#### 1700055N04Rik_ID225_3 --> 0 - 0 Original Alignment TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG tttggaagctagagtcagcctaacttgttaaattctacctcttcttgcagTCAGGCCTCAAATCAGAAATGAGTGAGATCATCTTGTGTGAGAATGAAGTGGACCTGGCCCTTTCAAACCTACTGACCTGGATGAAGGAGGAATCTTTG------------gtgagtcaacatcggcattgtaggaccagatatgtaacccacaagacaca Alignment from CESAR TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG tttggaagctagagtcagcctaacttgttaaattctacctcttcttgcagTCAGGCCTCAAATCAGAAATGAGTGAGATCATCTTGTGTGAGAATGAAGTGGACCTGGCCCTTTCAAACCTACTGACCTGGATGAAGGAGGAATCT------------TTGgtgagtcaacatcggcattgtaggaccagatatgtaacccacaagacaca Alignment from Spaln_aa2Genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG tttggaagctagagtcagcctaacttgttaaattctacctcttcttgcagTCAGGCCTCAAATCAGAAATGAGTGAGATCATCTTGTGTGAGAATGAAGTGGACCTGGCCCTTTCAAACCTACTGACCTGGATGAAGGAGGAA------------TCTTTGgtgagtcaacatcggcattgtaggaccagatatgtaacccacaagacaca Alignment from Spaln_nt2Genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTG tttggaagctagagtcagcctaacttgttaaattctacctcttcttgcagTCAGGCCTCAAATCAGAAATGAGTGAGATCATCTTGTGTGAGAATGAAGTGGACCTGGCCCTTTCAAACCTACTGACCTGGATGAAGGAGGAATCTTTGgtgagtcaacatcggcattgtaggaccagatatgtaacccacaagacaca Alignment from Pairagon TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG tttggaagctagagtcagcctaacttgttaaattctacctcttcttgcagTCAGGCCTCAAATCAGAAATGAGTGAGATCATCTTGTGTGAGAATGAAGTGGACCTGGCCCTTTCAAACCTACTGACCTGGATGAAGGAGGAATCT------------TTGgtgagtcaacatcggcattgtaggaccagatatgtaacccacaagacaca Alignment from Exonerate_protein2genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGAT tttggaagctagagtcagcctaacttgttaaattctacctcttcttgcagTCAGGCCTCAAATCAGAAATGAGTGAGATCATCTTGTGTGAGAATGAAGTGGACCTGGCCCTTTCAAACCTACTGACCTGGATGAAGGAGgaatctttggtgagtcaacatcggcattgtaggaccagatatgtaacccacaagacaca Alignment from Exonerate_coding2genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGAT tttggaagctagagtcagcctaacttgttaaattctacctcttcttgcagTCAGGCCTCAAATCAGAAATGAGTGAGATCATCTTGTGTGAGAATGAAGTGGACCTGGCCCTTTCAAACCTACTGACCTGGATGAAGGAGgaatctttggtgagtcaacatcggcattgtaggaccagatatgtaacccacaagacaca Alignment from GeneWise TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG tttggaagctagagtcagcctaacttgttaaattctacctcttcttgcagTCAGGCCTCAAATCAGAAATGAGTGAGATCATCTTGTGTGAGAATGAAGTGGACCTGGCCCTTTCAAACCTACTGACCTGGATGAAGGAGGAA------------TCTTTGgtgagtcaacatcggcattgtaggaccagatatgtaacccacaagacaca #### 1700055N04Rik_ID227_5 --> 2 - 0 Original Alignment gaAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttaggaAACTGTGTGGTGCTCAAAAGATCTGAAATTAGCAGGAAC---------------------------------------------gtaagattattttaggtggttaatttggtaaatggtgaagagctgcattc Alignment from CESAR gaAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttaggaAACTGTGTGGTGCTCAAAAGATCTGAAATTAGCAGGAAC---------------------------------------------gtaag Alignment from Spaln_aa2Genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAAC gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttagGAAACTGTGTGGTGCTCAAAAGATCTGAAATTAGCAGGAACgtaagattattttaggtggttaatttggtaaatggtgaagagctgcattc Alignment from Spaln_nt2Genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAAC gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttagGAAACTGTGTGGTGCTCAAAAGATCTGAAATTAGCAGGAACgtaagattattttaggtggttaatttggtaaatggtgaagagctgcattc Alignment from Pairagon GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAAC gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttagGAAACTGTGTGGTGCTCAAAAGATCTGAAATTAGCAGGAACgtaagattattttaggtggttaatttggtaaatggtgaagagctgcattc Alignment from Exonerate_protein2genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGG gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttagGAAACTGTGTGGTGCTCAAAAGATCTGAAATTAGCAGGAACGTAAGATTATtttaggtggttaatttggtaaatggtgaagagctgcattc Alignment from Exonerate_coding2genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGG gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttagGAAACTGTGTGGTGCTCAAAAGATCTGAAATTAGCAGGAACGTAAGATTATtttaggtggttaatttggtaaatggtgaagagctgcattc Alignment from GeneWise gttgagaggcacttaaaccattatgtgccggcttctgttttcttttttaggaaactgtgtggtgctcaaaagatctgaaattagcaggaacgtaagattattttaggtggttaatttggtaaatggtgaagagctgcattc #### 2010012O05Rik_ID10004_3 --> 0 - 2 Original Alignment AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACca cagatcgagctctaggagtatggcttttctccctttgggggtctccacag------AGGAAGATGGCAATAATAACAACGCACTTACAGTACcagtgagtatgcatggctaagtgggcagtggatgaaagtagaacaggcaata Alignment from CESAR AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACca agagctcagatcgagctctaggagttttctccctttgggggtctccacag------AGGAAGATGGCAATAATAACAACGCACTTACAGTACcagtgagtatgcatggctaagtgggcagtggatgaaagtagaacaggcaata Alignment from Spaln_aa2Genome AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACCA cagatcgagctctaggagtatggcttttctccctttgggggtctccacag------AGGAAGATGGCAATAATAACAACGCACTTACAGTACCAgtgagtatgcatggctaagtgggcagtggatgaaagtagaacaggcaata Alignment from Spaln_nt2Genome AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACCA cagatcgagctctaggagtatggcttttctccctttgggggtctccacag------AGGAAGATGGCAATAATAACAACGCACTTACAGTACCAgtgagtatgcatggctaagtgggcagtggatgaaagtagaacaggcaata Alignment from Pairagon AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACCA cagatcgagctctaggagtatggcttttctccctttgggggtctccacag------AGGAAGATGGCAATAATAACAACGCACTTACAGTACCAgtgagtatgcatggctaagtgggcagtggatgaaagtagaacaggcaata Alignment from Exonerate_protein2genome TAAGGAAGATGGCAATAATAACAACACACCTTCAGTACCAGCAAGAAGCTATTCAGAAGAA cagatcgagctctaggagtatggcttttctccctttgggggtctccacAGAGGAAGATGGCAATAATAACAACGCACTTACAGTACCAGTGAGTATGCATGGCTAAGTGggcagtggatgaaagtagaacaggcaata Alignment from Exonerate_coding2genome TAAGGAAGATGGCAATAATAACAACACACCTTCAGTACCAGCAAGAAGCTATTCAGAAGAA cagatcgagctctaggagtatggcttttctccctttgggggtctccacAGAGGAAGATGGCAATAATAACAACGCACTTACAGTACCAGTGAGTATGCATGGCTAAGTGggcagtggatgaaagtagaacaggcaata Alignment from GeneWise cagatcgagctctaggagtatggcttttctccctttgggggtctccacagaggaagatggcaataataacaacgcacttacagtaccagtgagtatgcatggctaagtgggcagtggatgaaagtagaacaggcaata #### A630007B06Rik_ID12190_7 --> 0 - 0 Original Alignment GAATCTGAAGAAATTAAGTCAAATGAGCTTGATGCAAAGCTCAGAGTTACAAAAGGAGAACTTGAAAAACAAATGCAAGAGAAATCTGACCAGCTGGAG------ catggatgcgttagatggcaaggtacaatatttatattcgtaccttctagGAATCAGAAGAAATCAAGTCAAATGAGCCTGATACGAAACTCAGAGTGACAAAAGGCGAACTTGAAAAACAAATGCGAGAAAAATCTGACCAGCTGGAACCTCGTgtaccccagaattgtcttaccttgcataagacactccttctgatggggct Alignment from CESAR GAATCTGAAGAAATTAAGTCAAATGAGCTTGATGCAAAGCTCAGAGTTACAAAAGGAGAACTTGAAAAACAAATGCAAGAGAAATCTGACCAGCTGGAG------ catggatgcgttagatggcaaggtacaatatttatattcgtaccttctagGAATCAGAAGAAATCAAGTCAAATGAGCCTGATACGAAACTCAGAGTGACAAAAGGCGAACTTGAAAAACAAATGCGAGAAAAATCTGACCAGCTGGAACCTCGTgtaccccagaattgtcttaccttgcataagacactccttctgatggggct Alignment from Spaln_aa2Genome GAATCTGAAGAAATTAAGTCAAATGAGCTTGATGCAAAGCTCAGAGTTACAAAAGGAGAACTTGAAAAACAAATGCAAGAGAAATCTGACCAGCTGGAG------ catggatgcgttagatggcaaggtacaatatttatattcgtaccttctagGAATCAGAAGAAATCAAGTCAAATGAGCCTGATACGAAACTCAGAGTGACAAAAGGCGAACTTGAAAAACAAATGCGAGAAAAATCTGACCAGCTGGAACCTCGTgtaccccagaattgtcttaccttgcataagacactccttctgatggggct Alignment from Spaln_nt2Genome GAATCTGAAGAAATTAAGTCAAATGAGCTTGATGCAAAGCTCAGAGTTACAAAAGGAGAACTTGAAAAACAAATGCAAGAGAAATCTGACCAGCTGGAG------ catggatgcgttagatggcaaggtacaatatttatattcgtaccttctagGAATCAGAAGAAATCAAGTCAAATGAGCCTGATACGAAACTCAGAGTGACAAAAGGCGAACTTGAAAAACAAATGCGAGAAAAATCTGACCAGCTGGAACCTCGTgtaccccagaattgtcttaccttgcataagacactccttctgatggggct Alignment from Pairagon GAATCTGAAGAAATTAAGTCAAATGAGCTTGATGCAAAGCTCAGAGTTACAAAAGGAGAACTTGAAAAACAAATGCAAGAGAAATCTGACCAGCTGG---------------------------------------------------------- catggatgcgttagatggcaaggtacaatatttatattcgtaccttctagGAATCAGAAGAAATCAAGTCAAATGAGCCTGATACGAAACTCAGAGTGACAAAAGGCGAACTTGAAAAACAAATGCGAGAAAAATCTGACCAGCTGGAACCTCGTGTACCCCAGAATTGTCTTACCTTGCATAAGACACTCCTTCTGATGGGGCT Alignment from Exonerate_protein2genome GAATCTGAAGAAATTAAGTCAAATGAGCTTGATGCAAAGCTCAGAGTTACAAAAGGAGAACTTGAAAAACAAATGCAAGAGAAATCTGACCAGCTGGAG catggatgcgttagatggcaaggtacaatatttatattcgtaccttctagGAATCAGAAGAAATCAAGTCAAATGAGCCTGATACGAAACTCAGAGTGACAAAAGGCGAACTTGAAAAACAAATGCGAGAAAAATCTGACCAGCTGGAAcctcgtgtaccccagaattgtcttaccttgcataagacactccttctgatggggct Alignment from Exonerate_coding2genome GAATCTGAAGAAATTAAGTCAAATGAGCTTGATGCAAAGCTCAGAGTTACAAAAGGAGAACTTGAAAAACAAATGCAAGAGAAATCTGACCAGCTGGAG catggatgcgttagatggcaaggtacaatatttatattcgtaccttctagGAATCAGAAGAAATCAAGTCAAATGAGCCTGATACGAAACTCAGAGTGACAAAAGGCGAACTTGAAAAACAAATGCGAGAAAAATCTGACCAGCTGGAAcctcgtgtaccccagaattgtcttaccttgcataagacactccttctgatggggct Alignment from GeneWise GAATCTGAAGAAATTAAGTCAAATGAGCTTGATGCAAAGCTCAGAGTTACAAAAGGAGAACTTGAAAAACAAATGCAAGAGAAATCTGACCAGCTGGAG------ catggatgcgttagatggcaaggtacaatatttatattcgtaccttctagGAATCAGAAGAAATCAAGTCAAATGAGCCTGATACGAAACTCAGAGTGACAAAAGGCGAACTTGAAAAACAAATGCGAGAAAAATCTGACCAGCTGGAACCTCGTgtaccccagaattgtcttaccttgcataagacactccttctgatggggct #### Abcc2_ID8821_5 --> 0 - 0 Original Alignment GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC tgtggttgtaactatgggcctcctgtggacaatggtgtcttttgttgcag------AAGTCAAACATGACATACTCCTGTCTGTTCTTCATCTCCTCCAGTTTCCAGATTGTGGCTTTGATTCTTTCAGCATTTTCAGAATCGAGTGACTCTACACATgtatccatgtaatgggtatttaaaaaagggtcattctagtgtcattcaaa Alignment from CESAR GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC gatgattgtggttgtaactatgggctggacaatggtgtcttttgttgcag------AAGTCAAACATGACATACTCCTGTCTGTTCTTCATCTCCTCCAGTTTCCAGATTGTGGCTTTGATTCTTTCAGCATTTTCAGAATCGAGTGACTCTACACATgtatccatgtaatgggtatttaaaaaagggtcattctagtgtcattcaaa Alignment from Spaln_aa2Genome AGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC tgtggttgtaactatgggcctcctgtggacaatggtgtcttttgttgcagAAGTCAAACATG---ACATACTCCTGTCTGTTCTTCATCTCCTCCAGTTTCCAGATTGTGGCTTTGATTCTTTCAGCATTTTCAGAATCGAGTGACTCTACACATgtatccatgtaatgggtatttaaaaaagggtcattctagtgtcattcaaa Alignment from Spaln_nt2Genome -AGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC tgtggttgtaactatgggcctcctgtggacaatggtgtcttttgttgcagAAGTCAAACATGACATACTCCTGTCTGTTCTTCATCTCCTCCAGTTTCCAGATTGTGGCTTTGATTCTTTCAGCATTTTCAGAATCGAGTGACTCTACACATgtatccatgtaatgggtatttaaaaaagggtcattctagtgtcattcaaa Alignment from Pairagon GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC tgtggttgtaactatgggcctcctgtggacaatggtgtcttttgttgcag------AAGTCAAACATGACATACTCCTGTCTGTTCTTCATCTCCTCCAGTTTCCAGATTGTGGCTTTGATTCTTTCAGCATTTTCAGAATCGAGTGACTCTACACATgtatccatgtaatgggtatttaaaaaagggtcattctagtgtcattcaaa Alignment from Exonerate_protein2genome AAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC tgtggttgtaactatgggcctcctgtggacaatggtgtcttttgttgcagAAGTCAAACATGACATACTCCTGTCTGTTCTTCATCTCCTCCAGTTTCCAGATTGTGGCTTTGATTCTTTCAGCATTTTCAGAATCGAGTGACTCTACACATgtatccatgtaatgggtatttaaaaaagggtcattctagtgtcattcaaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC tgtggttgtaactatgggcctcctgtggacaatggtgtcttttgttgcagAAGTCAAACATGACATACTCCTGTCTGTTCTTCATCTCCTCCAGTTTCCAGATTGTGGCTTTGATTCTTTCAGCATTTTCAGAATCGAGTGACTCTACACATgtatccatgtaatgggtatttaaaaaagggtcattctagtgtcattcaaa #### Abcc2_ID8838_22 --> 0 - 1 Original Alignment GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAg ggggtctgttctctcattttggacctacagcttactgtatttatgcccagGTCAAGTTGTCTATTTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGTTTATTATCATCTTCTATGTACTGAACTATGTGGCATTCATTGGCACTAATCTATGGTTGAGTGCTTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGT---------ggtaagtgtgcctgctccaccaagaccacaacccttaaagcgagttacatc Alignment from CESAR GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAg ggggtctgttctctcattttggacctacagcttactgtatttatgcccagGTCAAGTTGTCTATTTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGTTTATTATCATCTTCTATGTACTGAACTATGTGGCATTCATTGGCACTAATCTATGGTTGAGTGCTTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGT---------ggtaagtgtgcctgctccaccaagaccacaacccttaaagcgagttacatc Alignment from Spaln_aa2Genome GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG ggggtctgttctctcattttggacctacagcttactgtatttatgcccagGTCAAGTTGTCTATTTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGTTTATTATCATCTTCTATGTACTGAACTATGTGGCATTCATTGGCACTAATCTATGGTTGAGTGCTTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGT---GGTAAGTgtgcctgctccaccaagaccacaacccttaaagcgagttacatc Alignment from Spaln_nt2Genome GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG ggggtctgttctctcattttggacctacagcttactgtatttatgcccagGTCAAGTTGTCTATTTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGTTTATTATCATCTTCTATGTACTGAACTATGTGGCATTCATTGGCACTAATCTATGGTTGAGTGCTTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGG---------TGgtaagtgtgcctgctccaccaagaccacaacccttaaagcgagttacatc Alignment from Pairagon GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG ggggtctgttctctcattttggacctacagcttactgtatttatgcccagGTCAAGTTGTCTATTTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGTTTATTATCATCTTCTATGTACTGAACTATGTGGCATTCATTGGCACTAATCTATGGTTGAGTGCTTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGG---------TGgtaagtgtgcctgctccaccaagaccacaacccttaaagcgagttacatc Alignment from Exonerate_protein2genome GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAA ggggtctgttctctcattttggacctacagcttactgtatttatgcccagGTCAAGTTGTCTATTTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGTTTATTATCATCTTCTATGTACTGAACTATGTGGCATTCATTGGCACTAATCTATGGTTGAGTGCTTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGTGgtaagtgtgcctgctccaccaagaccacaacccttaaagcgagttacatc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG ggggtctgttctctcattttggacctacagcttactgtatttatgcccagGTCAAGTTGTCTATTTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGTTTATTATCATCTTCTATGTACTGAACTATGTGGCATTCATTGGCACTAATCTATGGTTGAGTGCTTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGT---GGTAAGTgtgcctgctccaccaagaccacaacccttaaagcgagttacatc #### Acsl5_ID11602_7 --> 0 - 0 Original Alignment ---------AATATAGGCAAAGAGAACTTCAAAAAACCAGTG acatccaattataatgattctttttggtctctcgcttctcccacctctagTCGTCTCCCAATATAGGCAAAGAGAACTTCAAGAAACCAGTGgtaagagtcatatgtctgctagttatgagctgcttttcacctctgtgatt Alignment from CESAR ---------AATATAGGCAAAGAGAACTTCAAAAAACCAGTG acatccaattataatgattctttttggtctctcgcttctcccacctctagTCGTCTCCCAATATAGGCAAAGAGAACTTCAAGAAACCAGTGgtaagagtcatatgtctgctagttatgagctgcttttcacctctgtgatt Alignment from Spaln_aa2Genome AATATAGGCAAA---------GAGAACTTCAAAAAACCAGTG acatccaattataatgattctttttggtctctcgcttctcccacctctagTCGTCTCCCAATATAGGCAAAGAGAACTTCAAGAAACCAGTGgtaagagtcatatgtctgctagttatgagctgcttttcacctctgtgatt Alignment from Spaln_nt2Genome AATATAGGC---------AAAGAGAACTTCAAAAAACCAGTG acatccaattataatgattctttttggtctctcgcttctcccacctctagTCGTCTCCCAATATAGGCAAAGAGAACTTCAAGAAACCAGTGgtaagagtcatatgtctgctagttatgagctgcttttcacctctgtgatt Alignment from Pairagon ---------AATATAGGCAAAGAGAACTTCAAAAAACCAGTG acatccaattataatgattctttttggtctctcgcttctcccacctctagTCGTCTCCCAATATAGGCAAAGAGAACTTCAAGAAACCAGTGgtaagagtcatatgtctgctagttatgagctgcttttcacctctgtgatt Alignment from Exonerate_protein2genome AATATAGGCAAAGAGAACTTCAAAAAACCAGTG acatccaattataatgattctttttggtctctcgcttctcccacctctagtcgtctcccAATATAGGCAAAGAGAACTTCAAGAAACCAGTGgtaagagtcatatgtctgctagttatgagctgcttttcacctctgtgatt Alignment from Exonerate_coding2genome AATATAGGCAAAGAGAACTTCAAAAAACCAGTG acatccaattataatgattctttttggtctctcgcttctcccacctctagtcgtctcccAATATAGGCAAAGAGAACTTCAAGAAACCAGTGgtaagagtcatatgtctgctagttatgagctgcttttcacctctgtgatt Alignment from GeneWise ---------AATATAGGCAAAGAGAACTTCAAAAAACCAGTG acatccaattataatgattctttttggtctctcgcttctcccacctctagTCGTCTCCCAATATAGGCAAAGAGAACTTCAAGAAACCAGTGgtaagagtcatatgtctgctagttatgagctgcttttcacctctgtgatt #### Acsl5_ID11610_15 --> 2 - 0 Original Alignment gt---CATGTTGGGACTCCAGTGGCTTGCAATTTTGTAAAGCTGGAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG gatacaaatgggcttactctgcagttatatatgagcatcctcatttgcaggcCCACATGTTGGCACTCCAGTAGCCTCCAATTTTGTAAAGCTTGAAGATGTAGCGGAGATGAACTACTTTTCAGTAAACAATAAAGGTGAGgtaaccgagattgatacagcacctacttaggacagatgggagaactgtct Alignment from CESAR gt---CATGTTGGGACTCCAGTGGCTTGCAATTTTGTAAAGCTGGAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG gatacaaatgggcttactctgcagttatatatgagcatcctcatttgcaggcCCACATGTTGGCACTCCAGTAGCCTCCAATTTTGTAAAGCTTGAAGATGTAGCGGAGATGAACTACTTTTCAGTAAACAATAAAGGTGAGgtaaccgagattgatacagcacctacttaggacagatgggagaactgtct Alignment from Spaln_aa2Genome GT---CATGTTGGGACTCCAGTGGCTTGCAATTTTGTAAAGCTGGAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG gatacaaatgggcttactctgcagttatatatgagcatcctcatttgcagGCCCACATGTTGGCACTCCAGTAGCCTCCAATTTTGTAAAGCTTGAAGATGTAGCGGAGATGAACTACTTTTCAGTAAACAATAAAGGTGAGgtaaccgagattgatacagcacctacttaggacagatgggagaactgtct Alignment from Spaln_nt2Genome GTCATGTTGGGAC---TCCAGTGGCTTGCAATTTTGTAAAGCTGGAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG gatacaaatgggcttactctgcagttatatatgagcatcctcatttgcagGCCCACATGTTGGCACTCCAGTAGCCTCCAATTTTGTAAAGCTTGAAGATGTAGCGGAGATGAACTACTTTTCAGTAAACAATAAAGGTGAGgtaaccgagattgatacagcacctacttaggacagatgggagaactgtct Alignment from Pairagon GT---CATGTTGGGACTCCAGTGGCTTGCAATTTTGTAAAGCTGGAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG gatacaaatgggcttactctgcagttatatatgagcatcctcatttgcagGCCCACATGTTGGCACTCCAGTAGCCTCCAATTTTGTAAAGCTTGAAGATGTAGCGGAGATGAACTACTTTTCAGTAAACAATAAAGGTGAGgtaaccgagattgatacagcacctacttaggacagatgggagaactgtct Alignment from Exonerate_protein2genome GT---CATGTTGGGACTCCAGTGGCTTGCAATTTTGTAAAGCTGGAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG gatacaaatgggcttactctgcagttatatatgagcatcctcatttgcagGCCCACATGTTGGCACTCCAGTAGCCTCCAATTTTGTAAAGCTTGAAGATGTAGCGGAGATGAACTACTTTTCAGTAAACAATAAAGGTGAGgtaaccgagattgatacagcacctacttaggacagatgggagaactgtct Alignment from Exonerate_coding2genome GT---CATGTTGGGACTCCAGTGGCTTGCAATTTTGTAAAGCTGGAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG gatacaaatgggcttactctgcagttatatatgagcatcctcatttgcagGCCCACATGTTGGCACTCCAGTAGCCTCCAATTTTGTAAAGCTTGAAGATGTAGCGGAGATGAACTACTTTTCAGTAAACAATAAAGGTGAGgtaaccgagattgatacagcacctacttaggacagatgggagaactgtct Alignment from GeneWise --GGTCATGTTGGGACTCCAGTGGCTTGCAATTTTGTAAAGCTGGAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG gatacaaatgggcttactctgcagttatatatgagcatcctcatttgcagGCCCACATGTTGGCACTCCAGTAGCCTCCAATTTTGTAAAGCTTGAAGATGTAGCGGAGATGAACTACTTTTCAGTAAACAATAAAGGTGAGgtaaccgagattgatacagcacctacttaggacagatgggagaactgtct #### Acsl5_ID11611_16 --> 0 - 0 Original Alignment ATCTGCATCAAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA cattatttgcggtatatattttttattacccaggctccttcttttcacag---------AAAGGCAACAATGCATTCAAAGGTTACCTAAGGGATGCAGAGAAAACACAAAAAGTAATTGACAAGGATGGATGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCGgtaggtagctctcaatagttggcagagccctatgtacagtgacggaggat Alignment from CESAR ATCTGCATCAAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA aagtaaatgcattatttgcggtatattacccaggctccttcttttcacag---------AAAGGCAACAATGCATTCAAAGGTTACCTAAGGGATGCAGAGAAAACACAAAAAGTAATTGACAAGGATGGATGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCGgtaggtagctctcaatagttggcagagccctatgtacagtgacggaggat Alignment from Spaln_aa2Genome AAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA cattatttgcggtatatattttttattacccaggctccttcttttcacagAAAGGCAACAATGCATTCAAAGGTTACCTAAGGGATGCAGAGAAAACACAAAAAGTAATTGACAAGGATGGATGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCGgtaggtagctctcaatagttggcagagccctatgtacagtgacggaggat Alignment from Spaln_nt2Genome AAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA cattatttgcggtatatattttttattacccaggctccttcttttcacagAAAGGCAACAATGCATTCAAAGGTTACCTAAGGGATGCAGAGAAAACACAAAAAGTAATTGACAAGGATGGATGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCGgtaggtagctctcaatagttggcagagccctatgtacagtgacggaggat Alignment from Pairagon ATCTGCATCAAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA cattatttgcggtatatattttttattacccaggctccttcttttcacag---------AAAGGCAACAATGCATTCAAAGGTTACCTAAGGGATGCAGAGAAAACACAAAAAGTAATTGACAAGGATGGATGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCGgtaggtagctctcaatagttggcagagccctatgtacagtgacggaggat Alignment from Exonerate_protein2genome AAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA cattatttgcggtatatattttttattacccaggctccttcttttcacagAAAGGCAACAATGCATTCAAAGGTTACCTAAGGGATGCAGAGAAAACACAAAAAGTAATTGACAAGGATGGATGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCGgtaggtagctctcaatagttggcagagccctatgtacagtgacggaggat Alignment from Exonerate_coding2genome AAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA cattatttgcggtatatattttttattacccaggctccttcttttcacagAAAGGCAACAATGCATTCAAAGGTTACCTAAGGGATGCAGAGAAAACACAAAAAGTAATTGACAAGGATGGATGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCGgtaggtagctctcaatagttggcagagccctatgtacagtgacggaggat Alignment from GeneWise -----------TGCATCAAAGGTAACAATGTGTTCAAAGGCTACCTAAAGGACCCAGAGAAAACACAGGAAGTACTGGACAAGGATGGATGGCTTCACACTGGGGACATTGGTCGCTGGCTTCCA cattatttgcggtatatattttttattacccagGCTCCTTCTTTTCACAGAAAGGCAACAATGCATTCAAAGGTTACCTAAGGGATGCAGAGAAAACACAAAAAGTAATTGACAAGGATGGATGGCTTCATGCTGGGGACATTGGTCGTTGGCTCCCGgtaggtagctctcaatagttggcagagccctatgtacagtgacggaggat #### Acsl5_ID11614_19 --> 0 - 0 Original Alignment TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctgcaagccttgggtatcctacctttgcttcctgtgaagTTCGTAAAAGAGGCCATTCTGGAGGACTTGCAGAAAATTGGGAAGGAG------------------------gtaagaatgtggtatgttttttatccagaacaatgacgagcagcgtgaag Alignment from CESAR TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctgcaagccttgggtatcctacctttgcttcctgtgaagTTCGTAAAAGAGGCCATTCTGGAGGACTTGCAGAAAATTGGGAAGGAG------------------------gtaagaatgtggtatgttttttatcc Alignment from Spaln_aa2Genome TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAG aggcctttaagctgcaagccttgggtatcctacctttgcttcctgtgaagTTCGTAAAAGAGGCCATTCTGGAGGACTTGCAGAAAATTGGGAAGGAGgtaagaatgtggtatgttttttatccagaacaatgacgagcagcgtgaag Alignment from Spaln_nt2Genome TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAG aggcctttaagctgcaagccttgggtatcctacctttgcttcctgtgaagTTCGTAAAAGAGGCCATTCTGGAGGACTTGCAGAAAATTGGGAAGGAGgtaagaatgtggtatgttttttatccagaacaatgacgagcagcgtgaag Alignment from Pairagon TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAG aggcctttaagctgcaagccttgggtatcctacctttgcttcctgtgaagTTCGTAAAAGAGGCCATTCTGGAGGACTTGCAGAAAATTGGGAAGGAGgtaagaatgtggtatgttttttatccagaacaatgacgagcagcgtgaag Alignment from Exonerate_protein2genome TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAG aggcctttaagctgcaagccttgggtatcctacctttgcttcctgtgaagTTCGTAAAAGAGGCCATTCTGGAGGACTTGCAGAAAATTGGGAAGGAGgtaagaatgtggtatgttttttatccagaacaatgacgagcagcgtgaag Alignment from Exonerate_coding2genome TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAG aggcctttaagctgcaagccttgggtatcctacctttgcttcctgtgaagTTCGTAAAAGAGGCCATTCTGGAGGACTTGCAGAAAATTGGGAAGGAGgtaagaatgtggtatgttttttatccagaacaatgacgagcagcgtgaag Alignment from GeneWise TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAG aggcctttaagctgcaagccttgggtatcctacctttgcttcctgtgaagTTCGTAAAAGAGGCCATTCTGGAGGACTTGCAGAAAATTGGGAAGGAGgtaagaatgtggtatgttttttatccagaacaatgacgagcagcgtgaag #### Actn3_ID696_14 --> 0 - 0 Original Alignment AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTC---GTGCACTCTGTGGAGGAGACCCAG taatgtctgttgtctgaatggatgcggacaaacttctgacttcaccacagAAGATGGAGAAGCTCCTGGAGACAATTGACCAGCTGCAGCTAGAACTTGCTCGTAGGGCAGCTTCCTTCAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTTCACTCTGTGGAAGAAACA---gtgagcaccacactaggcagtaaacccttgaatgtacttgtggcctagaa Alignment from CESAR AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGACCCAG taatgtctgttgtctgaatggatgcggacaaacttctgacttcaccacagAAGATGGAGAAGCTCCTGGAGACAATTGACCAGCTGCAGCTAGAACTTGCTCGTAGGGCAGCTTCCTTCAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTTCACTCTGTGGAAGAAACA---gtgagcaccacactaggcagtaaacccttgaatgtacttgtggccta Alignment from Spaln_aa2Genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTC---GTGCACTCTGTGGAGGAGACC taatgtctgttgtctgaatggatgcggacaaacttctgacttcaccacagAAGATGGAGAAGCTCCTGGAGACAATTGACCAGCTGCAGCTAGAACTTGCTCGTAGGGCAGCTTCCTTCAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTTCACTCTGTGGAAGAAACAgtgagcaccacactaggcagtaaacccttgaatgtacttgtggcctagaa Alignment from Spaln_nt2Genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGACC taatgtctgttgtctgaatggatgcggacaaacttctgacttcaccacagAAGATGGAGAAGCTCCTGGAGACAATTGACCAGCTGCAGCTAGAACTTGCTCGTAGGGCAGCTTCCTTCAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTTCACTCTGTGGAAGAAACAgtgagcaccacactaggcagtaaacccttgaatgtacttgtggcctagaa Alignment from Pairagon AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGACC taatgtctgttgtctgaatggatgcggacaaacttctgacttcaccacagAAGATGGAGAAGCTCCTGGAGACAATTGACCAGCTGCAGCTAGAACTTGCTCGTAGGGCAGCTTCCTTCAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTTCACTCTGTGGAAGAAACAgtgagcaccacactaggcagtaaacccttgaatgtacttgtggcctagaa Alignment from Exonerate_protein2genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTC---GTGCACTCTGTGGAGGAGACC taatgtctgttgtctgaatggatgcggacaaacttctgacttcaccacagAAGATGGAGAAGCTCCTGGAGACAATTGACCAGCTGCAGCTAGAACTTGCTCGTAGGGCAGCTTCCTTCAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTTCACTCTGTGGAAGAAACAgtgagcaccacactaggcagtaaacccttgaatgtacttgtggcctagaa Alignment from Exonerate_coding2genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTC---GTGCACTCTGTGGAGGAGACC