAGGGCAGTTGAAGGATCCAGTGGCAgtactcttagtggcaggacatgaattctggttctggggacagGGTGAACC Alignment from Spaln_nt2Genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGG-GAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aaggagggggagtggagagaagtctacaaacccaccttcctttttttcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTACAGCCTTGGAGCGTCTGCTGTGGAGAGCATGCCGTGGCTTTCTTATTGCAAGTTTTCCGTGAGACTGAAGGGCAGTTGAAGGATCCAGTGGCAgtactcttagtggcaggacatgaattctggttctggggacagGGTGAACC Alignment from Pairagon TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGG-GAGACTGAGGGGCAGCTGGAGGACCCAGTGAC------------------------------------------GGGTGAGCC aaggagggggagtggagagaagtctacaaacccaccttcctttttttcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTACAGCCTTGGAGCGTCTGCTGTGGAGAGCATGCCGTGGCTTTCTTATTGCAAGTTTTCCGTGAGACTGAAGGGCAGTTGAAGGATCCAGTGGCAGTACTCTTAGTGGCAGGACATGAATTCTGGTTCTGGGGACAGGGTGAACC Alignment from Exonerate_protein2genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGC-TTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aaggagggggagtggagagaagtctacaaacccaccttcctttttttcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTACAGCCTTGGAGCGTCTGCTGTGGAGAGCATGCCGTGGCTTTCTTATTGCAAGTTTTCCGTGAGACTGAAGGGCAGTTGAAGGATCCAGTGGCAgtactcttagtggcaggacatgaattctggttctggggacagGGTGAACC Alignment from Exonerate_coding2genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGC-TTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aaggagggggagtggagagaagtctacaaacccaccttcctttttttcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTACAGCCTTGGAGCGTCTGCTGTGGAGAGCATGCCGTGGCTTTCTTATTGCAAGTTTTCCGTGAGACTGAAGGGCAGTTGAAGGATCCAGTGGCAgtactcttagtggcaggacatgaattctggttctggggacagGGTGAACC Alignment from GeneWise TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCC-AGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG------------------------------------------GGTGAGCC aaggagggggagtggagagaagtctacaaacccaccttcctttttttcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTACAGCCTTGGAGCGTCTGCTGTGGAGAGCATGCCGTGGCTTTCTTATTGCAAGTTTTCCGTGAGACTGAAGGGCAGTTGAAGGATCCAGTGGCAGTACTCTTAGTGGCAGGACATGAATTCTGGTTCTGGGGACAGGGTGAACC #### Tctn3_ID7990_11 --> 0 - 2 Original Alignment ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTA-TCTGGGTGCCAGTTAag ttgtattctttaacaatcccttatcactctgctgctttctgtcatgtcagATGACCCTACTGCAGAGCGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAATTTGGTGTGAATGCATTCCTCTGGGTGCCAATTGaggtgagcggcttgtatgaaatgaccctgtgatgaggctttacctagttgga Alignment from CESAR ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTA-TCTGGGTGCCAGTTAag ttgtattctttaacaatcccttatcactctgctgctttctgtcatgtcagATGACCCTACTGCAGAGCGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAATTTGGTGTGAATGCATTCCTCTGGGTGCCAATTGaggtgagcggcttgtatgaaatgaccctgtgatgaggctttacctagttgga Alignment from Spaln_aa2Genome ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCA-GTATCTGGGTGCCAGTTAAG ttgtattctttaacaatcccttatcactctgctgctttctgtcatgtcagATGACCCTACTGCAGAGCGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAATTTGGTGTGAATGCAtTCCTCTGGGTGCCAATTGAGgtgagcggcttgtatgaaatgaccctgtgatgaggctttacctagttgga Alignment from Spaln_nt2Genome ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTA-TCTGGGTGCCAGTTAAG ttgtattctttaacaatcccttatcactctgctgctttctgtcatgtcagATGACCCTACTGCAGAGCGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAATTTGGTGTGAATGCATTCCTCTGGGTGCCAATTGAGgtgagcggcttgtatgaaatgaccctgtgatgaggctttacctagttgga Alignment from Pairagon ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGT-ATCTGGGTGCCAGTTAAG ttgtattctttaacaatcccttatcactctgctgctttctgtcatgtcagATGACCCTACTGCAGAGCGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAATTTGGTGTGAATGCATTCCTCTGGGTGCCAATTGAGgtgagcggcttgtatgaaatgaccctgtgatgaggctttacctagttgga Alignment from Exonerate_protein2genome ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTA-TCTGGGTGCCAGTTAAG ttgtattctttaacaatcccttatcactctgctgctttctgtcatgtcagATGACCCTACTGCAGAGCGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAATTTGGTGTGAATGCATTCCTCTGGGTGCCAATTGAGgtgagcggcttgtatgaaatgaccctgtgatgaggctttacctagttgga Alignment from Exonerate_coding2genome ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTA-TCTGGGTGCCAGTTAAG ttgtattctttaacaatcccttatcactctgctgctttctgtcatgtcagATGACCCTACTGCAGAGCGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAATTTGGTGTGAATGCATTCCTCTGGGTGCCAATTGAGgtgagcggcttgtatgaaatgaccctgtgatgaggctttacctagttgga Alignment from GeneWise ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCA-GTATCTGGGTGCCAGTTAAG ttgtattctttaacaatcccttatcactctgctgctttctgtcatgtcagATGACCCTACTGCAGAGCGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAATTTGGTGTGAATGCATTCCTCTGGGTGCCAATTGAGgtgagcggcttgtatgaaatgaccctgtgatgaggctttacctagttgga #### Tctn3_ID7995_6 --> 2 - 0 Original Alignment GTGCCGAGAGCAACCCTGCAg gtTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAAC-TTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAggtaggctagttttctcttggggaatgtaggaTTTCTAGAGACTAAGAGCATGACCTCTTCCCGTTTCCTAAAGGACCTATCTGGTAGCTATAGCTCTGAGCCAGCTCTGGATGCAGTTTCGGACTACAACCTTTAGAGTCTTGAGGgtccgtaatagccgggtttctgcagcttctgatttctaaatggtaggcac Alignment from CESAR GTGCCGAGAGCAACCCTGCAg gtTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAAC-TTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAggttgtgtagttttctcttggggaatgtaggaTTTCTAGAGACTAAGAGCATGACCTCTTCCCGTTTCCTAAAGGACCTATCTGGTAGCTATAGCTCTGAGCCAGCTCTGGATGCAGTTTCGGACTACAACCTTTAGAGTCTTGAGGgtccgtaatagccgggtttctgcagcttctgatttctaaatggtaggcac Alignment from Spaln_aa2Genome GTGCCGAGAGCAACCCTGCA-----------------------------GGTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAAC-TTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAGGTAGGCTAGTTTTCTCTTGGGGAATGtaGGATTTCTAGAGACTAAGAGCATGACCTCTTCCCGTTTCCTAAAGGACCTATCTGGTAGCTATAGCTCTGAGCCAGCTCTGGATGCAGTTTCGGACTACAACcTTTAGAGTCTTGAGGgtccgtaatagccgggtttctgcagcttctgatttctaaatggtaggcac Alignment from Spaln_nt2Genome GTGCCGAGAGCAACCCTGCAGGT-----------------------------TTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAAC-TTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAGGTAGGCTAGTTTTCTCTTGGGGAATGTAGGATTTCTAGAGACTAAGAGCATGACCTCTTCCCGTTTCCTAAAGGACCTATCTGGTAGCTATAGCTCTGAGCCAGCTCTGGATGCAGTTTCGGACTACAACCTTTAGAGTCTTGAGGgtccgtaatagccgggtttctgcagcttctgatttctaaatggtaggcac Alignment from Pairagon GTGCCGAGAGCAACCCTGCAGGT-----------------------------TTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAA-CTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAGGTAGGCTAGTTTTCTCTTGGGGAATGTAGGATTTCTAGAGACTAAGAGCATGACCTCTTCCCGTTTCCTAAAGGACCTATCTGGTAGCTATAGCTCTGAGCCAGCTCTGGATGCAGTTTCGGACTACAACCTTTAGAGTCTTGAGGgtccgtaatagccgggtttctgcagcttctgatttctaaatggtaggcac Alignment from Exonerate_protein2genome CCGAGA GCAACCCTGCAGGTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAAC-TTCAGAGTCTTGAAG CAGAGAgcaacccagcaggtaggctagttttctcttggGGAAT---GTAGGATTTCTAGAGACTAAGAGCATGACCTCTTCCCGTTTCCTAAAGGACCTATCTGGTAGCTATAGCTCTGAGCCAGCTCTGGATGCAGTTTCGGACTACAACCTTTAGAGTCTTGAGGgtccgtaatagccgggtttctgcagcttctgatttctaaatggtaggcac Alignment from Exonerate_coding2genome gtgcagagagcaacccagcaggtaggctagttttctcttggggaatgtaggatttctagagactaagagcatgacctcttcccgtttcctaaaggacctatctggtagctatagctctgagccagctctggatgcagtttcggactacaacctttagagtcttgagggtccgtaatagccgggtttctgcagcttctgatttctaaatggtaggcac Alignment from GeneWise GTGCCGAGAGCAACCCTGCAG GTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTAT-AACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAGgtaggctagttttctcttggggaatgtagGATTTCTAGAGACTAAGAGCATGACCTCTTCCCGTTTCCTAAAGGACCTATCTGGTAGCTATAGCTCTGAGCCAGCTCTGGATGCAGTTTCGGACTACAACCTTTAGAGTCTTGAGGgtccgtaatagccgggtttctgcagcttctgatttctaaatggtaggcac #### Tdrd1_ID12204_5 --> 1 - 0 Original Alignment tTTGAACAAGCTTGAAGATAATAAATCACCATTTGAAACAAAG-GCCATTGAAGTGAAGAGTGAG tcttagagttgtagtgagtccaccaactctgccatcatgcgctttgaaagcTTGAATAAGCTTGAAGATAATATATCCCCATACGAGACAAAGCGCAGTCAAAATTAAGAGTGAAgtgaattagacactcataattgaggtagattgtgagaccctgtctcataa Alignment from CESAR tTTGAACAAGCTTGAAGATAATAAATCACCATTTGAAACAAAG-GCCATTGAAGTGAAGAGTGAG tcttagagttgtagtgagtccaccaactctgccatcatgcgctttgaaagcTTGAATAAGCTTGAAGATAATATATCCCCATACGAGACAAAGCGCAGTCAAAATTAAGAGTGAAgtgaattagacactcataattgaggtagattgtgagaccctgtctcataa Alignment from Spaln_aa2Genome TTTGAACAAGCTTGAAGATAATAAATCACCATTTGAAACAAAG-GCCATTGAAGTGAAGAGTGAG tcttagagttgtagtgagtccaccaactctgccatcatgcgctttgaaagCTTGAATAAGCTTGAAGATAATATATCCCCATACGAGACAAAGcGCAGTCAAAATTAAGAGTGAAgtgaattagacactcataattgaggtagattgtgagaccctgtctcataa Alignment from Spaln_nt2Genome TTTGAACAAGCTTGAAGATAATAAATCACCATTTGAAACAAAGGCCATTGAAG-TGAAGAGTGAG tcttagagttgtagtgagtccaccaactctgccatcatgcgctttgaaagCTTGAATAAGCTTGAAGATAATATATCCCCATACGAGACAAAGCGCAGTCAAAATTAAGAGTGAAgtgaattagacactcataattgaggtagattgtgagaccctgtctcataa Alignment from Pairagon TTTGAACAAGCTTGAAGATAATAAATCACCATTTGAAACAAAG-GCCATTGAAGTGAAGAGTGAG tcttagagttgtagtgagtccaccaactctgccatcatgcgctttgaaagCTTGAATAAGCTTGAAGATAATATATCCCCATACGAGACAAAGCGCAGTCAAAATTAAGAGTGAAgtgaattagacactcataattgaggtagattgtgagaccctgtctcataa Alignment from Exonerate_protein2genome TTTGAACAAGCTTGAAGATAATAAATCACCATTTGAAACAAAG-GCCATTGAAGTGAAGAGTGAG tcttagagttgtagtgagtccaccaactctgccatcatgcgctttgaaagCTTGAATAAGCTTGAAGATAATATATCCCCATACGAGACAAAGCGCAGTCAAAATTAAGAGTGAAgtgaattagacactcataattgaggtagattgtgagaccctgtctcataa Alignment from Exonerate_coding2genome tcttagagttgtagtgagtccaccaactctgccatcatgcgctttgaaagcttgaataagcttgaagataatatatccccatacgagacaaagcgcagtcaaaattaagagtgaagtgaattagacactcataattgaggtagattgtgagaccctgtctcataa Alignment from GeneWise TTTGAACAAGCTTGAAGATAATAAATCACCATTTGAAACAAAG-GCCATTGAAGTGAAGAGTGAG tcttagagttgtagtgagtccaccaactctgccatcatgcgctttgaaagCTTGAATAAGCTTGAAGATAATATATCCCCATACGAGACAAAGCGCAGTCAAAATTAAGAGTGAAgtgaattagacactcataattgaggtagattgtgagaccctgtctcataa #### Tdrd1_ID12222_23 --> 2 - 0 Original Alignment agATACCACACAGCAGAGAC-TGCTGTTGCACAGAGTTACAGAAACAG tgtgtgaccatagcaaccacccaattctcccacccttgaattgtttgcagagATACCTCACAGTAGGGACCTGCTGTTGCACAGAATTACAGAAACAGgtgaggatttacagccttctcaacaagctgtctcccctgcacatcgaact Alignment from CESAR agATACCACACAGCAGAGAC-TGCTGTTGCACAGAGTTACAGAAACAG tgtgtgaccatagcaaccacccaattctcccacccttgaattgtttgcagagATACCTCACAGTAGGGACCTGCTGTTGCACAGAATTACAGAAACAGgtgaggatttacagccttctcaacaagctgtctcccctgcacatcgaact Alignment from Spaln_aa2Genome AGATACCACACAGCAGAGAC-TGCTGTTGCACAGAGTTACAGAAACAG tgtgtgaccatagcaaccacccaattctcccacccttgaattgtttgcagAGATACCTCACAGTAGGGACcTGCTGTTGCACAGAATTACAGAAACAGgtgaggatttacagccttctcaacaagctgtctcccctgcacatcgaact Alignment from Spaln_nt2Genome AGATACCACACAGCAGAGAC-TGCTGTTGCACAGAGTTACAGAAACAG tgtgtgaccatagcaaccacccaattctcccacccttgaattgtttgcagAGATACCTCACAGTAGGGACCTGCTGTTGCACAGAATTACAGAAACAGgtgaggatttacagccttctcaacaagctgtctcccctgcacatcgaact Alignment from Pairagon AGATACCACACAGCAGAGA-CTGCTGTTGCACAGAGTTACAGAAACAG tgtgtgaccatagcaaccacccaattctcccacccttgaattgtttgcagAGATACCTCACAGTAGGGACCTGCTGTTGCACAGAATTACAGAAACAGgtgaggatttacagccttctcaacaagctgtctcccctgcacatcgaact Alignment from Exonerate_protein2genome TGTGTGGCCTGGCAGAAAACCTCACTTCTAAAAGGAAAAGTGCTTCCACTAAAGAGATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG TGTGTGACCATAGCAACCACCCAATTCTCCCACCCTTGAATTGTTTGCAGAGATACCTCACAGTAGGGACCTGCTGTTGC---ACAGAATTACAGAAACAGgtgaggatttacagccttctcaacaagctgtctcccctgcacatcgaact Alignment from Exonerate_coding2genome TGTGTGGCCTGGCAGAAAACCTCACTTCTAAAAGGAAAAGTGCTTCCACTAAAGAGATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG TGTGTGACCATAGCAACCACCCAATTCTCCCACCCTTGAATTGTTTGCAGAGATACCTCACAGTAGGGACCTGCTGTTGC---ACAGAATTACAGAAACAGgtgaggatttacagccttctcaacaagctgtctcccctgcacatcgaact Alignment from GeneWise tgtgtgaccatagcaaccacccaattctcccacccttgaattgtttgcagagatacctcacagtagggacctgctgttgcacagaattacagaaacaggtgaggatttacagccttctcaacaagctgtctcccctgcacatcgaact #### Tjp2_ID5272_15 --> 2 - 1 Original Alignment ctGGCTTCAAGAGACCCGTGGTTCTGTTTGGCCCCATAGCAGATATAGCAATGGAAAGGTTGGCAACTGAGTTACCA-GACCTGTTTCAAACTGCAa tagatgtggcgtttatagtgaacgactcctctcaatctctccttgagcagctGGCTTTAAAGTAGCTGTGGATCTAGTTGGCCCCATAGTGGACATTGCTATGGACAGGTTGGCTACTGAATTGCCACGATCTATTCCAAATGGCAagtaaaggtgtcacctctttacctatcaccatgaagctatgtacggtgcta Alignment from CESAR ctGGCTTCAAGAGACCCGTGGTTCTGTTTGGCCCCATAGCAGATATAGCAATGGAAAGGTTGGCAACTGAGTTACCA-GACCTGTTTCAAACTGCAa tagatgtggcgtttatagtgaacgactcctctcaatctctccttgagcagctGGCTTTAAAGTAGCTGTGGATCTAGTTGGCCCCATAGTGGACATTGCTATGGACAGGTTGGCTACTGAATTGCCACGATCTATTCCAAATGGCAagtaaaggtgtcacctctttacctatcaccatgaagctatgtacggtgcta Alignment from Spaln_aa2Genome CTGGCTTCAAGAGACCCGTGGTTCTGTTTGGCCCCATAGCAGATATAGCAATGGAAAGGTTGGCAACTGAGTTACCA-GACCTGTTTCAAACTGCAA tagatgtggcgtttatagtgaacgactcctctcaatctctccttgagcagCTGGCTTTAAAGTAGCTGTGGATCTAGTTGGCCCCATAGTGGACATTGCTATGGACAGGTTGGCTACTGAATTGCCAcGATCTATTCCAAATGGCAAgtaaaggtgtcacctctttacctatcaccatgaagctatgtacggtgcta Alignment from Spaln_nt2Genome CTGGCTTCAAGAGACCCGTGGTTCTGTTTGGCCCCATAGCAGATATAGCAATGGAAAGGTTGGCAACTGAGTTACCA-GACCTGTTTCAAACTGCAA tagatgtggcgtttatagtgaacgactcctctcaatctctccttgagcagCTGGCTTTAAAGTAGCTGTGGATCTAGTTGGCCCCATAGTGGACATTGCTATGGACAGGTTGGCTACTGAATTGCCACGATCTATTCCAAATGGCAAgtaaaggtgtcacctctttacctatcaccatgaagctatgtacggtgcta Alignment from Pairagon CTGGCTTCAAGAGACCCGTGGTTCTGTTTGGCCCCATAGCAGATATAGCAATGGAAAGGTTGGCAACTGAGTTACCA-GACCTGTTTCAAACTGCAA tagatgtggcgtttatagtgaacgactcctctcaatctctccttgagcagCTGGCTTTAAAGTAGCTGTGGATCTAGTTGGCCCCATAGTGGACATTGCTATGGACAGGTTGGCTACTGAATTGCCACGATCTATTCCAAATGGCAAgtaaaggtgtcacctctttacctatcaccatgaagctatgtacggtgcta Alignment from Exonerate_protein2genome CTGGCTTCAAGAGACCCGTGGTTCTGTTTGGCCCCATAGCAGATATAGCAATGGAAAGGTTGGCAACTGAGTTACCA-GACCTGTTTCAAACTGCAA tagatgtggcgtttatagtgaacgactcctctcaatctctccttgagcagCTGGCTTTAAAGTAGCTGTGGATCTAGTTGGCCCCATAGTGGACATTGCTATGGACAGGTTGGCTACTGAATTGCCACGATCTATTCCAAATGGCAAgtaaaggtgtcacctctttacctatcaccatgaagctatgtacggtgcta Alignment from Exonerate_coding2genome CTGGCTTCAAGAGACCCGTGGTTCTGTTTGGCCCCATAGCAGATATAGCAATGGAAAGGTTGGCAACTGAGTTACCA-GACCTGTTTCAAACTGCAA tagatgtggcgtttatagtgaacgactcctctcaatctctccttgagcagCTGGCTTTAAAGTAGCTGTGGATCTAGTTGGCCCCATAGTGGACATTGCTATGGACAGGTTGGCTACTGAATTGCCACGATCTATTCCAAATGGCAAgtaaaggtgtcacctctttacctatcaccatgaagctatgtacggtgcta Alignment from GeneWise CTGGCTTCAAGAGACCCGTGGTTCTGTTTGGCCCCATAGCAGATATAGCAATGGAAAGGTTGGCAACTGAGTTACCA-GACCTGTTTCAAACTGCAA tagatgtggcgtttatagtgaacgactcctctcaatctctccttgagcagCTGGCTTTAAAGTAGCTGTGGATCTAGTTGGCCCCATAGTGGACATTGCTATGGACAGGTTGGCTACTGAATTGCCACGATCTATTCCAAATGGCAAgtaaaggtgtcacctctttacctatcaccatgaagctatgtacggtgcta #### Tjp2_ID5273_14 --> 1 - 1 Original Alignment aGCCGAGCAAATGGCCAGTGTCCAGAATGCCCAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAAC----CTCCGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAg gttcttgatgagcttgacagagtatgagcgatgatctcttgtgaccacaggGCTGAGCAAATAGCAAGTGTTCAAAATGCTCAACAGGAGAACCCTGGTGATCAAACAGACTTCTGGCAGATGCATGGCCAGAGGCCCAGCAGCTGCATTAAGAAGAACTTACTTACACAAGAGCCATGAGGATCTCGCTGCTGCTGTATCTGTCAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGggtaaggtaagtgcctgtatatgagcactctggcccttcctagtcctgagg Alignment from CESAR aGCCGAGCAAATGGCCAGTGTCCAGAATGCCCAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAAC---CTC-CGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAg gttcttgatgagcttgacagagtatgagcgatgatctcttgtgaccacaggGCTGAGCAAATAGCAAGTGTTCAAAATGCTCAACAGGAGAACCCTGGTGATCAAACAGACTTCTGGCAGATGCATGGCCAGAGGCCCAGCAGCTGCATTAAGAAGAACTTACTTACACAAGAGCCATGAGGATCTCGCTGCTGCTGTATCTGTCAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGggtaaggtaagtgcctgtatatgagcactctggcccttcctagtcctgagg Alignment from Spaln_aa2Genome AGCCGAGCAAATGGCCAGTGTCCAGAATGCCCAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAACCTC----CGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAG gttcttgatgagcttgacagagtatgagcgatgatctcttgtgaccacagGGCTGAGCAAATAGCAAGTGTTCAAAATGCTCAACAGGAGAACCCTGGTGATCAAACAGACTTCTGGCAGATGCATGGCCAGAGGCCCAGCAGCTGCATTAAGAAGAACTTACTTaCACAAGAGCCATGAGGATCTCGCTGCTGCTGTATCTGTCAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGGgtaaggtaagtgcctgtatatgagcactctggcccttcctagtcctgagg Alignment from Spaln_nt2Genome AGCCGAGCAAATGGCCAGTGTCCAGAATGCCCAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAACCTCCG----CAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAG gttcttgatgagcttgacagagtatgagcgatgatctcttgtgaccacagGGCTGAGCAAATAGCAAGTGTTCAAAATGCTCAACAGGAGAACCCTGGTGATCAAACAGACTTCTGGCAGATGCATGGCCAGAGGCCCAGCAGCTGCATTAAGAAGAACTTACTTACACAAGAGCCATGAGGATCTCGCTGCTGCTGTATCTGTCAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGGgtaaggtaagtgcctgtatatgagcactctggcccttcctagtcctgagg Alignment from Pairagon AGCCGAGCAAATGGCCAGTGTCCAGAATGCCCAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGA----ACCTCCGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAG gttcttgatgagcttgacagagtatgagcgatgatctcttgtgaccacagGGCTGAGCAAATAGCAAGTGTTCAAAATGCTCAACAGGAGAACCCTGGTGATCAAACAGACTTCTGGCAGATGCATGGCCAGAGGCCCAGCAGCTGCATTAAGAAGAACTTACTTACACAAGAGCCATGAGGATCTCGCTGCTGCTGTATCTGTCAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGGgtaaggtaagtgcctgtatatgagcactctggcccttcctagtcctgagg Alignment from Exonerate_protein2genome AGCCGAGCAAATGGCCAGTGTCCAGAATGCCCAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAAC----CTCCGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAG gttcttgatgagcttgacagagtatgagcgatgatctcttgtgaccacagGGCTGAGCAAATAGCAAGTGTTCAAAATGCTCAACAGGAGAACCCTGGTGATCAAACAGACTTCTGGCAGATGCATGGCCAGAGGCCCAGCAGCTGCATTAAGAAGAACTTACTTACACAAGAGCCATGAGGATCTCGCTGCTGCTGTATCTGTCAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGGgtaaggtaagtgcctgtatatgagcactctggcccttcctagtcctgagg Alignment from Exonerate_coding2genome AGCCGAGCAAATGGCCAGTGTCCAGAATGCCCAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAAC----CTCCGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAG gttcttgatgagcttgacagagtatgagcgatgatctcttgtgaccacagGGCTGAGCAAATAGCAAGTGTTCAAAATGCTCAACAGGAGAACCCTGGTGATCAAACAGACTTCTGGCAGATGCATGGCCAGAGGCCCAGCAGCTGCATTAAGAAGAACTTACTTACACAAGAGCCATGAGGATCTCGCTGCTGCTGTATCTGTCAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGGgtaaggtaagtgcctgtatatgagcactctggcccttcctagtcctgagg Alignment from GeneWise AGCCGAGCAAATGGCCAGTGTCCAGAATGCCCAGCGAGAGAACGCCGGGGACAGAGCAGACTTCTGGCGGATGCGTGGCCAGAGATCCAGCGGCGGCGTCAAGAAGAAC---CTC-CGCAAGAGCCGGGAAGACCTGGCGGCTGCTGTATCGGTTAGCACCAAGTTCCCTGCCTACGAGAAGGTTCTGCTTCGGGAAG gttcttgatgagcttgacagagtatgagcgatgatctcttgtgaccacagGGCTGAGCAAATAGCAAGTGTTCAAAATGCTCAACAGGAGAACCCTGGTGATCAAACAGACTTCTGGCAGATGCATGGCCAGAGGCCCAGCAGCTGCATTAAGAAGAACTTACTTACACAAGAGCCATGAGGATCTCGCTGCTGCTGTATCTGTCAGCACTCAGTACCCTGCCTATGAGGAAGTGCTCCTTCAAGAGGgtaaggtaagtgcctgtatatgagcactctggcccttcctagtcctgagg #### Tle4_ID3619_18 --> 0 - 1 Original Alignment ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGG-ATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTg tttgcttcacagcaaggtgttgtcaaccttttctgttctttactacttagACTTTTTCATTGGGATATTGCCCTACTGGAAAGTGGCTTGCAGTGGGCCATGGAAAATAGCAACGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCTTGTCCCTCAAGTTTGCCCAATGCagtgaggatacactcaacatctggcattgcttgctgtgaaataaacttact Alignment from CESAR ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGG-ATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTg tttgcttcacagcaaggtgttgtcaaccttttctgttctttactacttagACTTTTTCATTGGGATATTGCCCTACTGGAAAGTGGCTTGCAGTGGGCCATGGAAAATAGCAACGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCTTGTCCCTCAAGTTTGCCCAATGCagtgaggatacactcaacatctggcattgcttgctgtgaaataaacttact Alignment from Spaln_aa2Genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGG-ATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcacagcaaggtgttgtcaaccttttctgttctttactacttagACTTTTTCATTGGGATATTGCCCTACTGGAAAGTGGCTTGCAGTGGGCcATGGAAAATAGCAACGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCTTGTCCCTCAAGTTTGCCCAATGCAgtgaggatacactcaacatctggcattgcttgctgtgaaataaacttact Alignment from Spaln_nt2Genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGG-ATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcacagcaaggtgttgtcaaccttttctgttctttactacttagACTTTTTCATTGGGATATTGCCCTACTGGAAAGTGGCTTGCAGTGGGCCATGGAAAATAGCAACGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCTTGTCCCTCAAGTTTGCCCAATGCAgtgaggatacactcaacatctggcattgcttgctgtgaaataaacttact Alignment from Pairagon ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGG-GATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcacagcaaggtgttgtcaaccttttctgttctttactacttagACTTTTTCATTGGGATATTGCCCTACTGGAAAGTGGCTTGCAGTGGGCCATGGAAAATAGCAACGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCTTGTCCCTCAAGTTTGCCCAATGCAgtgaggatacactcaacatctggcattgcttgctgtgaaataaacttact Alignment from Exonerate_protein2genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGG-ATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcacagcaaggtgttgtcaaccttttctgttctttactacttagACTTTTTCATTGGGATATTGCCCTACTGGAAAGTGGCTTGCAGTGGGCCATGGAAAATAGCAACGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCTTGTCCCTCAAGTTTGCCCAATGCAgtgaggatacactcaacatctggcattgcttgctgtgaaataaacttact Alignment from Exonerate_coding2genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGG-ATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcacagcaaggtgttgtcaaccttttctgttctttactacttagACTTTTTCATTGGGATATTGCCCTACTGGAAAGTGGCTTGCAGTGGGCCATGGAAAATAGCAACGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCTTGTCCCTCAAGTTTGCCCAATGCAgtgaggatacactcaacatctggcattgcttgctgtgaaataaacttact Alignment from GeneWise ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGG-ATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tttgcttcacagcaaggtgttgtcaaccttttctgttctttactacttagACTTTTTCATTGGGATATTGCCCTACTGGAAAGTGGCTTGCAGTGGGCCATGGAAAATAGCAACGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCTTGTCCCTCAAGTTTGCCCAATGCAgtgaggatacactcaacatctggcattgcttgctgtgaaataaacttact #### Tm7sf2_ID1411_9 --> 2 - 1 Original Alignment gtCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTAC-CTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTg gagatgggttggctcagtttctgttgacgttgaattgctttattttgaaggcCTTGACACCATCCCCATTGCCACTGGGAGAGATCTGCATGTGTCTGGGTGGTGGGGCATGGTACAGCATCCCAACTACCCTGGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCATGTggtaagctgatggctacaatgtctcccaggactgagtgcagtatgtggagg Alignment from CESAR gtCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTAC-CTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTg tatttgggttggctcagtttctgttgacgttgaattgctttattttgaaggcCTTGACACCATCCCCATTGCCACTGGGAGAGATCTGCATGTGTCTGGGTGGTGGGGCATGGTACAGCATCCCAACTACCCTGGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCATGTggtaagctgatggctacaatgtctcccaggactgagtgcagtatgtggagg Alignment from Spaln_aa2Genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTAC-CTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG gagatgggttggctcagtttctgttgacgttgaattgctttattttgaagGCCTTGACACCATCCCCATTGCCACTGGGAGAGATCTGCATGTGTCTGGGTGGTGGGGCATGGTACAGCATCCCAACTACcCTGGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCATGTGgtaagctgatggctacaatgtctcccaggactgagtgcagtatgtggagg Alignment from Spaln_nt2Genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTA-CCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG gagatgggttggctcagtttctgttgacgttgaattgctttattttgaagGCCTTGACACCATCCCCATTGCCACTGGGAGAGATCTGCATGTGTCTGGGTGGTGGGGCATGGTACAGCATCCCAACTACCCTGGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCATGTGgtaagctgatggctacaatgtctcccaggactgagtgcagtatgtggagg Alignment from Pairagon GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTA-CCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG gagatgggttggctcagtttctgttgacgttgaattgctttattttgaagGCCTTGACACCATCCCCATTGCCACTGGGAGAGATCTGCATGTGTCTGGGTGGTGGGGCATGGTACAGCATCCCAACTACCCTGGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCATGTGgtaagctgatggctacaatgtctcccaggactgagtgcagtatgtggagg Alignment from Exonerate_protein2genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTAC-CTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG gagatgggttggctcagtttctgttgacgttgaattgctttattttgaagGCCTTGACACCATCCCCATTGCCACTGGGAGAGATCTGCATGTGTCTGGGTGGTGGGGCATGGTACAGCATCCCAACTACCCTGGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCATGTGgtaagctgatggctacaatgtctcccaggactgagtgcagtatgtggagg Alignment from Exonerate_coding2genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTAC-CTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG gagatgggttggctcagtttctgttgacgttgaattgctttattttgaagGCCTTGACACCATCCCCATTGCCACTGGGAGAGATCTGCATGTGTCTGGGTGGTGGGGCATGGTACAGCATCCCAACTACCCTGGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCATGTGgtaagctgatggctacaatgtctcccaggactgagtgcagtatgtggagg Alignment from GeneWise GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTAC-CTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG gagatgggttggctcagtttctgttgacgttgaattgctttattttgaagGCCTTGACACCATCCCCATTGCCACTGGGAGAGATCTGCATGTGTCTGGGTGGTGGGGCATGGTACAGCATCCCAACTACCCTGGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCATGTGgtaagctgatggctacaatgtctcccaggactgagtgcagtatgtggagg #### Tm7sf2_ID1416_4 --> 2 - 1 Original Alignment gcTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTC-AGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAg ctttcctagtgtgtgtactgtccctgagcttctcatccctcctcctcaaggtTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTTCTGCCACTGTCCTTGGCGACCACTCTCACCAGGTTTGTCTTCCTGCCTACTACTCTACACAAAAGCTTTGGTAACCCCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAggtaagttgggtgcccagtagatctcagaaggtgtggacctagtgaaggtg Alignment from CESAR gcTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTC-AGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAg ctttcctagtgtgtgtactgtccctgagcttctcatccctcctcctcaaggtTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTTCTGCCACTGTCCTTGGCGACCACTCTCACCAGGTTTGTCTTCCTGCCTACTACTCTACACAAAAGCTTTGGTAACCCCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAggtaagttgggtgcccagtagatctcagaaggtgtggacctagtgaaggtg Alignment from Spaln_aa2Genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTC-AGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtgtgtgtactgtccctgagcttctcatccctcctcctcaagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTTCTGCCACTGTCCTTGGCGACCACTCTCACCAGGTTTGTCTTCcTGCCTACTACTCTACACAAAAGCTTTGGTAACCCCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtaagttgggtgcccagtagatctcagaaggtgtggacctagtgaaggtg Alignment from Spaln_nt2Genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCA-GCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtgtgtgtactgtccctgagcttctcatccctcctcctcaagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTTCTGCCACTGTCCTTGGCGACCACTCTCACCAGGTTTGTCTTCCTGCCTACTACTCTACACAAAAGCTTTGGTAACCCCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtaagttgggtgcccagtagatctcagaaggtgtggacctagtgaaggtg Alignment from Pairagon GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCA-GCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtgtgtgtactgtccctgagcttctcatccctcctcctcaagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTTCTGCCACTGTCCTTGGCGACCACTCTCACCAGGTTTGTCTTCCTGCCTACTACTCTACACAAAAGCTTTGGTAACCCCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtaagttgggtgcccagtagatctcagaaggtgtggacctagtgaaggtg Alignment from Exonerate_protein2genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTC-AGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtgtgtgtactgtccctgagcttctcatccctcctcctcaagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTTCTGCCACTGTCCTTGGCGACCACTCTCACCAGGTTTGTCTTCCTGCCTACTACTCTACACAAAAGCTTTGGTAACCCCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtaagttgggtgcccagtagatctcagaaggtgtggacctagtgaaggtg Alignment from Exonerate_coding2genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTC-AGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtgtgtgtactgtccctgagcttctcatccctcctcctcaagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTTCTGCCACTGTCCTTGGCGACCACTCTCACCAGGTTTGTCTTCCTGCCTACTACTCTACACAAAAGCTTTGGTAACCCCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtaagttgggtgcccagtagatctcagaaggtgtggacctagtgaaggtg Alignment from GeneWise GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTC-AGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtgtgtgtactgtccctgagcttctcatccctcctcctcaagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTTCTGCCACTGTCCTTGGCGACCACTCTCACCAGGTTTGTCTTCCTGCCTACTACTCTACACAAAAGCTTTGGTAACCCCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtaagttgggtgcccagtagatctcagaaggtgtggacctagtgaaggtg #### Tm7sf2_ID1418_2 --> 2 - 0 Original Alignment gcGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGC-CTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG cgagggcattactcacactttaatccaatattattttttctttcttttaggtGTTGCAGCTTTGTTAATACTGCTACCAGCTACCATGTCTCACTACCTCCTTGCTGCTCACTCAGGGCCAGCACGACCTACTGGCCCTACCGGCATACTTGCCTGGTCTGGAAGAACTATGGAGCCCATGGGCCCTGCTTCTCCTATTCATCTGGCTTGGTCTGCAGGTGGCACTCTATCTGCTGCCTGCATGCAGGgtgtgcgacctcccccttgatatgacctattttgtgtcccccatcccacc Alignment from CESAR gcGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGC-CTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG cgagggcattactcacactttaatccaatattattttttctttcttttaggtGTTGCAGCTTTGTTAATACTGCTACCAGCTACCATGTCTCACTACCTCCTTGCTGCTCACTCAGGGCCAGCACGACCTACTGGCCCTACCGGCATACTTGCCTGGTCTGGAAGAACTATGGAGCCCATGGGCCCTGCTTCTCCTATTCATCTGGCTTGGTCTGCAGGTGGCACTCTATCTGCTGCCTGCATGCAGGgtgtgcgacctcccccttgatatgacctattttgtgtctaaaagcgttgg Alignment from Spaln_aa2Genome GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGC-CTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG cgagggcattactcacactttaatccaatattattttttctttcttttagGTGTTGCAGCTTTGTTAATACTGCTACCAGCTACCATGTCTCACTACCTCCTTGCTGCTCACTCAGGGCCAGCACGAcCTACTGGCCCTACCGGCATACTTGCCTGGTCTGGAAGAACTATGGAGCCCATGGGCCCTGCTTCTCCTATTCATCTGGCTTGGTCTGCAGGTGGCACTCTATCTGCTGCCTGCATGCAGGgtgtgcgacctcccccttgatatgacctattttgtgtcccccatcccacc Alignment from Spaln_nt2Genome GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCG-CCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG cgagggcattactcacactttaatccaatattattttttctttcttttagGTGTTGCAGCTTTGTTAATACTGCTACCAGCTACCATGTCTCACTACCTCCTTGCTGCTCACTCAGGGCCAGCACGACCTACTGGCCCTACCGGCATACTTGCCTGGTCTGGAAGAACTATGGAGCCCATGGGCCCTGCTTCTCCTATTCATCTGGCTTGGTCTGCAGGTGGCACTCTATCTGCTGCCTGCATGCAGGgtgtgcgacctcccccttgatatgacctattttgtgtcccccatcccacc Alignment from Pairagon GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCG-CCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG cgagggcattactcacactttaatccaatattattttttctttcttttagGTGTTGCAGCTTTGTTAATACTGCTACCAGCTACCATGTCTCACTACCTCCTTGCTGCTCACTCAGGGCCAGCACGACCTACTGGCCCTACCGGCATACTTGCCTGGTCTGGAAGAACTATGGAGCCCATGGGCCCTGCTTCTCCTATTCATCTGGCTTGGTCTGCAGGTGGCACTCTATCTGCTGCCTGCATGCAGGgtgtgcgacctcccccttgatatgacctattttgtgtcccccatcccacc Alignment from Exonerate_protein2genome GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGC-CTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG cgagggcattactcacactttaatccaatattattttttctttcttttagGTGTTGCAGCTTTGTTAATACTGCTACCAGCTACCATGTCTCACTACCTCCTTGCTGCTCACTCAGGGCCAGCACGACCTACTGGCCCTACCGGCATACTTGCCTGGTCTGGAAGAACTATGGAGCCCATGGGCCCTGCTTCTCCTATTCATCTGGCTTGGTCTGCAGGTGGCACTCTATCTGCTGCCTGCATGCAGGgtgtgcgacctcccccttgatatgacctattttgtgtcccccatcccacc Alignment from Exonerate_coding2genome GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGC-CTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG cgagggcattactcacactttaatccaatattattttttctttcttttagGTGTTGCAGCTTTGTTAATACTGCTACCAGCTACCATGTCTCACTACCTCCTTGCTGCTCACTCAGGGCCAGCACGACCTACTGGCCCTACCGGCATACTTGCCTGGTCTGGAAGAACTATGGAGCCCATGGGCCCTGCTTCTCCTATTCATCTGGCTTGGTCTGCAGGTGGCACTCTATCTGCTGCCTGCATGCAGGgtgtgcgacctcccccttgatatgacctattttgtgtcccccatcccacc Alignment from GeneWise GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGC-CTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAGGTG----------------------------------------------- cgagggcattactcacactttaatccaatattattttttctttcttttagGTGTTGCAGCTTTGTTAATACTGCTACCAGCTACCATGTCTCACTACCTCCTTGCTGCTCACTCAGGGCCAGCACGACCTACTGGCCCTACCGGCATACTTGCCTGGTCTGGAAGAACTATGGAGCCCATGGGCCCTGCTTCTCCTATTCATCTGGCTTGGTCTGCAGGTGGCACTCTATCTGCTGCCTGCATGCAGGGTGTGCGACCTCCCCCTTGATATGACCTATTTTGTGTCCCCCATCCCACC #### Tmem179b_ID2371_2 --> 0 - 2 Original Alignment GGCTCCTTTGGTGGTAACTGTCCCTTGTATGGTGTGGCTGCACTCAAT-GGCTCCTCTCTGGCCTTGTTAGGTCCCTCAGCCCCTTCCCTCTGCTACTTCGTGGCTGGGGCTTCAGGCATCTTGGCACTCTACTGCCTTCTGCTTCTCTTCTTCTGGGTCTACAGCAGCTGCATCGAAGACTCCCACag ttaccataagacagacacttcatctaccactcctttgatttgtctttcagGGCTCTTATGGTGGCAACTGTCCATTGTATGGTGCTGTTGCTCTCAATCGGCCCCTCACTAGCTTTGCTCAGTCCAGCAGCTCCTTCCCTATGCTATTTTGTTGCTGGGGGTTCAGGAATCTTGGTTCTCTACTGTCTCCTATTTCTGTTTTTCTGGGTCTACAGTAGTTGCATA---GATTCCCACaggtgagtcctcctcctggaatgaggggtaactgggggggattatcaatatt Alignment from CESAR GGCTCCTTTGGTGGTAACTGTCCCTTGTATGGTGTGGCTGCACTCAAT-GGCTCCTCTCTGGCCTTGTTAGGTCCCTCAGCCCCTTCCCTCTGCTACTTCGTGGCTGGGGCTTCAGGCATCTTGGCACTCTACTGCCTTCTGCTTCTCTTCTTCTGGGTCTACAGCAGCTGCATCGAAGACTCCCACag ttaccataagacagacacttcatctaccactcctttgatttgtctttcagGGCTCTTATGGTGGCAACTGTCCATTGTATGGTGCTGTTGCTCTCAATCGGCCCCTCACTAGCTTTGCTCAGTCCAGCAGCTCCTTCCCTATGCTATTTTGTTGCTGGGGGTTCAGGAATCTTGGTTCTCTACTGTCTCCTATTTCTGTTTTTCTGGGTCTACAGTAGTTGCATA---GATTCCCACaggtgagtcctcctcctggaatgaggggtaactgggggggattatcaatatt Alignment from Spaln_aa2Genome GGCTCCTTTGGTGGTAACTGTCCCTTGTATGGTGTGGCTGCACTCAAT-GGCTCCTCTCTGGCCTTGTTAGGTCCCTCAGCCCCTTCCCTCTGCTACTTCGTGGCTGGGGCTTCAGGCATCTTGGCACTCTACTGCCTTCTGCTTCTCTTCTTCTGGGTCTACAGCAGCTGCATCGAAGACTCCCACAG ttaccataagacagacacttcatctaccactcctttgatttgtctttcagGGCTCTTATGGTGGCAACTGTCCATTGTATGGTGCTGTTGCTCTCAATcGGCCCCTCACTAGCTTTGCTCAGTCCAGCAGCTCCTTCCCTATGCTATTTTGTTGCTGGGGGTTCAGGAATCTTGGTTCTCTACTGTCTCCTATTTCTGTTTTTCTGGGTCTACAGTAGTTGCATA---GATTCCCACAGgtgagtcctcctcctggaatgaggggtaactgggggggattatcaatatt Alignment from Spaln_nt2Genome GGCTCCTTTGGTGGTAACTGTCCCTTGTATGGTGTGGCTGCACTCAAT-GGCTCCTCTCTGGCCTTGTTAGGTCCCTCAGCCCCTTCCCTCTGCTACTTCGTGGCTGGGGCTTCAGGCATCTTGGCACTCTACTGCCTTCTGCTTCTCTTCTTCTGGGTCTACAGCAGCTGCATCGAAGACTCCCACAG ttaccataagacagacacttcatctaccactcctttgatttgtctttcagGGCTCTTATGGTGGCAACTGTCCATTGTATGGTGCTGTTGCTCTCAATCGGCCCCTCACTAGCTTTGCTCAGTCCAGCAGCTCCTTCCCTATGCTATTTTGTTGCTGGGGGTTCAGGAATCTTGGTTCTCTACTGTCTCCTATTTCTGTTTTTCTGGGTCTACAGTAGTTGCAT---AGATTCCCACAGgtgagtcctcctcctggaatgaggggtaactgggggggattatcaatatt Alignment from Pairagon GGCTCCTTTGGTGGTAACTGTCCCTTGTATGGTGTGGCTGCACTCAAT-GGCTCCTCTCTGGCCTTGTTAGGTCCCTCAGCCCCTTCCCTCTGCTACTTCGTGGCTGGGGCTTCAGGCATCTTGGCACTCTACTGCCTTCTGCTTCTCTTCTTCTGGGTCTACAGCAGCTGCATCGAAGACTCCCACAG ttaccataagacagacacttcatctaccactcctttgatttgtctttcagGGCTCTTATGGTGGCAACTGTCCATTGTATGGTGCTGTTGCTCTCAATCGGCCCCTCACTAGCTTTGCTCAGTCCAGCAGCTCCTTCCCTATGCTATTTTGTTGCTGGGGGTTCAGGAATCTTGGTTCTCTACTGTCTCCTATTTCTGTTTTTCTGGGTCTACAGTAGTTGCAT---AGATTCCCACAGgtgagtcctcctcctggaatgaggggtaactgggggggattatcaatatt Alignment from Exonerate_protein2genome GGCTCCTTTGGTGGTAACTGTCCCTTGTATGGTGTGGCTGCACTCAAT-GGCTCCTCTCTGGCCTTGTTAGGTCCCTCAGCCCCTTCCCTCTGCTACTTCGTGGCTGGGGCTTCAGGCATCTTGGCACTCTACTGCCTTCTGCTTCTCTTCTTCTGGGTCTACAGCAGCTGCATCGAAGACTCCCACAG ttaccataagacagacacttcatctaccactcctttgatttgtctttcagGGCTCTTATGGTGGCAACTGTCCATTGTATGGTGCTGTTGCTCTCAATCGGCCCCTCACTAGCTTTGCTCAGTCCAGCAGCTCCTTCCCTATGCTATTTTGTTGCTGGGGGTTCAGGAATCTTGGTTCTCTACTGTCTCCTATTTCTGTTTTTCTGGGTCTACAGTAGTTGCATA---GATTCCCACAGgtgagtcctcctcctggaatgaggggtaactgggggggattatcaatatt Alignment from Exonerate_coding2genome GGCTCCTTTGGTGGTAACTGTCCCTTGTATGGTGTGGCTGCACTCAAT-GGCTCCTCTCTGGCCTTGTTAGGTCCCTCAGCCCCTTCCCTCTGCTACTTCGTGGCTGGGGCTTCAGGCATCTTGGCACTCTACTGCCTTCTGCTTCTCTTCTTCTGGGTCTACAGCAGCTGCATCGAAGACTCCCACAG ttaccataagacagacacttcatctaccactcctttgatttgtctttcagGGCTCTTATGGTGGCAACTGTCCATTGTATGGTGCTGTTGCTCTCAATCGGCCCCTCACTAGCTTTGCTCAGTCCAGCAGCTCCTTCCCTATGCTATTTTGTTGCTGGGGGTTCAGGAATCTTGGTTCTCTACTGTCTCCTATTTCTGTTTTTCTGGGTCTACAGTAGTTGCATA---GATTCCCACAGgtgagtcctcctcctggaatgaggggtaactgggggggattatcaatatt Alignment from GeneWise GGCTCCTTTGGTGGTAACTGTCCCTTGTATGGTGTGGCTGCACTCAAT-GGCTCCTCTCTGGCCTTGTTAGGTCCCTCAGCCCCTTCCCTCTGCTACTTCGTGGCTGGGGCTTCAGGCATCTTGGCACTCTACTGCCTTCTGCTTCTCTTCTTCTGGGTCTACAGCAGCTGCATCGAAGACTCCCACAG ttaccataagacagacacttcatctaccactcctttgatttgtctttcagGGCTCTTATGGTGGCAACTGTCCATTGTATGGTGCTGTTGCTCTCAATCGGCCCCTCACTAGCTTTGCTCAGTCCAGCAGCTCCTTCCCTATGCTATTTTGTTGCTGGGGGTTCAGGAATCTTGGTTCTCTACTGTCTCCTATTTCTGTTTTTCTGGGTCTACAGTAGTTGCATA---GATTCCCACAGgtgagtcctcctcctggaatgaggggtaactgggggggattatcaatatt #### Tmem180_ID9860_2 --> 0 - 2 Original Alignment ACTGTATTTCTCCTCTGGAACAGCTTCAATGACCCCCTCTTCGGCTGGCTCAGTGATCGT-CAGCTCCTCAGCTCCCAGCCCcg tatgtcacaagagggggttttcacctgtacttccatcttgtctctttcagACAGTATTCCTACTCTGGAATAGTTTCAATGATCCTCTCTTCAGCTGGCTCAGTGATCGTCCAGTTACTCAGTTCCCAACCCcagtgagtaatctgtcaattacattggtaagcaactaaaccactaggtagag Alignment from CESAR ACTGTATTTCTCCTCTGGAACAGCTTCAATGACCCCCTCTTCGGCTGGCTCAGTGATCGT-CAGCTCCTCAGCTCCCAGCCCcg tatgtcacaagagggggttttcacctgtacttccatcttgtctctttcagACAGTATTCCTACTCTGGAATAGTTTCAATGATCCTCTCTTCAGCTGGCTCAGTGATCGTCCAGTTACTCAGTTCCCAACCCcagtgagtaatctgtcaattacattggtaagcaactaaaccactaggtagag Alignment from Spaln_aa2Genome ACTGTATTTCTCCTCTGGAACAGCTTCAATGACCCCCTCTTCGGCTGGCTCAGTGATCGT-CAGCTCCTCAGCTCCCAGCCCCG tatgtcacaagagggggttttcacctgtacttccatcttgtctctttcagACAGTATTCCTACTCTGGAATAGTTTCAATGATCCTCTCTTCAGCTGGCTCAGTGATCGTcCAGTTACTCAGTTCCCAACCCCAgtgagtaatctgtcaattacattggtaagcaactaaaccactaggtagag Alignment from Spaln_nt2Genome ACTGTATTTCTCCTCTGGAACAGCTTCAATGACCCCCTCTTCGGCTGGCTCAGTGATCGTC-AGCTCCTCAGCTCCCAGCCCCG tatgtcacaagagggggttttcacctgtacttccatcttgtctctttcagACAGTATTCCTACTCTGGAATAGTTTCAATGATCCTCTCTTCAGCTGGCTCAGTGATCGTCCAGTTACTCAGTTCCCAACCCCAgtgagtaatctgtcaattacattggtaagcaactaaaccactaggtagag Alignment from Pairagon ACTGTATTTCTCCTCTGGAACAGCTTCAATGACCCCCTCTTCGGCTGGCTCAGTGATCGT-CAGCTCCTCAGCTCCCAGCCCCG tatgtcacaagagggggttttcacctgtacttccatcttgtctctttcagACAGTATTCCTACTCTGGAATAGTTTCAATGATCCTCTCTTCAGCTGGCTCAGTGATCGTCCAGTTACTCAGTTCCCAACCCCAgtgagtaatctgtcaattacattggtaagcaactaaaccactaggtagag Alignment from Exonerate_protein2genome ACTGTATTTCTCCTCTGGAACAGCTTCAATGACCCCCTCTTCGGCTGGCTCAGTGATCGT-CAGCTCCTCAGCTCCCAGCCCCG tatgtcacaagagggggttttcacctgtacttccatcttgtctctttcagACAGTATTCCTACTCTGGAATAGTTTCAATGATCCTCTCTTCAGCTGGCTCAGTGATCGTCCAGTTACTCAGTTCCCAACCCCAgtgagtaatctgtcaattacattggtaagcaactaaaccactaggtagag Alignment from Exonerate_coding2genome ACTGTATTTCTCCTCTGGAACAGCTTCAATGACCCCCTCTTCGGCTGGCTCAGTGATCGT-CAGCTCCTCAGCTCCCAGCCCCG tatgtcacaagagggggttttcacctgtacttccatcttgtctctttcagACAGTATTCCTACTCTGGAATAGTTTCAATGATCCTCTCTTCAGCTGGCTCAGTGATCGTCCAGTTACTCAGTTCCCAACCCCAgtgagtaatctgtcaattacattggtaagcaactaaaccactaggtagag Alignment from GeneWise ACTGTATTTCTCCTCTGGAACAGCTTCAATGACCCCCTCTTCGGCTGGCTCAGTGATCGTCAG tatgtcacaagagggggttttcacctgtacttccatcttgtctctttcagACAGTATTCCTACTCTGGAATAGTTTCAATGATCCTCTCTTCAGCTGGCTCAGTGATCGTCCAgttactcagttcccaaccccagtgagtaatctgtcaattacattggtaagcaactaaaccactaggtagag #### Tmem180_ID9861_3 --> 1 - 2 Original Alignment gTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGG-CTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTgg ggtatgcctagtgtgtaggagtcccttactctctgttcttggttgcataggAAGGGAGCAGGGCTCTCCTCTAGGGATGTGGTGCTAACTCGTGTGCGGTCCCTAGGCTGGCATGGTCAACTGTGGGCATTGGCATTCCTTGCGTATTGGGTATCTTGGGCACCTGCTGGACTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCCTCCTGACCCTGGTGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCGATTGCTCCCTTTTCAGTGCAGCTGGTTCGTTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCATTTTGTGTAGTGCTTGCCGCTGGATCTGGACCTGGGCTTCCTTGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGATCTAGATGGTgggtaagacactacttcagctcaagctcccatggccaatacaactatgatca Alignment from CESAR gTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGG-CTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTgg ggtatgcctagtgtgtaggagtcccttactctctgttcttggttgcataggAAGGGAGCAGGGCTCTCCTCTAGGGATGTGGTGCTAACTCGTGTGCGGTCCCTAGGCTGGCATGGTCAACTGTGGGCATTGGCATTCCTTGCGTATTGGGTATCTTGGGCACCTGCTGGACTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCCTCCTGACCCTGGTGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCGATTGCTCCCTTTTCAGTGCAGCTGGTTCGTTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCATTTTGTGTAGTGCTTGCCGCTGGATCTGGACCTGGGCTTCCTTGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGATCTAGATGGTgggtaagacactacttcagctcaagctcccatggccaatacaactatgatcc Alignment from Spaln_aa2Genome GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGC-TTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtatgcctagtgtgtaggagtcccttactctctgttcttggttgcatagGAAGGGAGCAGGGCTCTCCTCTAGGGATGTGGTGCTAACTCGTGTGCGGTCCCTAGGCTGGCATGGTCAACTGTGGGCATTGGCATTCCTTGCGTATTGGGTATCTTGGGCACCTGCTGGACTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCCTCCTGACCCTGGTGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCGATTGCTCCCTTTTCAGTGCAGCTGGTTCGTTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCATTTTGTGTAGTGCTTGCCGCTGGATCTGGACCTGGGcTTCCTTGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGATCTAGATGGTGGgtaagacactacttcagctcaagctcccatggccaatacaactatgatca Alignment from Spaln_nt2Genome GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGC-TGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtatgcctagtgtgtaggagtcccttactctctgttcttggttgcatagGAAGGGAGCAGGGCTCTCCTCTAGGGATGTGGTGCTAACTCGTGTGCGGTCCCTAGGCTGGCATGGTCAACTGTGGGCATTGGCATTCCTTGCGTATTGGGTATCTTGGGCACCTGCTGGACTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCCTCCTGACCCTGGTGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCGATTGCTCCCTTTTCAGTGCAGCTGGTTCGTTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCATTTTGTGTAGTGCTTGCCGCTGGATCTGGACCTGGGCTTCCTTGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGATCTAGATGGTGGgtaagacactacttcagctcaagctcccatggccaatacaactatgatca Alignment from Pairagon GGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGG-CTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtatgcctagtgtgtaggagtcccttactctctgttcttggttgcataggaagGGAGCAGGGCTCTCCTCTAGGGATGTGGTGCTAACTCGTGTGCGGTCCCTAGGCTGGCATGGTCAACTGTGGGCATTGGCATTCCTTGCGTATTGGGTATCTTGGGCACCTGCTGGACTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCCTCCTGACCCTGGTGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCGATTGCTCCCTTTTCAGTGCAGCTGGTTCGTTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCATTTTGTGTAGTGCTTGCCGCTGGATCTGGACCTGGGCTTCCTTGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGATCTAGATGGTGGgtaagacactacttcagctcaagctcccatggccaatacaactatgatca Alignment from Exonerate_protein2genome GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGG-CTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtatgcctagtgtgtaggagtcccttactctctgttcttggttgcatagGAAGGGAGCAGGGCTCTCCTCTAGGGATGTGGTGCTAACTCGTGTGCGGTCCCTAGGCTGGCATGGTCAACTGTGGGCATTGGCATTCCTTGCGTATTGGGTATCTTGGGCACCTGCTGGACTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCCTCCTGACCCTGGTGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCGATTGCTCCCTTTTCAGTGCAGCTGGTTCGTTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCATTTTGTGTAGTGCTTGCCGCTGGATCTGGACCTGGGCTTCCTTGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGATCTAGATGGTGGgtaagacactacttcagctcaagctcccatggccaatacaactatgatca Alignment from Exonerate_coding2genome GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGG-CTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtatgcctagtgtgtaggagtcccttactctctgttcttggttgcatagGAAGGGAGCAGGGCTCTCCTCTAGGGATGTGGTGCTAACTCGTGTGCGGTCCCTAGGCTGGCATGGTCAACTGTGGGCATTGGCATTCCTTGCGTATTGGGTATCTTGGGCACCTGCTGGACTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCCTCCTGACCCTGGTGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCGATTGCTCCCTTTTCAGTGCAGCTGGTTCGTTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCATTTTGTGTAGTGCTTGCCGCTGGATCTGGACCTGGGCTTCCTTGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGATCTAGATGGTGGgtaagacactacttcagctcaagctcccatggccaatacaactatgatca Alignment from GeneWise GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGG-CTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtatgcctagtgtgtaggagtcccttactctctgttcttggttgcatagGAAGGGAGCAGGGCTCTCCTCTAGGGATGTGGTGCTAACTCGTGTGCGGTCCCTAGGCTGGCATGGTCAACTGTGGGCATTGGCATTCCTTGCGTATTGGGTATCTTGGGCACCTGCTGGACTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCCTCCTGACCCTGGTGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCGATTGCTCCCTTTTCAGTGCAGCTGGTTCGTTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCATTTTGTGTAGTGCTTGCCGCTGGATCTGGACCTGGGCTTCCTTGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGATCTAGATGGTGGgtaagacactacttcagctcaagctcccatggccaatacaactatgatca #### Tmem180_ID9862_4 --> 1 - 0 Original Alignment cGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTGGGC-CAGTACCTCCGGCAACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcccatggccaatacaactatgatccaccctgttgtacctctgcagtGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTAGGGCCAGTACCTCCACCAACAGGCACACCACCAGATCTTCCTATGGTTTGTAGGTATGTATTTGGTGCAGgtatctcagcctatcccttagctccctgtcaggtttgattctggcctagg Alignment from CESAR cGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTG-GGCCAGTACCTCCGGCAACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcccatggccaatacaactatgatccaccctgttgtacctctgcagtGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTAGGGCCAGTACCTCCACCAACAGGCACACCACCAGATCTTCCTATGGTTTGTAGGTATGTATTTGGTGCAGgtatctcagcctatcccttagctccctgtcaggtttgattctggcctagg Alignment from Spaln_aa2Genome CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTGGGC-CAGTACCTCCGGCAACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcccatggccaatacaactatgatccaccctgttgtacctctgcagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTAGGGcCAGTACCTCCACCAACAGGCACACCACCAGATCTTCCTATGGTTTGTAGGTATGTATTTGGTGCAGgtatctcagcctatcccttagctccctgtcaggtttgattctggcctagg Alignment from Spaln_nt2Genome CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCAC-CTTGGGCCAGTACCTCCGGCAACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcccatggccaatacaactatgatccaccctgttgtacctctgcagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTAGGGCCAGTACCTCCACCAACAGGCACACCACCAGATCTTCCTATGGTTTGTAGGTATGTATTTGGTGCAGgtatctcagcctatcccttagctccctgtcaggtttgattctggcctagg Alignment from Pairagon CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCAC-CTTGGGCCAGTACCTCCGGCAACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcccatggccaatacaactatgatccaccctgttgtacctctgcagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTAGGGCCAGTACCTCCACCAACAGGCACACCACCAGATCTTCCTATGGTTTGTAGGTATGTATTTGGTGCAGgtatctcagcctatcccttagctccctgtcaggtttgattctggcctagg Alignment from Exonerate_protein2genome CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTG-GGCCAGTACCTCCGGCAACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcccatggccaatacaactatgatccaccctgttgtacctctgcagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTAGGGCCAGTACCTCCACCAACAGGCACACCACCAGATCTTCCTATGGTTTGTAGGTATGTATTTGGTGCAGgtatctcagcctatcccttagctccctgtcaggtttgattctggcctagg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACC-TTGGGCCAGTACCTCCGGCAACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcccatggccaatacaactatgatccaccctgttgtacctctgcagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTAGGGCCAGTACCTCCACCAACAGGCACACCACCAGATCTTCCTATGGTTTGTAGGTATGTATTTGGTGCAGgtatctcagcctatcccttagctccctgtcaggtttgattctggcctagg #### Trim8_ID9935_4 --> 0 - 2 Original Alignment AACACCAAGTCT-GTGAAAATCCTAATGGACag gaaccaattacctgctgtgtgtaacagagacttgtctttcaatcttgaagAACACGCGGTCTCGTGAAAATCCTGATGGACaggtgaggtagagcagctcatcttcttaaatctcacaacttctgtgtatgca Alignment from CESAR AACACCAAGTCT-GTGAAAATCCTAATGGACag gaaccaattacctgctgtgtgtaacagagacttgtctttcaatcttgaagAACACGCGGTCTCGTGAAAATCCTGATGGACaggtgaggtagagcagctcatcttcttaaatctcaatctctgctcccttgca Alignment from Spaln_aa2Genome AACACCAAGTCT-GTGAAAATCCTAATGGACAG gaaccaattacctgctgtgtgtaacagagacttgtctttcaatcttgaagAACACGCGGTCTcGTGAAAATCCTGATGGACAGgtgaggtagagcagctcatcttcttaaatctcacaacttctgtgtatgca Alignment from Spaln_nt2Genome AACACCAAGTCT-GTGAAAATCCTAATGGACAG gaaccaattacctgctgtgtgtaacagagacttgtctttcaatcttgaagAACACGCGGTCTCGTGAAAATCCTGATGGACAGgtgaggtagagcagctcatcttcttaaatctcacaacttctgtgtatgca Alignment from Pairagon AACACCAAGTCT-GTGAAAATCCTAATGGACAG gaaccaattacctgctgtgtgtaacagagacttgtctttcaatcttgaagAACACGCGGTCTCGTGAAAATCCTGATGGACAGgtgaggtagagcagctcatcttcttaaatctcacaacttctgtgtatgca Alignment from Exonerate_protein2genome AACACCAAGTCT-GTGAAAATCCTAATGGACAG gaaccaattacctgctgtgtgtaacagagacttgtctttcaatcttgaagAACACGCGGTCTCGTGAAAATCCTGATGGACAGgtgaggtagagcagctcatcttcttaaatctcacaacttctgtgtatgca Alignment from Exonerate_coding2genome AACACCAAGTCTGTGAAAATCCTAATGGACA gaaccaattacctgctgtgtgtaacagagacttgtctttcaatcttgaagaacacgcggtctcgtgaaaatcctgatggacaggtgaggtagagcagctcatCTTCTTAAATCTCACAACTTCTGTGTATGCA Alignment from GeneWise gaaccaattacctgctgtgtgtaacagagacttgtctttcaatcttgaagaacacgcggtctcgtgaaaatcctgatggacaggtgaggtagagcagctcatcttcttaaatctcacaacttctgtgtatgca #### Trim8_ID9936_5 --> 1 - 1 Original Alignment gACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCC-AAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAg tgaggtagagcagctcatcttcttaaatctcaatctctgctcccttgcaggACCCAGACATGCACTAGCAGTAGCCTTTCTCCCCCTAAGATTGGCCATCTGAACTCCAATCTGTTTCTAAATGAGGTAACCCAAGAAGGAGAAACGGTTACGGAAAATGCTTGATggtaagaacttaatgggtctatgtaggtggagcgcagcctgcagcccattc Alignment from CESAR gACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCC-AAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAg tgaggtagagcagctcatcttcttaaatctcaatctctgctcccttgcaggACCCAGACATGCACTAGCAGTAGCCTTTCTCCCCCTAAGATTGGCCATCTGAACTCCAATCTGTTTCTAAATGAGGTAACCCAAGAAGGAGAAACGGTTACGGAAAATGCTTGATggtaagaacttaatgggtctatgtaggtggagcgcagcctgcagcccattc Alignment from Spaln_aa2Genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCC-AAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG tgaggtagagcagctcatcttcttaaatctcaatctctgctcccttgcagGACCCAGACATGCACTAGCAGTAGCCTTTCTCCCCCTAAGATTGGCCATCTGAACTCCAATCTGTTTCTAAATGAGGTAACCcAAGAAGGAGAAACGGTTACGGAAAATGCTTGATGgtaagaacttaatgggtctatgtaggtggagcgcagcctgcagcccattc Alignment from Spaln_nt2Genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCC-AAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG tgaggtagagcagctcatcttcttaaatctcaatctctgctcccttgcagGACCCAGACATGCACTAGCAGTAGCCTTTCTCCCCCTAAGATTGGCCATCTGAACTCCAATCTGTTTCTAAATGAGGTAACCCAAGAAGGAGAAACGGTTACGGAAAATGCTTGATGgtaagaacttaatgggtctatgtaggtggagcgcagcctgcagcccattc Alignment from Pairagon GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGG-CCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG tgaggtagagcagctcatcttcttaaatctcaatctctgctcccttgcagGACCCAGACATGCACTAGCAGTAGCCTTTCTCCCCCTAAGATTGGCCATCTGAACTCCAATCTGTTTCTAAATGAGGTAACCCAAGAAGGAGAAACGGTTACGGAAAATGCTTGATGgtaagaacttaatgggtctatgtaggtggagcgcagcctgcagcccattc Alignment from Exonerate_protein2genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCC-AAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG tgaggtagagcagctcatcttcttaaatctcaatctctgctcccttgcagGACCCAGACATGCACTAGCAGTAGCCTTTCTCCCCCTAAGATTGGCCATCTGAACTCCAATCTGTTTCTAAATGAGGTAACCCAAGAAGGAGAAACGGTTACGGAAAATGCTTGATGgtaagaacttaatgggtctatgtaggtggagcgcagcctgcagcccattc Alignment from Exonerate_coding2genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCC-AAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG tgaggtagagcagctcatcttcttaaatctcaatctctgctcccttgcagGACCCAGACATGCACTAGCAGTAGCCTTTCTCCCCCTAAGATTGGCCATCTGAACTCCAATCTGTTTCTAAATGAGGTAACCCAAGAAGGAGAAACGGTTACGGAAAATGCTTGATGgtaagaacttaatgggtctatgtaggtggagcgcagcctgcagcccattc Alignment from GeneWise --------ACCAAGTCTGTGAAAATCCTAATGGACAGGACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTG-GCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG tgaggtagagcagCTCATCTTCTTAAATCTCAATCTCTGCTCCCTTGCAGGACCCAGACATGCACTAGCAGTAGCCTTTCTCCCCCTAAGATTGGCCATCTGAACTCCAATCTGTTTCTAAATGAGGTAACCCAAGAAGGAGAAACGGTTACGGAAAATGCTTGATGgtaagaacttaatgggtctatgtaggtggagcgcagcctgcagcccattc #### Trmt112_ID1861_2 --> 0 - 0 Original Alignment GCCACTGAGGTCCGCATCAACCCCGTG-GAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC cagatggaagtctaacctggacaatttttcatttacctgtttgccccaagGCAACTGAGGTCTGTATTAACCCTGTGCGAATTTAACCCTGAGTTAGTGGCACGTATGATCCCCAAAGTAGAGTGGGCAGCACTTGTTCGGGCTGCGGGTACTgtaagtgctgctattctacctaggatgccttagtttctggacccctttct Alignment from CESAR GCCACTGAGGTCCGCATCAACCCCGTG-GAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC cagatggaagtctaacctggacaatttttcatttacctgtttgccccaagGCAACTGAGGTCTGTATTAACCCTGTGCGAATTTAACCCTGAGTTAGTGGCACGTATGATCCCCAAAGTAGAGTGGGCAGCACTTGTTCGGGCTGCGGGTACTgtaagtgctgctattctacctaggatgccttagtttctggacccctttct Alignment from Spaln_aa2Genome GCCACTGAGGTCCGCATCAACCCCGTG-GAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC cagatggaagtctaacctggacaatttttcatttacctgtttgccccaagGCAACTGAGGTCTGTATTAACCCTGTGcGAATTTAACCCTGAGTTAGTGGCACGTATGATCCCCAAAGTAGAGTGGGCAGCACTTGTTCGGGCTGCGGGTACTgtaagtgctgctattctacctaggatgccttagtttctggacccctttct Alignment from Spaln_nt2Genome GCCACTGAGGTCCGCATCAACCCCGTG-GAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC cagatggaagtctaacctggacaatttttcatttacctgtttgccccaagGCAACTGAGGTCTGTATTAACCCTGTGCGAATTTAACCCTGAGTTAGTGGCACGTATGATCCCCAAAGTAGAGTGGGCAGCACTTGTTCGGGCTGCGGGTACTgtaagtgctgctattctacctaggatgccttagtttctggacccctttct Alignment from Pairagon GCCACTGAGGTCCGCATCAACCCCGTG-GAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC cagatggaagtctaacctggacaatttttcatttacctgtttgccccaagGCAACTGAGGTCTGTATTAACCCTGTGCGAATTTAACCCTGAGTTAGTGGCACGTATGATCCCCAAAGTAGAGTGGGCAGCACTTGTTCGGGCTGCGGGTACTgtaagtgctgctattctacctaggatgccttagtttctggacccctttct Alignment from Exonerate_protein2genome GCCACTGAGGTCCGCATCAACCCCGTG-GAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC cagatggaagtctaacctggacaatttttcatttacctgtttgccccaagGCAACTGAGGTCTGTATTAACCCTGTGCGAATTTAACCCTGAGTTAGTGGCACGTATGATCCCCAAAGTAGAGTGGGCAGCACTTGTTCGGGCTGCGGGTACTgtaagtgctgctattctacctaggatgccttagtttctggacccctttct Alignment from Exonerate_coding2genome TTCCCGCTGCGCCTGCAGGCCACTGAGGTCCGCATCAACCCCGTG-GAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC cagatggaagtctaacctggacaatttttcatTTACCTGTTTGCCCCAAGGCAACTGAGGTCTGTATTAACCCTGTGCGAATTTAACCCTGAGTTAGTGGCACGTATGATCCCCAAAGTAGAGTGGGCAGCACTTGTTCGGGCTGCGGGTACTgtaagtgctgctattctacctaggatgccttagtttctggacccctttct Alignment from GeneWise GCCACTGAGGTCCGCATCAACCCC-GTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC cagatggaagtctaacctggacaatttttcatttacctgtttgccccaagGCAACTGAGGTCTGTATTAACCCTGTGCGAATTTAACCCTGAGTTAGTGGCACGTATGATCCCCAAAGTAGAGTGGGCAGCACTTGTTCGGGCTGCGGGTACTgtaagtgctgctattctacctaggatgccttagtttctggacccctttct #### Trmt112_ID1862_3 --> 0 - 0 Original Alignment TTAAACTTGGCCGAGGTACCCAAAGAG-CCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG gacccctttctagaaattatagttcctaccaggcctctgtcccgatgcagTTGAATTTAGCTGCAGTGCCACGAGAGCCCAACTGAGGGCTATGAGCACGATGAAACATTTTTGAGGGAGATGCGTCATGTACTTCTTGAAgtagggccacaatgcccagatgtctataggtgttacgagactttttgcca Alignment from CESAR TTAAACTTGGCCGAGGTACCCAAAGAG-CCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG gacccctttctagaaattatagttcctaccaggcctctgtcccgatgcagTTGAATTTAGCTGCAGTGCCACGAGAGCCCAACTGAGGGCTATGAGCACGATGAAACATTTTTGAGGGAGATGCGTCATGTACTTCTTGAAgtagggccacaatgcccagatgtctataggtgttacgagactttgtttcc Alignment from Spaln_aa2Genome TTAAACTTGGCCGAGGTACCCAAAGAG-CCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG gacccctttctagaaattatagttcctaccaggcctctgtcccgatgcagTTGAATTTAGCTGCAGTGCCACGAGAGcCCAACTGAGGGCTATGAGCACGATGAAACATTTTTGAGGGAGATGCGTCATGTACTTCTTGAAgtagggccacaatgcccagatgtctataggtgttacgagactttttgcca Alignment from Spaln_nt2Genome TTAAACTTGGCCGAGGTACCCAAAGAGCCGA-CTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG gacccctttctagaaattatagttcctaccaggcctctgtcccgatgcagTTGAATTTAGCTGCAGTGCCACGAGAGCCCAACTGAGGGCTATGAGCACGATGAAACATTTTTGAGGGAGATGCGTCATGTACTTCTTGAAgtagggccacaatgcccagatgtctataggtgttacgagactttttgcca Alignment from Pairagon ACACCTTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG gacccctttctagaaattatagttcctaccaggcctctgtcccgatgcagttgaatttagctgcagtgccacgagag-------------------------------CCCAACTGAGGGCTATGAGCACGATGAAACATTTTTGAGGGAGATGCGTCATGTACTTCTTGAAgtagggccacaatgcccagatgtctataggtgttacgagactttttgcca Alignment from Exonerate_protein2genome TTAAACTTGGCCGAGGTACCCAAAGAG-CCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG gacccctttctagaaattatagttcctaccaggcctctgtcccgatgcagTTGAATTTAGCTGCAGTGCCACGAGAGCCCAACTGAGGGCTATGAGCACGATGAAACATTTTTGAGGGAGATGCGTCATGTACTTCTTGAAgtagggccacaatgcccagatgtctataggtgttacgagactttttgcca Alignment from Exonerate_coding2genome TTAAACTTGGCCGAGGTACCCAAAGAG-CCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG gacccctttctagaaattatagttcctaccaggcctctgtcccgatgcagTTGAATTTAGCTGCAGTGCCACGAGAGCCCAACTGAGGGCTATGAGCACGATGAAACATTTTTGAGGGAGATGCGTCATGTACTTCTTGAAgtagggccacaatgcccagatgtctataggtgttacgagactttttgcca Alignment from GeneWise ----ACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAGGTT----------------------------------------------- gacccctttctagaaattatagttcctaccaggcctctgtcccgatgcagttgaatttagctgcagtgccacgagagCCCAACTGAGGGCTATGAGCACGATGAAACATTTTTGAGGGAGATGCGTCATGTACTTCTTGAAGTAGGGCCACAATGCCCAGATGTCTATAGGTGTTACGAGACTTTTTGCCA #### Trpt1_ID1981_4 --> 0 - 1 Original Alignment GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCA---CAA------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAG-CACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCAC------TTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCg gtgtctatgttagagaacgtcttgctgcgttcttgttgtcaataatctagGTCCCTAAGTTGGAGCTTACGCCCCTGGACACCCCACAACAAGCCTTGCCCCTGCCTCTAGCATTAGTTCATGGCACATTCTGGACAAATCCACTGGCCGTCCATTTTGCTCAAGGGG---TCACATCAAGGAAGGACTTGCAATCATCTTGCTCTTGCTTCAGGATTGCCA---GATCCAGGCACCATCAGTggtaccctctacttaccctaccatgctgcattgatagaagacacctcactt Alignment from CESAR GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA---GCCCTGCCCTTG------ACACTAGTCCATGGTACATTCTGG-AAG---CACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACA------CACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCg gtgtctatgttagagaacgtcttgctgcgttcttgttgtcaataatctagGTCCCTAAGTTGGAGCTTACGCCCCTGGACACCCCACAACAAGCCTTGCCCCTGCCTCTAGCATTAGTTCATGGCACATTCTGGACAAATCCACTGGCCGTCCATTTTGCTCAAGGGG---TCACATCAAGGAAGGACTTGCAATCATCTTGCTCTTGCTTCAGGATTGCCA---GATCCAGGCACCATCAGTggtaccctctacttaccctaccatgctgcattgatagaagacacctcactt Alignment from Spaln_aa2Genome GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA---------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAG----CACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACA------CACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gtgtctatgttagagaacgtcttgctgcgttcttgttgtcaataatctagGTCCCTAAGTTGGAGCTTACGCCCCTGGACACCCCACAACAAGCCTTGCCCCTGCCTCTAGCATTAGTTCATGGCACATTCTGGACAAATcCACTGGCCGTCCATTTTGCTCAAGGGG---TCACATCAAGGAAGGACTTGCAATCATCTTGCTCTTGCTTCAGGATTGCCA---GATCCAGGCACCATCAGTGgtaccctctacttaccctaccatgctgcattgatagaagacacctcactt Alignment from Spaln_nt2Genome GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA---GCCCTGCCCTTGACACTAG------TCCATGGTACATTCTGGAAG----CACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCA-CTTG-----GCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gtgtctatgttagagaacgtcttgctgcgttcttgttgtcaataatctagGTCCCTAAGTTGGAGCTTACGCCCCTGGACACCCCACAACAAGCCTTGCCCCTGCCTCTAGCATTAGTTCATGGCACATTCTGGACAAATCCACTGGCCGTCCATTTTGCTCAAGGG---GTCACATCAAGGAAGGACTTGCAATCATCTTGCTCTTGCTTCAGGATTGCC---AGATCCAGGCACCATCAGTGgtaccctctacttaccctaccatgctgcattgatagaagacacctcactt Alignment from Pairagon GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA---------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAG----CACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTG----------------GCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCGGCA----------------------------------------------- gtgtctatgttagagaacgtcttgctgcgttcttgttgtcaataatctagGTCCCTAAGTTGGAGCTTACGCCCCTGGACACCCCACAACAAGCCTTGCCCCTGCCTCTAGCATTAGTTCATGGCACATTCTGGACAAATCCACTGGCCGTCCATTTTGCTCAAGGG---GTCACATCAAGGAAGG----------ACTTGCAATCATCTTGCTCTTGCTTCAGGATTGCC---AGATCCAGGCACCATCAGTGGTACCCTCTACTTACCCTACCATGCTGCATTGATAGAAGACACCTCACTT Alignment from Exonerate_protein2genome GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA---------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAG----CACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACA------CACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gtgtctatgttagagaacgtcttgctgcgttcttgttgtcaataatctagGTCCCTAAGTTGGAGCTTACGCCCCTGGACACCCCACAACAAGCCTTGCCCCTGCCTCTAGCATTAGTTCATGGCACATTCTGGACAAATCCACTGGCCGTCCATTTTGCTCAAGGGG---TCACATCAAGGAAGGACTTGCAATCATCTTGCTCTTGCTTCAGGATTGCCA---GATCCAGGCACCATCAGTGgtaccctctacttaccctaccatgctgcattgatagaagacacctcactt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCC---------CTGCCCTTGACACTAGTCCATGGTACATTCTGG-AAG---CACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACA------CACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCA gtgtctatgttagagaacgtcttgctgcgttcttgttgtcaataatctagGTCCCTAAGTTGGAGCTTACGCCCCTGGACACCCCACAACAAGCCTTGCCCCTGCCTCTAGCATTAGTTCATGGCACATTCTGGACAAATCCACTGGCCGTCCATTTTGCTCAAGGGG---TCACATCAAGGAAGGACTTGCAATCATCTTGCTCTTGCTTCAGGATTGCCA---GATCCAGGCACCATCAgtggtaccctctacttaccctaccatgctgcattgatagaagacacctcactt #### Trpt1_ID1983_6 --> 2 - 1 Original Alignment atGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAG-CTTCGACCTACAc gaaagaaagtgtacaaacacatgatcatgactcgcgcccgctctttgcagatGGAATTCCA---TTCTGCTTTGGCAACGGGGTGATTTTAACACCAGGGAATGTGGAAGGTTTTCTTCTTCCCAACTACTCCACAGAGGCTCTCCAACCTACGGCCTATGtgtgaggtcatcacctagctgaatatggcattctctttaagtctgtcaggg Alignment from CESAR atGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAG-CTTCGACCTACAc gaaagaaagtgtacaaacacatgatcatgactcgcgcccgctctttgcagatGGAATTCCA---TTCTGCTTTGGCAACGGGGTGATTTTAACACCAGGGAATGTGGAAGGTTTTCTTCTTCCCAACTACTCCACAGAGGCTCTCCAACCTACGGCCTATGtgtgaggtcatcacctagctgaatatggcattctctttaagtctgtcaggg Alignment from Spaln_aa2Genome ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACACGAAAG gaaagaaagtgtacaaacacatgatcatgactcgcgcccgctctttgcagATGGAATTCCA---TTCTGCTTTGGCAACGGGGTGATTTTAACACCAGGGAATGTGGAAGGTTTTCTTCTTCCCAACTACTCCACAGAGGCTCTCCAA------CCTACGGCCTATgtgtgaggtcatcacctagctgaatatggcattctctttaagtctgtcaggg Alignment from Spaln_nt2Genome ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTT-CGACCTACAC gaaagaaagtgtacaaacacatgatcatgactcgcgcccgctctttgcagATGGAATTCC---ATTCTGCTTTGGCAACGGGGTGATTTTAACACCAGGGAATGTGGAAGGTTTTCTTCTTCCCAACTACTCCACAGAGGCTCTCCAACCTACGGCCTATGTgtgaggtcatcacctagctgaatatggcattctctttaagtctgtcaggg Alignment from Pairagon ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTT-CGACCTACAC gaaagaaagtgtacaaacacatgatcatgactcgcgcccgctctttgcagATGGAATTCC---ATTCTGCTTTGGCAACGGGGTGATTTTAACACCAGGGAATGTGGAAGGTTTTCTTCTTCCCAACTACTCCACAGAGGCTCTCCAACCTACGGCCTATGTgtgaggtcatcacctagctgaatatggcattctctttaagtctgtcaggg Alignment from Exonerate_protein2genome ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAG-CTTCGACCTACAC gaaagaaagtgtacaaacacatgatcatgactcgcgcccgctctttgcagATGGAATTCCA---TTCTGCTTTGGCAACGGGGTGATTTTAACACCAGGGAATGTGGAAGGTTTTCTTCTTCCCAACTACTCCACAGAGGCTCTCCAACCTACGGCCTATGTgtgaggtcatcacctagctgaatatggcattctctttaagtctgtcaggg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACACGAAAG gaaagaaagtgtacaaacacatgatcatgactcgcgcccgctctttgcagATGGAATTCCATTC---TGCTTTGGCAACGGGGTGATTTTAACACCAGGGAATGTGGAAGGTTTTCTTCTTCCCAACTACTCCACAGAGGCTCTCCAA------CCTACGGCCTATgtgtgaggtcatcacctagctgaatatggcattctctttaagtctgtcaggg #### Tut1_ID2551_4 --> 2 - 0 Original Alignment gcTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCAT-GGCTGTGATCTCGACCTCTTCTTGGACATGGGTGATATGGAAGAGACCGAG gactctctctatccatgacacctttccttaaggtgtgtttctcctttcaggcTGTGTGGTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATCGGTTGTGATCTAGACCTCTTTTTGGACATGGGAGATATGGAAGAGACTGAGgtgagtgggtagacagtctctgccatggaatctcagataagtaaagtatt Alignment from CESAR gcTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCAT-GGCTGTGATCTCGACCTCTTCTTGGACATGGGTGATATGGAAGAGACCGAG gactctctctatccatgacacctttccttaaggtgtgtttctcctttcaggcTGTGTGGTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATCGGTTGTGATCTAGACCTCTTTTTGGACATGGGAGATATGGAAGAGACTGAGgtgagtgggtagacagtctctgccatggaatctcagataagtaaagtatt Alignment from Spaln_aa2Genome GCTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCAT-GGCTGTGATCTCGACCTCTTCTTGGACATGGGTGATATGGAAGAGACCGAG gactctctctatccatgacacctttccttaaggtgtgtttctcctttcagGCTGTGTGGTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATcGGTTGTGATCTAGACCTCTTTTTGGACATGGGAGATATGGAAGAGACTGAGgtgagtgggtagacagtctctgccatggaatctcagataagtaaagtatt Alignment from Spaln_nt2Genome GCTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCAT-GGCTGTGATCTCGACCTCTTCTTGGACATGGGTGATATGGAAGAGACCGAG gactctctctatccatgacacctttccttaaggtgtgtttctcctttcagGCTGTGTGGTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATCGGTTGTGATCTAGACCTCTTTTTGGACATGGGAGATATGGAAGAGACTGAGgtgagtgggtagacagtctctgccatggaatctcagataagtaaagtatt Alignment from Pairagon GCTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCAT-GGCTGTGATCTCGACCTCTTCTTGGACATGGGTGATATGGAAGAGACCGAG gactctctctatccatgacacctttccttaaggtgtgtttctcctttcagGCTGTGTGGTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATCGGTTGTGATCTAGACCTCTTTTTGGACATGGGAGATATGGAAGAGACTGAGgtgagtgggtagacagtctctgccatggaatctcagataagtaaagtatt Alignment from Exonerate_protein2genome GCTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCAT-GGCTGTGATCTCGACCTCTTCTTGGACATGGGTGATATGGAAGAGACCGAG gactctctctatccatgacacctttccttaaggtgtgtttctcctttcagGCTGTGTGGTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATCGGTTGTGATCTAGACCTCTTTTTGGACATGGGAGATATGGAAGAGACTGAGgtgagtgggtagacagtctctgccatggaatctcagataagtaaagtatt Alignment from Exonerate_coding2genome GCTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCAT-GGCTGTGATCTCGACCTCTTCTTGGACATGGGTGATATGGAAGAGACCGAG gactctctctatccatgacacctttccttaaggtgtgtttctcctttcagGCTGTGTGGTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATCGGTTGTGATCTAGACCTCTTTTTGGACATGGGAGATATGGAAGAGACTGAGgtgagtgggtagacagtctctgccatggaatctcagataagtaaagtatt Alignment from GeneWise GCTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCAT-GGCTGTGATCTCGACCTCTTCTTGGACATGGGTGATATGGAAGAGACCGAG gactctctctatccatgacacctttccttaaggtgtgtttctcctttcagGCTGTGTGGTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATCGGTTGTGATCTAGACCTCTTTTTGGACATGGGAGATATGGAAGAGACTGAGgtgagtgggtagacagtctctgccatggaatctcagataagtaaagtatt #### Tut1_ID2554_7 --> 2 - 1 Original Alignment gaGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTT-ACCCAGAGAGCAg ttgacatgcagacctgttatcgcaattatctcctgttctctcttgaccaggaGGTGGCCCACTATTCAATAATTAT---GTAACCTTGTTGGTGATCTACCTGCTTCAAACAAGAGACCCACCAGTACTACCTAGTGTGGCCGAGCTACACCCAGAGGGCAggtgagtataatgtctgcgctctgtaacccaggcattctggcaggtataag Alignment from CESAR gaGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTT-ACCCAGAGAGCAg ttgacatgcagacctgttatcgcaattatctcctgttctctcttgaccaggaGGTGGCCCACTATTCAATAATTAT---GTAACCTTGTTGGTGATCTACCTGCTTCAAACAAGAGACCCACCAGTACTACCTAGTGTGGCCGAGCTACACCCAGAGGGCAggtgagtataatgtctgcgctctgtaacccaggcattctggcaggtataag Alignment from Spaln_aa2Genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG ttgacatgcagacctgttatcgcaattatctcctgttctctcttgaccagGAGGTGGCCCACTATTCAATAATTAT---GTAACCTTGTTGGTGATCTACCTGCTTCAAACAAGAGACCCACCAGTACTACCTAGTGTGGCCGAGCTA---CACCCAGAGGgcaggtgagtataatgtctgcgctctgtaacccaggcattctggcaggtataag Alignment from Spaln_nt2Genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTT-ACCCAGAGAGCAG ttgacatgcagacctgttatcgcaattatctcctgttctctcttgaccagGAGGTGGCCCACTATTCAATAATTATG---TAACCTTGTTGGTGATCTACCTGCTTCAAACAAGAGACCCACCAGTACTACCTAGTGTGGCCGAGCTACACCCAGAGGGCAGgtgagtataatgtctgcgctctgtaacccaggcattctggcaggtataag Alignment from Pairagon GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCT-TACCCAGAGAGCAG ttgacatgcagacctgttatcgcaattatctcctgttctctcttgaccagGAGGTGGCCCACTATTCAATAATTATG---TAACCTTGTTGGTGATCTACCTGCTTCAAACAAGAGACCCACCAGTACTACCTAGTGTGGCCGAGCTACACCCAGAGGGCAGgtgagtataatgtctgcgctctgtaacccaggcattctggcaggtataag Alignment from Exonerate_protein2genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTT-ACCCAGAGAGCAG ttgacatgcagacctgttatcgcaattatctcctgttctctcttgaccagGAGGTGGCCCACTATTCAATAATTAT---GTAACCTTGTTGGTGATCTACCTGCTTCAAACAAGAGACCCACCAGTACTACCTAGTGTGGCCGAGCTACACCCAGAGGGCAGgtgagtataatgtctgcgctctgtaacccaggcattctggcaggtataag Alignment from Exonerate_coding2genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTT-ACCCAGAGAGCAG ttgacatgcagacctgttatcgcaattatctcctgttctctcttgaccagGAGGTGGCCCACTATTCAATAATTAT---GTAACCTTGTTGGTGATCTACCTGCTTCAAACAAGAGACCCACCAGTACTACCTAGTGTGGCCGAGCTACACCCAGAGGGCAGgtgagtataatgtctgcgctctgtaacccaggcattctggcaggtataag Alignment from GeneWise GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAG-CTTACCCAGAGAGCAG ttgacatgcagacctgttatcgcaattatctcctgttctctcttgaccagGAGGTGGCCCACTATTCAATAATTAT---GTAACCTTGTTGGTGATCTACCTGCTTCAAACAAGAGACCCACCAGTACTACCTAGTGTGGCCGAGCTACACCCAGAGGGCAGgtgagtataatgtctgcgctctgtaacccaggcattctggcaggtataag #### Ubxn1_ID2442_6 --> 1 - 0 Original Alignment aCAAAGGGTTCGAGAAAAAATTGAAAGGGAC-AAAGCAGAGAGAGCCAAGAAG atttgttttatgtctatgttgttttctaaaccaattgaacactgtcttagaCAGAGAACTCGAGAAATGATTGAAAGAGACCAGAGCCGAAAGGACTAAAAAGgtacgtgatcccaaaatttgtacttgtaattggtagcatgcagtcaagga Alignment from CESAR aCAAAGGGTTCGAGAAAAAATTGAAAGGGAC-AAAGCAGAGAGAGCCAAGAAG atttgttttatgtctatgttgttttctaaaccaattgaacactgtcttagaCAGAGAACTCGAGAAATGATTGAAAGAGACCAGAGCCGAAAGGACTAAAAAGgtacgtgatcccaaaatttgtacttgtaattggtagcatgcagtcaagga Alignment from Spaln_aa2Genome ACAAAGGGTTCGAGAAAAAATTGAAAGGGAC-AAAGCAGAGAGAGCCAAGAAG atttgttttatgtctatgttgttttctaaaccaattgaacactgtcttagACAGAGAACTCGAGAAATGATTGAAAGAGACcAGAGCCGAAAGGACTAAAAAGgtacgtgatcccaaaatttgtacttgtaattggtagcatgcagtcaagga Alignment from Spaln_nt2Genome ACAAAGGGTTCGAGAAAAAATTGAAAGGGACAA-AGCAGAGAGAGCCAAGAAG atttgttttatgtctatgttgttttctaaaccaattgaacactgtcttagACAGAGAACTCGAGAAATGATTGAAAGAGACCAGAGCCGAAAGGACTAAAAAGgtacgtgatcccaaaatttgtacttgtaattggtagcatgcagtcaagga Alignment from Pairagon ACAAAGGGTTCGAGAAAAAATTGAAAGGGA-CAAAGCAGAGAGAGCCAAGAAG atttgttttatgtctatgttgttttctaaaccaattgaacactgtcttagACAGAGAACTCGAGAAATGATTGAAAGAGACCAGAGCCGAAAGGACTAAAAAGgtacgtgatcccaaaatttgtacttgtaattggtagcatgcagtcaagga Alignment from Exonerate_protein2genome ACAAAGGGTTCGAGAAAAAATTGAAAGGGAC-AAAGCAGAGAGAGCCAAGAAG atttgttttatgtctatgttgttttctaaaccaattgaacactgtcttagACAGAGAACTCGAGAAATGATTGAAAGAGACCAGAGCCGAAAGGACTAAAAAGgtacgtgatcccaaaatttgtacttgtaattggtagcatgcagtcaagga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise atttgttttatgtctatgttgttttctaaaccaattgaacactgtcttagacagagaactcgagaaatgattgaaagagaccagagccgaaaggactaaaaaggtacgtgatcccaaaatttgtacttgtaattggtagcatgcagtcaagga #### Uhrf2_ID6376_7 --> 1 - 0 Original Alignment gTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAG-AAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG cagaggatcgagttattcttattgaagttctctgtttctctggcctccaggTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTGGAGAGAGGCTAAAGCTGACCAAGCAAAAAATTGAAGATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagtgaatccttacactattaccaccacaatgtcagcagttcaaaaag Alignment from CESAR gTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAG-AAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG cagaggatcgagttattcttattgaagttctctgtttctctggcctccaggTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTGGAGAGAGGCTAAAGCTGACCAAGCAAAAAATTGAAGATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagtgaatccttacactattaccaccacaatgtcagcagttcaaaaag Alignment from Spaln_aa2Genome GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAG-AAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG cagaggatcgagttattcttattgaagttctctgtttctctggcctccagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTGGAGAGAGGCTAAAGCTGACCAAGcAAAAAATTGAAGATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagtgaatccttacactattaccaccacaatgtcagcagttcaaaaag Alignment from Spaln_nt2Genome GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAG-AAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG cagaggatcgagttattcttattgaagttctctgtttctctggcctccagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTGGAGAGAGGCTAAAGCTGACCAAGCAAAAAATTGAAGATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagtgaatccttacactattaccaccacaatgtcagcagttcaaaaag Alignment from Pairagon GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAG-AAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG cagaggatcgagttattcttattgaagttctctgtttctctggcctccagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTGGAGAGAGGCTAAAGCTGACCAAGCAAAAAATTGAAGATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagtgaatccttacactattaccaccacaatgtcagcagttcaaaaag Alignment from Exonerate_protein2genome GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAG-AAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG cagaggatcgagttattcttattgaagttctctgtttctctggcctccagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTGGAGAGAGGCTAAAGCTGACCAAGCAAAAAATTGAAGATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagtgaatccttacactattaccaccacaatgtcagcagttcaaaaag Alignment from Exonerate_coding2genome GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAG-AAGAAAGCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG cagaggatcgagttattcttattgaagttctctgtttctctggcctccagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTGGAGAGAGGCTAAAGCTGACCAAGCAAAAAATTGAAGATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagtgaatccttacactattaccaccacaatgtcagcagttcaaaaag Alignment from GeneWise GTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTGGTAAAGGCTGGAGAGAGACTCAAGCTGAGTAAGAAGAAA-GCGAAGATGCCCTCAGCCAGTACTGAGAGCCGGAGGGACTGGGGCAGG cagaggatcgagttattcttattgaagttctctgtttctctggcctccagGTATTGTCCTTCCTGTAAAACTGACTCCAGTGAGGTAGTAAAGGCTGGAGAGAGGCTAAAGCTGACCAAGCAAAAAATTGAAGATGCCTTCAGCTAGCACTGAGAGTCGAAGGGACTGGGGCAGGgtaagtgaatccttacactattaccaccacaatgtcagcagttcaaaaag #### Unc93b1_ID215_6 --> 0 - 1 Original Alignment TTGAGCTTCGCGTGTGCCCAGCTGCCCATG-ATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCg aattgttgcaaggacagacttctctcgtgtgtgtttccttttcctggtagTTTAGCTTC---TTTGCTCAG------ATGCATTTACTTCCTTAACAATTATCTGTATGACCTAAACCATACACTTATCAATGTACAGATAAGTggtgaggttgtaatatcctagtaagttagcctttgttccatattctgtcca Alignment from CESAR TTGAGCTTCGCGTGTGCCCAGCTGCCCATG-ATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCg aattgttgcaaggacagacttctctcgtgtgtgtttccttttcctggtagTTTAGCTTC---TTTGCTCAG------ATGCATTTACTTCCTTAACAATTATCTGTATGACCTAAACCATACACTTATCAATGTACAGATAAGTggtgaggttgtaatatcctagtaagttagcctttgttccatattctgtcca Alignment from Spaln_aa2Genome CGCGTGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG aattgttgcaaggacagacttctctcgtgtgtgtttccttttcctggtagTTTAGCTTCTTTGCTCAGATGCATTTACTTCCTTAACAATTATCTGTATGACCTAAACCATACACTTATCAATGTACAGATAAGTGgtgaggttgtaatatcctagtaagttagcctttgttccatattctgtcca Alignment from Spaln_nt2Genome TTGAGCTTCGCGTGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG aattgttgcaaggacagacttctctcgtgtgtgtttccttttcctggtagTTTAGCTTC---TTTGCTCAGATGC-----ATTTACTTCCTTAACAATTATCTGTATGACCTAAACCATACACTTATCAATGTACAGATAAGTGgtgaggttgtaatatcctagtaagttagcctttgttccatattctgtcca Alignment from Pairagon TTGAGCTTCGCGTGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG aattgttgcaaggacagacttctctcgtgtgtgtttccttttcctggtagTTTAGCTTC---TTTGCTCAGATGC-----ATTTACTTCCTTAACAATTATCTGTATGACCTAAACCATACACTTATCAATGTACAGATAAGTGgtgaggttgtaatatcctagtaagttagcctttgttccatattctgtcca Alignment from Exonerate_protein2genome GCTTCGCGTGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG aattgttgcaaggacagacttctctcgtgtgtgtttccttttcctgGTAGTTTAGCTTCTTTGCTCAGATGCATTTACTTCCTTAACAATTATCTGTATGACCTAAACCATACACTTATCAATGTACAGATAAGTGgtgaggttgtaatatcctagtaagttagcctttgttccatattctgtcca Alignment from Exonerate_coding2genome aattgttgcaaggacagacttctctcgtgtgtgtttccttttcctggtagtttagcttctttgctcagatgcatttacttccttaacaattatctgtatgacctaaaccatacacttatcaatgtacagataagtggtgaggttgtaatatcctagtaagttagcctttgttccatattctgtcca Alignment from GeneWise -ATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG aattgttgcaaggacagacttctctcgtgtgtgtttccttttcctggtagtttagcttctttgctcagATGCATTTACTTCCTTAACAATTATCTGTATGACCTAAACCATACACTTATCAATGTACAGATAAGTGgtgaggttgtaatatcctagtaagttagcctttgttccatattctgtcca #### Unc93b1_ID217_8 --> 0 - 0 Original Alignment GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATC-GACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG tacccagaatagaatgctcattctaggtactgtttctcttctcattaaagGTCTTGGGTTTGTGCGGAGCAACACACCGGACCATGGAGGAGATTCGACCTGCGTAGTGTGGGTTGGGGCAACATCTGTCAATTGCCCTTCAAGCATGTACATGATTTTTGCCTACGGCACTTAGTGCCATTCTTTATCTATAGTGGGTTTGAAGTGCTCTTTGCTTGTACAGGGTTTGCACTTgtagggtattaataacacacaatataggtagcttatctgatgggactgtc Alignment from CESAR GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATC-GACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG tacccagaatagaatgctcattctaggtactgtttctcttctcattaaagGTCTTGGGTTTGTGCGGAGCAACACACCGGACCATGGAGGAGATTCGACCTGCGTAGTGTGGGTTGGGGCAACATCTGTCAATTGCCCTTCAAGCATGTACATGATTTTTGCCTACGGCACTTAGTGCCATTCTTTATCTATAGTGGGTTTGAAGTGCTCTTTGCTTGTACAGGGTTTGCACTTgtagggtattaataacacacaatataggtagcttatctgatgggactgtc Alignment from Spaln_aa2Genome GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATC-GACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG tacccagaatagaatgctcattctaggtactgtttctcttctcattaaagGTCTTGGGTTTGTGCGGAGCAACACACCGGACCATGGAGGAGATTcGACCTGCGTAGTGTGGGTTGGGGCAACATCTGTCAATTGCCCTTCAAGCATGTACATGATTTTTGCCTACGGCACTTAGTGCCATTCTTTATCTATAGTGGGTTTGAAGTGCTCTTTGCTTGTACAGGGTTTGCACTTgtagggtattaataacacacaatataggtagcttatctgatgggactgtc Alignment from Spaln_nt2Genome GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGAT-CGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG tacccagaatagaatgctcattctaggtactgtttctcttctcattaaagGTCTTGGGTTTGTGCGGAGCAACACACCGGACCATGGAGGAGATTCGACCTGCGTAGTGTGGGTTGGGGCAACATCTGTCAATTGCCCTTCAAGCATGTACATGATTTTTGCCTACGGCACTTAGTGCCATTCTTTATCTATAGTGGGTTTGAAGTGCTCTTTGCTTGTACAGGGTTTGCACTTgtagggtattaataacacacaatataggtagcttatctgatgggactgtc Alignment from Pairagon GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGA-TCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG tacccagaatagaatgctcattctaggtactgtttctcttctcattaaagGTCTTGGGTTTGTGCGGAGCAACACACCGGACCATGGAGGAGATTCGACCTGCGTAGTGTGGGTTGGGGCAACATCTGTCAATTGCCCTTCAAGCATGTACATGATTTTTGCCTACGGCACTTAGTGCCATTCTTTATCTATAGTGGGTTTGAAGTGCTCTTTGCTTGTACAGGGTTTGCACTTgtagggtattaataacacacaatataggtagcttatctgatgggactgtc Alignment from Exonerate_protein2genome GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATC-GACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG tacccagaatagaatgctcattctaggtactgtttctcttctcattaaagGTCTTGGGTTTGTGCGGAGCAACACACCGGACCATGGAGGAGATTCGACCTGCGTAGTGTGGGTTGGGGCAACATCTGTCAATTGCCCTTCAAGCATGTACATGATTTTTGCCTACGGCACTTAGTGCCATTCTTTATCTATAGTGGGTTTGAAGTGCTCTTTGCTTGTACAGGGTTTGCACTTgtagggtattaataacacacaatataggtagcttatctgatgggactgtc Alignment from Exonerate_coding2genome GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATC-GACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG tacccagaatagaatgctcattctaggtactgtttctcttctcattaaagGTCTTGGGTTTGTGCGGAGCAACACACCGGACCATGGAGGAGATTCGACCTGCGTAGTGTGGGTTGGGGCAACATCTGTCAATTGCCCTTCAAGCATGTACATGATTTTTGCCTACGGCACTTAGTGCCATTCTTTATCTATAGTGGGTTTGAAGTGCTCTTTGCTTGTACAGGGTTTGCACTTgtagggtattaataacacacaatataggtagcttatctgatgggactgtc Alignment from GeneWise GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAG-ATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG tacccagaatagaatgctcattctaggtactgtttctcttctcattaaagGTCTTGGGTTTGTGCGGAGCAACACACCGGACCATGGAGGAGATTCGACCTGCGTAGTGTGGGTTGGGGCAACATCTGTCAATTGCCCTTCAAGCATGTACATGATTTTTGCCTACGGCACTTAGTGCCATTCTTTATCTATAGTGGGTTTGAAGTGCTCTTTGCTTGTACAGGGTTTGCACTTgtagggtattaataacacacaatataggtagcttatctgatgggactgtc #### Vegfb_ID1957_3 --> 2 - 0 Original Alignment tgGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGT-GGTGGCTGC---TGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaacttttttggcacttggtctcgttcctcacagtgGTACCATGGATTGATGTCTATGCACGTTCTGTATGCCAACCTAGGGAGGTGGCAGCTCCACTGAGTATGAAACTCATGGGTAATATTGTCAAACAGCTGGTCCCAAGCTGTGTTGGAACTGTGCAGTGCTGTCAGTGGGTGCTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgttaatgactaatatggatgtaagtacttggtagtatcaatctggttcac Alignment from CESAR tgGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTG---ACTGTGCAGCGCTGT-GGTGGCTGC---TGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaacttttttggcacttggtctcgttcctcacagtgGTACCATGGATTGATGTCTATGCACGTTCTGTATGCCAACCTAGGGAGGTGGCAGCTCCACTGAGTATGAAACTCATGGGTAATATTGTCAAACAGCTGGTCCCAAGCTGTGTTGGAACTGTGCAGTGCTGTCAGTGGGTGCTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgttaatgactaatatggatgtaagtacttggtagtatcaatctggttcac Alignment from Spaln_aa2Genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTG---ACTGTGCAGCGCTGT----GGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaacttttttggcacttggtctcgttcctcacagTGGTACCATGGATTGATGTCTATGCACGTTCTGTATGCCAACCTAGGGAGGTGGCAGCTCCACTGAGTATGAAACTCATGGGTAATATTGTCAAACAGCTGGTCCCAAGCTGTGTTGGAACTGTGCAGTGCTGTCAGtGGGTGCTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgttaatgactaatatggatgtaagtacttggtagtatcaatctggttcac Alignment from Spaln_nt2Genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTG---ACTGTGCAGCGCTGT----GGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaacttttttggcacttggtctcgttcctcacagTGGTACCATGGATTGATGTCTATGCACGTTCTGTATGCCAACCTAGGGAGGTGGCAGCTCCACTGAGTATGAAACTCATGGGTAATATTGTCAAACAGCTGGTCCCAAGCTGTGTTGGAACTGTGCAGTGCTGTCAGTGGGTGCTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgttaatgactaatatggatgtaagtacttggtagtatcaatctggttcac Alignment from Pairagon TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGT---GACTGTGCAGCGCT----GTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaacttttttggcacttggtctcgttcctcacagTGGTACCATGGATTGATGTCTATGCACGTTCTGTATGCCAACCTAGGGAGGTGGCAGCTCCACTGAGTATGAAACTCATGGGTAATATTGTCAAACAGCTGGTCCCAAGCTGTGTTGGAACTGTGCAGTGCTGTCAGTGGGTGCTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgttaatgactaatatggatgtaagtacttggtagtatcaatctggttcac Alignment from Exonerate_protein2genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTG---ACTGTGCAGCGCTGT----GGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaacttttttggcacttggtctcgttcctcacagTGGTACCATGGATTGATGTCTATGCACGTTCTGTATGCCAACCTAGGGAGGTGGCAGCTCCACTGAGTATGAAACTCATGGGTAATATTGTCAAACAGCTGGTCCCAAGCTGTGTTGGAACTGTGCAGTGCTGTCAGTGGGTGCTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgttaatgactaatatggatgtaagtacttggtagtatcaatctggttcac Alignment from Exonerate_coding2genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTG---ACTGTGCAGCGCTGT----GGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaacttttttggcacttggtctcgttcctcacagTGGTACCATGGATTGATGTCTATGCACGTTCTGTATGCCAACCTAGGGAGGTGGCAGCTCCACTGAGTATGAAACTCATGGGTAATATTGTCAAACAGCTGGTCCCAAGCTGTGTTGGAACTGTGCAGTGCTGTCAGTGGGTGCTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgttaatgactaatatggatgtaagtacttggtagtatcaatctggttcac Alignment from GeneWise TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTG---ACTGTGCAGCGCTGT-GGTGGCTGCTGC---CCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaacttttttggcacttggtctcgttcctcacagTGGTACCATGGATTGATGTCTATGCACGTTCTGTATGCCAACCTAGGGAGGTGGCAGCTCCACTGAGTATGAAACTCATGGGTAATATTGTCAAACAGCTGGTCCCAAGCTGTGTTGGAACTGTGCAGTGCTGTCAGTGGGTGCTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgttaatgactaatatggatgtaagtacttggtagtatcaatctggttcac #### Vldlr_ID5807_6 --> 2 - 1 Original Alignment ctTCTCGAACCTGCCGACCTGACCAGTTTGAA-TGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACg cttcacttctgatgtctctagcagtctctcttggtttttgaatcccacagcaTCTCAAACTTGCCGACCTGACCACTTTGAACTGTGAGGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGTATCCAGGCTTGTGTTGATGGGTCTGATGAACTGAACTGTAGAAACagtaaggatccctctgagattgacgggtaatggttcctttcccagaagagt Alignment from CESAR ctTCTCGAACCTGCCGACCTGACCAGTTTGAA-TGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACg cttcacttctgatgtctctagcagtctctcttggtttttgaatcccacagcaTCTCAAACTTGCCGACCTGACCACTTTGAACTGTGAGGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGTATCCAGGCTTGTGTTGATGGGTCTGATGAACTGAACTGTAGAAACagtaaggatccctctgagattgacgggtaatggttcctttcccagaagagt Alignment from Spaln_aa2Genome CTTCTCGAACCTGCCGACCTGACCAGTTTGAA-TGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cttcacttctgatgtctctagcagtctctcttggtttttgaatcccacagCATCTCAAACTTGCCGACCTGACCACTTTGAAcTGTGAGGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGTATCCAGGCTTGTGTTGATGGGTCTGATGAACTGAACTGTAGAAACAgtaaggatccctctgagattgacgggtaatggttcctttcccagaagagt Alignment from Spaln_nt2Genome CTTCTCGAACCTGCCGACCTGACCAGTTTGAA-TGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cttcacttctgatgtctctagcagtctctcttggtttttgaatcccacagCATCTCAAACTTGCCGACCTGACCACTTTGAACTGTGAGGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGTATCCAGGCTTGTGTTGATGGGTCTGATGAACTGAACTGTAGAAACAgtaaggatccctctgagattgacgggtaatggttcctttcccagaagagt Alignment from Pairagon CTTCTCGAACCTGCCGACCTGACCAGTTTGAA-TGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cttcacttctgatgtctctagcagtctctcttggtttttgaatcccacagCATCTCAAACTTGCCGACCTGACCACTTTGAACTGTGAGGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGTATCCAGGCTTGTGTTGATGGGTCTGATGAACTGAACTGTAGAAACAgtaaggatccctctgagattgacgggtaatggttcctttcccagaagagt Alignment from Exonerate_protein2genome CTTCTCGAACCTGCCGACCTGACCAGTTTGAA-TGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cttcacttctgatgtctctagcagtctctcttggtttttgaatcccacagCATCTCAAACTTGCCGACCTGACCACTTTGAACTGTGAGGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGTATCCAGGCTTGTGTTGATGGGTCTGATGAACTGAACTGTAGAAACAgtaaggatccctctgagattgacgggtaatggttcctttcccagaagagt Alignment from Exonerate_coding2genome CTTCTCGAACCTGCCGACCTGACCAGTTTGAA-TGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cttcacttctgatgtctctagcagtctctcttggtttttgaatcccacagCATCTCAAACTTGCCGACCTGACCACTTTGAACTGTGAGGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGTATCCAGGCTTGTGTTGATGGGTCTGATGAACTGAACTGTAGAAACAgtaaggatccctctgagattgacgggtaatggttcctttcccagaagagt Alignment from GeneWise -------------------------------------------------CCTTCTCGAACCTGCCGACCTGACCAGTTT-GAATGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG CTTCACTTCTGATGTCTCTAGCAGTCTCTCTTGGTTTTTGAATCCCACAGCATCTCAAACTTGCCGACCTGACCACTTTGAACTGTGAGGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGTATCCAGGCTTGTGTTGATGGGTCTGATGAACTGAACTGTAGAAACAgtaaggatccctctgagattgacgggtaatggttcctttcccagaagagt #### Vldlr_ID5809_8 --> 2 - 1 Original Alignment atATCAACGAATGCCTGGTC-AATAATGGTGGCTGTTCCCATATCTGCAAAGACCTAGTTATAGGTTATGAGTGTGATTGTGCAGCTGGGTTTGAACTGATAGATAGGAAAACCTGTGGAg gggtcaatgttgactggcaattttatggccagtttggtttccgtgaacagatATTAAAGAATGCTTGGTACAATAATGGTGGTTGTTCCCATATCTGCAAAGACTTAGTTATAGGTTATGAGTGTGACTGTGCAGCTGGGTTTGAGCTCATAGATAGGAAAACCTGTGGAggtgaggatatatacactatggacatccaaatggttatagaaaacaagcaa Alignment from CESAR atATCAACGAATGCCTGGTC-AATAATGGTGGCTGTTCCCATATCTGCAAAGACCTAGTTATAGGTTATGAGTGTGATTGTGCAGCTGGGTTTGAACTGATAGATAGGAAAACCTGTGGAg gggtcaatgttgactggcaattttatggccagtttggtttccgtgaacagatATTAAAGAATGCTTGGTACAATAATGGTGGTTGTTCCCATATCTGCAAAGACTTAGTTATAGGTTATGAGTGTGACTGTGCAGCTGGGTTTGAGCTCATAGATAGGAAAACCTGTGGAggtgaggatatatacactatggacatccaaatggttatagaaaacaagcaa Alignment from Spaln_aa2Genome ATATCAACGAATGCCTGGTC-AATAATGGTGGCTGTTCCCATATCTGCAAAGACCTAGTTATAGGTTATGAGTGTGATTGTGCAGCTGGGTTTGAACTGATAGATAGGAAAACCTGTGGAG gggtcaatgttgactggcaattttatggccagtttggtttccgtgaacagATATTAAAGAATGCTTGGTAcAATAATGGTGGTTGTTCCCATATCTGCAAAGACTTAGTTATAGGTTATGAGTGTGACTGTGCAGCTGGGTTTGAGCTCATAGATAGGAAAACCTGTGGAGgtgaggatatatacactatggacatccaaatggttatagaaaacaagcaa Alignment from Spaln_nt2Genome ATATCAACGAATGCCTGGT-CAATAATGGTGGCTGTTCCCATATCTGCAAAGACCTAGTTATAGGTTATGAGTGTGATTGTGCAGCTGGGTTTGAACTGATAGATAGGAAAACCTGTGGAG gggtcaatgttgactggcaattttatggccagtttggtttccgtgaacagATATTAAAGAATGCTTGGTACAATAATGGTGGTTGTTCCCATATCTGCAAAGACTTAGTTATAGGTTATGAGTGTGACTGTGCAGCTGGGTTTGAGCTCATAGATAGGAAAACCTGTGGAGgtgaggatatatacactatggacatccaaatggttatagaaaacaagcaa Alignment from Pairagon ATATCAACGAATGCCTGGT-CAATAATGGTGGCTGTTCCCATATCTGCAAAGACCTAGTTATAGGTTATGAGTGTGATTGTGCAGCTGGGTTTGAACTGATAGATAGGAAAACCTGTGGAG gggtcaatgttgactggcaattttatggccagtttggtttccgtgaacagATATTAAAGAATGCTTGGTACAATAATGGTGGTTGTTCCCATATCTGCAAAGACTTAGTTATAGGTTATGAGTGTGACTGTGCAGCTGGGTTTGAGCTCATAGATAGGAAAACCTGTGGAGgtgaggatatatacactatggacatccaaatggttatagaaaacaagcaa Alignment from Exonerate_protein2genome ATATCAACGAATGCCTGGTC-AATAATGGTGGCTGTTCCCATATCTGCAAAGACCTAGTTATAGGTTATGAGTGTGATTGTGCAGCTGGGTTTGAACTGATAGATAGGAAAACCTGTGGAG gggtcaatgttgactggcaattttatggccagtttggtttccgtgaacagATATTAAAGAATGCTTGGTACAATAATGGTGGTTGTTCCCATATCTGCAAAGACTTAGTTATAGGTTATGAGTGTGACTGTGCAGCTGGGTTTGAGCTCATAGATAGGAAAACCTGTGGAGgtgaggatatatacactatggacatccaaatggttatagaaaacaagcaa Alignment from Exonerate_coding2genome ATATCAACGAATGCCTGGTC-AATAATGGTGGCTGTTCCCATATCTGCAAAGACCTAGTTATAGGTTATGAGTGTGATTGTGCAGCTGGGTTTGAACTGATAGATAGGAAAACCTGTGGAG gggtcaatgttgactggcaattttatggccagtttggtttccgtgaacagATATTAAAGAATGCTTGGTACAATAATGGTGGTTGTTCCCATATCTGCAAAGACTTAGTTATAGGTTATGAGTGTGACTGTGCAGCTGGGTTTGAGCTCATAGATAGGAAAACCTGTGGAGgtgaggatatatacactatggacatccaaatggttatagaaaacaagcaa Alignment from GeneWise ATATCAACGAATGCCTG-GTCAATAATGGTGGCTGTTCCCATATCTGCAAAGACCTAGTTATAGGTTATGAGTGTGATTGTGCAGCTGGGTTTGAACTGATAGATAGGAAAACCTGTGGAG gggtcaatgttgactggcaattttatggccagtttggtttccgtgaacagATATTAAAGAATGCTTGGTACAATAATGGTGGTTGTTCCCATATCTGCAAAGACTTAGTTATAGGTTATGAGTGTGACTGTGCAGCTGGGTTTGAGCTCATAGATAGGAAAACCTGTGGAGgtgaggatatatacactatggacatccaaatggttatagaaaacaagcaa #### Vldlr_ID5810_9 --> 2 - 1 Original Alignment atATTGATGAATGCCAAAACCCG-GGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAg aaatggttatagaaaacaagcaattggggtaatcctgcctggctcttcagacATTGATGAATGCCAAAACCCACGGAATCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTCGCCACTGGTGTGTGCAAGGCAATAggtaatgaagtaactgagcaataatacgggtgtggagtgtaacttactgtc Alignment from CESAR atATTGATGAATGCCAAAACCCG-GGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAg aaatggttatagaaaacaagcaattggggtaatcctgcctggctcttcagacATTGATGAATGCCAAAACCCACGGAATCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTCGCCACTGGTGTGTGCAAGGCAATAggtaatgaagtaactgagcaataatacgggtgtggagtgtaacttactgtc Alignment from Spaln_aa2Genome ATATTGATGAATGCCAAAACCCG-GGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggttatagaaaacaagcaattggggtaatcctgcctggctcttcagACATTGATGAATGCCAAAACCCAcGGAATCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTCGCCACTGGTGTGTGCAAGGCAATAGgtaatgaagtaactgagcaataatacgggtgtggagtgtaacttactgtc Alignment from Spaln_nt2Genome ATATTGATGAATGCCAAAACCCGGGGA-TCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggttatagaaaacaagcaattggggtaatcctgcctggctcttcagACATTGATGAATGCCAAAACCCACGGAATCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTCGCCACTGGTGTGTGCAAGGCAATAGgtaatgaagtaactgagcaataatacgggtgtggagtgtaacttactgtc Alignment from Pairagon ATATTGATGAATGCCAAAACCCG-GGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggttatagaaaacaagcaattggggtaatcctgcctggctcttcagACATTGATGAATGCCAAAACCCACGGAATCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTCGCCACTGGTGTGTGCAAGGCAATAGgtaatgaagtaactgagcaataatacgggtgtggagtgtaacttactgtc Alignment from Exonerate_protein2genome ATATTGATGAATGCCAAAACCCG-GGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggttatagaaaacaagcaattggggtaatcctgcctggctcttcagACATTGATGAATGCCAAAACCCACGGAATCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTCGCCACTGGTGTGTGCAAGGCAATAGgtaatgaagtaactgagcaataatacgggtgtggagtgtaacttactgtc Alignment from Exonerate_coding2genome ATATTGATGAATGCCAAAACCCG-GGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggttatagaaaacaagcaattggggtaatcctgcctggctcttcagACATTGATGAATGCCAAAACCCACGGAATCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTCGCCACTGGTGTGTGCAAGGCAATAGgtaatgaagtaactgagcaataatacgggtgtggagtgtaacttactgtc