taatgtctgttgtctgaatggatgcggacaaacttctgacttcaccacagAAGATGGAGAAGCTCCTGGAGACAATTGACCAGCTGCAGCTAGAACTTGCTCGTAGGGCAGCTTCCTTCAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTTCACTCTGTGGAAGAAACAgtgagcaccacactaggcagtaaacccttgaatgtacttgtggcctagaa Alignment from GeneWise AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGACC taatgtctgttgtctgaatggatgcggacaaacttctgacttcaccacagAAGATGGAGAAGCTCCTGGAGACAATTGACCAGCTGCAGCTAGAACTTGCTCGTAGGGCAGCTTCCTTCAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTTCACTCTGTGGAAGAAACAgtgagcaccacactaggcagtaaacccttgaatgtacttgtggcctagaa #### Actn3_ID697_13 --> 1 - 0 Original Alignment tGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG--- cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagcGAGCTTGACTACCATGAGGCAACATCTGTGAACAGTCGGTGCCAAGCCATATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGCCCgtgagtggtagtccaggagggaagtaacgccagtaatgtctgttgtctga Alignment from CESAR tGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG--- cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagcGAGCTTGACTACCATGAGGCAACATCTGTGAACAGTCGGTGCCAAGCCATATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGCCCgtgagtggtagtccaggagggaagtaacgccagtaatgtctgttgtctga Alignment from Spaln_aa2Genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAGAGG cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagCGAGCTTGACTACCATGAGGCAACATCTGTGAACAGTCGGTGCCAAGCCATATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGCCCgtgagtggtagtccaggagggaagtaacgccagtaatgtctgttgtctga Alignment from Spaln_nt2Genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAGAGG cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagCGAGCTTGACTACCATGAGGCAACATCTGTGAACAGTCGGTGCCAAGCCATATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGCCCgtgagtggtagtccaggagggaagtaacgccagtaatgtctgttgtctga Alignment from Pairagon TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG--- cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagCGAGCTTGACTACCATGAGGCAACATCTGTGAACAGTCGGTGCCAAGCCATATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGCCCgtgagtggtagtccaggagggaagtaacgccagtaatgtctgttgtctga Alignment from Exonerate_protein2genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAGAGG cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagCGAGCTTGACTACCATGAGGCAACATCTGTGAACAGTCGGTGCCAAGCCATATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGCCCgtgagtggtagtccaggagggaagtaacgccagtaatgtctgttgtctga Alignment from Exonerate_coding2genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAGAGG cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagCGAGCTTGACTACCATGAGGCAACATCTGTGAACAGTCGGTGCCAAGCCATATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGCCCgtgagtggtagtccaggagggaagtaacgccagtaatgtctgttgtctga Alignment from GeneWise TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAGAGG cataaaaccgtaacataccttgggtctgaaaatgtccctccctggttcagCGAGCTTGACTACCATGAGGCAACATCTGTGAACAGTCGGTGCCAAGCCATATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCGTTAGAGCCCgtgagtggtagtccaggagggaagtaacgccagtaatgtctgttgtctga #### Actn3_ID700_10 --> 0 - 0 Original Alignment ---CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG acttcacctgtcactcattctgccagtaccatgctttcctttatttgtagTCCCTGTTAGAGTGGAATTGCCGGACAGTA------------AACCGTGTAGCTGAACCTAGCATG------------CAG---CTGGAGGACTTCCAAGACTATCAACACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGCTAGAAATCAACTTTAACATGCTGCAGGCTAAGTCTCGTCTGAGTCACCAACCTGCATTCATGCCCTCTGAAGGCAAC------TCTgtgagcaggtatttcgcaagttacagctctgcctacatgcctacaaccct Alignment from CESAR ---CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG acttcacctgtcactcattctgccagtaccatgctttcctttatttgtagTCCCTGTTAGAGTGGAATTGCCGGACAGTA------------AACCGTGTAGCTGAACCTAGCATG---------------CAGCTGGAGGACTTCCAAGACTATCAACACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGCTAGAAATCAACTTTAACATGCTGCAGGCTAAGTCTCGTCTGAGTCACCAACCTGCATTCATGCCCTCTGAAGGCAAC------TCTgtgagcaggtatttcgcaagttacagctctgcctacatgcctacaaccct Alignment from Spaln_aa2Genome ---CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG acttcacctgtcactcattctgccagtaccatgctttcctttatttgtagTCCCTGTTAGAGTGGAATTGCCGGACAGTA------------AACCGTGTAGCTGAACCTAGCATG---------------CAGCTGGAGGACTTCCAAGACTATCAACACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGCTAGAAATCAACTTTAACATGCTGCAGGCTAAGTCTCGTCTGAGTCACCAACCTGCATTCATGCCCTCTGAAGGCAAC------TCTgtgagcaggtatttcgcaagttacagctctgcctacatgcctacaaccct Alignment from Spaln_nt2Genome ---CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAG-CTGGTTTC-G acttcacctgtcactcattctgccagtaccatgctttcctttatttgtagTCCCTGTTAGAGTGGAATTGCCGGAC------------AGTAAACCGTGTAGCTGAACCTAGCATG---------------CAGCTGGAGGACTTCCAAGACTATCAACACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGCTAGAAATCAACTTTAACATGCTGCAGGCTAAGTCTCGTCTGAGTCACCAACCTGCATTCATGCCCTCTGAAGGCAACTCTGTGAGCAGgtatttcgcaagttacagctctgcctacatgcctacaaccct Alignment from Pairagon ---CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAA------------------------------------------------------ acttcacctgtcactcattctgccagtaccatgctttcctttatttgtagTCCCTGTTAGAGTGGAATTGCCGGAC------------AGTAAACCGTGTAGCTGAACCTAGCATG---------------CAGCTGGAGGACTTCCAAGACTATCAACACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGCTAGAAATCAACTTTAACATGCTGCAGGCTAAGTCTCGTCTGAGTCACCAACCTGCATTCATGCCCTCTGAAGGCAACTCTGTGAGCAGGTATTTCGCAAGTTACAGCTCTGCCTACATGCCTACAACCCT Alignment from Exonerate_protein2genome CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTG acttcacctgtcactcattctgccagtaccatGCTTTCCTTTATTTGTAGTCCCTGTTAGAGTGGAATTGCCGGACAGTAAACCGTGTAGCTGAACCTAGCATGCAG------CTGGAGGACTTCCAAGACTATCAACACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGCTAGAAATCAACTTTAACATGCTGCAGGCTAAGTCTCGTCTGAGTCACCAACCTGCATTCATGCCCTCTGAAGGCAACTCTgtgagcaggtatttcgcaagttacagctctgcctacatgcctacaaccct Alignment from Exonerate_coding2genome CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTG acttcacctgtcactcattctgccagtaccatGCTTTCCTTTATTTGTAGTCCCTGTTAGAGTGGAATTGCCGGACAGTAAACCGTGTAGCTGAACCTAGCATGCAG------CTGGAGGACTTCCAAGACTATCAACACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGCTAGAAATCAACTTTAACATGCTGCAGGCTAAGTCTCGTCTGAGTCACCAACCTGCATTCATGCCCTCTGAAGGCAACTCTgtgagcaggtatttcgcaagttacagctctgcctacatgcctacaaccct Alignment from GeneWise ---CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG acttcacctgtcactcattctgccagtaccatgctttcctttatttgtagTCCCTGTTAGAGTGGAATTGCCGGACAGTA------------AACCGTGTAGCTGAACCTAGCATG---------------CAGCTGGAGGACTTCCAAGACTATCAACACCTACGAAAGCCACCCTGTTTCCAAGAGACATGCCAGCTAGAAATCAACTTTAACATGCTGCAGGCTAAGTCTCGTCTGAGTCACCAACCTGCATTCATGCCCTCTGAAGGCAAC------TCTgtgagcaggtatttcgcaagttacagctctgcctacatgcctacaaccct #### Actn3_ID701_9 --> 0 - 0 Original Alignment GCAGAGACTGCTGCCAACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG--- ctttcttggtatagtgttgtgagagctatgtggacttcttgccctgctagGCAGAGACTGCTGCCAACAGGATCTGCAAGGTCTTGCCAGTGAACCAGGAAAATGAGGAGCTGATGGAGAAATATGCAAAACTGGCTAGCGAGGGCgtaagtttagactacagtccaagaactccttcccagtgtttcttcagtgt Alignment from CESAR GCAGAGACTGCTGCCAACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG--- ctttcttggtatagtgttgtgagagctatgtggacttcttgccctgctagGCAGAGACTGCTGCCAACAGGATCTGCAAGGTCTTGCCAGTGAACCAGGAAAATGAGGAGCTGATGGAGAAATATGCAAAACTGGCTAGCGAGGGCgtaagtttagactacagtccaagaactccttcccagtgtttcttcagtgt Alignment from Spaln_aa2Genome GCAGAGACTGCTGCCAACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG--- ctttcttggtatagtgttgtgagagctatgtggacttcttgccctgctagGCAGAGACTGCTGCCAACAGGATCTGCAAGGTCTTGCCAGTGAACCAGGAAAATGAGGAGCTGATGGAGAAATATGCAAAACTGGCTAGCGAGGGCgtaagtttagactacagtccaagaactccttcccagtgtttcttcagtgt Alignment from Spaln_nt2Genome GCAGAGACTGCTGCCAACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG--- ctttcttggtatagtgttgtgagagctatgtggacttcttgccctgctagGCAGAGACTGCTGCCAACAGGATCTGCAAGGTCTTGCCAGTGAACCAGGAAAATGAGGAGCTGATGGAGAAATATGCAAAACTGGCTAGCGAGGGCgtaagtttagactacagtccaagaactccttcccagtgtttcttcagtgt Alignment from Pairagon GCAGAGACTGCTGCCAACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG--- ctttcttggtatagtgttgtgagagctatgtggacttcttgccctgctagGCAGAGACTGCTGCCAACAGGATCTGCAAGGTCTTGCCAGTGAACCAGGAAAATGAGGAGCTGATGGAGAAATATGCAAAACTGGCTAGCGAGGGCgtaagtttagactacagtccaagaactccttcccagtgtttcttcagtgt Alignment from Exonerate_protein2genome ctttcttggtatagtgttgtgagagctatgtggacttcttgccctgctaggcagagactgctgccaacaggatctgcaaggtcttgccagtgaaccaggaaaatgaggagctgatggagaaatatgcaaaactggctagcgagggcgtaagtttagactacagtccaagaactccttcccagtgtttcttcagtgt Alignment from Exonerate_coding2genome AGACTGCTGCCAACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAGCTG ctttcttggtatagtgttgtgagagctatgtggacttcttgccctgctaggcagAGACTGCTGCCAACAGGATCTGCAAGGTCTTGCCAGTGAACCAGGAAAATGAGGAGCTGATGGAGAAATATGCAAAACTGGCTAGCGAGGGCgtaagtttagactacagtccaagaactccttcccagtgtttcttcagtgt Alignment from GeneWise GCAGAGACTGCTGCCAACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAGCTG ctttcttggtatagtgttgtgagagctatgtggacttcttgccctgctagGCAGAGACTGCTGCCAACAGGATCTGCAAGGTCTTGCCAGTGAACCAGGAAAATGAGGAGCTGATGGAGAAATATGCAAAACTGGCTAGCGAGGGCgtaagtttagactacagtccaagaactccttcccagtgtttcttcagtgt #### Actn3_ID705_5 --> 2 - 2 Original Alignment agACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCag gcctagttgagccagatcaaacctggtactgtctgctcttggccctgcagag---------AAACAGGGCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGTAATGTTAATGTACAGAACTTCCATACTaggtgagtatcctgcgtattgtagttgggatctgttaaagtgaaggatgcca Alignment from CESAR agACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCag atgccagatgcctagttgagccagagtactgtctgctcttggccctgcagag---------AAACAGGGCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGTAATGTTAATGTACAGAACTTCCATACTaggtgagtatcctgcgtattgtagttgggatctgttaaagtgaaggatgcca Alignment from Spaln_aa2Genome AGACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG gcctagttgagccagatcaaacctggtactgtctgctcttggccctgcagAG---------AAACAGGGCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGTAATGTTAATGTACAGAACTTCCATACTAGgtgagtatcctgcgtattgtagttgggatctgttaaagtgaaggatgcca Alignment from Spaln_nt2Genome AGACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG gcctagttgagccagatcaaacctggtactgtctgctcttggccctgcagAG---------AAACAGGGCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGTAATGTTAATGTACAGAACTTCCATACTAGgtgagtatcctgcgtattgtagttgggatctgttaaagtgaaggatgcca Alignment from Pairagon AGACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG gcctagttgagccagatcaaacctggtactgtctgctcttggccctgcagAG---------AAACAGGGCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGTAATGTTAATGTACAGAACTTCCATACTAGgtgagtatcctgcgtattgtagttgggatctgttaaagtgaaggatgcca Alignment from Exonerate_protein2genome AGACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG gcctagttgagccagatcaaacctggtactgtctgctcttgGCCCTGCAGAGAAACAGGGCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGTAATGTTAATGTACAGAACTTCCATACTAGgtgagtatcctgcgtattgtagttgggatctgttaaagtgaaggatgcca Alignment from Exonerate_coding2genome AGACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG gcctagttgagccagatcaaacctggtactgtctgctcttgGCCCTGCAGAGAAACAGGGCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGTAATGTTAATGTACAGAACTTCCATACTAGgtgagtatcctgcgtattgtagttgggatctgttaaagtgaaggatgcca Alignment from GeneWise AGACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG gcctagttgagccagatcaaacctggtactgtctgctcttggccctgcagAG---------AAACAGGGCTTGTTCCTCTGGTGCCAGCGGAAAATAGCTCCATACCGTAATGTTAATGTACAGAACTTCCATACTAGgtgagtatcctgcgtattgtagttgggatctgttaaagtgaaggatgcca #### Actn3_ID706_4 --> 2 - 1 Original Alignment aaATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAg tgcgggggaacaaaggctctcatgttcacagctatttttccatttttcagaa------GACGGCAACCTGAAGATGACCCTTGGCATGATTGGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAggtgaggtgatgccagatgcctagttgagccagatcagaagctgtgtttta Alignment from CESAR aaATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAg tggtagtgcgggggaacaaaggctctcacagctatttttccatttttcagaa------GACGGCAACCTGAAGATGACCCTTGGCATGATTGGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAggtgaggtgatgccagatgcctagttgagccagatcaaacctggtaaaatt Alignment from Spaln_aa2Genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG tgcgggggaacaaaggctctcatgttcacagctatttttccatttttcagAA------GACGGCAACCTGAAGATGACCCTTGGCATGATTGGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtgaggtgatgccagatgcctagttgagccagatcagaagctgtgtttta Alignment from Spaln_nt2Genome ACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG tgcgggggaacaaaggctctcatgttcacagctatttttccatttttcagaagACGGCAACCTGAAGATGACCCTTGGCATGATTGGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtgaggtgatgccagatgcctagttgagccagatcagaagctgtgtttta Alignment from Pairagon AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG tgcgggggaacaaaggctctcatgttcacagctatttttccatttttcagAA------GACGGCAACCTGAAGATGACCCTTGGCATGATTGGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtgaggtgatgccagatgcctagttgagccagatcagaagctgtgtttta Alignment from Exonerate_protein2genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG tgcgggggaacaaaggctctcatgttcacagctatttttccatttttcagAA------GACGGCAACCTGAAGATGACCCTTGGCATGATTGGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtgaggtgatgccagatgcctagttgagccagatcagaagctgtgtttta Alignment from Exonerate_coding2genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG tgcgggggaacaaaggctctcatgttcacagctatttttccatttttcagAA------GACGGCAACCTGAAGATGACCCTTGGCATGATTGGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtgaggtgatgccagatgcctagttgagccagatcagaagctgtgtttta Alignment from GeneWise AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG tgcgggggaacaaaggctctcatgttcacagctatttttccatttttcagAA------GACGGCAACCTGAAGATGACCCTTGGCATGATTGGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtgaggtgatgccagatgcctagttgagccagatcagaagctgtgtttta #### Actn3_ID707_3 --> 2 - 1 Original Alignment gaGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAA------g tggtcttcaactcatgacctttagcatgcttttgtgttgttttctcccaggtGCTAGACTGCCTAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACTCTAGACTTCATAGCTACCAAAGGTGTGAAGCTAGTTGCAATTAGTGCTGAATCCATCggtaccagagggtggttaaaggataccagttgtggcacagccagatgttat Alignment from CESAR gaGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAA------g tggtcttcaactcatgacctttagcatgcttttgtgttgttttctcccaggtGCTAGACTGCCTAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACTCTAGACTTCATAGCTACCAAAGGTGTGAAGCTAGTTGCAATTAGTGCTGAATCCATCggtaccagagggtggttaaaggataccagttgtggcacagccagatgttat Alignment from Spaln_aa2Genome GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAGAAATTG tggtcttcaactcatgacctttagcatgcttttgtgttgttttctcccagGTGCTAGACTGCCTAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACTCTAGACTTCATAGCTACCAAAGGTGTGAAGCTAGTTGCAATTAGTGCTGAATCCATCGgtaccagagggtggttaaaggataccagttgtggcacagccagatgttat Alignment from Spaln_nt2Genome GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAA------G tggtcttcaactcatgacctttagcatgcttttgtgttgttttctcccagGTGCTAGACTGCCTAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACTCTAGACTTCATAGCTACCAAAGGTGTGAAGCTAGTTGCAATTAGTGCTGAATCCATCGgtaccagagggtggttaaaggataccagttgtggcacagccagatgttat Alignment from Pairagon GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAA----------------G tggtcttcaactcatgacctttagcatgcttttgtgttgttttctcccagGTGCTAGACTGCCTAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACTCTAGACTTCATAGCTACCAAAGGTGTGAAGCTAGTTGCAATTAGTGCTGAATCCATCGGTACCAGAGGgtggttaaaggataccagttgtggcacagccagatgttat Alignment from Exonerate_protein2genome GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTG tggtcttcaactcatgacctttagcatgcttttgtgttgttttctcccagGTGCTAGACTGCCTAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACTCTAGACTTCATAGCTACCAAAGGTGTGAAGCTAGTTGCAATTAGTGctgaatccatcggtaccagagggtggttaaaggataccagttgtggcacagccagatgttat Alignment from Exonerate_coding2genome GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTG tggtcttcaactcatgacctttagcatgcttttgtgttgttttctcccagGTGCTAGACTGCCTAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACTCTAGACTTCATAGCTACCAAAGGTGTGAAGCTAGTTGCAATTAGTGctgaatccatcggtaccagagggtggttaaaggataccagttgtggcacagccagatgttat Alignment from GeneWise GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAGAAATTG tggtcttcaactcatgacctttagcatgcttttgtgttgttttctcccagGTGCTAGACTGCCTAGGCCGGATAAAGGCAAGATGTGCTTTCATAAAATTGCCAATGTAAATAACACTCTAGACTTCATAGCTACCAAAGGTGTGAAGCTAGTTGCAATTAGTGCTGAATCCATCGgtaccagagggtggttaaaggataccagttgtggcacagccagatgttat #### Adrbk1_ID485_10 --> 2 - 0 Original Alignment CATGAACg gtGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATggtgggtaagtctagagactgttgccttctgtttccttcttaggtGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGAT------gtgagtctctgatagacttcctcacccctattctgctccttacaactcac Alignment from CESAR CATGAACg gtGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATggtgtgtaagtctagagactgttgccttctgtttccttcttaggtGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGAT------gtgagtctctgatagacttcctcacccctattctgctccttaca Alignment from Spaln_aa2Genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGAC TATGAATGgtgggtaagtctagagactgttgccttctgtttccttcttagGTGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATgtgagtctctgatagacttcctcacccctattctgctccttacaactcac Alignment from Spaln_nt2Genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCT TATGAATGgtgggtaagtctagagactgttgccttctgtttccttcttagGTGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGA--Tgtgagtctctgatagacttcctcacccctattctgctccttacaactcac Alignment from Pairagon CATGAACGGTGGG------------------------------------------GACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGAC TATGAATGGTGGGTAAGTCTAGAGACTGTTGCCTTCTGTTTCCTTCTTAGGTGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATgtgagtctctgatagacttcctcacccctattctgctccttacaactcac Alignment from Exonerate_protein2genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGAC TATGAATGgtgggtaagtctagagactgttgccttctgtttccttcttagGTGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATgtgagtctctgatagacttcctcacccctattctgctccttacaactcac Alignment from Exonerate_coding2genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGAC TATGAATGgtgggtaagtctagagactgttgccttctgtttccttcttagGTGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATgtgagtctctgatagacttcctcacccctattctgctccttacaactcac Alignment from GeneWise CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGAC TATGAATGgtgggtaagtctagagactgttgccttctgtttccttcttagGTGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCCGATATGTGTCTATATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATgtgagtctctgatagacttcctcacccctattctgctccttacaactcac #### Adrbk1_ID487_8 --> 1 - 0 Original Alignment g------TACGCCATGAAGTGTCTG---GACAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gacctcatcgattgtgctgggttgcttaaacttgtcctcttgtgttacaggTTAACCCATGCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGGGAGAGACACTGGCCCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtattccaagtggtcaggtggactcccacttagtttgccttctacaagtc Alignment from CESAR g------TACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gacctcatcgattgtgctgggttgcttaaacttgtcctcttgtgttacaggTTAACCCATGCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGGGAGAGACACTGGCCCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtattccaagtggtcaggtggactcccacttagtttgccttctacaagtc Alignment from Spaln_aa2Genome G------TACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gacctcatcgattgtgctgggttgcttaaacttgtcctcttgtgttacagGTTAACCCATGCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGGGAGAGACACTGGCCCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtattccaagtggtcaggtggactcccacttagtttgccttctacaagtc Alignment from Spaln_nt2Genome GT------ACGCCATGAAGTGTCTGGA---CAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gacctcatcgattgtgctgggttgcttaaacttgtcctcttgtgttacagGTTAACCCATGCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGGGAGAGACACTGGCCCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtattccaagtggtcaggtggactcccacttagtttgccttctacaagtc Alignment from Pairagon GT------ACGCCATGAAGTGTCTGG---ACAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gacctcatcgattgtgctgggttgcttaaacttgtcctcttgtgttacagGTTAACCCATGCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGGGAGAGACACTGGCCCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtattccaagtggtcaggtggactcccacttagtttgccttctacaagtc Alignment from Exonerate_protein2genome G------TACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gacctcatcgattgtgctgggttgcttaaacttgtcctcttgtgttacagGTTAACCCATGCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGGGAGAGACACTGGCCCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtattccaagtggtcaggtggactcccacttagtttgccttctacaagtc Alignment from Exonerate_coding2genome G------TACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gacctcatcgattgtgctgggttgcttaaacttgtcctcttgtgttacagGTTAACCCATGCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGGGAGAGACACTGGCCCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtattccaagtggtcaggtggactcccacttagtttgccttctacaagtc Alignment from GeneWise ----ATGTACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gacctcatcgattgtgctgggttgcttaaacttgtcctcttgtgttacagGTTAACCCATGCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGGGAGAGACACTGGCCCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtattccaagtggtcaggtggactcccacttagtttgccttctacaagtc #### Adrbk1_ID491_4 --> 0 - 0 Original Alignment CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG--------------------- ccattccattttgcttgttcatgttcatttatttatttatctttatgcagCCCTTCTCCCAAAATGCTGCAGAGCATGTGCAGGCCCACCTTGTGAAGAAGCAGGTCCCTCCAGATCTGTTTCAGATATCTAGACCCCTGTTGAGAgtaggtttagggtgatcatcatggtattagacattggtaagatgttgctc Alignment from CESAR CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG--------------------- ccattccattttgcttgttcatgttcatttatttatttatctttatgcagCCCTTCTCCCAAAATGCTGCAGAGCATGTGCAGGCCCACCTTGTGAAGAAGCAGGTCCCTCCAGATCTGTTTCAGATATCTAGACCCCTGTTGAGAgtaggtttagggtgatcatcatggtattagacattggtaagatgttgctc Alignment from Spaln_aa2Genome CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG ccattccattttgcttgttcatgttcatttatttatttatctttatgcagCCCTTCTCCCAAAATGCTGCAGAGCATGTGCAGGCCCACCTTGTGAAGAAGCAGGTCCCTCCAGATCTGTTTCAGatatctagacccctgttgagagtaggtttagggtgatcatcatggtattagacattggtaagatgttgctc Alignment from Spaln_nt2Genome CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG-------------- ccattccattttgcttgttcatgttcatttatttatttatctttatgcagCCCTTCTCCCAAAATGCTGCAGAGCATGTGCAGGCCCACCTTGTGAAGAAGCAGGTCCCTCCAGATCTGTTTCAGATATCTAGACCCCTgttgagagtaggtttagggtgatcatcatggtattagacattggtaagatgttgctc Alignment from Pairagon CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG--------------------- ccattccattttgcttgttcatgttcatttatttatttatctttatgcagCCCTTCTCCCAAAATGCTGCAGAGCATGTGCAGGCCCACCTTGTGAAGAAGCAGGTCCCTCCAGATCTGTTTCAGATATCTAGACCCCTGTTGAGAgtaggtttagggtgatcatcatggtattagacattggtaagatgttgctc Alignment from Exonerate_protein2genome CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG ccattccattttgcttgttcatgttcatttatttatttatctttatgcagCCCTTCTCCCAAAATGCTGCAGAGCATGTGCAGGCCCACCTTGTGAAGAAGCAGGTCCCTCCAGATCTGTTTCAGatatctagacccctgttgagagtaggtttagggtgatcatcatggtattagacattggtaagatgttgctc Alignment from Exonerate_coding2genome ccattccattttgcttgttcatgttcatttatttatttatctttatgcagcccttctcccaaaatgctgcagagcatgtgcaggcccaccttgtgaagaagcaggtccctccagatctgtttcagatatctagacccctgttgagagtaggtttagggtgatcatcatggtattagacattggtaagatgttgctc Alignment from GeneWise CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG--------------------- ccattccattttgcttgttcatgttcatttatttatttatctttatgcagCCCTTCTCCCAAAATGCTGCAGAGCATGTGCAGGCCCACCTTGTGAAGAAGCAGGTCCCTCCAGATCTGTTTCAGATATCTAGACCCCTGTTGAGAgtaggtttagggtgatcatcatggtattagacattggtaagatgttgctc #### Afap1l2_ID12244_19 --> 0 - 0 Original Alignment ------CCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG tttacttaatacaggcaagctagctttgtaccactgttggtgtgtttcagCGGCATCCACAGCCCAAAGCTGCCACTCCTAATCCTCCACCA---GCTACACCAGTTAATTCAGCATCTGTACTAAAAAATAGGCCACTCTCTGTAATGGTTATTGGGAAAGGAACTGTCCTGCAGAAAGCCAAGgtaaggtacctcattacaaattgtgttaagccacaaaatgtaccccctgt Alignment from CESAR ------CCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG tttacttaatacaggcaagctagctttgtaccactgttggtgtgtttcagCGGCATCCACAGCCCAAAGCTGCCACTCCTAATCCTCCACCA---GCTACACCAGTTAATTCAGCATCTGTACTAAAAAATAGGCCACTCTCTGTAATGGTTATTGGGAAAGGAACTGTCCTGCAGAAAGCCAAGgtaaggtacctcattacaaattgtgttaagccacaaaatgtaccccctgt Alignment from Spaln_aa2Genome CCACAGCCC------AAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG tttacttaatacaggcaagctagctttgtaccactgttggtgtgtttcagCGGCATCCACAGCCCAAAGCTGCCACTCCTAATCCTCCACCAGCT---ACACCAGTTAATTCAGCATCTGTACTAAAAAATAGGCCACTCTCTGTAATGGTTATTGGGAAAGGAACTGTCCTGCAGAAAGCCAAGgtaaggtacctcattacaaattgtgttaagccacaaaatgtaccccctgt Alignment from Spaln_nt2Genome TCCACAGCCC-----AAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG tttacttaatacaggcaagctagctttgtaccactgttggtgtgtttcagCGGCATCCACAGCCCAAAGCTGCCACTCCTAATCCTCCACCAG---CTACACCAGTTAATTCAGCATCTGTACTAAAAAATAGGCCACTCTCTGTAATGGTTATTGGGAAAGGAACTGTCCTGCAGAAAGCCAAGgtaaggtacctcattacaaattgtgttaagccacaaaatgtaccccctgt Alignment from Pairagon ------CCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG tttacttaatacaggcaagctagctttgtaccactgttggtgtgtttcagCGGCATCCACAGCCCAAAGCTGCCACTCCTAATCCTCCACCAG---CTACACCAGTTAATTCAGCATCTGTACTAAAAAATAGGCCACTCTCTGTAATGGTTATTGGGAAAGGAACTGTCCTGCAGAAAGCCAAGgtaaggtacctcattacaaattgtgttaagccacaaaatgtaccccctgt Alignment from Exonerate_protein2genome CCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG tttacttaatacaggcaagctagctttgtaccactgttggtgtgtttcagcggcatCCACAGCCCAAAGCTGCCACTCCTAATCCTCCACCA---GCTACACCAGTTAATTCAGCATCTGTACTAAAAAATAGGCCACTCTCTGTAATGGTTATTGGGAAAGGAACTGTCCTGCAGAAAGCCAAGgtaaggtacctcattacaaattgtgttaagccacaaaatgtaccccctgt Alignment from Exonerate_coding2genome CCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG tttacttaatacaggcaagctagctttgtaccactgttggtgtgtttcagcggcatCCACAGCCCAAAGCTGCCACTCCTAATCCTCCACCA---GCTACACCAGTTAATTCAGCATCTGTACTAAAAAATAGGCCACTCTCTGTAATGGTTATTGGGAAAGGAACTGTCCTGCAGAAAGCCAAGgtaaggtacctcattacaaattgtgttaagccacaaaatgtaccccctgt Alignment from GeneWise ------CCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG tttacttaatacaggcaagctagctttgtaccactgttggtgtgtttcagCGGCATCCACAGCCCAAAGCTGCCACTCCTAATCCTCCACCA---GCTACACCAGTTAATTCAGCATCTGTACTAAAAAATAGGCCACTCTCTGTAATGGTTATTGGGAAAGGAACTGTCCTGCAGAAAGCCAAGgtaaggtacctcattacaaattgtgttaagccacaaaatgtaccccctgt #### Afap1l2_ID12247_16 --> 0 - 1 Original Alignment AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAg ttaaaccacctggagccaaatcctaaccgagactttgttttatttgacag------CCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCAT---GATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACAATGGCTTCCACCCCCATTTCTGCAAGCGCGCCTGCGAAAGAGAAGTTAAGAGTTACTGGTGCAggtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from CESAR AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAg tgctctttaaaccacctggagccaaaccgagactttgttttatttgacag------CCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCAT---GATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACAATGGCTTCCACCCCCATTTCTGCAAGCGCGCCTGCGAAAGAGAAGTTAAGAGTTACTGGTGCAggtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from Spaln_aa2Genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG ttaaaccacctggagccaaatcctaaccgagactttgttttatttgacag------CCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCAT---GATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACAATGGCTTCCACCCCCATTTCTGCAAGCGCGCCTGCGAAAGAGAAGTTAAGAGTTACTGGTGCAGgtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from Spaln_nt2Genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG ttaaaccacctggagccaaatcctaaccgagactttgttttatttgacag------CCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCA---TGATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACAATGGCTTCCACCCCCATTTCTGCAAGCGCGCCTGCGAAAGAGAAGTTAAGAGTTACTGGTGCAGgtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from Pairagon AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG ttaaaccacctggagccaaatcctaaccgagactttgttttatttgacag------CCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCA---TGATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACAATGGCTTCCACCCCCATTTCTGCAAGCGCGCCTGCGAAAGAGAAGTTAAGAGTTACTGGTGCAGgtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from Exonerate_protein2genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG ttaaaccacctggagccaaatcctaaccgagactttgttttattTGACAGCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCAT---GATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACAATGGCTTCCACCCCCATTTCTGCAAGCGCGCCTGCGAAAGAGAAGTTAAGAGTTACTGGTGCAGgtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from Exonerate_coding2genome ttaaaccacctggagccaaatcctaaccgagactttgttttatttgacagccagaagttcaagagtcctcagagcctattgaacccacaccacggagcactattgttaagttgcatgatcagcagaggatttccttccctgctaactgcccagatacaatggcttccacccccatttctgcaagcgcgcctgcgaaagagaagttaagagttactggtgcaggtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from GeneWise CCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG ttaaaccacctggagccaaatcctaaccgagactttgttttatttgacagCCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACACCACGGAGCACTATTGTTAAGTTGCAT---GATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGATACAATGGCTTCCACCCCCATTTCTGCAAGCGCGCCTGCGAAAGAGAAGTTAAGAGTTACTGGTGCAGgtacggggactgagctttgttgctgtagtttgcttgtattgctgagttgg #### Afap1l2_ID12248_15 --> 0 - 0 Original Alignment GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG--------------------- gcagacaaaccatggcaacttcagagagcctccatccctctggtatccagGTGGAACCCGCTGAAGAAGAAGCT---ACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGCCCCATACA---GCACCAGGAGATCCTGAGTTGCAGCAGCCACGAACAAAAGATGATCTTgtaggcaagtggtcagcttactaactacattacctgctctttaaaccacc Alignment from CESAR GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG--------------------- gcagacaaaccatggcaacttcagagagcctccatccctctggtatccagGTGGAACCCGCTGAAGAAGAAGCT---ACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGCCCCATACA---GCACCAGGAGATCCTGAGTTGCAGCAGCCACGAACAAAAGATGATCTTgtaggcaagtggtcagcttactaactacattacctgctctttaaaccacc Alignment from Spaln_aa2Genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCA gcagacaaaccatggcaacttcagagagcctccatccctctggtatccagGTGGAACCCGCTGAAGAAGAAGCT---ACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGCCCCATACA---GCACCAGGAGATCCTGAGTTGCAGCAgccacgaacaaaagatgatcttgtaggcaagtggtcagcttactaactacattacctgctctttaaaccacc Alignment from Spaln_nt2Genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCA gcagacaaaccatggcaacttcagagagcctccatccctctggtatccagGTGGAACCCGCTGAAGAAGAAG---CTACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGCCCCATACAG---CACCAGGAGATCCTGAGTTGCAGCAgccacgaacaaaagatgatcttgtaggcaagtggtcagcttactaactacattacctgctctttaaaccacc Alignment from Pairagon GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG--------------------- gcagacaaaccatggcaacttcagagagcctccatccctctggtatccagGTGGAACCCGCTGAAGAAGAAG---CTACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGCCCCATACAG---CACCAGGAGATCCTGAGTTGCAGCAGCCACGAACAAAAGATGATCTTgtaggcaagtggtcagcttactaactacattacctgctctttaaaccacc Alignment from Exonerate_protein2genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG gcagacaaaccatggcaacttcagagagcctccatccctctggtatccagGTGGAACCCGCTGAAGAAGAAGCT---ACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGCCCCATACA---GCACCAGGAGATCCTGAGTTGCAGCAGccacgaacaaaagatgatcttgtaggcaagtggtcagcttactaactacattacctgctctttaaaccacc Alignment from Exonerate_coding2genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG gcagacaaaccatggcaacttcagagagcctccatccctctggtatccagGTGGAACCCGCTGAAGAAGAAGCT---ACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGCCCCATACA---GCACCAGGAGATCCTGAGTTGCAGCAGccacgaacaaaagatgatcttgtaggcaagtggtcagcttactaactacattacctgctctttaaaccacc Alignment from GeneWise GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG--------------------- gcagacaaaccatggcaacttcagagagcctccatccctctggtatccagGTGGAACCCGCTGAAGAAGAAGCT---ACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCAGAGTCCATCACTACCCAAGAGGAGCCCCATACA---GCACCAGGAGATCCTGAGTTGCAGCAGCCACGAACAAAAGATGATCTTgtaggcaagtggtcagcttactaactacattacctgctctttaaaccacc #### Aip_ID330_5 --> 0 - 1 Original Alignment ---------GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATg gctgccatcgctgcagctgaaactgacctttgctgttgttcttttctcagTTCACATTAGAGCAGGCTGGCTCATCTGACTGGGTCCAGTTAGACCTGCAGATCACACCACTGCTACCCAATTATTGCCAGTGCAAGCTGGTAGCTCCAGGGTATTATGAAGTATTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTggtaagggtcatgcccaatacatgcccaatacaacccagacttcccataag Alignment from CESAR ---------GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATg gctgccatcgctgcagctgaaactgacctttgctgttgttcttttctcagTTCACATTAGAGCAGGCTGGCTCATCTGACTGGGTCCAGTTAGACCTGCAGATCACACCACTGCTACCCAATTATTGCCAGTGCAAGCTGGTAGCTCCAGGGTATTATGAAGTATTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTggtaagggtcatgcccaatacatgcccaatacaacccagacttcccataag Alignment from Spaln_aa2Genome ---------GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGAT gctgccatcgctgcagctgaaactgacctttgctgttgttcttttctcagTTCACATTAGAGCAGGCTGGCTCATCTGACTGGGTCCAGTTAGACCTGCAGATCACACCACTGCTACCCAATTATTGCCAGTGCAAGCTGGTAGCTCCAGGGTATTATGAAGTATTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtaagggtcatgcccaatacatgcccaatacaacccagacttcccataag Alignment from Spaln_nt2Genome GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG gctgccatcgctgcagctgaaactgacctttgctgttgttcttttctcagttcacattagAGCAGGCTGG-CTCATCTGACTGGGTCCAGTTAGACCTGCAGATCACACCACTGCTACCCAATTATTGCCAGTGCAAGCTGGTAGCTCCAGGGTATTATGAAGTATTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtaagggtcatgcccaatacatgcccaatacaacccagacttcccataag Alignment from Pairagon ---------GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG gctgccatcgctgcagctgaaactgacctttgctgttgttcttttctcagTTCACATTAGAGCAGGCTGGCTCATCTGACTGGGTCCAGTTAGACCTGCAGATCACACCACTGCTACCCAATTATTGCCAGTGCAAGCTGGTAGCTCCAGGGTATTATGAAGTATTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtaagggtcatgcccaatacatgcccaatacaacccagacttcccataag Alignment from Exonerate_protein2genome GAAGGAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG gctgccatcgctgcagctgaaactgacctttgctgttgttcttttctcagttcacATTAGAGCAGGCTGGCTCATCTGACTGGGTCCAGTTAGACCTGCAGATCACACCACTGCTACCCAATTATTGCCAGTGCAAGCTGGTAGCTCCAGGGTATTATGAAGTATTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtaagggtcatgcccaatacatgcccaatacaacccagacttcccataag Alignment from Exonerate_coding2genome GAAGGAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG gctgccatcgctgcagctgaaactgacctttgctgttgttcttttctcagttcacATTAGAGCAGGCTGGCTCATCTGACTGGGTCCAGTTAGACCTGCAGATCACACCACTGCTACCCAATTATTGCCAGTGCAAGCTGGTAGCTCCAGGGTATTATGAAGTATTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtaagggtcatgcccaatacatgcccaatacaacccagacttcccataag Alignment from GeneWise --CAGCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG gctgccatcgctgcagctgaaactgacctttgctgttgttcttttctcagttcacattagAGCAGGCTGGCTCATCTGACTGGGTCCAGTTAGACCTGCAGATCACACCACTGCTACCCAATTATTGCCAGTGCAAGCTGGTAGCTCCAGGGTATTATGAAGTATTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtaagggtcatgcccaatacatgcccaatacaacccagacttcccataag #### Aldh3b2_ID239_5 --> 2 - 0 Original Alignment ga---------------------------------------------AACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCT agcatacaagccgtagctgtttttccacggttttggttttgttaccataggaTCTTTCTTCGGCTGGGGGAGCATGATGAGTATCCTGTGTCCGAAGAATTGTGTGGTATTGAGGCCATCTGATATTAGTAAGAACACGGAA---ATGCAGGCAGAGCTACTG---CGGCATCTCGATCAGgtagggctgattgtgcaagttcttgatgttgcttttgttctagAGCTGTT Alignment from CESAR ttccttcacagagaccatggagcatgaaagtaataatagtaattgtacatg Alignment from Spaln_aa2Genome A AACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCT AgcatacaagccgtagctgtttttccacggttttggttttgttaccataggatctttcttcggctgggggagcatgatgagtatcctgtgtccgaagAATTGTGTGGTATTGAGGCCATCTGATATTAGTAAGAACACGGAA---ATGCAGGCAGAGCTACTG---CGGCATCTCGATCAGgtagggctgattgtgcaagttcttgatgttgcttttgttctagAGCTGTT Alignment from Spaln_nt2Genome AAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCT agcatacaagccgtagctgtttttccacggttttggttttgttaccataggatctttcttcggctgggggagcatgatgagtatcctgtgtccgaagAATTGTGTGGT-ATTGAGGCCATCTGATATTAGTAAGAACACGGAAA---TGCAGGCAGAGCTACTG---CGGCATCTCGATCAGgtagggctgattgtgcaagttcttgatgttgcttttgttctagAGCTGTT Alignment from Pairagon GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCT agcatacaagccgtagctgtttttccacggttttggttttgttaccataggatctttcttcggctgggggagcatgatgagtatcctgtgtccgaag--AATTGTGTGGTATTGAGGCCATCTGATATTAGTAAGAACACGGAAA---TGCAGGCAGAGCTACTG---CGGCATCTCGATCAGgtagggctgattgtgcaagttcttgatgttgcttttgttctagAGCTGTT Alignment from Exonerate_protein2genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCT agcatacaagccgtagctgtttttccacggttttggttttgttaccataggatctttcttcggctgggggagcatgatgagtatcctgtgtccgaAGAATTGTGTGGTATTGAGGCCATCTGATATTAGTAAGAACACGGAA---ATGCAGGCAGAGCTACTG---CGGCATCTCGATCAGgtagggctgattgtgcaagttcttgatgttgcttttgttctagAGCTGTT Alignment from Exonerate_coding2genome AAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAGAGCTGCT agcatacaagccgtagctgtttttccacggttttggttttgttaccataggatctttcttcggctgggggagcatgatgagtatcctgtgtccgaagaattgtgtggtattgaggccatctgatattagtaagaacacggaaatgcaggcagagctactgcggcatctcgatcaggtagGGCTGATTGTGCAAGTTCTTGATGTTGCTTTTGTTCTAGAGCTGTT Alignment from GeneWise AACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCT agcatacaagccgtagctgtttttccacggttttggttttgttaccataggatctttcttcggctgggggagcatgatgagtatcctgtgtccgaagAATTGTGTGGTATTGAGGCCATCTGATATTAGTAAGAACACGGAA---ATGCAGGCAGAGCTACTG---CGGCATCTCGATCAGgtagggctgattgtgcaagttcttgatgttgcttttgttctagAGCTGTT #### Aldh3b2_ID243_9 --> 0 - 1 Original Alignment ------GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTg cctgcaggcatctgccgggatgcctgtattgggggggctttctcttgtagCTGGACGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATGATGGCTTCCTATACCTAACACTGCCTGCATTGCCTTTGGGAGGGGTTggtgagttcttacatcctattgccattgaagagagttaggttccaccttgg Alignment from CESAR ------GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTg cctgcaggcatctgccgggatgcctgtattgggggggctttctcttgtagCTGGACGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATGATGGCTTCCTATACCTAACACTGCCTGCATTGCCTTTGGGAGGGGTTggtgagttcttacatcctattgccattgaagagagttaggttccaccttgg Alignment from Spaln_aa2Genome GTGGTGAATCAGATG------TTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG cctgcaggcatctgccgggatgcctgtattgggggggctttctcttgtagCTGGACGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATGATGGCTTCCTATACCTAACACTGCCTGCATTGCCTTTGGGAGGGGTTGgtgagttcttacatcctattgccattgaagagagttaggttccaccttgg Alignment from Spaln_nt2Genome GTGGTGAATCA------GATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG cctgcaggcatctgccgggatgcctgtattgggggggctttctcttgtagCTGGACGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATGATGGCTTCCTATACCTAACACTGCCTGCATTGCCTTTGGGAGGGGTTGgtgagttcttacatcctattgccattgaagagagttaggttccaccttgg Alignment from Pairagon ------GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG cctgcaggcatctgccgggatgcctgtattgggggggctttctcttgtagCTGGACGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATGATGGCTTCCTATACCTAACACTGCCTGCATTGCCTTTGGGAGGGGTTGgtgagttcttacatcctattgccattgaagagagttaggttccaccttgg Alignment from Exonerate_protein2genome GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG cctgcaggcatctgccgggatgcctgtattgggggggctttctcttgtagctggacGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATGATGGCTTCCTATACCTAACACTGCCTGCATTGCCTTTGGGAGGGGTTGgtgagttcttacatcctattgccattgaagagagttaggttccaccttgg Alignment from Exonerate_coding2genome GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG cctgcaggcatctgccgggatgcctgtattgggggggctttctcttgtagctggacGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATGATGGCTTCCTATACCTAACACTGCCTGCATTGCCTTTGGGAGGGGTTGgtgagttcttacatcctattgccattgaagagagttaggttccaccttgg Alignment from GeneWise ------GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG cctgcaggcatctgccgggatgcctgtattgggggggctttctcttgtagCTGGACGTGGTGAATCAGATGTTGGAGCGTACAAGCAGTGGGGGTTTTGGAGGCAATGATGGCTTCCTATACCTAACACTGCCTGCATTGCCTTTGGGAGGGGTTGgtgagttcttacatcctattgccattgaagagagttaggttccaccttgg #### Ankrd13d_ID461_12 --> 2 - 1 Original Alignment agATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAg aattacatgttactgggtacttaggttttctgttccctttttttttccagaa------CTCTTCCATGTGCACAATGCCCGCACCACCTTTAGTAACCTATGCGGCTGTGATGAACCTGTG---TCAGTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAggtgattctatagccatatcagatattcccatctggctttctgtcaaacct Alignment from CESAR agATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAg gtacaaaattacatgttactgggtattttctgttccctttttttttccagaa------CTCTTCCATGTGCACAATGCCCGCACCACCTTTAGTAACCTATGCGGCTGTGATGAACCTGTG---TCAGTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAggtgattctatagccatatcagatattcccatctggctttctgtcaaacct Alignment from Spaln_aa2Genome CCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG aattacatgttactgggtacttaggttttctgttccctttttttttccagAACTCTTCCATGTGCACAATGCCCGCACCACCTTTAGTAACCTATGCGGCTGTGATGAACCTGTGTCA---GTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAGgtgattctatagccatatcagatattcccatctggctttctgtcaaacct Alignment from Spaln_nt2Genome AGATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG aattacatgttactgggtacttaggttttctgttccctttttttttccagA------ACTCTTCCATGTGCACAATGCCCGCACCACCTTTAGTAACCTATGCGGCTGTGATGAACCTGTG---TCAGTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAGgtgattctatagccatatcagatattcccatctggctttctgtcaaacct Alignment from Pairagon AGATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG aattacatgttactgggtacttaggttttctgttccctttttttttccagAA------CTCTTCCATGTGCACAATGCCCGCACCACCTTTAGTAACCTATGCGGCTGTGATGAACCTGTG---TCAGTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAGgtgattctatagccatatcagatattcccatctggctttctgtcaaacct Alignment from Exonerate_protein2genome CCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG aattacatgttactgggtacttaggttttctgttccctttttttttccagAACTCTTCCATGTGCACAATGCCCGCACCACCTTTAGTAACCTATGCGGCTGTGATGAACCTGTG---TCAGTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAGgtgattctatagccatatcagatattcccatctggctttctgtcaaacct Alignment from Exonerate_coding2genome CCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG aattacatgttactgggtacttaggttttctgttccctttttttttccagAACTCTTCCATGTGCACAATGCCCGCACCACCTTTAGTAACCTATGCGGCTGTGATGAACCTGTG---TCAGTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAGgtgattctatagccatatcagatattcccatctggctttctgtcaaacct Alignment from GeneWise ----------------------------GAGATTCCC---------------CTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG AATTACATGTTACTGGGTACTTAGGTTTTCTGTTCCCTTTTTTTTTCCAGAACTCTTCCATGTGCACAATGCCCGCACCACCTTTAGTAACCTATGCGGCTGTGATGAACCTGTGTCA---GTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAGgtgattctatagccatatcagatattcccatctggctttctgtcaaacct #### Ankrd13d_ID471_2 --> 0 - 1 Original Alignment CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAg cttttatctaacaaaccattcagtcctgacgctgtgttcccttgtctcag---------GAGCAAGAGGACCCACAAGGGCAGACCCCTTTAGAGCTTGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCCTCCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTggtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta Alignment from CESAR CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAg ggatgggtacttttatctaacaaacctgacgctgtgttcccttgtctcag---------GAGCAAGAGGACCCACAAGGGCAGACCCCTTTAGAGCTTGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCCTCCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTggtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta Alignment from Spaln_aa2Genome CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG cttttatctaacaaaccattcagtcctgacgctgtgttcccttgtctcag---------GAGCAAGAGGACCCACAAGGGCAGACCCCTTTAGAGCTTGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCCTCCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta Alignment from Spaln_nt2Genome GAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG cttttatctaacaaaccattcagtcctgacgctgtgttcccttgtctcagGAGCAAGAGGACCCACAAGGGCAGACCCCTTTAGAGCTTGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCCTCCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta Alignment from Pairagon CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG cttttatctaacaaaccattcagtcctgacgctgtgttcccttgtctcag---------GAGCAAGAGGACCCACAAGGGCAGACCCCTTTAGAGCTTGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCCTCCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta Alignment from Exonerate_protein2genome CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG cttttatctaacaaaccattcagtcctgacgctgtgttcccttgtctcag---------GAGCAAGAGGACCCACAAGGGCAGACCCCTTTAGAGCTTGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCCTCCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta Alignment from Exonerate_coding2genome GAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG cttttatctaacaaaccattcagtcctgacgctgtgttcccttgtctcagGAGCAAGAGGACCCACAAGGGCAGACCCCTTTAGAGCTTGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCCTCCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta Alignment from GeneWise CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG cttttatctaacaaaccattcagtcctgacgctgtgttcccttgtctcagGAG---------CAAGAGGACCCACAAGGGCAGACCCCTTTAGAGCTTGCTGTGACTTTGGGGAATTTAGAGTCCGTACGAGTCCTCCTCAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgaggtagtgctccattacccgtgaagggtggctataggtctgatatta #### Ankrd1_ID7096_7 --> 0 - 0 Original Alignment CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAG---GACAGA atgtatggtgattggcctccacccacttttcatgggattctcccatgcag---CTCAGCTCAACATTACATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAATAGAgtaagaatgagtgtaacctgacttgaattaagcctacagatgacaacatt Alignment from CESAR CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGAC---AGA gatatgtatggtgattggcctccaccttttcatgggattctcccatgcag---CTCAGCTCAACATTACATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAATAGAgtaagaatgagtgtaacctgacttgaattaagcctacagatgacaacatt Alignment from Spaln_aa2Genome CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGAC---AGA atgtatggtgattggcctccacccacttttcatgggattctcccatgcag---CTCAGCTCAACATTACATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAATAGAgtaagaatgagtgtaacctgacttgaattaagcctacagatgacaacatt Alignment from Spaln_nt2Genome CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGACA---GA atgtatggtgattggcctccacccacttttcatgggattctcccatgcag---CTCAGCTCAACATTACATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAATAGAgtaagaatgagtgtaacctgacttgaattaagcctacagatgacaacatt Alignment from Pairagon CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGAC---AGA atgtatggtgattggcctccacccacttttcatgggattctcccatgcag---CTCAGCTCAACATTACATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAATAGAgtaagaatgagtgtaacctgacttgaattaagcctacagatgacaacatt Alignment from Exonerate_protein2genome CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGACAGAGAA atgtatggtgattggcctccacccacttttcatgggattctcccatgcagCTCAGCTCAACA---TTACATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAATAGAgtaagaatgagtgtaacctgacttgaattaagcctacagatgacaacatt Alignment from Exonerate_coding2genome CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGACAGAGAA atgtatggtgattggcctccacccacttttcatgggattctcccatgcagCTCAGCTCAACA---TTACATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAATAGAgtaagaatgagtgtaacctgacttgaattaagcctacagatgacaacatt Alignment from GeneWise CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGACAGAGAA atgtatggtgattggcctccacccacttttcatgggattctcccatgcagCTCAGCTCAACA---TTACATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAATAGAgtaagaatgagtgtaacctgacttgaattaagcctacagatgacaacatt #### Ankrd2_ID8374_8 --> 0 - 0 Original Alignment GAAGGGGACAGTGCCCTACATGATGCCGTGAGACTCAACCGCTACAAAATCATCAAACTGCTGCTCTTGCATGGGGCGGACATGATGGCT---AAGAACCTG ctataaggccagaagttttgctttggctctcccttattcttctcttgcag---------AGTGCCCTACATGATGCTGTGAAGATCAACTACTACAAAAATATTAAACTGTTGCTCTTACATGGGACAGACATGATGGCAGCCAAGAACTTAgtatcattgctcttgccttggtggtttggatagccccgcaaggtgctgta Alignment from CESAR GAAGGGGACAGTGCCCTACATGATGCCGTGAGACTCAACCGCTACAAAATCATCAAACTGCTGCTCTTGCATGGGGCGGACATGATG---GCTAAGAACCTG tatggagtcctataaggccagaagtgctctcccttattcttctcttgcag---------AGTGCCCTACATGATGCTGTGAAGATCAACTACTACAAAAATATTAAACTGTTGCTCTTACATGGGACAGACATGATGGCAGCCAAGAACTTAgtatcattgctcttgccttggtggtttggatagccccgcaaggtgctgta Alignment from Spaln_aa2Genome AGTGCCCTACATGATGCCGTGAGACTCAACCGCTACAAAATCATCAAACTGCTGCTCTTGCATGGGGCGGACATGATG---GCTAAGAACCTG ctataaggccagaagttttgctttggctctcccttattcttctcttgcagAGTGCCCTACATGATGCTGTGAAGATCAACTACTACAAAAATATTAAACTGTTGCTCTTACATGGGACAGACATGATGGCAGCCAAGAACTTAgtatcattgctcttgccttggtggtttggatagccccgcaaggtgctgta Alignment from Spaln_nt2Genome AGTGCCCTACATGATGCCGTGAGACTCAACCGCTACAAAATCATCAAACTGCTGCTCTTGCATGGGGCGGACATGATGGCT---AAGAACCTG ctataaggccagaagttttgctttggctctcccttattcttctcttgcagAGTGCCCTACATGATGCTGTGAAGATCAACTACTACAAAAATATTAAACTGTTGCTCTTACATGGGACAGACATGATGGCAGCCAAGAACTTAgtatcattgctcttgccttggtggtttggatagccccgcaaggtgctgta Alignment from Pairagon GGACAGTGCCCTACATGATGCCGTGAGACTCAACCGCTACAAAATCATCAAACTGCTGCTCTTGCATGGGGCGGACATGATG---GCTAAGAACCTG ctataaggccagaagttttgctttggctctcccttattcttctcttgcag----AGTGCCCTACATGATGCTGTGAAGATCAACTACTACAAAAATATTAAACTGTTGCTCTTACATGGGACAGACATGATGGCAGCCAAGAACTTAgtatcattgctcttgccttggtggtttggatagccccgcaaggtgctgta Alignment from Exonerate_protein2genome GGACAGTGCCCTACATGATGCCGTGAGACTCAACCGCTACAAAATCATCAAACTGCTGCTCTTGCATGGGGCGGACATGATG---GCTAAGAACCTG ctataaggccagaagttttgctttggctctcccttattcttctcttGCAGAGTGCCCTACATGATGCTGTGAAGATCAACTACTACAAAAATATTAAACTGTTGCTCTTACATGGGACAGACATGATGGCAGCCAAGAACTTAgtatcattgctcttgccttggtggtttggatagccccgcaaggtgctgta Alignment from Exonerate_coding2genome GGACAGTGCCCTACATGATGCCGTGAGACTCAACCGCTACAAAATCATCAAACTGCTGCTCTTGCATGGGGCGGACATGATG---GCTAAGAACCTG ctataaggccagaagttttgctttggctctcccttattcttctcttGCAGAGTGCCCTACATGATGCTGTGAAGATCAACTACTACAAAAATATTAAACTGTTGCTCTTACATGGGACAGACATGATGGCAGCCAAGAACTTAgtatcattgctcttgccttggtggtttggatagccccgcaaggtgctgta Alignment from GeneWise GAAGGGGACAGTGCCCTACATGATGCCGTGAGACTCAACCGCTACAAAATCATCAAACTGCTGCTCTTGCATGGGGCGGACATGATGGCT---AAGAACCTG