Alignment from GeneWise ATATTGATGAATGCCAAAACCCG-GGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAGGCAAAGAG aaatggttatagaaaacaagcaattggggtaatcctgcctggctcttcagACATTGATGAATGCCAAAACCCACGGAATCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTCGCCACTGGTGTGTGCAAGGCAATAGGTAATGAAgtaactgagcaataatacgggtgtggagtgtaacttactgtc #### Vps13a_ID4058_65 --> 2 - 0 Original Alignment gtGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGA-GGAAAAGGCCTTGTCTCT acaccagtgaggaaaaggttttatctgattaattttcttcctttttataggtGGGCTAGCTAGTGCTGCCTCTAAACTGACTAGCGCTATGTCGAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGGAAAGAAAAGAAGCAATGAATAAGCGGCCAGCTGGACTAAGAGAGGGCATCACCCGAGGACGGGAAAGGTTTGGTCTCTgtatgtcctcactgtgtcctgaattacatagaaggtctgttgcattcata Alignment from CESAR gtGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGA-GGAAAAGGCCTTGTCTCT acaccagtgaggaaaaggttttatctgattaattttcttcctttttataggtGGGCTAGCTAGTGCTGCCTCTAAACTGACTAGCGCTATGTCGAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGGAAAGAAAAGAAGCAATGAATAAGCGGCCAGCTGGACTAAGAGAGGGCATCACCCGAGGACGGGAAAGGTTTGGTCTCTgtatgtcctcactgtgtcctgaattacatagaaggtctgttgcattcata Alignment from Spaln_aa2Genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGA-GGAAAAGGCCTTGTCTCT acaccagtgaggaaaaggttttatctgattaattttcttcctttttatagGTGGGCTAGCTAGTGCTGCCTCTAAACTGACTAGCGCTATGTCGAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGGAAAGAAAAGAAGCAATGAATAAGCGGCCAGCTGGACTAAGAGAGGGCATCACCCGAGGAcGGGAAAGGTTTGGTCTCTgtatgtcctcactgtgtcctgaattacatagaaggtctgttgcattcata Alignment from Spaln_nt2Genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGA-GGAAAAGGCCTTGTCTCT acaccagtgaggaaaaggttttatctgattaattttcttcctttttatagGTGGGCTAGCTAGTGCTGCCTCTAAACTGACTAGCGCTATGTCGAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGGAAAGAAAAGAAGCAATGAATAAGCGGCCAGCTGGACTAAGAGAGGGCATCACCCGAGGACGGGAAAGGTTTGGTCTCTgtatgtcctcactgtgtcctgaattacatagaaggtctgttgcattcata Alignment from Pairagon GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGA-GGAAAAGGCCTTGTCTCT acaccagtgaggaaaaggttttatctgattaattttcttcctttttatagGTGGGCTAGCTAGTGCTGCCTCTAAACTGACTAGCGCTATGTCGAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGGAAAGAAAAGAAGCAATGAATAAGCGGCCAGCTGGACTAAGAGAGGGCATCACCCGAGGACGGGAAAGGTTTGGTCTCTgtatgtcctcactgtgtcctgaattacatagaaggtctgttgcattcata Alignment from Exonerate_protein2genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGA-GGAAAAGGCCTTGTCTCT acaccagtgaggaaaaggttttatctgattaattttcttcctttttatagGTGGGCTAGCTAGTGCTGCCTCTAAACTGACTAGCGCTATGTCGAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGGAAAGAAAAGAAGCAATGAATAAGCGGCCAGCTGGACTAAGAGAGGGCATCACCCGAGGACGGGAAAGGTTTGGTCTCTgtatgtcctcactgtgtcctgaattacatagaaggtctgttgcattcata Alignment from Exonerate_coding2genome acaccagtgaggaaaaggttttatctgattaattttcttcctttttataggtgggctagctagtgctgcctctaaactgactagcgctatgtcgaaaggagtagcagccatgaccatggatgaagactaccagcaggaaagaaaagaagcaatgaataagcggccagctggactaagagagggcatcacccgaggacgggaaaggtttggtctctgtatgtcctcactgtgtcctgaattacatagaaggtctgttgcattcata Alignment from GeneWise GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGA-GGAAAAGGCCTTGTCTCT acaccagtgaggaaaaggttttatctgattaattttcttcctttttatagGTGGGCTAGCTAGTGCTGCCTCTAAACTGACTAGCGCTATGTCGAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGGAAAGAAAAGAAGCAATGAATAAGCGGCCAGCTGGACTAAGAGAGGGCATCACCCGAGGACGGGAAAGGTTTGGTCTCTgtatgtcctcactgtgtcctgaattacatagaaggtctgttgcattcata #### Vps13a_ID4067_56 --> 0 - 0 Original Alignment GTT---------CGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAGTAGAATATAACACA-TCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG ttacaaaaacacactacaaccaaattgcgcttcattcctcgttgaaacagGTTCATTTAACACATCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCACTAAAGATAGCATACAATACACGTAGTACATCAGTGGGCATTTCGGATTCAGATTTATAGGATTCAGgtgaggttgaaaatcgaacgaggacaagattgacattaacgggtgccaaa Alignment from CESAR GTTCGTTTAACA---------CCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAGTAGAATATAACACA-TCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG ttacaaaaacacactacaaccaaattgcgcttcattcctcgttgaaacagGTTCATTTAACACATCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCACTAAAGATAGCATACAATACACGTAGTACATCAGTGGGCATTTCGGATTCAGATTTATAGGATTCAGgtgaggttgaaaatcgaacgaggacaagattgacattaacgggtgccaaa Alignment from Spaln_aa2Genome GTT---------CGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAGTAGAATATAACACATCTGCA-CATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG ttacaaaaacacactacaaccaaattgcgcttcattcctcgttgaaacagGTTCATTTAACACATCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCACTAAAGATAGCATACAATACACGTAGTaCATCAGTGGGCATTTCGGATTCAGATTTATAGGATTCAGgtgaggttgaaaatcgaacgaggacaagattgacattaacgggtgccaaa Alignment from Spaln_nt2Genome GTTCGTTTAACAC---------CTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAGTAGAATATAACACATCT-GCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG ttacaaaaacacactacaaccaaattgcgcttcattcctcgttgaaacagGTTCATTTAACACATCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCACTAAAGATAGCATACAATACACGTAGTACATCAGTGGGCATTTCGGATTCAGATTTATAGGATTCAGgtgaggttgaaaatcgaacgaggacaagattgacattaacgggtgccaaa Alignment from Pairagon GTTCGTTTAACA---------CCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAGTAGAATATAACACATCT-GCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG ttacaaaaacacactacaaccaaattgcgcttcattcctcgttgaaacagGTTCATTTAACACATCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCACTAAAGATAGCATACAATACACGTAGTACATCAGTGGGCATTTCGGATTCAGATTTATAGGATTCAGgtgaggttgaaaatcgaacgaggacaagattgacattaacgggtgccaaa Alignment from Exonerate_protein2genome TCGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAGTAGAATATAACACATCTGCA-CATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG ttacaaaaacacactacaaccaaattgcgcttcattcctcgttgaaacaggttcatttaacACATCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCACTAAAGATAGCATACAATACACGTAGTACATCAGTGGGCATTTCGGATTCAGATTTATAGGATTCAGgtgaggttgaaaatcgaacgaggacaagattgacattaacgggtgccaaa Alignment from Exonerate_coding2genome ttacaaaaacacactacaaccaaattgcgcttcattcctcgttgaaacaggttcatttaacacatctaacccctagtggcaatgatatgaggattttgcaaactcgccttatacctgtgcgtagaaactatcttccagcactaaagatagcatacaatacacgtagtacatcagtgggcatttcggattcagatttataggattcaggtgaggttgaaaatcgaacgaggacaagattgacattaacgggtgccaaa Alignment from GeneWise ---------GTTCGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAGTAGAATATAACACA-TCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG ttacaaaaacacactacaaccaaattgcgcttcattcctcgttgaaacagGTTCATTTAACACATCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCACTAAAGATAGCATACAATACACGTAGTACATCAGTGGGCATTTCGGATTCAGATTTATAGGATTCAGgtgaggttgaaaatcgaacgaggacaagattgacattaacgggtgccaaa #### Vps13a_ID4068_55 --> 1 - 0 Original Alignment tTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTG-GTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcacatattttaactctgatacatttgcagtACTGATGTGGTCTGGGAGGCAAAGCCAAAGGAGAAGACTAGGTGGAAACCTATG---ATCAAGCACACAGTCAAGTTAGAGAAGGGGTTTAGGGCATACATGGAGGCCTCACCGTTGGAGGACAAGGTGCGTGGAGTTGGACAACATCCCAgtgagttctatcttgtgatttatgtacaatacttaagtaatgatcttctt Alignment from CESAR tTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTG-GTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcacatattttaactctgatacatttgcagtACTGATGTGGTCTGGGAGGCAAAGCCAAAGGAGAAGACTAGGTGGAAACCTATG---ATCAAGCACACAGTCAAGTTAGAGAAGGGGTTTAGGGCATACATGGAGGCCTCACCGTTGGAGGACAAGGTGCGTGGAGTTGGACAACATCCCAgtgagttctatcttgtgatttatgtacaatacttaagtaatgatcttctt Alignment from Spaln_aa2Genome TTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTG-GTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcacatattttaactctgatacatttgcagTACTGATGTGGTCTGGGAGGCAAAGCCAAAGGAGAAGACTAGGTGGAAACCTATG---ATCAAGCACACAGTCAAGTTAGAGAAGGGGTTTAGGGCATACATGGAGGCCTCACCGTTGGAGGACAAGGTGcGTGGAGTTGGACAACATCCCAgtgagttctatcttgtgatttatgtacaatacttaagtaatgatcttctt Alignment from Spaln_nt2Genome TTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTG-GTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcacatattttaactctgatacatttgcagTACTGATGTGGTCTGGGAGGCAAAGCCAAAGGAGAAGACTAGGTGGAAACCTATGA---TCAAGCACACAGTCAAGTTAGAGAAGGGGTTTAGGGCATACATGGAGGCCTCACCGTTGGAGGACAAGGTGCGTGGAGTTGGACAACATCCCAgtgagttctatcttgtgatttatgtacaatacttaagtaatgatcttctt Alignment from Pairagon TTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTG-GTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcacatattttaactctgatacatttgcagTACTGATGTGGTCTGGGAGGCAAAGCCAAAGGAGAAGACTAGGTGGAAACCTATGA---TCAAGCACACAGTCAAGTTAGAGAAGGGGTTTAGGGCATACATGGAGGCCTCACCGTTGGAGGACAAGGTGCGTGGAGTTGGACAACATCCCAgtgagttctatcttgtgatttatgtacaatacttaagtaatgatcttctt Alignment from Exonerate_protein2genome TTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTG-GTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcacatattttaactctgatacatttgcagTACTGATGTGGTCTGGGAGGCAAAGCCAAAGGAGAAGACTAGGTGGAAACCTATG---ATCAAGCACACAGTCAAGTTAGAGAAGGGGTTTAGGGCATACATGGAGGCCTCACCGTTGGAGGACAAGGTGCGTGGAGTTGGACAACATCCCAgtgagttctatcttgtgatttatgtacaatacttaagtaatgatcttctt Alignment from Exonerate_coding2genome TTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTG-GTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcacatattttaactctgatacatttgcagTACTGATGTGGTCTGGGAGGCAAAGCCAAAGGAGAAGACTAGGTGGAAACCTATG---ATCAAGCACACAGTCAAGTTAGAGAAGGGGTTTAGGGCATACATGGAGGCCTCACCGTTGGAGGACAAGGTGCGTGGAGTTGGACAACATCCCAgtgagttctatcttgtgatttatgtacaatacttaagtaatgatcttctt Alignment from GeneWise TTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAA-GTGGTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcacatattttaactctgatacatttgcagTACTGATGTGGTCTGGGAGGCAAAGCCAAAGGAGAAGACTAGGTGGAAACCTATG---ATCAAGCACACAGTCAAGTTAGAGAAGGGGTTTAGGGCATACATGGAGGCCTCACCGTTGGAGGACAAGGTGCGTGGAGTTGGACAACATCCCAgtgagttctatcttgtgatttatgtacaatacttaagtaatgatcttctt #### Vps37c_ID2983_3 --> 2 - 0 Original Alignment agAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAG-ATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG caattgaaggattttgctgtcagatttagtacaataattctgtgttgcagagAAATTTTCCTCAGCCCTGCAGCCTGGGACCTTATTGGACCTCCTGCAGCATTGAAGGTATGGAGATTGAGGAGGACTCAGAGgtaacccaagcattgctccttgatttggcttattccaaattggactgctg Alignment from CESAR agAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAG-ATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG caattgaaggattttgctgtcagatttagtacaataattctgtgttgcagagAAATTTTCCTCAGCCCTGCAGCCTGGGACCTTATTGGACCTCCTGCAGCATTGAAGGTATGGAGATTGAGGAGGACTCAGAGgtaacccaagcattgctccttgatttggcttattccaaattggactgctg Alignment from Spaln_aa2Genome AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAG-ATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG caattgaaggattttgctgtcagatttagtacaataattctgtgttgcagAGAAATTTTCCTCAGCCCTGCAGCCTGGGACCTTATTGGACCTCCTGCAGcATTGAAGGTATGGAGATTGAGGAGGACTCAGAGgtaacccaagcattgctccttgatttggcttattccaaattggactgctg Alignment from Spaln_nt2Genome AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAG-ATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG caattgaaggattttgctgtcagatttagtacaataattctgtgttgcagAGAAATTTTCCTCAGCCCTGCAGCCTGGGACCTTATTGGACCTCCTGCAGCATTGAAGGTATGGAGATTGAGGAGGACTCAGAGgtaacccaagcattgctccttgatttggcttattccaaattggactgctg Alignment from Pairagon AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAG-ATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG caattgaaggattttgctgtcagatttagtacaataattctgtgttgcagAGAAATTTTCCTCAGCCCTGCAGCCTGGGACCTTATTGGACCTCCTGCAGCATTGAAGGTATGGAGATTGAGGAGGACTCAGAGgtaacccaagcattgctccttgatttggcttattccaaattggactgctg Alignment from Exonerate_protein2genome AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAG-ATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG caattgaaggattttgctgtcagatttagtacaataattctgtgttgcagAGAAATTTTCCTCAGCCCTGCAGCCTGGGACCTTATTGGACCTCCTGCAGCATTGAAGGTATGGAGATTGAGGAGGACTCAGAGgtaacccaagcattgctccttgatttggcttattccaaattggactgctg Alignment from Exonerate_coding2genome AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAG-ATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG caattgaaggattttgctgtcagatttagtacaataattctgtgttgcagAGAAATTTTCCTCAGCCCTGCAGCCTGGGACCTTATTGGACCTCCTGCAGCATTGAAGGTATGGAGATTGAGGAGGACTCAGAGgtaacccaagcattgctccttgatttggcttattccaaattggactgctg Alignment from GeneWise AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAG-ATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG caattgaaggattttgctgtcagatttagtacaataattctgtgttgcagAGAAATTTTCCTCAGCCCTGCAGCCTGGGACCTTATTGGACCTCCTGCAGCATTGAAGGTATGGAGATTGAGGAGGACTCAGAGgtaacccaagcattgctccttgatttggcttattccaaattggactgctg #### Wdr74_ID2318_8 --> 1 - 1 Original Alignment tTCCGTCATCGTAGGGAACACTCAT-GGGCAGCTGGCAGAAATTGATTTTCGGCAAg ttaggcaattcaggagccacataaatcgactctgtgaactctgctttcagtTCTGTCATTGTGGGGAATACTCATCGGTGAGCTGGCAGAGATTGACTTTCGACAAggtgagtttgccattgtgttcttgagaatgaatgtagtctgccaaatcctc Alignment from CESAR tTCCGTCATCGTAGGGAACACTCAT-GGGCAGCTGGCAGAAATTGATTTTCGGCAAg ttaggcaattcaggagccacataaatcgactctgtgaactctgctttcagtTCTGTCATTGTGGGGAATACTCATCGGTGAGCTGGCAGAGATTGACTTTCGACAAggtgagtttgccattgtgttcttgagaatgaatgtagtctgccaaatttcc Alignment from Spaln_aa2Genome TTCCGTCATCGTAGGGAACACTCAT-GGGCAGCTGGCAGAAATTGATTTTCGGCAAG ttaggcaattcaggagccacataaatcgactctgtgaactctgctttcagTTCTGTCATTGTGGGGAATACTCATcGGTGAGCTGGCAGAGATTGACTTTCGACAAGgtgagtttgccattgtgttcttgagaatgaatgtagtctgccaaatcctc Alignment from Spaln_nt2Genome TTCCGTCATCGTAGGGAACACTCATGGGC-AGCTGGCAGAAATTGATTTTCGGCAAG ttaggcaattcaggagccacataaatcgactctgtgaactctgctttcagTTCTGTCATTGTGGGGAATACTCATCGGTGAGCTGGCAGAGATTGACTTTCGACAAGgtgagtttgccattgtgttcttgagaatgaatgtagtctgccaaatcctc Alignment from Pairagon TTCCGTCATCGTAGGGAACACTCATGGGC-AGCTGGCAGAAATTGATTTTCGGCAAG ttaggcaattcaggagccacataaatcgactctgtgaactctgctttcagTTCTGTCATTGTGGGGAATACTCATCGGTGAGCTGGCAGAGATTGACTTTCGACAAGgtgagtttgccattgtgttcttgagaatgaatgtagtctgccaaatcctc Alignment from Exonerate_protein2genome TTCCGTCATCGTAGGGAACACTCAT-GGGCAGCTGGCAGAAATTGATTTTCGGCAAG ttaggcaattcaggagccacataaatcgactctgtgaactctgctttcagTTCTGTCATTGTGGGGAATACTCATCGGTGAGCTGGCAGAGATTGACTTTCGACAAGgtgagtttgccattgtgttcttgagaatgaatgtagtctgccaaatcctc Alignment from Exonerate_coding2genome TTCCGTCATCGTAGGGAACACTCAT-GGGCAGCTGGCAGAAATTGATTTTCGGCAAG ttaggcaattcaggagccacataaatcgactctgtgaactctgctttcagTTCTGTCATTGTGGGGAATACTCATCGGTGAGCTGGCAGAGATTGACTTTCGACAAGgtgagtttgccattgtgttcttgagaatgaatgtagtctgccaaatcctc Alignment from GeneWise TTCCGTCATCGTAGGGAACACTCAT-GGGCAGCTGGCAGAAATTGATTTTCGGCAAGGGCG ttaggcaattcaggagccacataaatcgactctgtgaactctgctttcagTTCTGTCATTGTGGGGAATACTCATCGGTGAGCTGGCAGAGATTGACTTTCGACAAGGTGAgtttgccattgtgttcttgagaatgaatgtagtctgccaaatcctc #### Wdr96_ID10345_26 --> 0 - 0 Original Alignment ATCTCTGATGAACGGCAGAGA-GGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG aaattttaattaaagcctgtatccatgtgtctgctctatgcctgttgtagATACCTGATGAACGGCATAGACGGGTTGATGGATATGATGGGTGCTGTACTCAAGGTAAAGACAGAGGACATCTTGAGAATGgtaccagtttctggaagtctttactgttgagggagagtcaagtaggttgt Alignment from CESAR ATCTCTGATGAACGGCAGAGA-GGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG aaattttaattaaagcctgtatccatgtgtctgctctatgcctgttgtagATACCTGATGAACGGCATAGACGGGTTGATGGATATGATGGGTGCTGTACTCAAGGTAAAGACAGAGGACATCTTGAGAATGgtaccagtttctggaagtctttactgttgagggagagtcaagtaggttgt Alignment from Spaln_aa2Genome ATCTCTGATGAACGGCAGAGA-GGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG aaattttaattaaagcctgtatccatgtgtctgctctatgcctgttgtagATACCTGATGAACGGCATAGAcGGGTTGATGGATATGATGGGTGCTGTACTCAAGGTAAAGACAGAGGACATCTTGAGAATGgtaccagtttctggaagtctttactgttgagggagagtcaagtaggttgt Alignment from Spaln_nt2Genome ATCTCTGATGAACGGCAGAGA-GGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG aaattttaattaaagcctgtatccatgtgtctgctctatgcctgttgtagATACCTGATGAACGGCATAGACGGGTTGATGGATATGATGGGTGCTGTACTCAAGGTAAAGACAGAGGACATCTTGAGAATGgtaccagtttctggaagtctttactgttgagggagagtcaagtaggttgt Alignment from Pairagon ATCTCTGATGAACGGCAGAGA-GGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG aaattttaattaaagcctgtatccatgtgtctgctctatgcctgttgtagATACCTGATGAACGGCATAGACGGGTTGATGGATATGATGGGTGCTGTACTCAAGGTAAAGACAGAGGACATCTTGAGAATGgtaccagtttctggaagtctttactgttgagggagagtcaagtaggttgt Alignment from Exonerate_protein2genome ATCTCTGATGAACGGCAGAGA-GGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG aaattttaattaaagcctgtatccatgtgtctgctctatgcctgttgtagATACCTGATGAACGGCATAGACGGGTTGATGGATATGATGGGTGCTGTACTCAAGGTAAAGACAGAGGACATCTTGAGAATGgtaccagtttctggaagtctttactgttgagggagagtcaagtaggttgt Alignment from Exonerate_coding2genome ATCTCTGATGAACGGCAGAGA-GGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG aaattttaattaaagcctgtatccatgtgtctgctctatgcctgttgtagATACCTGATGAACGGCATAGACGGGTTGATGGATATGATGGGTGCTGTACTCAAGGTAAAGACAGAGGACATCTTGAGAATGgtaccagtttctggaagtctttactgttgagggagagtcaagtaggttgt Alignment from GeneWise ATCTCTGATGAACGGCAG-AGAGGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG aaattttaattaaagcctgtatccatgtgtctgctctatgcctgttgtagATACCTGATGAACGGCATAGACGGGTTGATGGATATGATGGGTGCTGTACTCAAGGTAAAGACAGAGGACATCTTGAGAATGgtaccagtttctggaagtctttactgttgagggagagtcaagtaggttgt #### Yif1a_ID830_2 --> 2 - 0 Original Alignment gtTCCAAGCATAGGACCCGGGCAGCT-CCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG CTGCACCGTT gagttgacacacactgaatttttaattgcttcattttctcctgttttcaggcTCTAAGCATAGGACCCGGGCAGCTCCCAGACCCTCCTCCACTATTTGATGACACAAGTGGTGGGTATTCCATCCAACTGGGAGGGTACCCAACACCAGGAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAAGAGgtatgtcacccagcaatgattcatctcttttgtctggcagCTACACCGTT Alignment from CESAR gtTCCAAGCATAGGACCCGGGCAGCT-CCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG CTGCACCGTT gagttgacacacactgaatttttaattgcttcattttctcctgttttcaggcTCTAAGCATAGGACCCGGGCAGCTCCCAGACCCTCCTCCACTATTTGATGACACAAGTGGTGGGTATTCCATCCAACTGGGAGGGTACCCAACACCAGGAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAAGAGgtatgtcacccagcaatggggctccttttcttccttctagCTACACCGTT Alignment from Spaln_aa2Genome GTTCCAAGCATAGGACCCGGGCAGCT-CCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG CTGCACCGTT gagttgacacacactgaatttttaattgcttcattttctcctgttttcagGCTCTAAGCATAGGACCCGGGCAGCTcCCAGACCCTCCTCCACTATTTGATGACACAAGTGGTGGGTATTCCATCCAACTGGGAGGGTACCCAACACCAGGAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAAGAGgtatgtcacccagcaatgattcatctcttttgtctggcagCTACACCGTT Alignment from Spaln_nt2Genome GTTCCAAGCATAGGACCCGGGCAGCT-CCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG CTGCACCGTT gagttgacacacactgaatttttaattgcttcattttctcctgttttcagGCTCTAAGCATAGGACCCGGGCAGCTCCCAGACCCTCCTCCACTATTTGATGACACAAGTGGTGGGTATTCCATCCAACTGGGAGGGTACCCAACACCAGGAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAAGAGgtatgtcacccagcaatgattcatctcttttgtctggcagCTACACCGTT Alignment from Pairagon GTTCCAAGCATAGGACCCGGGCAGCT-CCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG CTGCACCGTT gagttgacacacactgaatttttaattgcttcattttctcctgttttcagGCTCTAAGCATAGGACCCGGGCAGCTCCCAGACCCTCCTCCACTATTTGATGACACAAGTGGTGGGTATTCCATCCAACTGGGAGGGTACCCAACACCAGGAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAAGAGgtatgtcacccagcaatgattcatctcttttgtctggcagCTACACCGTT Alignment from Exonerate_protein2genome GTTCCAAGCATAGGACCCGGGCAGCT-CCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG CTGCACCGTT gagttgacacacactgaatttttaattgcttcattttctcctgttttcagGCTCTAAGCATAGGACCCGGGCAGCTCCCAGACCCTCCTCCACTATTTGATGACACAAGTGGTGGGTATTCCATCCAACTGGGAGGGTACCCAACACCAGGAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAAGAGgtatgtcacccagcaatgattcatctcttttgtctggcagCTACACCGTT Alignment from Exonerate_coding2genome GTTCCAAGCATAGGACCCGGGCAGCT-CCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG CTGCACCGTT gagttgacacacactgaatttttaattgcttcattttctcctgttttcagGCTCTAAGCATAGGACCCGGGCAGCTCCCAGACCCTCCTCCACTATTTGATGACACAAGTGGTGGGTATTCCATCCAACTGGGAGGGTACCCAACACCAGGAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAAGAGgtatgtcacccagcaatgattcatctcttttgtctggcagCTACACCGTT Alignment from GeneWise CCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG CTGCACCGTT gagttgacacacactgaatttttaattgcttcattttctcctgttttcaggctctaagcataggacccgggcagctcCCAGACCCTCCTCCACTATTTGATGACACAAGTGGTGGGTATTCCATCCAACTGGGAGGGTACCCAACACCAGGAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAAGAGgtatgtcacccagcaatgattcatctcttttgtctggcagCTACACCGTT #### Yif1a_ID831_3 --> 0 - 0 Original Alignment GCACAAAGAG CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGAC-ACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACATCAG GCACAAAGAGgtgagtcacccagcaatggggctccttttcttccttctagCTACACCGTTTTGTGTCTGTAAATAAACTCAAATATTTCTTTGCTGTGGACCACAGCCTATGTTGCTAAAAAGCTTGGACTCTTAGTCTTCCCATATACACATCAAgtaagtctgttctgtttgcagtggcgggcaggttgcacagtcacaacaga Alignment from CESAR GCACAAAGAG CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGAC-ACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACATCAG GCACAAAGAGgtatgtcacccagcaatggggctccttttcttccttctagCTACACCGTTTTGTGTCTGTAAATAAACTCAAATATTTCTTTGCTGTGGACCACAGCCTATGTTGCTAAAAAGCTTGGACTCTTAGTCTTCCCATATACACATCAAgtaagtctgttctgtttgcagtggcgggcaggttgcacagtcacaacaga Alignment from Spaln_aa2Genome GCACAAAGAG CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGAC-ACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACATCAG GCACAAAGAGgtgagtcacccagcaatggggctccttttcttccttctagCTACACCGTTTTGTGTCTGTAAATAAACTCAAATATTTCTTTGCTGTGGACcACAGCCTATGTTGCTAAAAAGCTTGGACTCTTAGTCTTCCCATATACACATCAAgtaagtctgttctgtttgcagtggcgggcaggttgcacagtcacaacaga Alignment from Spaln_nt2Genome GCACAAAGAG CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGA-CACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACATCAG GCACAAAGAGgtgagtcacccagcaatggggctccttttcttccttctagCTACACCGTTTTGTGTCTGTAAATAAACTCAAATATTTCTTTGCTGTGGACCACAGCCTATGTTGCTAAAAAGCTTGGACTCTTAGTCTTCCCATATACACATCAAgtaagtctgttctgtttgcagtggcgggcaggttgcacagtcacaacaga Alignment from Pairagon GCACAAAGAG CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGA-CACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACATCAG GCACAAAGAGgtgagtcacccagcaatggggctccttttcttccttctagCTACACCGTTTTGTGTCTGTAAATAAACTCAAATATTTCTTTGCTGTGGACCACAGCCTATGTTGCTAAAAAGCTTGGACTCTTAGTCTTCCCATATACACATCAAgtaagtctgttctgtttgcagtggcgggcaggttgcacagtcacaacaga Alignment from Exonerate_protein2genome GCACAAAGAG CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGAC-ACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACATCAG GCACAAAGAGgtgagtcacccagcaatggggctccttttcttccttctagCTACACCGTTTTGTGTCTGTAAATAAACTCAAATATTTCTTTGCTGTGGACCACAGCCTATGTTGCTAAAAAGCTTGGACTCTTAGTCTTCCCATATACACATCAAgtaagtctgttctgtttgcagtggcgggcaggttgcacagtcacaacaga Alignment from Exonerate_coding2genome GCACAAAGAG CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGAC-ACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACATCAG GCACAAAGAGgtgagtcacccagcaatggggctccttttcttccttctagCTACACCGTTTTGTGTCTGTAAATAAACTCAAATATTTCTTTGCTGTGGACCACAGCCTATGTTGCTAAAAAGCTTGGACTCTTAGTCTTCCCATATACACATCAAgtaagtctgttctgtttgcagtggcgggcaggttgcacagtcacaacaga Alignment from GeneWise GCACAAAGAG CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGAC-ACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACATCAG GCACAAAGAGgtgagtcacccagcaatggggctccttttcttccttctagCTACACCGTTTTGTGTCTGTAAATAAACTCAAATATTTCTTTGCTGTGGACCACAGCCTATGTTGCTAAAAAGCTTGGACTCTTAGTCTTCCCATATACACATCAAgtaagtctgttctgtttgcagtggcgggcaggttgcacagtcacaacaga #### Yif1a_ID832_4 --> 0 - 1 Original Alignment AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAA-GATCTCAATGCCCCTGACCTCTATATCCCCa aaggcaaataacttaattgcccatactggaaggcattctcttcattttagAACTGGAAAATGCAGTATAGCCAGGATGTACCTCTTCCTCCTCGAAAACGATCTCAATACCCCTGACCTTTATATCCCAagtaagagtttaccagacaggtgggaatgagtcgctgtaccaatgatgaac Alignment from CESAR AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAA-GATCTCAATGCCCCTGACCTCTATATCCCCa aaggcaaataacttaattgcccatactggaaggcattctcttcattttagAACTGGAAAATGCAGTATAGCCAGGATGTACCTCTTCCTCCTCGAAAACGATCTCAATACCCCTGACCTTTATATCCCAagtaagagtttaccagacaggtgggaatgagtcgctgtaccaatgatgaac Alignment from Spaln_aa2Genome AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAA-GATCTCAATGCCCCTGACCTCTATATCCCCA aaggcaaataacttaattgcccatactggaaggcattctcttcattttagAACTGGAAAATGCAGTATAGCCAGGATGTACCTCTTCCTCCTCGAAAAcGATCTCAATACCCCTGACCTTTATATCCCAAgtaagagtttaccagacaggtgggaatgagtcgctgtaccaatgatgaac Alignment from Spaln_nt2Genome AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAA-GATCTCAATGCCCCTGACCTCTATATCCCCA aaggcaaataacttaattgcccatactggaaggcattctcttcattttagAACTGGAAAATGCAGTATAGCCAGGATGTACCTCTTCCTCCTCGAAAACGATCTCAATACCCCTGACCTTTATATCCCAAgtaagagtttaccagacaggtgggaatgagtcgctgtaccaatgatgaac Alignment from Pairagon AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAA-GATCTCAATGCCCCTGACCTCTATATCCCCA aaggcaaataacttaattgcccatactggaaggcattctcttcattttagAACTGGAAAATGCAGTATAGCCAGGATGTACCTCTTCCTCCTCGAAAACGATCTCAATACCCCTGACCTTTATATCCCAAgtaagagtttaccagacaggtgggaatgagtcgctgtaccaatgatgaac Alignment from Exonerate_protein2genome AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAA-GATCTCAATGCCCCTGACCTCTATATCCCCA aaggcaaataacttaattgcccatactggaaggcattctcttcattttagAACTGGAAAATGCAGTATAGCCAGGATGTACCTCTTCCTCCTCGAAAACGATCTCAATACCCCTGACCTTTATATCCCAAgtaagagtttaccagacaggtgggaatgagtcgctgtaccaatgatgaac Alignment from Exonerate_coding2genome AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAA-GATCTCAATGCCCCTGACCTCTATATCCCCA aaggcaaataacttaattgcccatactggaaggcattctcttcattttagAACTGGAAAATGCAGTATAGCCAGGATGTACCTCTTCCTCCTCGAAAACGATCTCAATACCCCTGACCTTTATATCCCAAgtaagagtttaccagacaggtgggaatgagtcgctgtaccaatgatgaac Alignment from GeneWise AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGG-AAAGATCTCAATGCCCCTGACCTCTATATCCCCA aaggcaaataacttaattgcccatactggaaggcattctcttcattttagAACTGGAAAATGCAGTATAGCCAGGATGTACCTCTTCCTCCTCGAAAACGATCTCAATACCCCTGACCTTTATATCCCAAgtaagagtttaccagacaggtgggaatgagtcgctgtaccaatgatgaac #### Yif1a_ID833_5 --> 2 - 2 Original Alignment ccATGGCCTTCATCACATACGTG-CTGCTGGCTGGAATGGCGCTAGGCATTCAGCAAag gtgggagatcctctcgtgggaagacaacttttttttttttttttttttaggcATGGCTTTTATCACAGATGTGCCTAAGGGCTGAGATGGCATTTGGCATTCAGCAGaagtaatgcttcagcagctcttacctgatatctatttaagccaggttttcta Alignment from CESAR ccATGGCCTTCATCACATACGTG-CTGCTGGCTGGAATGGCGCTAGGCATTCAGCAAag gtgggagatcctctcgtgggaagacaacttttttttttttttttttttaggcATGGCTTTTATCACAGATGTGCCTAAGGGCTGAGATGGCATTTGGCATTCAGCAGaagtaatgcttcagcagctcttacctgatatctatttaagccaggttttcta Alignment from Spaln_aa2Genome CCATGGCCTTCATCACATACGTG-CTGCTGGCTGGAATGGCGCTAGGCATTCAGCAAAG gtgggagatcctctcgtgggaagacaacttttttttttttttttttttagGCATGGCTTTTATCACAGATGTGcCTAAGGGCTGAGATGGCATTTGGCATTCAGCAGAAgtaatgcttcagcagctcttacctgatatctatttaagccaggttttcta Alignment from Spaln_nt2Genome CCATGGCCTTCATCACATACGTGC-TGCTGGCTGGAATGGCGCTAGGCATTCAGCAAAG gtgggagatcctctcgtgggaagacaacttttttttttttttttttttagGCATGGCTTTTATCACAGATGTGCCTAAGGGCTGAGATGGCATTTGGCATTCAGCAGAAgtaatgcttcagcagctcttacctgatatctatttaagccaggttttcta Alignment from Pairagon CCATGGCCTTCATCACATACGTG-CTGCTGGCTGGAATGGCGCTAGGCATTCAGCAAAG gtgggagatcctctcgtgggaagacaacttttttttttttttttttttagGCATGGCTTTTATCACAGATGTGCCTAAGGGCTGAGATGGCATTTGGCATTCAGCAGAAgtaatgcttcagcagctcttacctgatatctatttaagccaggttttcta Alignment from Exonerate_protein2genome CCATGGCCTTCATCACATACGTG-CTGCTGGCTGGAATGGCGCTAGGCATTCAGCAAAG gtgggagatcctctcgtgggaagacaacttttttttttttttttttttagGCATGGCTTTTATCACAGATGTGCCTAAGGGCTGAGATGGCATTTGGCATTCAGCAGAAgtaatgcttcagcagctcttacctgatatctatttaagccaggttttcta Alignment from Exonerate_coding2genome gtgggagatcctctcgtgggaagacaacttttttttttttttttttttaggcatggcttttatcacagatgtgcctaagggctgagatggcatttggcattcagcagaagtaatgcttcagcagctcttacctgatatctatttaagccaggttttcta Alignment from GeneWise gtgggagatcctctcgtgggaagacaacttttttttttttttttttttaggcatggcttttatcacagatgtgcctaagggctgagatggcatttggcattcagcagaagtaatgcttcagcagctcttacctgatatctatttaagccaggttttcta #### Zfyve27_ID8429_11 --> 0 - 1 Original Alignment CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGG-TGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAg gtctatatggtccacaggtcacaccccttgcctgtgtttcctttctgtagCGAAGCTGCACTAACTGTGCAAATAGCTTCTGCTCTCACCTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAagtgaggggaaagttttgacaatcaagcacaatctgaaaatgtccaatgtt Alignment from CESAR CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGG-TGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAg gtctatatggtccacaggtcacaccccttgcctgtgtttcctttctgtagCGAAGCTGCACTAACTGTGCAAATAGCTTCTGCTCTCACCTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAagtgaggggaaagttttgacaatcaagcacaatctgaaaatgtccaatgtt Alignment from Spaln_aa2Genome CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGG-TGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG gtctatatggtccacaggtcacaccccttgcctgtgtttcctttctgtagCGAAGCTGCACTAACTGTGCAAATAGCTTCTGCTCTCACcTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAAgtgaggggaaagttttgacaatcaagcacaatctgaaaatgtccaatgtt Alignment from Spaln_nt2Genome CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGG-TGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG gtctatatggtccacaggtcacaccccttgcctgtgtttcctttctgtagCGAAGCTGCACTAACTGTGCAAATAGCTTCTGCTCTCACCTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAAgtgaggggaaagttttgacaatcaagcacaatctgaaaatgtccaatgtt Alignment from Pairagon CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCG-GTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG gtctatatggtccacaggtcacaccccttgcctgtgtttcctttctgtagCGAAGCTGCACTAACTGTGCAAATAGCTTCTGCTCTCACCTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAAgtgaggggaaagttttgacaatcaagcacaatctgaaaatgtccaatgtt Alignment from Exonerate_protein2genome CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGG-TGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG gtctatatggtccacaggtcacaccccttgcctgtgtttcctttctgtagCGAAGCTGCACTAACTGTGCAAATAGCTTCTGCTCTCACCTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAAgtgaggggaaagttttgacaatcaagcacaatctgaaaatgtccaatgtt Alignment from Exonerate_coding2genome CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGG-TGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG gtctatatggtccacaggtcacaccccttgcctgtgtttcctttctgtagCGAAGCTGCACTAACTGTGCAAATAGCTTCTGCTCTCACCTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAAgtgaggggaaagttttgacaatcaagcacaatctgaaaatgtccaatgtt Alignment from GeneWise CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCG-CGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG gtctatatggtccacaggtcacaccccttgcctgtgtttcctttctgtagCGAAGCTGCACTAACTGTGCAAATAGCTTCTGCTCTCACCTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAAgtgaggggaaagttttgacaatcaagcacaatctgaaaatgtccaatgtt ####