ctataaggccagaagttttgctttggctctcccttattcttctcttgcagAGT---------GCCCTACATGATGCTGTGAAGATCAACTACTACAAAAATATTAAACTGTTGCTCTTACATGGGACAGACATGATGGCAGCCAAGAACTTAgtatcattgctcttgccttggtggtttggatagccccgcaaggtgctgta #### Anxa1_ID4766_4 --> 0 - 0 Original Alignment CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG GGACT ctggaagaatgatacacacctaaatttctaacatatttctttctctgcag---CTAGATGAAGTATTGAGGAAAGCTCTTACAGGCCATCTTGAGGAGGTTGTTTTGGCTATGCTCAAAACTCCAGCACAATTT---GCTGATGAACTACATGGTGCCATGAAGgtgaggactggtaaaaaaaatttgtgtattttttctttgtctcagGGACT Alignment from CESAR CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG GGACT aggctggaagaatgatacacacctattctaacatatttctttctctgcag---CTAGATGAAGTATTGAGGAAAGCTCTTACAGGCCATCTTGAGGAGGTTGTTTTGGCTATGCTCAAAACTCCAGCACAATTT---GCTGATGAACTACATGGTGCCATGAAGgtgaggactggtaaaaaaaatttatttgtaaccattttctcccagGGACT Alignment from Spaln_aa2Genome CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG GGACT ctggaagaatgatacacacctaaatttctaacatatttctttctctgcag---CTAGATGAAGTATTGAGGAAAGCTCTTACAGGCCATCTTGAGGAGGTTGTTTTGGCTATGCTCAAAACTCCAGCACAATTT---GCTGATGAACTACATGGTGCCATGAAGgtgaggactggtaaaaaaaatttgtgtattttttctttgtctcagGGACT Alignment from Spaln_nt2Genome CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG GGACT ctggaagaatgatacacacctaaatttctaacatatttctttctctgcagC---TAGATGAAGTATTGAGGAAAGCTCTTACAGGCCATCTTGAGGAGGTTGTTTTGGCTATGCTCAAAACTCCAGCACAATT---TGCTGATGAACTACATGGTGCCATGAAGgtgaggactggtaaaaaaaatttgtgtattttttctttgtctcagGGACT Alignment from Pairagon CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG GGACT ctggaagaatgatacacacctaaatttctaacatatttctttctctgcagC---TAGATGAAGTATTGAGGAAAGCTCTTACAGGCCATCTTGAGGAGGTTGTTTTGGCTATGCTCAAAACTCCAGCACAATTTGCT---GATGAACTACATGGTGCCATGAAGgtgaggactggtaaaaaaaatttgtgtattttttctttgtctcagGGACT Alignment from Exonerate_protein2genome CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG GGACT ctggaagaatgatacacacctaaatttctaacatatttctttctctgCAGCTAGATGAAGTATTGAGGAAAGCTCTTACAGGCCATCTTGAGGAGGTTGTTTTGGCTATGCTCAAAACTCCAGCACAATTT---GCTGATGAACTACATGGTGCCATGAAGgtgaggactggtaaaaaaaatttgtgtattttttctttgtctcagGGACT Alignment from Exonerate_coding2genome CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG GGACT ctggaagaatgatacacacctaaatttctaacatatttctttctctgCAGCTAGATGAAGTATTGAGGAAAGCTCTTACAGGCCATCTTGAGGAGGTTGTTTTGGCTATGCTCAAAACTCCAGCACAATTT---GCTGATGAACTACATGGTGCCATGAAGgtgaggactggtaaaaaaaatttgtgtattttttctttgtctcagGGACT Alignment from GeneWise TTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG---------------------------------------------GGACT ctggaagaatgatacacacctaaatttctaacatatttctttctctgcagCTAGATGAAGTATTGAGGAAAGCTCTTACAGGCCATCTTGAGGAGGTTGTTTTGGCTATGCTCAAAACTCCAGCACAATTT---GCTGATGAACTACATGGTGCCATGAAGGTGAGGACTGGTAAAAAAAATTTGTGTATTTTTTCTTTGTCTCAGGGACT #### Arl2_ID1477_2 --> 1 - 2 Original Alignment t------------------GGCTTGGACAACGCTGGCAAAACAACCATCCTCAAGAAGTTCAATGGAGAAGACGTGGACACCATCTCCCCGACACTGGGCTTCAACATCAAGACCCTGGAGCACCGCgg gtggtaatgccatagatcttagagacctcctttctcacttgcggttgcagtTCTTCAGTGTCCCTGATAGGTTTAGATAAGGCTACCAAAACAACCATTCTCAAAAAGTTTAATGGAGAGGATGTGGAAACCATCTCTTTGACACTAGGGATCAACATTAAA---CTGGAGCACCGTgggtgggtagggcactgactctgaggtcatggtcatggtgagatctttcctg Alignment from CESAR t------------------GGCTTGGACAACGCTGGCAAAACAACCATCCTCAAGAAGTTCAATGGAGAAGACGTGGACACCATCTCCCCGACACTGGGCTTCAACATCAAGACCCTGGAGCACCGCgg gtggtaatgccatagatcttagagacctcctttctcacttgcggttgcagtTCTTCAGTGTCCCTGATAGGTTTAGATAAGGCTACCAAAACAACCATTCTCAAAAAGTTTAATGGAGAGGATGTGGAAACCATCTCTTTGACACTAGGGATCAACATTAAA---CTGGAGCACCGTgggtgggtagggcactgactctgaggtcatggtcatggtgagatccttgctc Alignment from Spaln_aa2Genome T-------------------GGCTTGGACAACGCTGGCAAAACAACCATCCTCAAGAAGTTCAATGGAGAAGACGTGGACACCATCTCCCCGACACTGGGCTTCAACATCAAGACCCTGGAGCACCGCGG gtggtaatgccatagatcttagagacctcctttctcacttgcggttgcagTTCTTCAGTGTCCCTGATAGGTTTAGATAAGGCTACCAAAACAACCATTCTCAAAAAGTTTAATGGAGAGGATGTGGAAACCATCTCTTTGACACTAGGGATCAACATTAAA---CTGGAGCACCGTGGgtgggtagggcactgactctgaggtcatggtcatggtgagatctttcctg Alignment from Spaln_nt2Genome TGGCTTGGACAACGCTGGCAAAACAACCATCCTCAAGAAGTTCAATGGAGAAGACGTGGACACCATCTCCCCGACACTGGGCTTCAACATCAAGACCCTGGAGCACCGCGG gtggtaatgccatagatcttagagacctcctttctcacttgcggttgcagttcttcagtgtccctgatag--GTTTAGATAAGGCTACCAAAACAACCATTCTCAAAAAGTTTAATGGAGAGGATGTGGAAACCATCTCTTTGACACTAGGGATCAACATTAA---ACTGGAGCACCGTGGgtgggtagggcactgactctgaggtcatggtcatggtgagatctttcctg Alignment from Pairagon CGAGAGCTGCGGCTGCTCATGCTTGGCTTGGACAACGCTGGCAAAACAACCATCCTCAAGAAGTTCAATGGAGAAGACGTGGACACCATCTCCCCGACACTGGGCTTCAACATCAAGACCCTGGAGCACCGCGG gtggtaatgccatagatcttagagacctcctttctcacttgcggttgcagttcttcag-------------TGTCCCTGATAGGTTTAGATAAGGCTACCAAAACAACCATTCTCAAAAAGTTTAATGGAGAGGATGTGGAAACCATCTCTTTGACACTAGGGATCAACATTAAA---CTGGAGCACCGTGGgtgggtagggcactgactctgaggtcatggtcatggtgagatctttcctg Alignment from Exonerate_protein2genome TGGCTTGGACAACGCTGGCAAAACAACCATCCTCAAGAAGTTCAATGGAGAAGACGTGGACACCATCTCCCCGACACTGGGCTTCAACATCAAGACCCTGGAGCACCGCGG gtggtaatgccatagatcttagagacctcctttctcacttgcggttgcagttcttcagtgtccctgatAGGTTTAGATAAGGCTACCAAAACAACCATTCTCAAAAAGTTTAATGGAGAGGATGTGGAAACCATCTCTTTGACACTAGGGATCAACATTAAA---CTGGAGCACCGTGGgtgggtagggcactgactctgaggtcatggtcatggtgagatctttcctg Alignment from Exonerate_coding2genome TGGCTTGGACAACGCTGGCAAAACAACCATCCTCAAGAAGTTCAATGGAGAAGACGTGGACACCATCTCCCCGACACTGGGCTTCAACATCAAGACCCTGGAGCACCGCGG gtggtaatgccatagatcttagagacctcctttctcacttgcggttgcagttcttcagtgtccctgatAGGTTTAGATAAGGCTACCAAAACAACCATTCTCAAAAAGTTTAATGGAGAGGATGTGGAAACCATCTCTTTGACACTAGGGATCAACATTAAA---CTGGAGCACCGTGGgtgggtagggcactgactctgaggtcatggtcatggtgagatctttcctg Alignment from GeneWise ----------------CTTGGCTTGGACAACGCTGGCAAAACAACCATCCTCAAGAAGTTCAATGGAGAAGACGTGGACACCATCTCCCCGACACTGGGCTTCAACATCAAGACCCTGGAGCACCGCGG gtggtaatgccatagatcttagagacctcctttctcacttgcggttgcagTTCTTCAGTGTCCCTGATAGGTTTAGATAAGGCTACCAAAACAACCATTCTCAAAAAGTTTAATGGAGAGGATGTGGAAACCATCTCTTTGACACTAGGGATCAACATTAAA---CTGGAGCACCGTGGgtgggtagggcactgactctgaggtcatggtcatggtgagatctttcctg #### Atg2a_ID1517_6 --> 0 - 1 Original Alignment TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCAg gatggccacaagaccgtgcaaccactcaacacttcctggtcatcttacagCTGGAAGTATCAGGAAAGCTGGGATCCCTCCATCTGCTTCTGTCCCCACGTCAC---CATCAACTT------------------------------ggtgggttagtgattactcatggaaaagcagatgcggcgtttgactaagac Alignment from CESAR TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCAg gatggccacaagaccgtgcaaccactcaacacttcctggtcatcttacagCTGGAAGTATCAGGAAAGCTGGGATCCCTCCATCTGCTTCTGTCCCCACGTCAC---CATCAACTT------------------------------ggtgggttagtgattactcatggaaaagcagatgcggcgttaggcattctt Alignment from Spaln_aa2Genome TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAG GC gatggccacaagaccgtgcaaccactcaacacttcctggtcatcttacagCTGGAAGTATCAGGAAAGCTGGGATCCCTCCATCTGCTTCTGTCCCCACGTCAC---CATCAACTTGGTGGgttagtgattactcatggaaaagcagatgcggcgtttgactaagAC Alignment from Spaln_nt2Genome TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAG GC gatggccacaagaccgtgcaaccactcaacacttcctggtcatcttacagCTGGAAGTATCAGGAAAGCTGGGATCCCTCCATCTGCTTCTGTCCCCACGTCA---CCATCAACTTGGTGGgttagtgattactcatggaaaagcagatgcggcgtttgactaagAC Alignment from Pairagon TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTG------------------------------------------------- gatggccacaagaccgtgcaaccactcaacacttcctggtcatcttacagCTGGAAGTATCAGGAAAGCTGGGATCCCTCCATCTGCTTCTGTCCCCACGTCA-----------------------------CCATCAACTTGGTGGGTTAGTGATTACTCATGGAAAAGCAGATGCGGCGTTTGACTAAGAC Alignment from Exonerate_protein2genome gatggccacaagaccgtgcaaccactcaacacttcctggtcatcttacagctggaagtatcaggaaagctgggatccctccatctgcttctgtccccacgtcaccatcaacttggtgggttagtgattactcatggaaaagcagatgcggcgtttgactaagac Alignment from Exonerate_coding2genome TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCAG gatggccacaagaccgtgcaaccactcaacacttcctggtcatcttacagCTGGAAGTATCAGGAAAGCTGGGATCCCTCCATCTGCTTCTGTCCCCACGTCAC---CATCAACTTGGTGGGTTAGTGATTACTCATGGAAAAGCAGatgcggcgtttgactaagac Alignment from GeneWise TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTC------------------AGTGCCGTC--AACCTTGCA- gatggccacaagaccgtgcaaccactcaacacttcctggtcatcttacagCTGGAAGTATCAGGAAAGCTGGGATCCCTCCATCTGCTTCTGTCCCCACGTCAC---CATCAACTTGGTGGGTTAGTGATTACTCATGGAAAAGCAGATGCGGCGTTTGACTAAGAC #### Atg2a_ID1519_8 --> 2 - 1 Original Alignment acCTCTTCTTCTCCATGGCCGGCCTCACAAGCAGTGTGACATCGGCTGTCTCTGAGCTCTCCGTGTACAGCGTAGACCTGGGCTCCTCTGTTCACAGCAACATGGCCTTCCACCGACCCTCAACCCCACCCCACTCGGGT------g acaggcaggccaaccatttgcttttgcatgatctctgtttcctctttcagacCTCTTTTTCTCAATGGCTAGTTTGATAAGCAGTGTGACATTAGCTGTCTCTGAGCTCTCTGTGTACAGTGTAGGCCTGGGTTCCTCTGTTCATAGCAATATAGCATTCCACCAACCCTCAATGCCACCCCATTCGGGTCGGCCTggtgagacagtgacaacttaggctgtgtctaccagttacttgggacataca Alignment from CESAR acCTCTTCTTCTCCATGGCCGGCCTCACAAGCAGTGTGACATCGGCTGTCTCTGAGCTCTCCGTGTACAGCGTAGACCTGGGCTCCTCTGTTCACAGCAACATGGCCTTCCACCGACCCTCAACCCCACCCCACTCGGGT------g acaggcaggccaaccatttgcttttgcatgatctctgtttcctctttcagacCTCTTTTTCTCAATGGCTAGTTTGATAAGCAGTGTGACATTAGCTGTCTCTGAGCTCTCTGTGTACAGTGTAGGCCTGGGTTCCTCTGTTCATAGCAATATAGCATTCCACCAACCCTCAATGCCACCCCATTCGGGTCGGCCTggtgagacagtgacaacttaggctgtgtctaccagttacttgggacataca Alignment from Spaln_aa2Genome ACCTCTTCTTCTCCATGGCCGGCCTCACAAGCAGTGTGACATCGGCTGTCTCTGAGCTCTCCGTGTACAGCGTAGACCTGGGCTCCTCTGTTCACAGCAACATGGCCTTCCACCGACCCTCAACCCCACCCCACTCGGGT------G acaggcaggccaaccatttgcttttgcatgatctctgtttcctctttcagACCTCTTTTTCTCAATGGCTAGTTTGATAAGCAGTGTGACATTAGCTGTCTCTGAGCTCTCTGTGTACAGTGTAGGCCTGGGTTCCTCTGTTCATAGCAATATAGCATTCCACCAACCCTCAATGCCACCCCATTCGGGTCGGCCTGgtgagacagtgacaacttaggctgtgtctaccagttacttgggacataca Alignment from Spaln_nt2Genome ACCTCTTCTTCTCCATGGCCGGCCTCACAAGCAGTGTGACATCGGCTGTCTCTGAGCTCTCCGTGTACAGCGTAGACCTGGGCTCCTCTGTTCACAGCAACATGGCCTTCCACCGACCCTCAACCCCACCCCACTCGGGT------G acaggcaggccaaccatttgcttttgcatgatctctgtttcctctttcagACCTCTTTTTCTCAATGGCTAGTTTGATAAGCAGTGTGACATTAGCTGTCTCTGAGCTCTCTGTGTACAGTGTAGGCCTGGGTTCCTCTGTTCATAGCAATATAGCATTCCACCAACCCTCAATGCCACCCCATTCGGGTCGGCCTGgtgagacagtgacaacttaggctgtgtctaccagttacttgggacataca Alignment from Pairagon ACCTCTTCTTCTCCATGGCCGGCCTCACAAGCAGTGTGACATCGGCTGTCTCTGAGCTCTCCGTGTACAGCGTAGACCTGGGCTCCTCTGTTCACAGCAACATGGCCTTCCACCGACCCTCAACCCCACCCCACTCGGG------TG acaggcaggccaaccatttgcttttgcatgatctctgtttcctctttcagACCTCTTTTTCTCAATGGCTAGTTTGATAAGCAGTGTGACATTAGCTGTCTCTGAGCTCTCTGTGTACAGTGTAGGCCTGGGTTCCTCTGTTCATAGCAATATAGCATTCCACCAACCCTCAATGCCACCCCATTCGGGTCGGCCTGgtgagacagtgacaacttaggctgtgtctaccagttacttgggacataca Alignment from Exonerate_protein2genome acaggcaggccaaccatttgcttttgcatgatctctgtttcctctttcagacctctttttctcaatggctagtttgataagcagtgtgacattagctgtctctgagctctctgtgtacagtgtaggcctgggttcctctgttcatagcaatatagcattccaccaaccctcaatgccaccccattcgggtcggcctggtgagacagtgacaacttaggctgtgtctaccagttacttgggacataca Alignment from Exonerate_coding2genome ACCTCTTCTTCTCCATGGCCGGCCTCACAAGCAGTGTGACATCGGCTGTCTCTGAGCTCTCCGTGTACAGCGTAGACCTGGGCTCCTCTGTTCACAGCAACATGGCCTTCCACCGACCCTCAACCCCACCCCACTCGGGT------G acaggcaggccaaccatttgcttttgcatgatctctgtttcctctttcagACCTCTTTTTCTCAATGGCTAGTTTGATAAGCAGTGTGACATTAGCTGTCTCTGAGCTCTCTGTGTACAGTGTAGGCCTGGGTTCCTCTGTTCATAGCAATATAGCATTCCACCAACCCTCAATGCCACCCCATTCGGGTCGGCCTGgtgagacagtgacaacttaggctgtgtctaccagttacttgggacataca Alignment from GeneWise ACCTCTTCTTCTCCATGGCCGGCCTCACAAGCAGTGTGACATCGGCTGTCTCTGAGCTCTCCGTGTACAGCGTAGACCTGGGCTCCTCTGTTCACAGCAACATGGCCTTCCACCGACCCTCAACCCCACCCCACTCGGGT------G acaggcaggccaaccatttgcttttgcatgatctctgtttcctctttcagACCTCTTTTTCTCAATGGCTAGTTTGATAAGCAGTGTGACATTAGCTGTCTCTGAGCTCTCTGTGTACAGTGTAGGCCTGGGTTCCTCTGTTCATAGCAATATAGCATTCCACCAACCCTCAATGCCACCCCATTCGGGTCGGCCTGgtgagacagtgacaacttaggctgtgtctaccagttacttgggacataca #### Atg2a_ID1520_9 --> 2 - 2 Original Alignment gcAAGATGGCCCCAACTCCCCTTCTGGACACCACACGCCCTGACTCACTGGTGAAGATGACCTTGGGCGGTGTGAGCTTGACCTTGCTGCAGACTGCTTCCCCGTCTTCAGGACCATCTGACCTCCCCACCCACTTTTTTGCTGAGTTCGATGCTGCCAAAGATGGGCCATTCGGCTCCCGGGACTTCTCCCATCTCAGGCCACGCTTCCAGAGGGCCTGCCCTTGTAGCCACGTCcg gTTAACTGGCACAGCCGTGCAGCTG ttgctctcaaaaatgccatgcaaaatagtgactgtgatgttcttctgcaggcAAAATGGCCCCCAGCCCCTTTCTGGACTCTACACGGCCTGACTCCCTTGTTAAGATGGCTTTGGGTGGGGTAAGCTTGAACTTGTCGCAGACCTCTTCCCCATCTTCAGGACCATCAGACCTCCCTACCCACTTTTTTGCAGAGTTTGATGCTGCCAAGGATGGACCATTTGGCTCAAAGGACTTCTCCCACCTCAGACCACGCTTCCAGAGAGCCTGCCCTTGT---------aggtaagttttatgaaaaattttctaggCTATCTGGAACTGCCGTGCAGCTT Alignment from CESAR gcAAGATGGCCCCAACTCCCCTTCTGGACACCACACGCCCTGACTCACTGGTGAAGATGACCTTGGGCGGTGTGAGCTTGACCTTGCTGCAGACTGCTTCCCCGTCTTCAGGACCATCTGACCTCCCCACCCACTTTTTTGCTGAGTTCGATGCTGCCAAAGATGGGCCATTCGGCTCCCGGGACTTCTCCCATCTCAGGCCACGCTTCCAGAGGGCCTGCCCTTGTAGCCACGTCcg gTTAACTGGCACAGCCGTGCAGCTG ttgctctcaaaaatgccatgcaaaatagtgactgtgatgttcttctgcaggcAAAATGGCCCCCAGCCCCTTTCTGGACTCTACACGGCCTGACTCCCTTGTTAAGATGGCTTTGGGTGGGGTAAGCTTGAACTTGTCGCAGACCTCTTCCCCATCTTCAGGACCATCAGACCTCCCTACCCACTTTTTTGCAGAGTTTGATGCTGCCAAGGATGGACCATTTGGCTCAAAGGACTTCTCCCACCTCAGACCACGCTTCCAGAGAGCCTGCCCTTGT---------aggtagtaatgtatactctccctctaggCTATCTGGAACTGCCGTGCAGCTT Alignment from Spaln_aa2Genome GCAAGATGGCCCCAACTCCCCTTCTGGACACCACACGCCCTGACTCACTGGTGAAGATGACCTTGGGCGGTGTGAGCTTGACCTTGCTGCAGACTGCTTCCCCGTCTTCAGGACCATCTGACCTCCCCACCCACTTTTTTGCTGAGTTCGATGCTGCCAAAGATGGGCCATTCGGCTCCCGGGACTTCTCCCATCTCAGGCCACGCTTCCAGAGGGCCTGCCCTTGTAGC----------------CACGTCCGGTTAACTGGCACAGCCGTGCAGCTG ttgctctcaaaaatgccatgcaaaatagtgactgtgatgttcttctgcagGCAAAATGGCCCCCAGCCCCTTTCTGGACTCTACACGGCCTGACTCCCTTGTTAAGATGGCTTTGGGTGGGGTAAGCTTGAACTTGTCGCAGACCTCTTCCCCATCTTCAGGACCATCAGACCTCCCTACCCACTTTTTTGCAGAGTTTGATGCTGCCAAGGATGGACCATTTGGCTCAAAGGACTTCTCCCACCTCAGACCACGCTTCCAGAGAGCCTGCCCTTGTAGGTAAGTTTTATGAAAAaTTTTCTAGGCTATCTGGAACTGCCGTGCAGCTT Alignment from Spaln_nt2Genome GCAAGATGGCCCCAACTCCCCTTCTGGACACCACACGCCCTGACTCACTGGTGAAGATGACCTTGGGCGGTGTGAGCTTGACCTTGCTGCAGACTGCTTCCCCGTCTTCAGGACCATCTGACCTCCCCACCCACTTTTTTGCTGAGTTCGATGCTGCCAAAGATGGGCCATTCGGCTCCCGGGACTTCTCCCATCTCAGGCCACGCTTCCAGAGGGCCTGCCCTTGTAGCCACGTCC----------------GGTTAACTGGCACAGCCGTGCAGCTG ttgctctcaaaaatgccatgcaaaatagtgactgtgatgttcttctgcagGCAAAATGGCCCCCAGCCCCTTTCTGGACTCTACACGGCCTGACTCCCTTGTTAAGATGGCTTTGGGTGGGGTAAGCTTGAACTTGTCGCAGACCTCTTCCCCATCTTCAGGACCATCAGACCTCCCTACCCACTTTTTTGCAGAGTTTGATGCTGCCAAGGATGGACCATTTGGCTCAAAGGACTTCTCCCACCTCAGACCACGCTTCCAGAGAGCCTGCCCTTGTAGGTAAGTTTTATGAAAAATTTTCTAGGCTATCTGGAACTGCCGTGCAGCTT Alignment from Pairagon GCAAGATGGCCCCAACTCCCCTTCTGGACACCACACGCCCTGACTCACTGGTGAAGATGACCTTGGGCGGTGTGAGCTTGACCTTGCTGCAGACTGCTTCCCCGTCTTCAGGACCATCTGACCTCCCCACCCACTTTTTTGCTGAGTTCGATGCTGCCAAAGATGGGCCATTCGGCTCCCGGGACTTCTCCCATCTCAGGCCACGCTTCCAGAGGGCCTGCCCTTGTAG-------------------------CCACGTCCGGTTAACTGGCACAGCC ttgctctcaaaaatgccatgcaaaatagtgactgtgatgttcttctgcagGCAAAATGGCCCCCAGCCCCTTTCTGGACTCTACACGGCCTGACTCCCTTGTTAAGATGGCTTTGGGTGGGGTAAGCTTGAACTTGTCGCAGACCTCTTCCCCATCTTCAGGACCATCAGACCTCCCTACCCACTTTTTTGCAGAGTTTGATGCTGCCAAGGATGGACCATTTGGCTCAAAGGACTTCTCCCACCTCAGACCACGCTTCCAGAGAGCCTGCCCTTGTAGGTAAGTTTTATGAAAAATTTTCTAG---------GCTATCTGGAACTGCC Alignment from Exonerate_protein2genome CGGTTAACTGGCACAGCCGTGCAGCTG ttgctctcaaaaatgccatgcaaaatagtgactgtgatgttcttctgcaggcaaaatggcccccagcccctttctggactctacacggcctgactcccttgttaagatggctttgggtggggtaagcttgaacttgtcgcagacctcttccccatcttcaggaccatcagacctccctacccacttttttgcagagtttgatgctgccaaggatggaccatttggctcaaaggacttctcccacctcagaccacgcttccagagagcctgcccttgtaggtaagttttatgaaaaattttctAGGCTATCTGGAACTGCCGTGCAGCTT Alignment from Exonerate_coding2genome CGGTTAACTGGCACAGCCGTGCAGCTG ttgctctcaaaaatgccatgcaaaatagtgactgtgatgttcttctgcaggcaaaatggcccccagcccctttctggactctacacggcctgactcccttgttaagatggctttgggtggggtaagcttgaacttgtcgcagacctcttccccatcttcaggaccatcagacctccctacccacttttttgcagagtttgatgctgccaaggatggaccatttggctcaaaggacttctcccacctcagaccacgcttccagagagcctgcccttgtaggtaagttttatgaaaaattttctAGGCTATCTGGAACTGCCGTGCAGCTT Alignment from GeneWise GCAAGATGGCCCCAACTCCCCTTCTGGACACCACACGCCCTGACTCACTGGTGAAGATGACCTTGGGCGGTGTGAGCTTGACCTTGCTGCAGACTGCTTCCCCGTCTTCAGGACCATCTGACCTCCCCACCCACTTTTTTGCTGAGTTCGATGCTGCCAAAGATGGGCCATTCGGCTCCCGGGACTTCTCCCATCTCAGGCCACGCTTCCAGAGGGCCTGCCCTTGTAGC-CACGTC---------------CGGTTAACTGGCACAGCCGTGCAGCTG ttgctctcaaaaatgccatgcaaaatagtgactgtgatgttcttctgcagGCAAAATGGCCCCCAGCCCCTTTCTGGACTCTACACGGCCTGACTCCCTTGTTAAGATGGCTTTGGGTGGGGTAAGCTTGAACTTGTCGCAGACCTCTTCCCCATCTTCAGGACCATCAGACCTCCCTACCCACTTTTTTGCAGAGTTTGATGCTGCCAAGGATGGACCATTTGGCTCAAAGGACTTCTCCCACCTCAGACCACGCTTCCAGAGAGCCTGCCCTTGTAGGTAAGTTTTATGAAAAATTTTCTAGGCTATCTGGAACTGCCGTGCAGCTT #### Atg2a_ID1524_13 --> 0 - 1 Original Alignment ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCAAg ccgttccgtcctaaatcccagcctcatccggctttctatgcacattacagATAGAACCACCTCAGGCAACTGAGTTGCAGACAGTTTTCCGTCTATCAGCACCCTGGGCTACCCTCAGACTACATTTTCCTGTCCCGGACCTGCGGCCTGATCGGGACCCCTGGTCAGGCCAGACTGTTCAGGCTAGGCAGTTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCAGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAGCTTACTTGCTCA---------ggtaagtcctctggacatgttctagatatggatggggtagtctgcttccat Alignment from CESAR ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCAAg ccgttccgtcctaaatcccagcctcatccggctttctatgcacattacagATAGAACCACCTCAGGCAACTGAGTTGCAGACAGTTTTCCGTCTATCAGCACCCTGGGCTACCCTCAGACTACATTTTCCTGTCCCGGACCTGCGGCCTGATCGGGACCCCTGGTCAGGCCAGACTGTTCAGGCTAGGCAGTTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCAGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAGCTTACTTGCTCA---------ggtaagtcctctggacatgttctagatatggatggggtagtctgcttccat Alignment from Spaln_aa2Genome ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCA- ccgttccgtcctaaatcccagcctcatccggctttctatgcacattacagATAGAACCACCTCAGGCAACTGAGTTGCAGACAGTTTTCCGTCTATCAGCACCCTGGGCTACCCTCAGACTACATTTTCCTGTCCCGGACCTGCGGCCTGATCGGGACCCCTGGTCAGGCCAGACTGTTCAGGCTAGGCAGTTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCAGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAGCTTACTTGCTCAGgtaagtcctctggacatgttctagatatggatggggtagtctgcttccat Alignment from Spaln_nt2Genome ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAG ccgttccgtcctaaatcccagcctcatccggctttctatgcacattacagATAGAACCACCTCAGGCAACTGAGTTGCAGACAGTTTTCCGTCTATCAGCACCCTGGGCTACCCTCAGACTACATTTTCCTGTCCCGGACCTGCGGCCTGATCGGGACCCCTGGTCAGGCCAGACTGTTCAGGCTAGGCAGTTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCAGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAGCTTACTTGCTCAGgtaagtcctctggacatgttctagatatggatggggtagtctgcttccat Alignment from Pairagon ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAG ccgttccgtcctaaatcccagcctcatccggctttctatgcacattacagATAGAACCACCTCAGGCAACTGAGTTGCAGACAGTTTTCCGTCTATCAGCACCCTGGGCTACCCTCAGACTACATTTTCCTGTCCCGGACCTGCGGCCTGATCGGGACCCCTGGTCAGGCCAGACTGTTCAGGCTAGGCAGTTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCAGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAGCTTACTTGCTCAGgtaagtcctctggacatgttctagatatggatggggtagtctgcttccat Alignment from Exonerate_protein2genome ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAG ccgttccgtcctaaatcccagcctcatccggctttctatgcacattacagATAGAACCACCTCAGGCAACTGAGTTGCAGACAGTTTTCCGTCTATCAGCACCCTGGGCTACCCTCAGACTACATTTTCCTGTCCCGGACCTGCGGCCTGATCGGGACCCCTGGTCAGGCCAGACTGTTCAGGCTAGGCAGTTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCAGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAGCTTACTTGCTCAGgtaagtcctctggacatgttctagatatggatggggtagtctgcttccat Alignment from Exonerate_coding2genome ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAG ccgttccgtcctaaatcccagcctcatccggctttctatgcacattacagATAGAACCACCTCAGGCAACTGAGTTGCAGACAGTTTTCCGTCTATCAGCACCCTGGGCTACCCTCAGACTACATTTTCCTGTCCCGGACCTGCGGCCTGATCGGGACCCCTGGTCAGGCCAGACTGTTCAGGCTAGGCAGTTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCAGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAGCTTACTTGCTCAGgtaagtcctctggacatgttctagatatggatggggtagtctgcttccat Alignment from GeneWise ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAG ccgttccgtcctaaatcccagcctcatccggctttctatgcacattacagATAGAACCACCTCAGGCAACTGAGTTGCAGACAGTTTTCCGTCTATCAGCACCCTGGGCTACCCTCAGACTACATTTTCCTGTCCCGGACCTGCGGCCTGATCGGGACCCCTGGTCAGGCCAGACTGTTCAGGCTAGGCAGTTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCAGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAGCTTACTTGCTCAGgtaagtcctctggacatgttctagatatggatggggtagtctgcttccat #### Atg2a_ID1525_14 --> 2 - 2 Original Alignment gaATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTca tgagcaggtgtgaccctatcaaggtaaatgaatttcaactattttctcagga---TACGAGGAAGGTGAAAAGCCACTAGTACCTTGCTTGAGAATATCCAAGGCTCTGAACTCAAGGAGTACTGAAGCCAAGTACTTCCTCCCTcagtcagtggcttgtaagaaagagtgagtgcagaaggctaaacctctcaggg Alignment from CESAR gaATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTca cagtgagcaggtgtgaccctatcaaaaatgaatttcaactattttctcagga---TACGAGGAAGGTGAAAAGCCACTAGTACCTTGCTTGAGAATATCCAAGGCTCTGAACTCAAGGAGTACTGAAGCCAAGTACTTCCTCCCTcagtcagtggcttgtaagaaagagtgagtgcagaaggctaaacctctcaggg Alignment from Spaln_aa2Genome GAATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTCA tgagcaggtgtgaccctatcaaggtaaatgaatttcaactattttctcagGA---TACGAGGAAGGTGAAAAGCCACTAGTACCTTGCTTGAGAATATCCAAGGCTCTGAACTCAAGGAGTACTGAAGCCAAGTACTTCCTCCCTCAgtcagtggcttgtaagaaagagtgagtgcagaaggctaaacctctcaggg Alignment from Spaln_nt2Genome GAATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTCA tgagcaggtgtgaccctatcaaggtaaatgaatttcaactattttctcagGA---TACGAGGAAGGTGAAAAGCCACTAGTACCTTGCTTGAGAATATCCAAGGCTCTGAACTCAAGGAGTACTGAAGCCAAGTACTTCCTCCCTCAgtcagtggcttgtaagaaagagtgagtgcagaaggctaaacctctcaggg Alignment from Pairagon GAATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTCA tgagcaggtgtgaccctatcaaggtaaatgaatttcaactattttctcagGA---TACGAGGAAGGTGAAAAGCCACTAGTACCTTGCTTGAGAATATCCAAGGCTCTGAACTCAAGGAGTACTGAAGCCAAGTACTTCCTCCCTCAgtcagtggcttgtaagaaagagtgagtgcagaaggctaaacctctcaggg Alignment from Exonerate_protein2genome GAATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTCA tgagcaggtgtgaccctatcaaggtaaatgaatttcaactattttctcagGA---TACGAGGAAGGTGAAAAGCCACTAGTACCTTGCTTGAGAATATCCAAGGCTCTGAACTCAAGGAGTACTGAAGCCAAGTACTTCCTCCCTCAgtcagtggcttgtaagaaagagtgagtgcagaaggctaaacctctcaggg Alignment from Exonerate_coding2genome GAATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTCA tgagcaggtgtgaccctatcaaggtaaatgaatttcaactattttctcagGA---TACGAGGAAGGTGAAAAGCCACTAGTACCTTGCTTGAGAATATCCAAGGCTCTGAACTCAAGGAGTACTGAAGCCAAGTACTTCCTCCCTCAgtcagtggcttgtaagaaagagtgagtgcagaaggctaaacctctcaggg Alignment from GeneWise GAATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTCA tgagcaggtgtgaccctatcaaggtaaatgaatttcaactattttctcagGA---TACGAGGAAGGTGAAAAGCCACTAGTACCTTGCTTGAGAATATCCAAGGCTCTGAACTCAAGGAGTACTGAAGCCAAGTACTTCCTCCCTCAgtcagtggcttgtaagaaagagtgagtgcagaaggctaaacctctcaggg #### Atg2a_ID1526_15 --> 1 - 0 Original Alignment gGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA------ tgcagaaggctaaacctctcagggcagcctgaccacctctttccttgcaggGTGGTGGTGACCTTGAATCCC---CCTAGCAGTACCCAACGGCAGACAGCTCACAAGAAAGGTCAGGACTTAGAACTTTCTGCGGAGAGCCCATGTGAGTTACAGCAACCGGAGCCCTCATCCTTTTCTTCCAAGAGGTCTATGTATGAGTCTGAGGAAGAGAAGgtaagctgaccttcccatgccatgacctgttaccccatcaccaaatagtc Alignment from CESAR gGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA------ tgcagaaggctaaacctctcagggcagcctgaccacctctttccttgcaggGTGGTGGTGACCTTGAATCCC---CCTAGCAGTACCCAACGGCAGACAGCTCACAAGAAAGGTCAGGACTTAGAACTTTCTGCGGAGAGCCCATGTGAGTTACAGCAACCGGAGCCCTCATCCTTTTCTTCCAAGAGGTCTATGTATGAGTCTGAGGAAGAGAAGgtaagctgaccttcccatgccatgacctgttaccccatcaccaaatagtc Alignment from Spaln_aa2Genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA------ tgcagaaggctaaacctctcagggcagcctgaccacctctttccttgcagGGTGGTGGTGACCTTGAATCCCCCTAGCAGT---ACCCAACGGCAGACAGCTCACAAGAAAGGTCAGGACTTAGAACTTTCTGCGGAGAGCCCATGTGAGTTACAGCAACCGGAGCCCTCATCCTTTTCTTCCAAGAGGTCTATGTATGAGTCTGAGGAAGAGAAGgtaagctgaccttcccatgccatgacctgttaccccatcaccaaatagtc Alignment from Spaln_nt2Genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA------ tgcagaaggctaaacctctcagggcagcctgaccacctctttccttgcagGGTGGTGGTGACCTTGAATCCCC---CTAGCAGTACCCAACGGCAGACAGCTCACAAGAAAGGTCAGGACTTAGAACTTTCTGCGGAGAGCCCATGTGAGTTACAGCAACCGGAGCCCTCATCCTTTTCTTCCAAGAGGTCTATGTATGAGTCTGAGGAAGAGAAGgtaagctgaccttcccatgccatgacctgttaccccatcaccaaatagtc Alignment from Pairagon GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA------ tgcagaaggctaaacctctcagggcagcctgaccacctctttccttgcagGGTGGTGGTGACCTTGAATCCCC---CTAGCAGTACCCAACGGCAGACAGCTCACAAGAAAGGTCAGGACTTAGAACTTTCTGCGGAGAGCCCATGTGAGTTACAGCAACCGGAGCCCTCATCCTTTTCTTCCAAGAGGTCTATGTATGAGTCTGAGGAAGAGAAGgtaagctgaccttcccatgccatgacctgttaccccatcaccaaatagtc Alignment from Exonerate_protein2genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA tgcagaaggctaaacctctcagggcagcctgaccacctctttccttgcagGGTGGTGGTGACCTTGAATCCCCCTAGCAGT---ACCCAACGGCAGACAGCTCACAAGAAAGGTCAGGACTTAGAACTTTCTGCGGAGAGCCCATGTGAGTTACAGCAACCGGAGCCCTCATCCTTTTCTTCCAAGAGGTCTATGTATGAGTCTGAGGAAgagaaggtaagctgaccttcccatgccatgacctgttaccccatcaccaaatagtc Alignment from Exonerate_coding2genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA tgcagaaggctaaacctctcagggcagcctgaccacctctttccttgcagGGTGGTGGTGACCTTGAATCCCCCTAGCAGT---ACCCAACGGCAGACAGCTCACAAGAAAGGTCAGGACTTAGAACTTTCTGCGGAGAGCCCATGTGAGTTACAGCAACCGGAGCCCTCATCCTTTTCTTCCAAGAGGTCTATGTATGAGTCTGAGGAAgagaaggtaagctgaccttcccatgccatgacctgttaccccatcaccaaatagtc Alignment from GeneWise GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA------ tgcagaaggctaaacctctcagggcagcctgaccacctctttccttgcagGGTGGTGGTGACCTTGAATCCCCCTAGCAGT---ACCCAACGGCAGACAGCTCACAAGAAAGGTCAGGACTTAGAACTTTCTGCGGAGAGCCCATGTGAGTTACAGCAACCGGAGCCCTCATCCTTTTCTTCCAAGAGGTCTATGTATGAGTCTGAGGAAGAGAAGgtaagctgaccttcccatgccatgacctgttaccccatcaccaaatagtc #### Atg2a_ID1528_17 --> 1 - 1 Original Alignment gATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAg aagaaaccttgggtgtctctgcgccctactttgttgtttgttcttcttaga---------------CTTATGTGGGAGCCAGCAGATCTACTTCCCACACCAAGTACTGCTGCTCGGCCCCCTGGCGCATCAGGATTCAAGATGTGCAAGTCAGCCTTCAAACTAggtaagtgaggaacatcctgagcagtaggtgtccatactgaatctctattc Alignment from CESAR gATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAg ctttaagttgtcattaagaaaccttctactttgttgtttgttcttcttaga---------------CTTATGTGGGAGCCAGCAGATCTACTTCCCACACCAAGTACTGCTGCTCGGCCCCCTGGCGCATCAGGATTCAAGATGTGCAAGTCAGCCTTCAAACTAggtaagtgaggaacatcctgagcagtaggtgtccatactgaatctctattc Alignment from Spaln_aa2Genome GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAG aagaaaccttgggtgtctctgcgccctactttgttgtttgttcttcttagA---------------CTTATGTGGGAGCCAGCAGATCTACTTCCCACACCAAGTACTGCTGCTCGGCCCCCTGGCGCATCAGGATTCAAGATGTGCAAGTCAGCCTTCAAACTAGgtaagtgaggaacatcctgagcagtaggtgtccatactgaatctctattc Alignment from Spaln_nt2Genome AACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAG aagaaaccttgggtgtctctgcgccctactttgttgtttgttcttcttagA--------CTTATGTGGGAGCCAGCAGATCTACTTCCCACACCAAGTACTGCTGCTCGGCCCCCTGGCGCATCAGGATTCAAGATGTGCAAGTCAGCCTTCAAACTAGgtaagtgaggaacatcctgagcagtaggtgtccatactgaatctctattc Alignment from Pairagon GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAG aagaaaccttgggtgtctctgcgccctactttgttgtttgttcttcttag---------------ACTTATGTGGGAGCCAGCAGATCTACTTCCCACACCAAGTACTGCTGCTCGGCCCCCTGGCGCATCAGGATTCAAGATGTGCAAGTCAGCCTTCAAACTAGgtaagtgaggaacatcctgagcagtaggtgtccatactgaatctctattc Alignment from Exonerate_protein2genome CCT GCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAG AAGaaaccttgggtgtctctgcgccctactttgttgtttgttcttcttagACTTATGTGGGAGCCAGCAGATCTACTTCCCACACCAAGTACTGCTGCTCGGCCCCCTGGCGCATCAGGATTCAAGATGTGCAAGTCAGCCTTCAAACTAGgtaagtgaggaacatcctgagcagtaggtgtccatactgaatctctattc Alignment from Exonerate_coding2genome CCT GCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAG AAGaaaccttgggtgtctctgcgccctactttgttgtttgttcttcttagACTTATGTGGGAGCCAGCAGATCTACTTCCCACACCAAGTACTGCTGCTCGGCCCCCTGGCGCATCAGGATTCAAGATGTGCAAGTCAGCCTTCAAACTAGgtaagtgaggaacatcctgagcagtaggtgtccatactgaatctctattc Alignment from GeneWise ------------------------------------------------CTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAG AAGAAACCTTGGGTGTCTCTGCGCCCTACTTTGTTGTTTGTTCTTCTTAGACTTATGTGGGAGCCAGCAGATCTACTTCCCACACCAAGTACTGCTGCTCGGCCCCCTGGCGCATCAGGATTCAAGATGTGCAAGTCAGCCTTCAAACTAGgtaagtgaggaacatcctgagcagtaggtgtccatactgaatctctattc #### Atg2a_ID1529_18 --> 2 - 0 Original Alignment acTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGTGAGGCTAAG tgacagggtggtataaaatagtcttcctgcaattttcttttttatatcagacTCAGAAGCAGATGCAGAAAAAGCCCAGTTT---TCAATGGCAGCGGGTGTGCCCCACACTCCTGCCCCAGAGCCTCCCCGTCGCCAATCCCAGAGCACTTTCTCCACACTTGTGACAGTACTCAAAGGCCGAATCACTGCACTTCGT---------gtgaggtagatgccgtcccctgaagccataaagcactgctggtgggacct Alignment from CESAR acTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGTGAGGCTAAG tgacagggtggtataaaatagtcttcctgcaattttcttttttatatcagacTCAGAAGCAGATGCAGAAAAAGCCCAG---TTTTCAATGGCAGCGGGTGTGCCCCACACTCCTGCCCCAGAGCCTCCCCGTCGCCAATCCCAGAGCACTTTCTCCACACTTGTGACAGTACTCAAAGGCCGAATCACTGCACTT---------CGTgtgaggtagatgccgtcccctgaagccataaagcactgctggtgggacct Alignment from Spaln_aa2Genome ACTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGTGAGGCTAAG tgacagggtggtataaaatagtcttcctgcaattttcttttttatatcagACTCAGAAGCAGATGCAGAAAAAGCCCAG---TTTTCAATGGCAGCGGGTGTGCCCCACACTCCTGCCCCAGAGCCTCCCCGTCGCCAATCCCAGAGCACTTTCTCCACACTTGTGACAGTACTCAAAGGCCGAATCACTGCACTT---------CGTgtgaggtagatgccgtcccctgaagccataaagcactgctggtgggacct Alignment from Spaln_nt2Genome ACTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGTGAGGCTAAG tgacagggtggtataaaatagtcttcctgcaattttcttttttatatcagACTCAGAAGCAGATGCAGAAAAAGCCCAG---TTTTCAATGGCAGCGGGTGTGCCCCACACTCCTGCCCCAGAGCCTCCCCGTCGCCAATCCCAGAGCACTTTCTCCACACTTGTGACAGTACTCAAAGGCCGAATCACTGCACTTCGTG----TGAGgtagatgccgtcccctgaagccataaagcactgctggtggg Alignment from Pairagon ACTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGTGAGGCTAAGGATGAG tgacagggtggtataaaatagtcttcctgcaattttcttttttatatcagACTCAGAAGCAGATGCAGAAAAAGCCCAG---TTTTCAATGGCAGCGGGTGTGCCCCACACTCCTGCCCCAGAGCCTCCCCGTCGCCAATCCCAGAGCACTTTCTCCACACTTGTGACAGTACTCAAAGGCCGAATCACTGCACTTCGTG----------TGAGgtagatgccgtcccctgaagccataaagcactgct Alignment from Exonerate_protein2genome ACTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGTGAGGC tgacagggtggtataaaatagtcttcctgcaattttcttttttatatcagACTCAGAAGCAGATGCAGAAAAAGCCCAG---TTTTCAATGGCAGCGGGTGTGCCCCACACTCCTGCCCCAGAGCCTCCCCGTCGCCAATCCCAGAGCACTTTCTCCACACTTGTGACAGTACTCAAAGGCCGAATCACTGCACTTCGTGTGAGgtagatgccgtcccctgaagccataaagcactgctggtgggacct Alignment from Exonerate_coding2genome ACTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGTGAGGC tgacagggtggtataaaatagtcttcctgcaattttcttttttatatcagACTCAGAAGCAGATGCAGAAAAAGCCCAG---TTTTCAATGGCAGCGGGTGTGCCCCACACTCCTGCCCCAGAGCCTCCCCGTCGCCAATCCCAGAGCACTTTCTCCACACTTGTGACAGTACTCAAAGGCCGAATCACTGCACTTCGTGTGAGgtagatgccgtcccctgaagccataaagcactgctggtgggacct Alignment from GeneWise ACTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGTGAGGCTAAG tgacagggtggtataaaatagtcttcctgcaattttcttttttatatcagACTCAGAAGCAGATGCAGAAAAAGCCCAGTTT---TCAATGGCAGCGGGTGTGCCCCACACTCCTGCCCCAGAGCCTCCCCGTCGCCAATCCCAGAGCACTTTCTCCACACTTGTGACAGTACTCAAAGGCCGAATCACTGCACTT---------CGTgtgaggtagatgccgtcccctgaagccataaagcactgctggtgggacct #### Atg2a_ID1532_21 --> 0 - 0 Original Alignment GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG tctggcagcctgcttctgcctctcatagtaataactctgttttatcatag---TTTCTAGTGACAGTGAGATCACACAAGGCAACCCTTTGCCACTACATGGCCCCACCTGAACAT---------TCCCAGgtattttaagaccactgaagtcatggccttacatgacaattatatccttg Alignment from CESAR GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG tcttctggcagcctgcttctgcctctagtaataactctgttttatcatag---TTTCTAGTGACAGTGAGATCACACAAGGCAACCCTTTGCCACTACATGGCCCCACCTGAA---------CATTCCCAGgtattttaagaccactgaagtcatggccttacatgacaattatatccttg Alignment from Spaln_aa2Genome GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG tctggcagcctgcttctgcctctcatagtaataactctgttttatcatag---TTTCTAGTGACAGTGAGATCACACAAGGCAACCCTTTGCCACTACATGGCCCCACCTGAA---------CATTCCCAGgtattttaagaccactgaagtcatggccttacatgacaattatatccttg Alignment from Spaln_nt2Genome TTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG tctggcagcctgcttctgcctctcatagtaataactctgttttatcatagTTTCTAGTGACAGTGAGATCACACAAGGCAACCCTTTGCCACTACATGGCCCCACCTGAA---------CATTCCCAGgtattttaagaccactgaagtcatggccttacatgacaattatatccttg Alignment from Pairagon TTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG tctggcagcctgcttctgcctctcatagtaataactctgttttatcatagTTTCTAGTGACAGTGAGATCACACAAGGCAACCCTTTGCCACTACATGGCCCCACCTGAA---------CATTCCCAGgtattttaagaccactgaagtcatggccttacatgacaattatatccttg Alignment from Exonerate_protein2genome TTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG tctggcagcctgcttctgcctctcatagtaataactctgttttatcatagTTTCTAGTGACAGTGAGATCACACAAGGCAACCCTTTGCCACTACATGGCCCCACCTGAA---------CATTCCCAGgtattttaagaccactgaagtcatggccttacatgacaattatatccttg Alignment from Exonerate_coding2genome TTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG tctggcagcctgcttctgcctctcatagtaataactctgttttatcatagTTTCTAGTGACAGTGAGATCACACAAGGCAACCCTTTGCCACTACATGGCCCCACCTGAA---------CATTCCCAGgtattttaagaccactgaagtcatggccttacatgacaattatatccttg Alignment from GeneWise TTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG tctggcagcctgcttctgcctctcatagtaataactctgttttatcatagTTTCTAGTGACAGTGAGATCACACAAGGCAACCCTTTGCCACTACATGGCCCCACCTGAA---------CATTCCCAGgtattttaagaccactgaagtcatggccttacatgacaattatatccttg #### Atg2a_ID1536_25 --> 2 - 0 Original Alignment at---TATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG tggttatcaggaactggcagggcagtgaacctcccgttgctttgctgcagatAAGTATGTCTGTGTT---CACATT---GTACTGGAGCTTGTTATAAGGGCG---AAGGGCAGTACTGAAGGCAGATTGgtaccaatggaaccagaaaaagattcagtgtggggtgcagtaggctaaga Alignment from CESAR at---TATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG tggttatcaggaactggcagggcagtgaacctcccgttgctttgctgcagatAAGTATGTCTGTGTT---CACATT---GTACTGGAGCTTGTTATAAGGGCG---AAGGGCAGTACTGAAGGCAGATTGgtaccaatggaaccagaaaaagattcagtgtggggtgcagtaggctaaga Alignment from Spaln_aa2Genome AT---TATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG tggttatcaggaactggcagggcagtgaacctcccgttgctttgctgcagATAAGTATGTCTGTGTTCACATTGTA------CTGGAGCTTGTTATAAGGGCG---AAGGGCAGTACTGAAGGCAGATTGgtaccaatggaaccagaaaaagattcagtgtggggtgcagtaggctaaga Alignment from Spaln_nt2Genome AT---TATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG tggttatcaggaactggcagggcagtgaacctcccgttgctttgctgcagATAAGTATGTCTGTGTTC---ACATTG---TACTGGAGCTTGTTAT---AAGGGCGAAGGGCAGTACTGAAGGCAGATTGgtaccaatggaaccagaaaaagattcagtgtggggtgcagtaggctaaga Alignment from Pairagon AT---TATGTCTGTGT-----------------------------CCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG tggttatcaggaactggcagggcagtgaacctcccgttgctttgctgcagATAAGTATGTCTGTGTTCACATTGTACTGGAGCTTGTTATAAGGGC--------------------------------------GAAGGGCAGTACTGAAGGCAGATTGgtaccaatggaaccagaaaaagattcagtgtggggtgcagtaggctaaga Alignment from Exonerate_protein2genome ATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG tggttatcaggaactggcagggcagtgaacctcccgttgctttgctgcagATAAGTATGTCTGTGTTCACATT---GTACTGGAGCTTGTTATAAGGGCG---AAGGGCAGTACTGAAGGCAGATTGgtaccaatggaaccagaaaaagattcagtgtggggtgcagtaggctaaga Alignment from Exonerate_coding2genome tggttatcaggaactggcagggcagtgaacctcccgttgctttgctgcagataagtatgtctgtgttcacattgtactggagcttgttataagggcgaagggcagtactgaaggcagattggtaccaatggaaccagaaaaagattcagtgtggggtgcagtaggctaaga Alignment from GeneWise --GATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG tggttatcaggaactggcagggcagtgaacctcccgttgctttgctgcagATAAGTATGTCTGTGTTCACATTGTA------CTGGAGCTTGTTATAAGGGCG---AAGGGCAGTACTGAAGGCAGATTGgtaccaatggaaccagaaaaagattcagtgtggggtgcagtaggctaaga #### B3gat3_ID2492_4 --> 0 - 0 Original Alignment ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG ttagtctcttcagactaaccttctctattcccttgcccctcccccaacagATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGCCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTGCTATTAGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACT---gtgggttggggtcagttagcagatcagaggaaatgggggactgtgggcta Alignment from CESAR ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG ttagtctcttcagactaaccttctctattcccttgcccctcccccaacagATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGCCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTGCTATTAGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACT---gtgggttggggtcagttagcagatcagaggaaatgggggactgtggg Alignment from Spaln_aa2Genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACT ttagtctcttcagactaaccttctctattcccttgcccctcccccaacagATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGCCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTGCTATTAGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTgtgggttggggtcagttagcagatcagaggaaatgggggactgtgggcta Alignment from Spaln_nt2Genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACT ttagtctcttcagactaaccttctctattcccttgcccctcccccaacagATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGCCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTGCTATTAGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTgtgggttggggtcagttagcagatcagaggaaatgggggactgtgggcta Alignment from Pairagon ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACT ttagtctcttcagactaaccttctctattcccttgcccctcccccaacagATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGCCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTGCTATTAGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTgtgggttggggtcagttagcagatcagaggaaatgggggactgtgggcta Alignment from Exonerate_protein2genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG ttagtctcttcagactaaccttctctattcccttgcccctcccccaacagATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGCCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTGCTATTAGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTGTGggttggggtcagttagcagatcagaggaaatgggggactgtgggcta Alignment from Exonerate_coding2genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG ttagtctcttcagactaaccttctctattcccttgcccctcccccaacagATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGCCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTGCTATTAGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTGTGggttggggtcagttagcagatcagaggaaatgggggactgtgggcta Alignment from GeneWise ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG ttagtctcttcagactaaccttctctattcccttgcccctcccccaacagATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGCCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATCGCCCTGCCCTTGCTATTAGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGTCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGT---ACTgtgggttggggtcagttagcagatcagaggaaatgggggactgtgggcta #### Bbs1_ID718_16 --> 0 - 0 Original Alignment ---------GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaagctaggcttctaactttagctgtggtatacttatttcctattcttagATGGACTTGGTTCCCCTGCTGGTACCAGGACTCAGTTATCCGCTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagagagtacctgcatgacacccggatccaagtagcaacaattagatg Alignment from CESAR ---------GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaagctaggcttctaactttagctgtggtatacttatttcctattcttagATGGACTTGGTTCCCCTGCTGGTACCAGGACTCAGTTATCCGCTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagagagtacctgcatgacacccggatccaagtagcaacaattagatg Alignment from Spaln_aa2Genome GTTCCCTTGCTGGTA---------CCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaagctaggcttctaactttagctgtggtatacttatttcctattcttagATGGACTTGGTTCCCCTGCTGGTACCAGGACTCAGTTATCCGCTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagagagtacctgcatgacacccggatccaagtagcaacaattagatg Alignment from Spaln_nt2Genome AGGTTCCCTTGC-------TGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaagctaggcttctaactttagctgtggtatacttatttcctattcttagATGGACTTGGTTCCCCTGCTGGTACCAGGACTCAGTTATCCGCTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagagagtacctgcatgacacccggatccaagtagcaacaattagatg Alignment from Pairagon ---------GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaagctaggcttctaactttagctgtggtatacttatttcctattcttagATGGACTTGGTTCCCCTGCTGGTACCAGGACTCAGTTATCCGCTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagagagtacctgcatgacacccggatccaagtagcaacaattagatg Alignment from Exonerate_protein2genome GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaagctaggcttctaactttagctgtggtatacttatttcctattcttagatggacttgGTTCCCCTGCTGGTACCAGGACTCAGTTATCCGCTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagagagtacctgcatgacacccggatccaagtagcaacaattagatg Alignment from Exonerate_coding2genome GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaagctaggcttctaactttagctgtggtatacttatttcctattcttagatggacttgGTTCCCCTGCTGGTACCAGGACTCAGTTATCCGCTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagagagtacctgcatgacacccggatccaagtagcaacaattagatg Alignment from GeneWise ---------GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gaagctaggcttctaactttagctgtggtatacttatttcctattcttagATGGACTTGGTTCCCCTGCTGGTACCAGGACTCAGTTATCCGCTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagagagtacctgcatgacacccggatccaagtagcaacaattagatg #### Bbs1_ID732_2 --> 1 - 1 Original Alignment cAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTC---TCCTCCTGCCTGt cataccttttaaatctatctccccttcctgaccgctgttgtctcccgcaggAATGAGGTAAATTCCAAATGGCTGGATGCACACTATGACCCTATGGCTAACAACCATACTTTCTCCTCTTCC------tgtactgggagtccctgatgccttacttgcagcccaggatacaatgggtga Alignment from CESAR cAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGt cataccttttaaatctatctccccttcctgaccgctgttgtctcccgcaggAATGAGGTAAATTCCAAATGGCTGGATGCACACTATGACCCTATGGCTAACAACCATACTTTCTCCTCTTCC---tgtactgggagtccctgatgccttacttgcagcccaggatacaatgaggta Alignment from Spaln_aa2Genome CAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTC---TCCTCCTGCCTGTCAC cataccttttaaatctatctccccttcctgaccgctgttgtctcccgcagGAATGAGGTAAATTCCAAATGGCTGGATGCACACTATGACCCTATGGCTAACAACCATACTTTCTCCTCTTCCTGTACTGGGAgtccctgatgccttacttgcagcccaggatacaatgggtga Alignment from Spaln_nt2Genome CAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGT cataccttttaaatctatctccccttcctgaccgctgttgtctcccgcagGAATGAGGTAAATTCCAAATGGCTGGATGCACACTATGACCCTATGGCTAACAACCATACTTTCTCCTCTTCC---Tgtactgggagtccctgatgccttacttgcagcccaggatacaatgggtga Alignment from Pairagon CAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGT------------------------------------------------ cataccttttaaatctatctccccttcctgaccgctgttgtctcccgcagGAATGAGGTAAATTCCAAATGGCTGGATGCACACTATGACCCTATGGCTAACAACCATACTTTCTCCTCTT-CCTGTACTGGGAGTCCCTGATGCCTTACTTGCAGCCCAGGATACAATGGGTGA Alignment from Exonerate_protein2genome CAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGTCAC cataccttttaaatctatctccccttcctgaccgctgttgtctcccgcagGAATGAGGTAAATTCCAAATGGCTGGATGCACACTATGACCCTATGGCTAACAACCATACTTTCTCCTCTTCCTGTACTGggagtccctgatgccttacttgcagcccaggatacaatgggtga Alignment from Exonerate_coding2genome cataccttttaaatctatctccccttcctgaccgctgttgtctcccgcaggaatgaggtaaattccaaatggctggatgcacactatgaccctatggctaacaaccatactttctcctcttcctgtactgggagtccctgatgccttacttgcagcccaggatacaatgggtga Alignment from GeneWise AACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTC---TCCTCCTGCCTGTCAC cataccttttaaatctatctccccttcctgaccgctgttgtctcccgcaggAATGAGGTAAATTCCAAATGGCTGGATGCACACTATGACCCTATGGCTAACAACCATACTTTCTCCTCTTCCTGTACTGGGAgtccctgatgccttacttgcagcccaggatacaatgggtga #### Best1_ID2637_2 --> 1 - 1 Original Alignment aATGGTTCTCTCGAGTGATCAGCAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGg aagcttagagaattttccttctgcggctctctgttcattgtctcccccaga---------------GACCAGCAGCTTTTGTTCAAGAAGTTGGCTCTGTACTGTGCTAGCTACATTGAGCTCATCCCAATAGCATTTGTCCTAggtgagtgcttgttgtagctctagtcctatctctacctggcttccatacat Alignment from CESAR aATGGTTCTCTCGAGTGATCAGCAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGg tcacagtgcgagtaaaagcttagaggctctctgttcattgtctcccccaga---------------GACCAGCAGCTTTTGTTCAAGAAGTTGGCTCTGTACTGTGCTAGCTACATTGAGCTCATCCCAATAGCATTTGTCCTAggtgagtgcttgttgtagctctagtcctatctctacctggcttccatacat Alignment from Spaln_aa2Genome AATGGTTCTCTCGAGTGATCAGCAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGG aagcttagagaattttccttctgcggctctctgttcattgtctcccccagA---------------GACCAGCAGCTTTTGTTCAAGAAGTTGGCTCTGTACTGTGCTAGCTACATTGAGCTCATCCCAATAGCATTTGTCCTAGgtgagtgcttgttgtagctctagtcctatctctacctggcttccatacat Alignment from Spaln_nt2Genome TGATCAGCAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGG aagcttagagaattttccttctgcggctctctgttcattgtctcccccagAGACCAGCAGCTTTTGTTCAAGAAGTTGGCTCTGTACTGTGCTAGCTACATTGAGCTCATCCCAATAGCATTTGTCCTAGgtgagtgcttgttgtagctctagtcctatctctacctggcttccatacat Alignment from Pairagon AATGGTTCTCTCGAGTGATCAGCAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGG aagcttagagaattttccttctgcggctctctgttcattgtctcccccagA---------------GACCAGCAGCTTTTGTTCAAGAAGTTGGCTCTGTACTGTGCTAGCTACATTGAGCTCATCCCAATAGCATTTGTCCTAGgtgagtgcttgttgtagctctagtcctatctctacctggcttccatacat Alignment from Exonerate_protein2genome GGTTCTCTCGAGTGATCAGCAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGG aagcttagagaattttccttctgcggctctctgttcatTGTCTCCCCCAGAGACCAGCAGCTTTTGTTCAAGAAGTTGGCTCTGTACTGTGCTAGCTACATTGAGCTCATCCCAATAGCATTTGTCCTAGgtgagtgcttgttgtagctctagtcctatctctacctggcttccatacat Alignment from Exonerate_coding2genome GGTTCTCTCGAGTGATCAGCAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGG aagcttagagaattttccttctgcggctctctgttcatTGTCTCCCCCAGAGACCAGCAGCTTTTGTTCAAGAAGTTGGCTCTGTACTGTGCTAGCTACATTGAGCTCATCCCAATAGCATTTGTCCTAGgtgagtgcttgttgtagctctagtcctatctctacctggcttccatacat Alignment from GeneWise TGATCAGCAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGG aagcttagagaattttccttctgcggctctctgttcattgtctcccccagAGACCAGCAGCTTTTGTTCAAGAAGTTGGCTCTGTACTGTGCTAGCTACATTGAGCTCATCCCAATAGCATTTGTCCTAGgtgagtgcttgttgtagctctagtcctatctctacctggcttccatacat #### Bscl2_ID2423_6 --> 0 - 2 Original Alignment TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTC---ag cctcaatgtagccagaatcacatgtagacctatttcattcctgtttacagTATGTGCCAACAACTGGAGCAATTATTGAAATTCACAGTAAACGCATTGAGATGTATGGAGCCTACCTCTGGATCCATGCCCACTTTACAGGGCTCGCTaggtcagtaaactatagaagggacaatttttctacaatgtgtcccaaatagt Alignment from CESAR TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTC---ag cctcaatgtagccagaatcacatgtagacctatttcattcctgtttacagTATGTGCCAACAACTGGAGCAATTATTGAAATTCACAGTAAACGCATTGAGATGTATGGAGCCTACCTCTGGATCCATGCCCACTTTACAGGGCTCGCTaggtcagtaaactatagaagggacaatttttctacaatgtgtcccaaatagt Alignment from Spaln_aa2Genome TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCAGG-- cctcaatgtagccagaatcacatgtagacctatttcattcctgtttacagTATGTGCCAACAACTGGAGCAATTATTGAAATTCACAGTAAACGCATTGAGATGTATGGAGCCTACCTCTGGATCCATGCCCACTTTACAGGGCTCGCTAGgtcagtaaactatagaagggacaatttttctacaatgtgtcccaaatagt Alignment from Spaln_nt2Genome TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTC---AG cctcaatgtagccagaatcacatgtagacctatttcattcctgtttacagTATGTGCCAACAACTGGAGCAATTATTGAAATTCACAGTAAACGCATTGAGATGTATGGAGCCTACCTCTGGATCCATGCCCACTTTACAGGGCTCGCTAGgtcagtaaactatagaagggacaatttttctacaatgtgtcccaaatagt Alignment from Pairagon TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTC---AG cctcaatgtagccagaatcacatgtagacctatttcattcctgtttacagTATGTGCCAACAACTGGAGCAATTATTGAAATTCACAGTAAACGCATTGAGATGTATGGAGCCTACCTCTGGATCCATGCCCACTTTACAGGGCTCGCTAGgtcagtaaactatagaagggacaatttttctacaatgtgtcccaaatagt Alignment from Exonerate_protein2genome TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTC---AG cctcaatgtagccagaatcacatgtagacctatttcattcctgtttacagTATGTGCCAACAACTGGAGCAATTATTGAAATTCACAGTAAACGCATTGAGATGTATGGAGCCTACCTCTGGATCCATGCCCACTTTACAGGGCTCGCTAGgtcagtaaactatagaagggacaatttttctacaatgtgtcccaaatagt Alignment from Exonerate_coding2genome TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTC---AG cctcaatgtagccagaatcacatgtagacctatttcattcctgtttacagTATGTGCCAACAACTGGAGCAATTATTGAAATTCACAGTAAACGCATTGAGATGTATGGAGCCTACCTCTGGATCCATGCCCACTTTACAGGGCTCGCTAGgtcagtaaactatagaagggacaatttttctacaatgtgtcccaaatagt Alignment from GeneWise TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCAGG-- cctcaatgtagccagaatcacatgtagacctatttcattcctgtttacagTATGTGCCAACAACTGGAGCAATTATTGAAATTCACAGTAAACGCATTGAGATGTATGGAGCCTACCTCTGGATCCATGCCCACTTTACAGGGCTCGCTAGgtcagtaaactatagaagggacaatttttctacaatgtgtcccaaatagt #### Bscl2_ID2424_7 --> 1 - 0 Original Alignment gTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacaaccatgtgcttacttacttgccccacaatataggTACCTGCTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTG---gtgagtcgtgttcttgggctcattttctctcactagacaaaggaaccaat Alignment from CESAR gTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacaaccatgtgcttacttacttgccccacaatataggTACCTGCTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTG---gtgagtcgtgttcttgggctcattttctctcactagacaaaggaacc Alignment from Spaln_aa2Genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTG ccaacttaactctaacaaccatgtgcttacttacttgccccacaatatagGTACCTGCTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGgtgagtcgtgttcttgggctcattttctctcactagacaaaggaaccaat Alignment from Spaln_nt2Genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTG ccaacttaactctaacaaccatgtgcttacttacttgccccacaatatagGTACCTGCTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGgtgagtcgtgttcttgggctcattttctctcactagacaaaggaaccaat Alignment from Pairagon GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTG-------------------------------------------------- ccaacttaactctaacaaccatgtgcttacttacttgccccacaatatagGTACCTGCTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGGTGAGTCGTGTTCTTGGGCTCATTTTCTCTCACTAGACAAAGGAACCAAT Alignment from Exonerate_protein2genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTG ccaacttaactctaacaaccatgtgcttacttacttgccccacaatatagGTACCTGCTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGgtgagtcgtgttcttgggctcattttctctcactagacaaaggaaccaat Alignment from Exonerate_coding2genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTG ccaacttaactctaacaaccatgtgcttacttacttgccccacaatatagGTACCTGCTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGgtgagtcgtgttcttgggctcattttctctcactagacaaaggaaccaat Alignment from GeneWise GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTG ccaacttaactctaacaaccatgtgcttacttacttgccccacaatatagGTACCTGCTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGgtgagtcgtgttcttgggctcattttctctcactagacaaaggaaccaat #### Bscl2_ID2426_9 --> 2 - 1 Original Alignment gtCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCCTCAGGAACA------g agtgttagatccttggcttgggggtagatgcctataaattaatatttcaggtCAGGAATCCACCCAGCAGTCAGATGTTATGGAGGATGGTGAGAGCCCTGAAGATCCCTCAAGAACACGGAGAggtaggttcaggctccctaacatctttattgacatagattttcagttctga Alignment from CESAR gtCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCCTCAGGAACA------g agtgttagatccttggcttgggggtagatgcctataaattaatatttcaggtCAGGAATCCACCCAGCAGTCAGATGTTATGGAGGATGGTGAGAGCCCTGAAGATCCCTCAAGAACACGGAGAggtaggttcaggctccctaacatctttattgacatagattttcagttctga Alignment from Spaln_aa2Genome GTCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCCTCAGGAACAGAGGGCC agtgttagatccttggcttgggggtagatgcctataaattaatatttcagGTCAGGAATCCACCCAGCAGTCAGATGTTATGGAGGATGGTGAGAGCCCTGAAGATCCCTCAAGAACACGGAGAGgtaggttcaggctccctaacatctttattgacatagattttcagttctga Alignment from Spaln_nt2Genome GTCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCCTCAGGAACAGAGGGCC agtgttagatccttggcttgggggtagatgcctataaattaatatttcagGTCAGGAATCCACCCAGCAGTCAGATGTTATGGAGGATGGTGAGAGCCCTGAAGATCCCTCAAGAACACGGAGAGgtaggttcaggctccctaacatctttattgacatagattttcagttctga Alignment from Pairagon GTCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCCTCAGGAACAGAGGGCCAGCTGTCTGAGGAAGAG agtgttagatccttggcttgggggtagatgcctataaattaatatttcagGTCAGGAATCCACCCAGCAGTCAGATGTTATGGAGGATGGTGAGAGCCCTGAAGATCCCTCAAGAAC-----------------ACGGAGAGgtaggttcaggctccctaacatctttattgacatagattttcagttctga Alignment from Exonerate_protein2genome GGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAGGTCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCCTCAGGAACAGAGGGCC AGTGTTAGATCCTTGGCTTGGGGGTAGATGCCTATAAATTAATATTTCAGGTCAGGAATCCACCCAGCAGTCAGATGTTATGGAGGATGGTGAGAGCCCTGAAGATCCCTCAAGAACACGGAGAGgtaggttcaggctccctaacatctttattgacatagattttcagttctga Alignment from Exonerate_coding2genome GGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAGGTCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCCTCAGGAACAGAGGGCC AGTGTTAGATCCTTGGCTTGGGGGTAGATGCCTATAAATTAATATTTCAGGTCAGGAATCCACCCAGCAGTCAGATGTTATGGAGGATGGTGAGAGCCCTGAAGATCCCTCAAGAACACGGAGAGgtaggttcaggctccctaacatctttattgacatagattttcagttctga Alignment from GeneWise GTCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCCTCAGGAACAGAGGGC- agtgttagatccttggcttgggggtagatgcctataaattaatatttcagGTCAGGAATCCACCCAGCAGTCAGATGTTATGGAGGATGGTGAGAGCCCTGAAGATCCCTCAAGAACACGGAGAGgtaggttcaggctccctaacatctttattgacatagattttcagttctga #### Bscl2_ID2427_10 --> 2 - 1 Original Alignment agGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATg aatttttaatactctcacccccattgcactccatctctttctgtttgtagagGGGCAA---CCAGAAGAGAAGAAAGCAAAGAAGTGGCCACTGAATGGGGAGGAGAAGCGGGAACCAGAT---------ggtgaggagtccaccagtagcttggggggtcacttgcttaacataatgtag Alignment from CESAR agGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATg aatttttaatactctcacccccattgcactccatctctttctgtttgtagagGGGCAA---CCAGAAGAGAAGAAAGCAAAGAAGTGGCCACTGAATGGGGAGGAGAAGCGGGAACCA---------GATggtgaggagtccaccagtagcttggggggtcacttgcttaacataatgtag Alignment from Spaln_aa2Genome AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATGGC---- aatttttaatactctcacccccattgcactccatctctttctgtttgtagAGGGGCAA---CCAGAAGAGAAGAAAGCAAAGAAGTGGCCACTGAATGGGGAGGAGAAGCGGGAACCAGATGGTGAGGAGTCCACCAgtagcttggggggtcacttgcttaacataatgtag Alignment from Spaln_nt2Genome AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG aatttttaatactctcacccccattgcactccatctctttctgtttgtagAGGGGCAAC---CAGAAGAGAAGAAAGCAAAGAAGTGGCCACTGAATGGGGAGGAGAAGCGGGAACCA---------GATGgtgaggagtccaccagtagcttggggggtcacttgcttaacataatgtag Alignment from Pairagon AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG aatttttaatactctcacccccattgcactccatctctttctgtttgtagAGGGGCAAC---CAGAAGAGAAGAAAGCAAAGAAGTGGCCACTGAATGGGGAGGAGAAGCGGGAACCA---------GATGgtgaggagtccaccagtagcttggggggtcacttgcttaacataatgtag Alignment from Exonerate_protein2genome AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGG aatttttaatactctcacccccattgcactccatctctttctgtttgtagAGGGGCAA---CCAGAAGAGAAGAAAGCAAAGAAGTGGCCACTGAATGGGGAGGAGAAGCGGGAACCAGATGgtgaggagtccaccagtagcttggggggtcacttgcttaacataatgtag Alignment from Exonerate_coding2genome AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGG aatttttaatactctcacccccattgcactccatctctttctgtttgtagAGGGGCAA---CCAGAAGAGAAGAAAGCAAAGAAGTGGCCACTGAATGGGGAGGAGAAGCGGGAACCAGATGgtgaggagtccaccagtagcttggggggtcacttgcttaacataatgtag Alignment from GeneWise AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATGGCTCC- aatttttaatactctcacccccattgcactccatctctttctgtttgtagAGGGGCAA---CCAGAAGAGAAGAAAGCAAAGAAGTGGCCACTGAATGGGGAGGAGAAGCGGGAACCAGATGGTGAGGAGTCCACCAgtagcttggggggtcacttgcttaacataatgtag #### C030046E11Rik_ID6307_21 --> 0 - 2 Original Alignment GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAag caaagagctagcttctttgattgcacttttctgtcttttccctcccacagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTCGGATTACAAAAAACATTAAGTATACCAACTGGTCCC---------cggtgggcagcttttcgtaacagattttaaggagtaatgtaaaatatttatt Alignment from CESAR GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAag caaagagctagcttctttgattgcacttttctgtcttttccctcccacagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTCGGATTACAAAAAACATTAAGTATACCAACTGGTCCC---------cggtgggcagcttttcgtaacagattttaaggagtaatgtaaaatatttatt Alignment from Spaln_aa2Genome GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTC caaagagctagcttctttgattgcacttttctgtcttttccctcccacagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTCGGATTACAAAAAACATTAAGTATACCAACTGGTCCCCGgtgggcagcttttcgtaacagattttaaggagtaatgtaaaatatttatt Alignment from Spaln_nt2Genome GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTC caaagagctagcttctttgattgcacttttctgtcttttccctcccacagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTCGGATTACAAAAAACATTAAGTATACCAACTGGTCCCCGgtgggcagcttttcgtaacagattttaaggagtaatgtaaaatatttatt Alignment from Pairagon GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG caaagagctagcttctttgattgcacttttctgtcttttccctcccacagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTCGGATTACAAAAAACATTAAGTATACCAACTGGTCCCC---------Ggtgggcagcttttcgtaacagattttaaggagtaatgtaaaatatttatt Alignment from Exonerate_protein2genome GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTC caaagagctagcttctttgattgcacttttctgtcttttccctcccacagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTCGGATTACAAAAAACATTAAGTATACCAACTGGTCCCCGgtgggcagcttttcgtaacagattttaaggagtaatgtaaaatatttatt Alignment from Exonerate_coding2genome GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTC caaagagctagcttctttgattgcacttttctgtcttttccctcccacagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTCGGATTACAAAAAACATTAAGTATACCAACTGGTCCCCGgtgggcagcttttcgtaacagattttaaggagtaatgtaaaatatttatt Alignment from GeneWise GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTC caaagagctagcttctttgattgcacttttctgtcttttccctcccacagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTCGGATTACAAAAAACATTAAGTATACCAACTGGTCCCCGgtgggcagcttttcgtaacagattttaaggagtaatgtaaaatatttatt #### C030046E11Rik_ID6311_25 --> 1 - 2 Original Alignment cTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTG---CAAGCAGTGGACCGCTGGGCCTCTACAGACtg tgaccctcttcatattcctttggatcctctctgaccccgtgtcttttcagcTACTTGCTTCACATTTACATG---GCTGGGTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCTTCAAGAGGCACCAGTAGTCCTTCACCTTCTTGGACTTACCCAGGCACCTGGAATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTACAACAGGCAGTTGATCGCTGGGGCTCAACT---tggtttgtagtggatgatacaccggtcccttagcaaattgttagttacctta Alignment from CESAR cTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTGCAA---GCAGTGGACCGCTGGGCCTCTACAGACtg tgaccctcttcatattcctttggatcctctctgaccccgtgtcttttcagcTACTTGCTTCACATTTACATG---GCTGGGTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCTTCAAGAGGCACCAGTAGTCCTTCACCTTCTTGGACTTACCCAGGCACCTGGAATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTACAACAGGCAGTTGATCGCTGGGGCTCAACT---tggtttgtagtggatgatacaccggtcccttagcaaattgttagttacctta Alignment from Spaln_aa2Genome CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTG---CAAGCAGTGGACCGCTGGGCCTCTACAGA tgaccctcttcatattcctttggatcctctctgaccccgtgtcttttcagCTACTTGCTTCACATTTACATG---GCTGGGTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCTTCAAGAGGCACCAGTAGTCCTTCACCTTCTTGGACTTACCCAGGCACCTGGAATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTACAACAGGCAGTTGATCGCTGGGGCTCAACTTGgtttgtagtggatgatacaccggtcccttagcaaattgttagttacctta Alignment from Spaln_nt2Genome CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTGCAA---GCAGTGGACCGCTGGGCCTCTACAGA tgaccctcttcatattcctttggatcctctctgaccccgtgtcttttcagCTACTTGCTTCACATTTACAT---GGCTGGGTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCTTCAAGAGGCACCAGTAGTCCTTCACCTTCTTGGACTTACCCAGGCACCTGGAATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTACAACAGGCAGTTGATCGCTGGGGCTCAACTTGgtttgtagtggatgatacaccggtcccttagcaaattgttagttacctta Alignment from Pairagon CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTGCAA---GCAGTGGACCGCTGGGCCTCTACAGACTG tgaccctcttcatattcctttggatcctctctgaccccgtgtcttttcagCTACTTGCTTCACATTTACAT---GGCTGGGTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCTTCAAGAGGCACCAGTAGTCCTTCACCTTCTTGGACTTACCCAGGCACCTGGAATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTACAACAGGCAGTTGATCGCTGGGGCTCAAC---TTGgtttgtagtggatgatacaccggtcccttagcaaattgttagttacctta Alignment from Exonerate_protein2genome CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTG---CAAGCAGTGGACCGCTGGGCCTCTACAGACTG tgaccctcttcatattcctttggatcctctctgaccccgtgtcttttcagCTACTTGCTTCACATTTACATG---GCTGGGTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCTTCAAGAGGCACCAGTAGTCCTTCACCTTCTTGGACTTACCCAGGCACCTGGAATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTACAACAGGCAGTTGATCGCTGGGGCTCAACT---TGgtttgtagtggatgatacaccggtcccttagcaaattgttagttacctta Alignment from Exonerate_coding2genome CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTG---CAAGCAGTGGACCGCTGGGCCTCTACAGACTG tgaccctcttcatattcctttggatcctctctgaccccgtgtcttttcagCTACTTGCTTCACATTTACATG---GCTGGGTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCTTCAAGAGGCACCAGTAGTCCTTCACCTTCTTGGACTTACCCAGGCACCTGGAATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTACAACAGGCAGTTGATCGCTGGGGCTCAACT---TGgtttgtagtggatgatacaccggtcccttagcaaattgttagttacctta Alignment from GeneWise CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTG---CAAGCAGTGGACCGCTGGGCCTCTACAGA tgaccctcttcatattcctttggatcctctctgaccccgtgtcttttcagCTACTTGCTTCACATTTACATG---GCTGGGTGTCTGGACTGGTGTGTTGTCATTGGCCTGATTCTTCAAGAGGCACCAGTAGTCCTTCACCTTCTTGGACTTACCCAGGCACCTGGAATGGATGGGGAAATGTTGCAAAATATAAAATCAGGACTACAACAGGCAGTTGATCGCTGGGGCTCAACTTGgtttgtagtggatgatacaccggtcccttagcaaattgttagttacctta #### Cabp2_ID291_6 --> 0 - 1 Original Alignment TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAA---------g aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCACTTAAAGCCCTGCTGGGTGTACGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAGATGTGCCTggtaaggctccacctgctctgtccctttaccttgtaaaccatctcacacac Alignment from CESAR TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAA---------g aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCACTTAAAGCCCTGCTGGGTGTACGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAGATGTGCCTggtaaggctccacctgctctgtccctttaccttgtaaaccatctcacacac Alignment from Spaln_aa2Genome TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAA---------G aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCACTTAAAGCCCTGCTGGGTGTACGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAGATGTGCCTGgtaaggctccacctgctctgtccctttaccttgtaaaccatctcacacac Alignment from Spaln_nt2Genome TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAGA- aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCACTTAAAGCCCTGCTGGGTGTACGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAGATgtgcctggtaaggctccacctgctctgtccctttaccttgtaaaccatctcacacac Alignment from Pairagon TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAG--------- aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCACTTAAAGCCCTGCTGGGTGTACGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAGATGTGCCTGgtaaggctccacctgctctgtccctttaccttgtaaaccatctcacacac Alignment from Exonerate_protein2genome TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAG aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCACTTAAAGCCCTGCTGGGTGTACGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAGatgtgcctggtaaggctccacctgctctgtccctttaccttgtaaaccatctcacacac Alignment from Exonerate_coding2genome TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAGAA aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCACTTAAAGCCCTGCTGGGTGTACGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAGATgtgcctggtaaggctccacctgctctgtccctttaccttgtaaaccatctcacacac Alignment from GeneWise TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAGAATTTGTTCGGATGATGTCTCGG aatcgctcccatggttcagtgactgaacgttctgtgtggctttcctgcagTTCGACACTAATGGCGATGGCTGCATCAGTGTTGGGGAACTCCAAGCTGCACTTAAAGCCCTGCTGGGTGTACGTCTCAGTCAACAAGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGGGATGGCCTGGTTGACTTCGAAGATGTGCCTGGTAAGGCTCCACCTgctctgtccctttaccttgtaaaccatctcacacac #### Cabp4_ID342_2 --> 0 - 1 Original Alignment GATCGTGAACTGGGCCCTGAGGAGTTGGAGg tggatggcagggattttggattctccgtgtgactgtgcccttgtttgtag---------CTGGGGCCTGAGGAGTTGGAAggtgagcgattcttgctgttgatgaaaaatctaaaggaagtttgatattat Alignment from CESAR GATCGTGAACTGGGCCCTGAGGAGTTGGAGg ggctctgcatggatggcagggatttcgtgtgactgtgcccttgtttgtag---------CTGGGGCCTGAGGAGTTGGAAggtgagcgattcttgctgttgatgaaaaatctaaaggaagtttgatattat Alignment from Spaln_aa2Genome GATCGTGAACTGGGCCCTGAGGAGTTGGAGG tggatggcagggattttggattctccgtgtgactgtgcccttgtttgtag---------CTGGGGCCTGAGGAGTTGGAAGgtgagcgattcttgctgttgatgaaaaatctaaaggaagtttgatattat Alignment from Spaln_nt2Genome CTGGGCCCTGAGGAGTTGGAGG tggatggcagggattttggattctccgtgtgactgtgcccttgtttgtagCTGGGGCCTGAGGAGTTGGAAGgtgagcgattcttgctgttgatgaaaaatctaaaggaagtttgatattat Alignment from Pairagon GATCGTGAACTGGGCCCTGAGGAGTTGGAGG tggatggcagggattttggattctccgtgtgactgtgcccttgtttgtag---------CTGGGGCCTGAGGAGTTGGAAGgtgagcgattcttgctgttgatgaaaaatctaaaggaagtttgatattat Alignment from Exonerate_protein2genome GATCGTGAACTGGGCCCTGAGGAGTTGGAGG tggatggcagggattttggattctccgtgtgactgtgccctTGTTTGTAGCTGGGGCCTGAGGAGTTGGAAGgtgagcgattcttgctgttgatgaaaaatctaaaggaagtttgatattat Alignment from Exonerate_coding2genome tggatggcagggattttggattctccgtgtgactgtgcccttgtttgtagctggggcctgaggagttggaaggtgagcgattcttgctgttgatgaaaaatctaaaggaagtttgatattat Alignment from GeneWise tggatggcagggattttggattctccgtgtgactgtgcccttgtttgtagctggggcctgaggagttggaaggtgagcgattcttgctgttgatgaaaaatctaaaggaagtttgatattat #### Capn1_ID1369_7 --> 0 - 2 Original Alignment GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACag ggggagtgtgttctgtctctgatgcaacatgctcttcttgactatcacagGTAACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGGGTCCAGTAGAGTGGAGAGGTCCTTGGAGT---aggtatgaagtgaatgcaagcagtttcgtggaaatggttttatgatcagact Alignment from CESAR GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACag ggggagtgtgttctgtctctgatgcaacatgctcttcttgactatcacagGTAACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGGGTCCAGTAGAGTGGAGAGGTCCTTGGAGT---aggtatgaagtgaatgcaagcagtttcgtggaaatggttttatgatcagact Alignment from Spaln_aa2Genome GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGA ggggagtgtgttctgtctctgatgcaacatgctcttcttgactatcacagGTAACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGGGTCCAGTAGAGTGGAGAGGTCCTTGGAGTAGgtatgaagtgaatgcaagcagtttcgtggaaatggttttatgatcagact Alignment from Spaln_nt2Genome GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG ggggagtgtgttctgtctctgatgcaacatgctcttcttgactatcacagGTAACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGGGTCCAGTAGAGTGGAGAGGTCCTTGGAGT---AGgtatgaagtgaatgcaagcagtttcgtggaaatggttttatgatcagact Alignment from Pairagon GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG ggggagtgtgttctgtctctgatgcaacatgctcttcttgactatcacagGTAACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGGGTCCAGTAGAGTGGAGAGGTCCTTGGAGT---AGgtatgaagtgaatgcaagcagtttcgtggaaatggttttatgatcagact Alignment from Exonerate_protein2genome GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG ggggagtgtgttctgtctctgatgcaacatgctcttcttgactatcacagGTAACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGGGTCCAGTAGAGTGGAGAGGTCCTTGGAGT---AGgtatgaagtgaatgcaagcagtttcgtggaaatggttttatgatcagact Alignment from Exonerate_coding2genome ggggagtgtgttctgtctctgatgcaacatgctcttcttgactatcacaggtaacctatcagggcccacgagtgaaccttattcgtatgtggaattcctggggtccagtagagtggagaggtccttggagtaggtatgaagtgaatgcaagcagtttcgtggaaatggttttatgatcagact Alignment from GeneWise GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGA ggggagtgtgttctgtctctgatgcaacatgctcttcttgactatcacagGTAACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGGGTCCAGTAGAGTGGAGAGGTCCTTGGAGTAGgtatgaagtgaatgcaagcagtttcgtggaaatggttttatgatcagact #### Capn1_ID1376_2 --> 0 - 1 Original Alignment GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGg ggggctggggcccatgatctagtgtaaagtgtctcattttggtggtgcag------------AACCCCCAATTCATTGTAGACGGAGCCACCCGAACAGACATCTGCCAGGGAGCACTAggtacgtaaacatctctaggcatgggctgctgtgtgacttgagctccgttt Alignment from CESAR GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGg ggcacatcaaggggggctggggcccaaagtgtctcattttggtggtgcag------------AACCCCCAATTCATTGTAGACGGAGCCACCCGAACAGACATCTGCCAGGGAGCACTAggtacgtaaacatctctaggcatgggctgctgtgtgacttgagctccgttt Alignment from Spaln_aa2Genome GAACTGATG---------TCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG ggggctggggcccatgatctagtgtaaagTGTCTCATTTTGGTGGTGCAGAACCCCCAATTCATTGTAGACGGAGCCACCCGAACAGACATCTGCCAGGGAGCACTAGgtacgtaaacatctctaggcatgggctgctgtgtgacttgagctccgttt Alignment from Spaln_nt2Genome AACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG ggggctggggcccatgatctagtgtaaagtgtctcattttggtggtgcagAACCCCCAATTCATTGTAGACGGAGCCACCCGAACAGACATCTGCCAGGGAGCACTAGgtacgtaaacatctctaggcatgggctgctgtgtgacttgagctccgttt Alignment from Pairagon AACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG ggggctggggcccatgatctagtgtaaagtgtctcattttggtggtgcagAACCCCCAATTCATTGTAGACGGAGCCACCCGAACAGACATCTGCCAGGGAGCACTAGgtacgtaaacatctctaggcatgggctgctgtgtgacttgagctccgttt Alignment from Exonerate_protein2genome ATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG ggggctggggcccatgatctagtgtaaagtgtctcattttggtgGTGCAGAACCCCCAATTCATTGTAGACGGAGCCACCCGAACAGACATCTGCCAGGGAGCACTAGgtacgtaaacatctctaggcatgggctgctgtgtgacttgagctccgttt Alignment from Exonerate_coding2genome ggggctggggcccatgatctagtgtaaagtgtctcattttggtggtgcagaacccccaattcattgtagacggagccacccgaacagacatctgccagggagcactaggtacgtaaacatctctaggcatgggctgctgtgtgacttgagctccgttt Alignment from GeneWise ---------GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG ggggctggggcccatgatctagtgtaaagTGTCTCATTTTGGTGGTGCAGAACCCCCAATTCATTGTAGACGGAGCCACCCGAACAGACATCTGCCAGGGAGCACTAGgtacgtaaacatctctaggcatgggctgctgtgtgacttgagctccgttt #### Carns1_ID387_5 --> 0 - 1 Original Alignment GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAg gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcagGTGGCAGCAAGACTCAGTGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCT------------------ggtaaggtgtaatgtcaacgtggtgcacgggccttattcaaagcccaaact Alignment from CESAR GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAg gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcagGTGGCAGCAAGACTCAGTGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCT------------------ggtaaggtgtaatgtcaacgtggtgcacgggccttattcaaagcccaaact Alignment from Spaln_aa2Genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCT- gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcagGTGGCAGCAAGACTCAGTGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGgtaaggtgtaatgtcaacgtggtgcacgggccttattcaaagcccaaact Alignment from Spaln_nt2Genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcagGTGGCAGCAAGACTCAGTGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGGTAAGGTGTAATGTCAACgtggtgcacgggccttattcaaagcccaaact Alignment from Pairagon GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTG gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcagGTGGCAGCAAGACTCAGTGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGgtaaggtgtaatgtcaacgtggtgcacgggccttattcaaagcccaaact Alignment from Exonerate_protein2genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcagGTGGCAGCAAGACTCAGTGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGGTAAGGTGTAATGTCAACgtggtgcacgggccttattcaaagcccaaact Alignment from Exonerate_coding2genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcagGTGGCAGCAAGACTCAGTGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGGTAAGGTGTAATGTCAACgtggtgcacgggccttattcaaagcccaaact Alignment from GeneWise GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCT gtgtatgtgtagtggtaattgtgtagagcctgactccacctttccctcagGTGGCAGCAAGACTCAGTGGCTGCCACTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTGGTGATGATGGTACTAGGATTATTGAAGAAACTGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGGTAAGGTgtaatgtcaacgtggtgcacgggccttattcaaagcccaaact #### Catsper1_ID926_3 --> 2 - 1 Original Alignment aaTGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGg cacggcctgtcccactgtaagaattgcttggctttctcctccacctgtagaa---------ATGATCCTAGACTCCATCTTCCTTACCATCTTTGTACTAGAGGCAGTC---AAACTTATTGCTTTGGGCTTAGAGTATTTTTATGACCCATCAAATAATCTGggtaagtcaatacaggcggtttataatggttacagaatacatcatttagag Alignment from CESAR aaTGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGg tgatgcggccacggcctgtcccactgcttggctttctcctccacctgtagaa---------ATGATCCTAGACTCCATCTTCCTTACCATCTTTGTACTAGAGGCAGTC---AAACTTATTGCTTTGGGCTTAGAGTATTTTTATGACCCATCAAATAATCTGggtaagtcaatacaggcggtttataatggttacagaatacatcatttagag Alignment from Spaln_aa2Genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG cacggcctgtcccactgtaagaattgcttggctttctcctccacctgtagAA---------ATGATCCTAGACTCCATCTTCCTTACCATCTTTGTACTAGAGGCAGTC---AAACTTATTGCTTTGGGCTTAGAGTATTTTTATGACCCATCAAATAATCTGGgtaagtcaatacaggcggtttataatggttacagaatacatcatttagag Alignment from Spaln_nt2Genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG cacggcctgtcccactgtaagaattgcttggctttctcctccacctgtagAA---------ATGATCCTAGACTCCATCTTCCTTACCATCTTTGTACTAGAGGCAG---TCAAACTTATTGCTTTGGGCTTAGAGTATTTTTATGACCCATCAAATAATCTGGgtaagtcaatacaggcggtttataatggttacagaatacatcatttagag Alignment from Pairagon AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG cacggcctgtcccactgtaagaattgcttggctttctcctccacctgtagAA---------ATGATCCTAGACTCCATCTTCCTTACCATCTTTGTACTAGAGGCAG---TCAAACTTATTGCTTTGGGCTTAGAGTATTTTTATGACCCATCAAATAATCTGGgtaagtcaatacaggcggtttataatggttacagaatacatcatttagag Alignment from Exonerate_protein2genome TACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG cacggcctgtcccactgtaagaattgcttggctttctcctccacctGTAGAAATGATCCTAGACTCCATCTTCCTTACCATCTTTGTACTAGAGGCAGTC---AAACTTATTGCTTTGGGCTTAGAGTATTTTTATGACCCATCAAATAATCTGGgtaagtcaatacaggcggtttataatggttacagaatacatcatttagag Alignment from Exonerate_coding2genome TACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG cacggcctgtcccactgtaagaattgcttggctttctcctccacctGTAGAAATGATCCTAGACTCCATCTTCCTTACCATCTTTGTACTAGAGGCAGTC---AAACTTATTGCTTTGGGCTTAGAGTATTTTTATGACCCATCAAATAATCTGGgtaagtcaatacaggcggtttataatggttacagaatacatcatttagag Alignment from GeneWise AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG cacggcctgtcccactgtaagaattgcttggctttctcctccacctgtagAA---------ATGATCCTAGACTCCATCTTCCTTACCATCTTTGTACTAGAGGCAGTC---AAACTTATTGCTTTGGGCTTAGAGTATTTTTATGACCCATCAAATAATCTGGgtaagtcaatacaggcggtttataatggttacagaatacatcatttagag #### Catsper1_ID929_6 --> 2 - 1 Original Alignment tcCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAA---------g gcGCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagtcCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAGTTAGGCTGggtaagttaacctaaggctacagaagcatttccttctctatacagctGCCT Alignment from CESAR tcCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAA---------g gcGCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagtcCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAGTTAGGCTGggtaagttaacctaaggctacagacttgctcctcttcttttgtagctGCCT Alignment from Spaln_aa2Genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAA---------G GCGCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAGTTAGGCTGGgtaagttaacctaaggctacagaagcatttccttctctatacagCTGCCT Alignment from Spaln_nt2Genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAA GGCGCC ttggactttctcttggttatgttgaatggcttggctttcttctctttcagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAgttaggctgggtaagttaacctaaggctacagaagcatttccttctctatacag-CTGCC Alignment from Pairagon TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCA-----------------------------------------------------AGGCGCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAGTTAGGCTGGGTAAGTTAACCTAAGGCTACAGAAGCATTTCCTTCTCTATACAGCTGCCT Alignment from Exonerate_protein2genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAGttaggctgggtaagttaacctaaggctacagaagcatttccttctctatacagCTGCCT Alignment from Exonerate_coding2genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAGttaggctgggtaagttaacctaaggctacagaagcatttccttctctatacagCTGCCT Alignment from GeneWise TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAA---------G GCGCCT ttggactttctcttggttatgttgaatggcttggctttcttctctttcagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAATGTCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAAGTTAGGCTGGgtaagttaacctaaggctacagaagcatttccttctctatacagCTGCCT #### Catsper1_ID930_7 --> 2 - 2 Original Alignment CCCAAg gcGCCTGGTACATCATACCGATCCTCATGATTTACATTGTCATCCAGTACTTCATCTTCCTCaa CCCAAggtaagataacctaaggctacagacttgctcctcttcttttgtagctGCCTGGTACATCATACCAATCCTCATGATCTATATTGTTATCCAATACTTTACA------aagtaagggaactgcactgaactgttccgatagccacccaccaagcacttac Alignment from CESAR CCCAAg gcGCCTGGTACATCATACCGATCCTCATGATTTACATTGTCATCCAGTACTTCATCTTCCTCaa CCCAAggtgggctaacctaaggctacagacttgctcctcttcttttgtagctGCCTGGTACATCATACCAATCCTCATGATCTATATTGTTATCCAATACTTTACA------aagtaagggaactgcactgaactgttccgatagccacccaccaagcacttac Alignment from Spaln_aa2Genome CCCAAG GCGCCTGGTACATCATACCGATCCTCATGATTTACATTGTCATCCAGTACTTCATCTT CCCAAGgtaagataacctaaggctacagacttgctcctcttcttttgtagCTGCCTGGTACATCATACCAATCCTCATGATCTATATTGTTATCCAATACTTTACAAAgtaagggaactgcactgaactgttccgatagccacccaccaagcacttac Alignment from Spaln_nt2Genome CCCAAG GCGCCTGGTACATCATACCGATCCTCATGATTTACATTGTCATCCAGTACTTCATCTTCCTCAA CCCAAGgtaagataacctaaggctacagacttgctcctcttcttttgtagCTGCCTGGTACATCATACCAATCCTCATGATCTATATTGTTATCCAATACTTTA------CAAAgtaagggaactgcactgaactgttccgatagccacccaccaagcacttac Alignment from Pairagon CCCAAG GCGCCTGGTACATCATACCGATCCTCATGATTTACATTGTCATCCAGTACTTCATCTTCCTCAA CCCAAGgtaagataacctaaggctacagacttgctcctcttcttttgtagCTGCCTGGTACATCATACCAATCCTCATGATCTATATTGTTATCCAATACTTTA------CAAAgtaagggaactgcactgaactgttccgatagccacccaccaagcacttac Alignment from Exonerate_protein2genome CCCAAG GCGCCTGGTACATCATACCGATCCTCATGATTTACATTGTCATCCAGTACTTCATCTT CCCAAGgtaagataacctaaggctacagacttgctcctcttcttttgtagCTGCCTGGTACATCATACCAATCCTCATGATCTATATTGTTATCCAATACTTTACAAAgtaagggaactgcactgaactgttccgatagccacccaccaagcacttac Alignment from Exonerate_coding2genome CCCAAG GCGCCTGGTACATCATACCGATCCTCATGATTTACATTGTCATCCAGTACTTCATCTT CCCAAGgtaagataacctaaggctacagacttgctcctcttcttttgtagCTGCCTGGTACATCATACCAATCCTCATGATCTATATTGTTATCCAATACTTTACAAAgtaagggaactgcactgaactgttccgatagccacccaccaagcacttac Alignment from GeneWise CCCAAG GCGCCTGGTACATCATACCGATCCTCATGATTTACATTGTCATCCAGTACTTCATC-- CCCAAGgtaagataacctaaggctacagacttgctcctcttcttttgtagCTGCCTGGTACATCATACCAATCCTCATGATCTATATTGTTATCCAATACTTTACAAAgtaagggaactgcactgaactgttccgatagccacccaccaagcacttac #### Cbwd1_ID5353_14 --> 0 - 1 Original Alignment GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTg gccctatgttgtcaactgaacacttcccctggtatttgattttgggacag---------TCTATCAAAGTTAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAGAGCCTTGTGAATTGGAAGGATGATGCAGCAAGGGCATGTCAGCTAGTTTTCATTggtagggaacactaatgtactactgaatgtactactgggttctgtgtctaa Alignment from CESAR GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTg aattatgtagccctatgttgtcaaccccctggtatttgattttgggacag---------TCTATCAAAGTTAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAGAGCCTTGTGAATTGGAAGGATGATGCAGCAAGGGCATGTCAGCTAGTTTTCATTggtagggaacactaatgtactactgaatgtactactgggttctgtgtctaa Alignment from Spaln_aa2Genome GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTG gccctatgttgtcaactgaacacttcccctggtatttgattttgggacag---------TCTATCAAAGTTAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAGAGCCTTGTGAATTGGAAGGATGATGCAGCAAGGGCATGTCAGCTAGTTTTCATTGgtagggaacactaatgtactactgaatgtactactgggttctgtgtctaa Alignment from Spaln_nt2Genome TCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTG gccctatgttgtcaactgaacacttcccctggtatttgattttgggacagTCTATCAAAGTTAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAGAGCCTTGTGAATTGGAAGGATGATGCAGCAAGGGCATGTCAGCTAGTTTTCATTGgtagggaacactaatgtactactgaatgtactactgggttctgtgtctaa Alignment from Pairagon GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTG gccctatgttgtcaactgaacacttcccctggtatttgattttgggacag---------TCTATCAAAGTTAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAGAGCCTTGTGAATTGGAAGGATGATGCAGCAAGGGCATGTCAGCTAGTTTTCATTGgtagggaacactaatgtactactgaatgtactactgggttctgtgtctaa Alignment from Exonerate_protein2genome GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTG ctatgttgtcaactgaacacttcccctggtatttgattttgGGA---CAGTCTATCAAAGTTAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAGAGCCTTGTGAATTGGAAGGATGATGCAGCAAGGGCATGTCAGCTAGTTTTCATTGgtagggaacactaatgtactactgaatgtactactgggttctgtgtctaa Alignment from Exonerate_coding2genome gccctatgttgtcaactgaacacttcccctggtatttgattttgggacagtctatcaaagttaagccacatcaaatgattgtgcaaggtatccatgatttgtatgacttggaagagagccttgtgaattggaaggatgatgcagcaagggcatgtcagctagttttcattggtagggaacactaatgtactactgaatgtactactgggttctgtgtctaa Alignment from GeneWise ---ATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTG gccctatgttgtcaactgaacacttcccctggtatttgattttgggacagTCTATCAAAGTTAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAGAGCCTTGTGAATTGGAAGGATGATGCAGCAAGGGCATGTCAGCTAGTTTTCATTGgtagggaacactaatgtactactgaatgtactactgggttctgtgtctaa #### Ccdc88b_ID1824_25 --> 2 - 1 Original Alignment ggTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAA---g gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagggTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCTGGCGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTGTTGGACGAAGTCCAGCATCATTCAGTCCCAGC---ACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGTGggtgagtgctgttttactataatttgaatttccattgttttaagtggtcag Alignment from CESAR ggTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAA---g gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagggTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCTGGCGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTGTTGGACGAAGTCCAGCATCATTCAGTCCCAGC---ACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGTGggtgagtgctgttttactataatttgaatttccattgttttaagtggtcag Alignment from Spaln_aa2Genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAA---G gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCTGGCGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTGTTGGACGAAGTCCAGCATCATTCAGTCCCAGC---ACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGTGGgtgagtgctgttttactataatttgaatttccattgttttaagtggtcag Alignment from Spaln_nt2Genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG--- gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCTGGCGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTGTTGGACGAAGTCCAGCATCATTCAGTCCCAG---CACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGTGGgtgagtgctgttttactataatttgaatttccattgttttaagtggtcag Alignment from Pairagon GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG--- gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCTGGCGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTGTTGGACGAAGTCCAGCATCATTCAGTCCCAG---CACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGTGGgtgagtgctgttttactataatttgaatttccattgttttaagtggtcag Alignment from Exonerate_protein2genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAA---G gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCTGGCGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTGTTGGACGAAGTCCAGCATCATTCAGTCCC---AGCACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGTGGgtgagtgctgttttactataatttgaatttccattgttttaagtggtcag Alignment from Exonerate_coding2genome gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagggtcatcgtcaccagcacccatgcaccaaattgagagctccctttgcttgggagatgagaccctagctggcgggcagcgacggagtctcagttctcagttctctgttggacgaagtccagcatcattcagtcccagcacatcacggcaatggttcaaacagcaaaggccaggcccccttggggcactgagtacctacagcaaagtgggtgagtgctgttttactataatttgaatttccattgttttaagtggtcag Alignment from GeneWise GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAGGA- gtcatgatgaccttgcctgatccatacattgattggcctcttctatccagGGTCATCGTCACCAGCACCCATGCACCAAATTGAGAGCTCCCTTTGCTTGGGAGATGAGACCCTAGCTGGCGGGCAGCGACGGAGTCTCAGTTCTCAGTTCTCTGTTGGACGAAGTCCAGCATCATTCAGTCCC---AGCACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGTGGgtgagtgctgttttactataatttgaatttccattgttttaagtggtcag #### Ccdc88b_ID1825_24 --> 1 - 1 Original Alignment g---------AAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAg cctcggctgtccctttgtgtggagcttttgtgatttttctgtgctcgcaggGCTGAGTTTAGGGGCAGCTGGTTAGCAGAAAAGGTCAGGAGGCTCATTCGGCCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAggtaatcaaaaccatctaacagtcagagtacccctggctgagatttaatgg Alignment from CESAR g---------AAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAg cctcggctgtccctttgtgtggagcttttgtgatttttctgtgctcgcaggGCTGAGTTTAGGGGCAGCTGGTTAGCAGAAAAGGTCAGGAGGCTCATTCGGCCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAggtaatcaaaaccatctaacagtcagagtacccctggctgagatttaatgg Alignment from Spaln_aa2Genome G---------AAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACA cctcggctgtccctttgtgtggagcttttgtgatttttctgtgctcgcagGGCTGAGTTTAGGGGCAGCTGGTTAGCAGAAAAGGTCAGGAGGCTCATTCGGCCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAGgtaatcaaaaccatctaacagtcagagtacccctggctgagatttaatgg Alignment from Spaln_nt2Genome G---------AAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAG cctcggctgtccctttgtgtggagcttttgtgatttttctgtgctcgcagGGCTGAGTTTAGGGGCAGCTGGTTAGCAGAAAAGGTCAGGAGGCTCATTCGGCCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAGgtaatcaaaaccatctaacagtcagagtacccctggctgagatttaatgg Alignment from Pairagon GAAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAG cctcggctgtccctttgtgtggagcttttgtgatttttctgtgctcgcagggctgagtttag---GGGCAGCTGGTTAGCAGAAAAGGTCAGGAGGCTCATTCGGCCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAGgtaatcaaaaccatctaacagtcagagtacccctggctgagatttaatgg Alignment from Exonerate_protein2genome G---------AAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAG cctcggctgtccctttgtgtggagcttttgtgatttttctgtgctcgcagGGCTGAGTTTAGGGGCAGCTGGTTAGCAGAAAAGGTCAGGAGGCTCATTCGGCCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAGgtaatcaaaaccatctaacagtcagagtacccctggctgagatttaatgg Alignment from Exonerate_coding2genome cctcggctgtccctttgtgtggagcttttgtgatttttctgtgctcgcagggctgagtttaggggcagctggttagcagaaaaggtcaggaggctcattcggccccggcgtgagggggccctccatggggggcctcgccttggggctgatggggctggcagtactgaaagtttgggaggccctctagagattgaattgccagaaggcagggaggttgatgggacaggtaatcaaaaccatctaacagtcagagtacccctggctgagatttaatgg Alignment from GeneWise -------AAGAAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAG cctcggctgtccctttgtgtggagcttttgtgatttttctgtgctcgcagGGCTGAGTTTAGGGGCAGCTGGTTAGCAGAAAAGGTCAGGAGGCTCATTCGGCCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTTGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGATTGAATTGCCAGAAGGCAGGGAGGTTGATGGGACAGgtaatcaaaaccatctaacagtcagagtacccctggctgagatttaatgg #### Ccdc88b_ID1836_13 --> 2 - 0 Original Alignment ccTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG agggcaacatgatcagaaagaacttttttccttaataaaactcactaaagca------CCTGGCCCAGCACCCTCATTGCAAGATGAGGTGAGGAAGGCAGAGGGTGGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---CATATG------GCACAGCTTGGGAGCCAGgtaaggcctctgttgcttcatctccgagtaatctagttccttgtgggtac Alignment from CESAR ccTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggcaacatgatcagaaattttccttaataaaactcactaaagca------CCTGGCCCAGCACCCTCATTGCAAGATGAGGTGAGGAAGGCAGAGGGTGGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---CATATG------GCACAGCTTGGGAGCCAGgtaaggcctctgttgcttcatctccgagtaatctagttccttgtgggtac Alignment from Spaln_aa2Genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG agggcaacatgatcagaaagaacttttttccttaataaaactcactaaagCA------CCTGGCCCAGCACCCTCATTGCAAGATGAGGTGAGGAAGGCAGAGGGTGGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---CATATG------GCACAGCTTGGGAGCCAGgtaaggcctctgttgcttcatctccgagtaatctagttccttgtgggtac Alignment from Spaln_nt2Genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG agggcaacatgatcagaaagaacttttttccttaataaaactcactaaagC------ACCTGGCCCAGCACCCTCATTGCAAGATGAGGTGAGGAAGGCAGAGGGTGGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCA---ACATAT------GGCACAGCTTGGGAGCCAGgtaaggcctctgttgcttcatctccgagtaatctagttccttgtgggtac Alignment from Pairagon CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG agggcaacatgatcagaaagaacttttttccttaataaaactcactaaagC------ACCTGGCCCAGCACCCTCATTGCAAGATGAGGTGAGGAAGGCAGAGGGTGGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---------CATATGGCACAGCTTGGGAGCCAGgtaaggcctctgttgcttcatctccgagtaatctagttccttgtgggtac Alignment from Exonerate_protein2genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG agggcaacatgatcagaaagaacttttttccttaataaaactcaCTAAAGCACCTGGCCCAGCACCCTCATTGCAAGATGAGGTGAGGAAGGCAGAGGGTGGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---------CATATGGCACAGCTTGGGAGCCAGgtaaggcctctgttgcttcatctccgagtaatctagttccttgtgggtac Alignment from Exonerate_coding2genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG agggcaacatgatcagaaagaacttttttccttaataaaactcaCTAAAGCACCTGGCCCAGCACCCTCATTGCAAGATGAGGTGAGGAAGGCAGAGGGTGGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---------CATATGGCACAGCTTGGGAGCCAGgtaaggcctctgttgcttcatctccgagtaatctagttccttgtgggtac Alignment from GeneWise CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG agggcaacatgatcagaaagaacttttttccttaataaaactcactaaagCA------CCTGGCCCAGCACCCTCATTGCAAGATGAGGTGAGGAAGGCAGAGGGTGGCCGTCTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAACAT---------ATGGCACAGCTTGGGAGCCAGgtaaggcctctgttgcttcatctccgagtaatctagttccttgtgggtac #### Ccdc88b_ID1841_8 --> 0 - 2 Original Alignment ------------------------------------CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGgt ggtcagtgtgggagttaatcatgtgtttgactttaacatttgtttcgtagAATGGTGGTCTGGGACACATGAACATCACAGGTACCCGGCTGGCTGAACTGTTACTTGAGAGGGAGCCAGACCACCTGCTGCTACCTGAGGCTCCTGCCAATGCA------GAGGGTGTCTCCCACCATTTAGATCTGCAGTTAACCAATGCTAAGGCTCAACTGAGATGCCTCAGGAGGGAAgtgtacgtcatagctctgctcaccttgccgccaaagcctgtcaattcttcag Alignment from CESAR catgatgagagattaaccattagtctagtgggctgttacttgacccttcta Alignment from Spaln_aa2Genome GGTTGGCTGAA------CTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT ggtcagtgtgggagttaatcatgtgtttgactttaacatttgtttcgtagaatggtggtctgggacacatgaacatcacagGTACCCGGCTGGCTGAACTGTTACTTGAGAGGGAGCCAGACCACCTGCTGCTACCTGAGGCTCCTGCCAAT------GCAGAGGGTGTCTCCCACCATTTAGATCTGCAGTTAACCAATGCTAAGGCTCAACTGAGATGCCTCAGGAGGGAAGTgtacgtcatagctctgctcaccttgccgccaaagcctgtcaattcttcag Alignment from Spaln_nt2Genome -----CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT ggtcagtgtgggagttaatcatgtgtttgactttaacatttgtttcgtagaatggtggtctgggacacatgaacatcacagGTACCCGGCTGGCTGAACTGTTACTTGAGAGGGAGCCAGACCACCTGCTGCTACCTGAGGCTCCTGCCAA------TGCAGAGGGTGTCTCCCACCATTTAGATCTGCAGTTAACCAATGCTAAGGCTCAACTGAGATGCCTCAGGAGGGAAGTgtacgtcatagctctgctcaccttgccgccaaagcctgtcaattcttcag Alignment from Pairagon -----CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT ggtcagtgtgggagttaatcatgtgtttgactttaacatttgtttcgtagaatggtggtctgggacacatgaacatcacagGTACCCGGCTGGCTGAACTGTTACTTGAGAGGGAGCCAGACCACCTGCTGCTACCTGAGGCTCCTGCCAA------TGCAGAGGGTGTCTCCCACCATTTAGATCTGCAGTTAACCAATGCTAAGGCTCAACTGAGATGCCTCAGGAGGGAAGTgtacgtcatagctctgctcaccttgccgccaaagcctgtcaattcttcag Alignment from Exonerate_protein2genome -----CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT ggtcagtgtgggagttaatcatgtgtttgactttaacatttgtttcgtagaatggtggtctgggacacatgaacatcacagGTACCCGGCTGGCTGAACTGTTACTTGAGAGGGAGCCAGACCACCTGCTGCTACCTGAGGCTCCTGCCAAT------GCAGAGGGTGTCTCCCACCATTTAGATCTGCAGTTAACCAATGCTAAGGCTCAACTGAGATGCCTCAGGAGGGAAGTgtacgtcatagctctgctcaccttgccgccaaagcctgtcaattcttcag Alignment from Exonerate_coding2genome -----CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGTGGAGGAGAAGGCTGAGCAACTGCTGGACTCCCAGGCCGAGGTGCAGGGCT ggtcagtgtgggagttaatcatgtgtttgactttaacatttgtttcgtagaatggtggtctgggacacatgaacatcacagGTACCCGGCTGGCTGAACTGTTACTTGAGAGGGAGCCAGACCACCTGCTGCTACCTGAGGCTCCTGCCAAT------GCAGAGGGTGTCTCCCACCATTTAGATCTGCAGTTAACCAATGCTAAGGCTCAACTGAGATGCCTCAGGAGGGAAGTGTACGTCATAGCTCTGCTCACCTTGCCGCCAAAGCCTGTCAATTCTTCAG Alignment from GeneWise ------------------------------------CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT ggtcagtgtgggagttaatcatgtgtttgactttaacatttgtttcgtagAATGGTGGTCTGGGACACATGAACATCACAGGTACCCGGCTGGCTGAACTGTTACTTGAGAGGGAGCCAGACCACCTGCTGCTACCTGAGGCTCCTGCCAATGCA------GAGGGTGTCTCCCACCATTTAGATCTGCAGTTAACCAATGCTAAGGCTCAACTGAGATGCCTCAGGAGGGAAGTgtacgtcatagctctgctcaccttgccgccaaagcctgtcaattcttcag #### Ccdc88b_ID1846_3 --> 1 - 0 Original Alignment t---GCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttatgattaacagaactctgactactgggcagctgatatcccctatagtGAATCTCCAAGTTCTCAAGGGGGAGTTCGTATGGTCAGGGGACGAGATGGTACTGCTGCTTGTCAGATGTGGACTCTCTGTCATTTATGGGGGCAGTTGAGAGACTTTTATCAGgtcaggccagtatggtgaaatctgagacccagtggcacctagcccagaca Alignment from CESAR t---GCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttatgattaacagaactctgactactgggcagctgatatcccctatagtGAATCTCCAAGTTCTCAAGGGGGAGTTCGTATGGTCAGGGGACGAGATGGTACTGCTGCTTGTCAGATGTGGACTCTCTGTCATTTATGGGGGCAGTTGAGAGACTTTTATCAGgtcaggccagtatggtgaaatctgagacccagtggcacctagcccagaca Alignment from Spaln_aa2Genome T----GCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttatgattaacagaactctgactactgggcagctgatatcccctatagTGAATCTCCAAGTTCTCAAGGGGGAGTTCGTATGGTCAGGGGACGAGATGGTACTGCTGCTTGTCAGATGTGGACTCTCTGTCATTTATGGGGGCAGTTGAGAGACTTTTATCAGgtcaggccagtatggtgaaatctgagacccagtggcacctagcccagaca Alignment from Spaln_nt2Genome TG---CTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttatgattaacagaactctgactactgggcagctgatatcccctatagTGAATCTCCAAGTTCTCAAGGGGGAGTTCGTATGGTCAGGGGACGAGATGGTACTGCTGCTTGTCAGATGTGGACTCTCTGTCATTTATGGGGGCAGTTGAGAGACTTTTATCAGgtcaggccagtatggtgaaatctgagacccagtggcacctagcccagaca Alignment from Pairagon TG---CTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttatgattaacagaactctgactactgggcagctgatatcccctatagTGAATCTCCAAGTTCTCAAGGGGGAGTTCGTATGGTCAGGGGACGAGATGGTACTGCTGCTTGTCAGATGTGGACTCTCTGTCATTTATGGGGGCAGTTGAGAGACTTTTATCAGgtcaggccagtatggtgaaatctgagacccagtggcacctagcccagaca Alignment from Exonerate_protein2genome T---GCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttatgattaacagaactctgactactgggcagctgatatcccctatagTGAATCTCCAAGTTCTCAAGGGGGAGTTCGTATGGTCAGGGGACGAGATGGTACTGCTGCTTGTCAGATGTGGACTCTCTGTCATTTATGGGGGCAGTTGAGAGACTTTTATCAGgtcaggccagtatggtgaaatctgagacccagtggcacctagcccagaca Alignment from Exonerate_coding2genome GCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttatgattaacagaactctgactactgggcagctgatatcccctatagtgaaTCTCCAAGTTCTCAAGGGGGAGTTCGTATGGTCAGGGGACGAGATGGTACTGCTGCTTGTCAGATGTGGACTCTCTGTCATTTATGGGGGCAGTTGAGAGACTTTTATCAGgtcaggccagtatggtgaaatctgagacccagtggcacctagcccagaca Alignment from GeneWise -ATTGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttatgattaacagaactctgactactgggcagctgatatcccctatagTGAATCTCCAAGTTCTCAAGGGGGAGTTCGTATGGTCAGGGGACGAGATGGTACTGCTGCTTGTCAGATGTGGACTCTCTGTCATTTATGGGGGCAGTTGAGAGACTTTTATCAGgtcaggccagtatggtgaaatctgagacccagtggcacctagcccagaca #### Ccdc88b_ID1847_2 --> 0 - 2 Original Alignment GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATC------at ccccggtattgtgtgcttgcttccctactcacccttgactttatttttagGCTTTAGGTTTAGCTGGCCTTGTGGGGGATGCAGAAAAGTCAGCAGGAGGAACTGAAGAGGATGAAGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGATGGAGCTTTACTTCTTCGGGTTTTGGAGATTACTGTCatgtgagggacacagtgaaatttaactatggatgtcggccaagaatggtagg Alignment from CESAR GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATC------at ccccggtattgtgtgcttgcttccctactcacccttgactttatttttagGCTTTAGGTTTAGCTGGCCTTGTGGGGGATGCAGAAAAGTCAGCAGGAGGAACTGAAGAGGATGAAGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGATGGAGCTTTACTTCTTCGGGTTTTGGAGATTACTGTCatgtgagggacacagtgaaatttaactatggatgtcggccaagaatggtagg Alignment from Spaln_aa2Genome GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCATT----- ccccggtattgtgtgcttgcttccctactcacccttgactttatttttagGCTTTAGGTTTAGCTGGCCTTGTGGGGGATGCAGAAAAGTCAGCAGGAGGAACTGAAGAGGATGAAGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGATGGAGCTTTACTTCTTCGGGTTTTGGAGATTACTGTCATgtgagggacacagtgaaatttaactatggatgtcggccaagaatggtagg Alignment from Spaln_nt2Genome GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCAT------CAT ccccggtattgtgtgcttgcttccctactcacccttgactttatttttagGCTTTAGGTTTAGCTGGCCTTGTGGGGGATGCAGAAAAGTCAGCAGGAGGAACTGAAGAGGATGAAGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGATGGAGCTTTACTTCTTCGGGTTTTGGAGATTACTGTCATgtgagggacacagtgaaatttaactatggatgtcggccaagaatggtagg Alignment from Pairagon GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCAT------CAT ccccggtattgtgtgcttgcttccctactcacccttgactttatttttagGCTTTAGGTTTAGCTGGCCTTGTGGGGGATGCAGAAAAGTCAGCAGGAGGAACTGAAGAGGATGAAGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGATGGAGCTTTACTTCTTCGGGTTTTGGAGATTACTGTCATgtgagggacacagtgaaatttaactatggatgtcggccaagaatggtagg Alignment from Exonerate_protein2genome GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATC------AT ccccggtattgtgtgcttgcttccctactcacccttgactttatttttagGCTTTAGGTTTAGCTGGCCTTGTGGGGGATGCAGAAAAGTCAGCAGGAGGAACTGAAGAGGATGAAGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGATGGAGCTTTACTTCTTCGGGTTTTGGAGATTACTGTCATgtgagggacacagtgaaatttaactatggatgtcggccaagaatggtagg Alignment from Exonerate_coding2genome ccccggtattgtgtgcttgcttccctactcacccttgactttatttttaggctttaggtttagctggccttgtgggggatgcagaaaagtcagcaggaggaactgaagaggatgaagaggaagaggaggaagaaggagccctttgtacagaaaaaagatccctacggttgattgatggagctttacttcttcgggttttggagattactgtcatgtgagggacacagtgaaatttaactatggatgtcggccaagaatggtagg Alignment from GeneWise GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCATTGCT-- ccccggtattgtgtgcttgcttccctactcacccttgactttatttttagGCTTTAGGTTTAGCTGGCCTTGTGGGGGATGCAGAAAAGTCAGCAGGAGGAACTGAAGAGGATGAAGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGATGGAGCTTTACTTCTTCGGGTTTTGGAGATTACTGTCATgtgagggacacagtgaaatttaactatggatgtcggccaagaatggtagg #### Ccnj_ID8043_4 --> 2 - 2 Original Alignment at---------TATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGct tgcctaattaagtgttcaatactgtaggagtgccacaccctcccctccagatACCAACATCTATGCATTTCTCAATTATGCACCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGctgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag Alignment from CESAR at---------TATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGct tgcctaattaagtgttcaatactgtaggagtgccacaccctcccctccagatACCAACATCTATGCATTTCTCAATTATGCACCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGctgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag Alignment from Spaln_aa2Genome AT---------TATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tgcctaattaagtgttcaatactgtaggagtgccacaccctcccctccagATACCAACATCTATGCATTTCTCAATTATGCACCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag Alignment from Spaln_nt2Genome AT---------TATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tgcctaattaagtgttcaatactgtaggagtgccacaccctcccctccagATACCAACATCTATGCATTTCTCAATTATGCACCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag Alignment from Pairagon AT---------TATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tgcctaattaagtgttcaatactgtaggagtgccacaccctcccctccagATACCAACATCTATGCATTTCTCAATTATGCACCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag Alignment from Exonerate_protein2genome AT---------TATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tgcctaattaagtgttcaatactgtaggagtgccacaccctcccctccagATACCAACATCTATGCATTTCTCAATTATGCACCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag Alignment from Exonerate_coding2genome AT---------TATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tgcctaattaagtgttcaatactgtaggagtgccacaccctcccctccagATACCAACATCTATGCATTTCTCAATTATGCACCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag Alignment from GeneWise --------GATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tgcctaattaagtgttcaatactgtaggagtgccacaccctcccctccagATACCAACATCTATGCATTTCTCAATTATGCACCCTCCTTAATAGCTGCCGCATGTGTGGCCTTTTCCAGGATTATACTTCGACTGTCTCCAACCTGGCCTACAAGACTACACTGTTTCACTGCATACTCCTGGGCCTTCTTGGTTCAGTGTATGGAATGGTTATTGCTgtgagtagagcctcataattgaaatcagactgctggaagcagctatgcag #### Ccs_ID661_7 --> 0 - 2 Original Alignment GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGag gTTGGCCT gcacatatgcaaggcagatgaagctgacgacctctgccaactctattcagGTTTGGGATGTGATTGCCCGCACCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCTGGGGAGGCCACCCTTTATCCAAGATTACTGGGAATTTG------aggtaaccgacagccatataacgtttttttttctccctgttcagaCTATCAT Alignment from CESAR GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGag gTTGGCCT gcacatatgcaaggcagatgaagctgacgacctctgccaactctattcagGTTTGGGATGTGATTGCCCGCACCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCTGGGGAGGCCACCCTTTATCCAAGATTACTGGGAATTTG------aggtaaccgacagccatatcaatgcacatgtttcctccttctagaCTATCAT Alignment from Spaln_aa2Genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGG GAAGAGGT gcacatatgcaaggcagatgaagctgacgacctctgccaactctattcagGTTTGGGATGTGATTGCCCGCACCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCTGGGGAGGCCACCCTTTATCCAAGATTACTGGGAATTTGAGgtaaccgacagccatataacgtttttttttctccctgttcagA------C Alignment from Spaln_nt2Genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG GTTGGCCT gcacatatgcaaggcagatgaagctgacgacctctgccaactctattcagGTTTGGGATGTGATTGCCCGCACCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCTGGGGAGGCCACCCTTTATCCAAGATTACTGGGAATT------TGAGgtaaccgacagccatataacgtttttttttctccctgttcagACTATCAT Alignment from Pairagon GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAGGT------------------------------------------TGGCCT gcacatatgcaaggcagatgaagctgacgacctctgccaactctattcagGTTTGGGATGTGATTGCCCGCACCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCTGGGGAGGCCACCCTTTATCCAAGATTACTGGGAATTT------GAGGTAACCGACAGCCATATAACGTTTTTTTTTCTCCCTGTTCAGACTATCAT Alignment from Exonerate_protein2genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGG GAAGAGGTTGGCCT gcacatatgcaaggcagatgaagctgacgacctctgccaactctattcagGTTTGGGATGTGATTGCCCGCACCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCTGGGGAGGCCACCCTTTATCCAAGATTACTGGGAATTTGAGgtaaccgacagccatataacgtttttttttctccctGTTCAGACTATCAT Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGG GAAGAGGT gcacatatgcaaggcagatgaagctgacgacctctgccaactctattcagGTTTGGGATGTGATTGCCCGCACCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCTGGGGAGGCCACCCTTTATCCAAGATTACTGGGAATTTGAGgtaaccgacagccatataacgtttttttttctccctgttcagA------C #### Cd274_ID6274_5 --> 2 - 1 Original Alignment tgAGAATGCTAGATGTGGAGAAATGTGGCGTTGAAGATACAAGCTCAAAAAACCGAAATg tgtccttactaacattctaactcaccttggcggaaactctgtctccatagtg---ATGCTGGAT---GAGAAATGCAGTGTTGAGCATACAAGCTCAAAAAACCGGAATggtattgggatcaatgtacggaaattttggtgaccattataaaccagatta Alignment from CESAR tgAGAATGCTAGATGTGGAGAAATGTGGCGTTGAAGATACAAGCTCAAAAAACCGAAATg gtttgtccttactaacattctaactcttggcggaaactctgtctccatagtg---ATGCTGGAT---GAGAAATGCAGTGTTGAGCATACAAGCTCAAAAAACCGGAATggtattgggatcaatgtacggaaattttggtgaccattataaaccagatta Alignment from Spaln_aa2Genome TGAGAATGCTAGATGTGGAGAAATGTGGCGTTGAAGATACAAGCTCAAAAAACCGAAATG tgtccttactaacattctaactcaccttggcggaaactctgtctccatagTG---ATGCTGGAT---GAGAAATGCAGTGTTGAGCATACAAGCTCAAAAAACCGGAATGgtattgggatcaatgtacggaaattttggtgaccattataaaccagatta Alignment from Spaln_nt2Genome TGAGAATGCTAGATGTGGAGAAATGTGGCGTTGAAGATACAAGCTCAAAAAACCGAAATG tgtccttactaacattctaactcaccttggcggaaactctgtctccatagTG---ATGCTGGAT---GAGAAATGCAGTGTTGAGCATACAAGCTCAAAAAACCGGAATGgtattgggatcaatgtacggaaattttggtgaccattataaaccagatta Alignment from Pairagon TGAGAATGCTAGATGTGGAGAAATGTGGCGTTGAAGATACAAGCTCAAAAAACCGAAATG tgtccttactaacattctaactcaccttggcggaaactctgtctccatagTG---ATGCTGGAT---GAGAAATGCAGTGTTGAGCATACAAGCTCAAAAAACCGGAATGgtattgggatcaatgtacggaaattttggtgaccattataaaccagatta Alignment from Exonerate_protein2genome TGAGAATGCTAGATGTGGAGAAATGTGGCGTTGAAGATACAAGCTCAAAAAACCGAAAT tgtccttactaacattctaactcaccttggcggaaactctgtctccatagTG---ATGCTGGAT---GAGAAATGCAGTGTTGAGCATACAAGCTCAAAAAACCGGAATggtattgggatcaatgtacggaaattttggtgaccattataaaccagatta Alignment from Exonerate_coding2genome tgtccttactaacattctaactcaccttggcggaaactctgtctccatagtgatgctggatgagaaatgcagtgttgagcatacaagctcaaaaaaccggaatggtattgggatcaatgtacggaaattttggtgaccattataaaccagatta Alignment from GeneWise tgtccttactaacattctaactcaccttggcggaaactctgtctccatagtgatgctggatgagaaatgcagtgttgagcatacaagctcaaaaaaccggaatggtattgggatcaatgtacggaaattttggtgaccattataaaccagatta #### Cd5_ID2994_4 --> 2 - 1 Original Alignment GAGCCTGATCTGCCTAg agCCCCAGAGAACGACACCTCCACCCACAACCACCCCACCCACCACCGTGCCGGAGCCCACAg GAGCCTGAGCTGCCTAggtaagtaggttatactcttgtctctctccacagaa---CAGAGAACAGCTCCTCCACCCACAACTGCTCCATCCACCACTGTACCGGAACCCACAggtaggctgatgcacaacaggaaaacaaagtagagaattatgttgatataa Alignment from CESAR GAGCCTGATCTGCCTAg agCCCCAGAGAACGACACCTCCACCCACAACCACCCCACCCACCACCGTGCCGGAGCCCACAg GAGCCTGAGCTGCCTAggtgagggagttatactcttgtctctctccacagaa---CAGAGAACAGCTCCTCCACCCACAACTGCTCCATCCACCACTGTACCGGAACCCACAggtaggctgatgcacaacaggaaaacaaagtagagaattatgttgatataa Alignment from Spaln_aa2Genome GAGCCTGATCTGCCTAG AGCCCCAGAGAACGACACCTCCACCCACAACCACCCCACCCACCACCGTGCCGGAGCCCACAG GAGCCTGAGCTGCCTAGgtaagtaggttatactcttgtctctctccacagAA---CAGAGAACAGCTCCTCCACCCACAACTGCTCCATCCACCACTGTACCGGAACCCACAGgtaggctgatgcacaacaggaaaacaaagtagagaattatgttgatataa Alignment from Spaln_nt2Genome GAGCCTGATCTGCCTAG AGCCCCAGAGAACGACACCTCCACCCACAACCACCCCACCCACCACCGTGCCGGAGCCCACAG GAGCCTGAGCTGCCTAGgtaagtaggttatactcttgtctctctccacagA---ACAGAGAACAGCTCCTCCACCCACAACTGCTCCATCCACCACTGTACCGGAACCCACAGgtaggctgatgcacaacaggaaaacaaagtagagaattatgttgatataa Alignment from Pairagon GAGCCTGATCTGCCTAG AGCCCCAGAGAACGACACCTCCACCCACAACCACCCCACCCACCACCGTGCCGGAGCCCACAG GAGCCTGAGCTGCCTAGgtaagtaggttatactcttgtctctctccacagAA---CAGAGAACAGCTCCTCCACCCACAACTGCTCCATCCACCACTGTACCGGAACCCACAGgtaggctgatgcacaacaggaaaacaaagtagagaattatgttgatataa Alignment from Exonerate_protein2genome GAGCCTGATCTGCCTAG AGCCCCAGAGAACGACACCTCCACCCACAACCACCCCACCCACCACCGTGCCGGAGCCCACAG GAGCCTGAGCTGCCTAGgtaagtaggttatactcttgtctctctccacagAA---CAGAGAACAGCTCCTCCACCCACAACTGCTCCATCCACCACTGTACCGGAACCCACAGgtaggctgatgcacaacaggaaaacaaagtagagaattatgttgatataa Alignment from Exonerate_coding2genome GAGCCTGATCTGCCTAG AGCCCCAGAGAACGACACCTCCACCCACAACCACCCCACCCACCACCGTGCCGGAGCCCACAG GAGCCTGAGCTGCCTAGgtaagtaggttatactcttgtctctctccacagAA---CAGAGAACAGCTCCTCCACCCACAACTGCTCCATCCACCACTGTACCGGAACCCACAGgtaggctgatgcacaacaggaaaacaaagtagagaattatgttgatataa Alignment from GeneWise GAGCCTGATCTGCCTAG AGCCCCAGAGAACGACACCTCCACCCACAACCACCCCACCCACCACCGTGCCGGAGCCCACAG GAGCCTGAGCTGCCTAGgtaagtaggttatactcttgtctctctccacagAA---CAGAGAACAGCTCCTCCACCCACAACTGCTCCATCCACCACTGTACCGGAACCCACAGgtaggctgatgcacaacaggaaaacaaagtagagaattatgttgatataa #### Cdc42bpg_ID1573_3 --> 0 - 0 Original Alignment ---GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttgatccttctgtgagtccagtcacattctgatgtgctccctgatggcagCGCGTTATTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagctggcacaaatgtaaaatctatccccttttttttctttttggtat Alignment from CESAR ---GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttgatccttctgtgagtccagtcacattctgatgtgctccctgatggcagCGCGTTATTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagctggcacaaatgtaaaatctatcccattattctctgctcccctgc Alignment from Spaln_aa2Genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG A ttgatccttctgtgagtccagtcacattctgatgtgctccctgatggcagCGCGTTATTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagctggcacaaatgtaaaatctatccccttttttttctttttggtat Alignment from Spaln_nt2Genome ---GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttgatccttctgtgagtccagtcacattctgatgtgctccctgatggcagCGCGTTATTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagctggcacaaatgtaaaatctatccccttttttttctttttggtat Alignment from Pairagon -----------------------------------------------------GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG TTGATCCTTCTGTGAGTCCAGTCACATTCTGATGTGCTCCCTGATGGCAGCGCGTTATTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagctggcacaaatgtaaaatctatccccttttttttctttttggtat Alignment from Exonerate_protein2genome ---GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttgatccttctgtgagtccagtcacattctgatgtgctccctgatggcagCGCGTTATTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagctggcacaaatgtaaaatctatccccttttttttctttttggtat Alignment from Exonerate_coding2genome ---GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttgatccttctgtgagtccagtcacattctgatgtgctccctgatggcagCGCGTTATTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagctggcacaaatgtaaaatctatccccttttttttctttttggtat Alignment from GeneWise ---GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttgatccttctgtgagtccagtcacattctgatgtgctccctgatggcagCGCGTTATTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagctggcacaaatgtaaaatctatccccttttttttctttttggtat #### Cdc42bpg_ID1574_4 --> 0 - 0 Original Alignment ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aatatggcacaaatgtaaaatctatcccattattctctgctcccctgcagACAACCTGTCTCCGAGAGGAGCGAGATGTTTTAGTGAAGGGAGACCATTGTTGGGTGACAGCTTTACATTACTCATTCCAGGACGAG---------gtaaggtgccccccagggcctatgtcacaggggggtcaccctgacagcgc Alignment from CESAR ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aagctggcacaaatgtaaaatctatcccattattctctgctcccctgcagACAACCTGTCTCCGAGAGGAGCGAGATGTTTTAGTGAAGGGAGACCATTGTTGGGTGACAGCTTTACATTACTCATTCCAGGACGAG---------gtaaggtgccccccagggcctatgtcacaggggggtcaccc Alignment from Spaln_aa2Genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAA aatatggcacaaatgtaaaatctatcccattattctctgctcccctgcagACAACCTGTCTCCGAGAGGAGCGAGATGTTTTAGTGAAGGGAGACCATTGTTGGGTGACAGCTTTACATTACTCATTCCAGGACGAGgtaaggtgccccccagggcctatgtcacaggggggtcaccctgacagcgc Alignment from Spaln_nt2Genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAA aatatggcacaaatgtaaaatctatcccattattctctgctcccctgcagACAACCTGTCTCCGAGAGGAGCGAGATGTTTTAGTGAAGGGAGACCATTGTTGGGTGACAGCTTTACATTACTCATTCCAGGACGAGgtaaggtgccccccagggcctatgtcacaggggggtcaccctgacagcgc Alignment from Pairagon ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aatatggcacaaatgtaaaatctatcccattattctctgctcccctgcagACAACCTGTCTCCGAGAGGAGCGAGATGTTTTAGTGAAGGGAGACCATTGTTGGGTGACAGCTTTACATTACTCATTCCAGGACGA---------Ggtaaggtgccccccagggcctatgtcacaggggggtcaccctgacagcgc Alignment from Exonerate_protein2genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAA aatatggcacaaatgtaaaatctatcccattattctctgctcccctgcagACAACCTGTCTCCGAGAGGAGCGAGATGTTTTAGTGAAGGGAGACCATTGTTGGGTGACAGCTTTACATTACTCATTCCAGGACGAGgtaaggtgccccccagggcctatgtcacaggggggtcaccctgacagcgc Alignment from Exonerate_coding2genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAA aatatggcacaaatgtaaaatctatcccattattctctgctcccctgcagACAACCTGTCTCCGAGAGGAGCGAGATGTTTTAGTGAAGGGAGACCATTGTTGGGTGACAGCTTTACATTACTCATTCCAGGACGAGgtaaggtgccccccagggcctatgtcacaggggggtcaccctgacagcgc Alignment from GeneWise ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aatatggcacaaatgtaaaatctatcccattattctctgctcccctgcagACAACCTGTCTCCGAGAGGAGCGAGATGTTTTAGTGAAGGGAGACCATTGTTGGGTGACAGCTTTACATTACTCATTCCAGGAC---------GAGgtaaggtgccccccagggcctatgtcacaggggggtcaccctgacagcgc #### Cdc42bpg_ID1575_5 --> 0 - 2 Original Alignment TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTC---ACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGC------------TATGTCCACag tgcaatcacacttctggttggatagctaaacaccacatgctttgttccagTACCTGCTGATGGATTTTTATGCTGGTGGTGATCTTCTAAAAAAATTACTGAGCTGCTTTGAAGACCGGCTCCCGCCTGAGCTAGCTCAAATATATTTGGCTGAGATGGTGTTGGCTATTCACTCCCTGCACCAGCTAGGCTATGCCCACAGC---------aggtatgtaagtacttcctactaggggtgtgttgttgaggtactgggatcat Alignment from CESAR TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTC---ACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCAC---ag tgcaatcacacttctggttggatagctaaacaccacatgctttgttccagTACCTGCTGATGGATTTTTATGCTGGTGGTGATCTTCTAAAAAAATTACTGAGCTGCTTTGAAGACCGGCTCCCGCCTGAGCTAGCTCAAATATATTTGGCTGAGATGGTGTTGGCTATTCACTCCCTGCACCAGCTAGGCTATGCCCACAGCaggtatgtaagtacttcctactaggggtgtgttgttgaggtactgggatcat Alignment from Spaln_aa2Genome TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTC---ACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACAGG-- tgcaatcacacttctggttggatagctaaacaccacatgctttgttccagTACCTGCTGATGGATTTTTATGCTGGTGGTGATCTTCTAAAAAAATTACTGAGCTGCTTTGAAGACCGGCTCCCGCCTGAGCTAGCTCAAATATATTTGGCTGAGATGGTGTTGGCTATTCACTCCCTGCACCAGCTAGGCTATGCCCACAGCAGgtatgtaagtacttcctactaggggtgtgttgttgaggtactgggatcat Alignment from Spaln_nt2Genome TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACGC---TGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACAGG-- tgcaatcacacttctggttggatagctaaacaccacatgctttgttccagTACCTGCTGATGGATTTTTATGCTGGTGGTGATCTTCTAAAAAAATTACTGAGCTGCTTTGAAGACCGGCTCCCGCCTGAGCTAGCTCAAATATATTTGGCTGAGATGGTGTTGGCTATTCACTCCCTGCACCAGCTAGGCTATGCCCACAGCAGgtatgtaagtacttcctactaggggtgtgttgttgaggtactgggatcat Alignment from Pairagon TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCT----------CACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACAG------- tgcaatcacacttctggttggatagctaaacaccacatgctttgttccagTACCTGCTGATGGATTTTTATGCTGGTGGTGATCTTCTAAAAAAATTAC-------TGAGCTGCTTTGAAGACCGGCTCCCGCCTGAGCTAGCTCAAATATATTTGGCTGAGATGGTGTTGGCTATTCACTCCCTGCACCAGCTAGGCTATGCCCACAGCAGGTATgtaagtacttcctactaggggtgtgttgttgaggtactgggatcat Alignment from Exonerate_protein2genome TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTC---ACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCAC---AG tgcaatcacacttctggttggatagctaaacaccacatgctttgttccagTACCTGCTGATGGATTTTTATGCTGGTGGTGATCTTCTAAAAAAATTACTGAGCTGCTTTGAAGACCGGCTCCCGCCTGAGCTAGCTCAAATATATTTGGCTGAGATGGTGTTGGCTATTCACTCCCTGCACCAGCTAGGCTATGCCCACAGCAGgtatgtaagtacttcctactaggggtgtgttgttgaggtactgggatcat Alignment from Exonerate_coding2genome TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTC---ACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCAC---AG tgcaatcacacttctggttggatagctaaacaccacatgctttgttccagTACCTGCTGATGGATTTTTATGCTGGTGGTGATCTTCTAAAAAAATTACTGAGCTGCTTTGAAGACCGGCTCCCGCCTGAGCTAGCTCAAATATATTTGGCTGAGATGGTGTTGGCTATTCACTCCCTGCACCAGCTAGGCTATGCCCACAGCAGgtatgtaagtacttcctactaggggtgtgttgttgaggtactgggatcat Alignment from GeneWise TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACG---CTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACAGG-- tgcaatcacacttctggttggatagctaaacaccacatgctttgttccagTACCTGCTGATGGATTTTTATGCTGGTGGTGATCTTCTAAAAAAATTACTGAGCTGCTTTGAAGACCGGCTCCCGCCTGAGCTAGCTCAAATATATTTGGCTGAGATGGTGTTGGCTATTCACTCCCTGCACCAGCTAGGCTATGCCCACAGCAGgtatgtaagtacttcctactaggggtgtgttgttgaggtactgggatcat #### Cdc42bpg_ID1576_6 --> 1 - 0 Original Alignment gGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG acacatacttacaccaaagaactagcttacttagattttctttcctataga------GAGCCAGACAATGTTCTA---AGCATGAATGGGCAT---TGCTTGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg Alignment from CESAR gGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacttacaccaaagcttacttagattttctttcctatagaGAG------CCAGACAATGTT---CTAAGCATGAATGGGCAT---TGCTTGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg Alignment from Spaln_aa2Genome -AAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG acacatacttacaccaaagaactagcttacttagattttctttcctatagAGAGCCAGACAATGTT---CTAAGCATGAATGGGCAT---TGCTTGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg Alignment from Spaln_nt2Genome TGA--CA-ACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG acacatacttacaccaaagaactagcttacttagattttctttcctatagAGAGCCAGACAATGTTCTAAGCATGAATGGGCA---TTGCTTGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg Alignment from Pairagon ATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG acacatacttacaccaaagaactagcttacttagattttctttcctatagagagccagacaatgttctaag----------------------------CATGAATGGGCA---TTGCTTGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg Alignment from Exonerate_protein2genome GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG acacatacttacaccaaagaactagcttacttagattttctttcctatagAGAG------CCAGACAATGTT---CTAAGCATGAATGGGCATTGC---TTGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg Alignment from Exonerate_coding2genome GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG acacatacttacaccaaagaactagcttacttagattttctttcctatagAGAG------CCAGACAATGTT---CTAAGCATGAATGGGCATTGC---TTGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg Alignment from GeneWise ----CCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG acacatacttacaccaaagaactagcttacttagattttctttcctatagAGAGCCAGACAATGTTCTA---AGCATGAATGGGCATTGC---TTGGCTGACTTTGGCACCTGCCTATGCCTCAACATCAATGCCAAGgtgtgaaaaccacctagaaattcgtagataagtataaagacatttagttg #### Cdc42bpg_ID1578_8 --> 0 - 0 Original Alignment GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGC---gtaaggaggtgcagagactgtaattagacacattctttcacctaaaagaa Alignment from CESAR GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGC---gtaaggaggtgcagagactgtaattagacacattctttcacctaaaa Alignment from Spaln_aa2Genome GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGT ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGCgtaaggaggtgcagagactgtaattagacacattctttcacctaaaagaa Alignment from Spaln_nt2Genome GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGT ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGCgtaaggaggtgcagagactgtaattagacacattctttcacctaaaagaa Alignment from Pairagon GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGT ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGCgtaaggaggtgcagagactgtaattagacacattctttcacctaaaagaa Alignment from Exonerate_protein2genome GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGT ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGCgtaaggaggtgcagagactgtaattagacacattctttcacctaaaagaa Alignment from Exonerate_coding2genome GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCAGAGAC ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGCGTAAGGAGgtgcagagactgtaattagacacattctttcacctaaaagaa Alignment from GeneWise GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGT ggtcatctttgtagttaggtccctccattccatgctttatcttgttaaagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGAGATCTGATCTGCCAGCTGTTATGCCGTCAAGAGGAGCAGCTAAGCCGTGGTGGGCTGGATGACTTCCACAAGCATGCTTTCTTCGAGGGGGTAGACTGGGAGAGACTCACAACCAGCACAGCACCATACATCCCTGAGCTTCGAGGCCCAATGGACACTTCCAACTTTGATGTGGATGATGACACCCTCAACCGCgtaaggaggtgcagagactgtaattagacacattctttcacctaaaagaa #### Cdc42bpg_ID1581_11 --> 2 - 1 Original Alignment ag---------CCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAg cctcttggttctgggtactacaatcgtgcacattttgctttccgttgcagatTCTCCGGATCATCTTCATGGTCCACTACAACCACAGGGGTTAGTACATCTTCATAAAGAGGTTCAGGTTCTTCAGGAGAAACTGACAggtgagtctggtcagctattagaggtggctgggttccttgtcatgtcccag Alignment from CESAR agCCC---------CTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAg cctcttggttctgggtactacaatcgtgcacattttgctttccgttgcagatTCTCCGGATCATCTTCATGGTCCACTACAACCACAGGGGTTAGTACATCTTCATAAAGAGGTTCAGGTTCTTCAGGAGAAACTGACAggtgagtctggtcagctattagaggtggctgggttccttgtcatgtcccag Alignment from Spaln_aa2Genome AGCCC---------CTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG cctcttggttctgggtactacaatcgtgcacattttgctttccgttgcagATTCTCCGGATCATCTTCATGGTCCACTACAACCACAGGGGTTAGTACATCTTCATAAAGAGGTTCAGGTTCTTCAGGAGAAACTGACAGgtgagtctggtcagctattagaggtggctgggttccttgtcatgtcccag Alignment from Spaln_nt2Genome AGCCCCTG---------CATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG cctcttggttctgggtactacaatcgtgcacattttgctttccgttgcagATTCTCCGGATCATCTTCATGGTCCACTACAACCACAGGGGTTAGTACATCTTCATAAAGAGGTTCAGGTTCTTCAGGAGAAACTGACAGgtgagtctggtcagctattagaggtggctgggttccttgtcatgtcccag Alignment from Pairagon ----------------------------------------------------------GAGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG CCTCTTGGTTCTGGGTACTACAATCGTGCACATTTTGCTTTCCGTTGCAGATTCTCCGGATCATCTTCATGGTCCACTACAACCACAGGGGTTAGTACATCTTCATAAAGAGGTTCAGGTTCTTCAGGAGAAACTGACAGgtgagtctggtcagctattagaggtggctgggttccttgtcatgtcccag Alignment from Exonerate_protein2genome AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG cctcttggttctgggtactacaatcgtgcacattttgctttccgttgcagattctccggATCATCTTCATGGTCCACTACAACCACAGGGGTTAGTACATCTTCATAAAGAGGTTCAGGTTCTTCAGGAGAAACTGACAGgtgagtctggtcagctattagaggtggctgggttccttgtcatgtcccag Alignment from Exonerate_coding2genome AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG cctcttggttctgggtactacaatcgtgcacattttgctttccgttgcagattctccggATCATCTTCATGGTCCACTACAACCACAGGGGTTAGTACATCTTCATAAAGAGGTTCAGGTTCTTCAGGAGAAACTGACAGgtgagtctggtcagctattagaggtggctgggttccttgtcatgtcccag Alignment from GeneWise --------GAGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG cctcttggttctgggtactacaatcgtgcacattttgctttccgttgcagATTCTCCGGATCATCTTCATGGTCCACTACAACCACAGGGGTTAGTACATCTTCATAAAGAGGTTCAGGTTCTTCAGGAGAAACTGACAGgtgagtctggtcagctattagaggtggctgggttccttgtcatgtcccag #### Cdc42bpg_ID1582_12 --> 2 - 0 Original Alignment agACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG gtggggagtgattgcaactccacttctgttgctttctgttttcctaatagag---------GACAGTGAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATTCAGTTACAGCAGGAGAAGGATCGCCTTCAACAGgtatggattgtgatgggaattatacagtgtgtcatttgtttatataaacc Alignment from CESAR agACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG gctgacagagtggggagtgattgcactgttgctttctgttttcctaatagag---------GACAGTGAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATTCAGTTACAGCAGGAGAAGGATCGCCTTCAACAGgtatggattgtgatgggaattatacagtgtgtcatttgtttatataaacc Alignment from Spaln_aa2Genome GACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG gtggggagtgattgcaactccacttctgttgctttctgttttcctaatagagGACAGTGAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATTCAGTTACAGCAGGAGAAGGATCGCCTTCAACAGgtatggattgtgatgggaattatacagtgtgtcatttgtttatataaacc Alignment from Spaln_nt2Genome GGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG gtggggagtgattgcaactccacttctgttgctttctgttttcctaatagAGGACAGTGAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATTCAGTTACAGCAGGAGAAGGATCGCCTTCAACAGgtatggattgtgatgggaattatacagtgtgtcatttgtttatataaacc Alignment from Pairagon AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG gtggggagtgattgcaactccacttctgttgctttctgttttcctaatagA---------GGACAGTGAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATTCAGTTACAGCAGGAGAAGGATCGCCTTCAACAGgtatggattgtgatgggaattatacagtgtgtcatttgtttatataaacc Alignment from Exonerate_protein2genome GGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG gtggggagtgattgcaactccacttctgttgctttctgttttcctaatagAGGACAGTGAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATTCAGTTACAGCAGGAGAAGGATCGCCTTCAACAGgtatggattgtgatgggaattatacagtgtgtcatttgtttatataaacc Alignment from Exonerate_coding2genome GGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG gtggggagtgattgcaactccacttctgttgctttctgttttcctaatagAGGACAGTGAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATTCAGTTACAGCAGGAGAAGGATCGCCTTCAACAGgtatggattgtgatgggaattatacagtgtgtcatttgtttatataaacc Alignment from GeneWise ---AGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG gtggggagtgattgcaactccacttctgttgctttctgttttcctaatagagGACAGTGAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATTCAGTTACAGCAGGAGAAGGATCGCCTTCAACAGgtatggattgtgatgggaattatacagtgtgtcatttgtttatataaacc #### Cdc42bpg_ID1584_14 --> 0 - 0 Original Alignment ---------CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAATCTTCACAGGCCAAG gagctaagaaaatcatggtggtatcttctcaatatctgtgtttctcccagTACTATTGGCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCGGTGTAAAGAAGAATCTTCA---GCAAAGgtaggtatggtgggtggtcttaatacagcagttgcctacctaaaaacctt Alignment from CESAR ---------CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAATCTTCACAGGCCAAG gagctaagaaaatcatggtggtatcttctcaatatctgtgtttctcccagTACTATTGGCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCGGTGTAAAGAAGAATCTTCA---GCAAAGgtaggtatggtgggtggtcttaatacagcagttgcctacctaaaaacctt Alignment from Spaln_aa2Genome CTCGAAGGCCAG---------GTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAATCTTCACAGGCCAAG gagctaagaaaatcatggtggtatcttctcaatatctgtgtttctcccagTACTATTGGCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCGGTGTAAAGAAGAATCTTCA---GCAAAGgtaggtatggtgggtggtcttaatacagcagttgcctacctaaaaacctt Alignment from Spaln_nt2Genome ---------CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAATCTTCACAGGCCAAG gagctaagaaaatcatggtggtatcttctcaatatctgtgtttctcccagTACTATTGGCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCGGTGTAAAGAAGAATCTTCA---GCAAAGgtaggtatggtgggtggtcttaatacagcagttgcctacctaaaaacctt Alignment from Pairagon ---------CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAATCTTCACAGGCCAAG gagctaagaaaatcatggtggtatcttctcaatatctgtgtttctcccagTACTATTGGCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCGGTGTAAAGAAGAATCTTCA---GCAAAGgtaggtatggtgggtggtcttaatacagcagttgcctacctaaaaacctt Alignment from Exonerate_protein2genome CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAATCTTCACAGGCCAAG gagctaagaaaatcatggtggtatcttctcaatatctgtgtttctcccagtactattggCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCGGTGTAAAGAAGAATCTTCA---GCAAAGgtaggtatggtgggtggtcttaatacagcagttgcctacctaaaaacctt Alignment from Exonerate_coding2genome CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAATCTTCACAGGCCAAG gagctaagaaaatcatggtggtatcttctcaatatctgtgtttctcccagtactattggCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCGGTGTAAAGAAGAATCTTCA---GCAAAGgtaggtatggtgggtggtcttaatacagcagttgcctacctaaaaacctt Alignment from GeneWise ---------CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAATCTTCACAGGCCAAG gagctaagaaaatcatggtggtatcttctcaatatctgtgtttctcccagTACTATTGGCTTGAAGGACAGGTGACAACCCTAAGTGATGTGGTGACTCGGCTCCAGGGTCGGTGTAAAGAAGAATCTTCA---GCAAAGgtaggtatggtgggtggtcttaatacagcagttgcctacctaaaaacctt #### Cdc42bpg_ID1585_15 --> 0 - 2 Original Alignment ------------------------------ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAgg acaggcctgacttctcacaccagaccctgtgactggatgcctgtctgtagGGTAAAAGCAGAAATGCCTCTGCAGGCCCCACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAAGAAACTCAACTGAGGAAGGAAGTAGTAGGCCTAAGGGAGCAACTGGTGCATGCCTGCAGCCAAgggtaagtgcatggtacttgctgtcaggaattggcaaaatattactctttgc Alignment from CESAR aagtgtaagtctcatagccagaaggaaaactagcctaggtaaggaagaagg Alignment from Spaln_aa2Genome CCAAGACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG acaggcctgacttctcacaccagaccctgtgactggatgcctgtctgtagggtaaaagcagaaatgcctctgcagGCCCCACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAAGAAACTCAACTGAGGAAGGAAGTAGTAGGCCTAAGGGAGCAACTGGTGCATGCCTGCAGCCAAGGgtaagtgcatggtacttgctgtcaggaattggcaaaatattactctttgc Alignment from Spaln_nt2Genome CCAAGACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG acaggcctgacttctcacaccagaccctgtgactggatgcctgtctgtagggtaaaagcagaaatgcctctgcagGCCCCACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAAGAAACTCAACTGAGGAAGGAAGTAGTAGGCCTAAGGGAGCAACTGGTGCATGCCTGCAGCCAAGGgtaagtgcatggtacttgctgtcaggaattggcaaaatattactctttgc Alignment from Pairagon -----ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG acaggcctgacttctcacaccagaccctgtgactggatgcctgtctgtagggtaaaagcagaaatgcctctgcagGCCCCACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAAGAAACTCAACTGAGGAAGGAAGTAGTAGGCCTAAGGGAGCAACTGGTGCATGCCTGCAGCCAAGGgtaagtgcatggtacttgctgtcaggaattggcaaaatattactctttgc Alignment from Exonerate_protein2genome CCAAGACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG acaggcctgacttctcacaccagaccctgtgactggatgcctgtctgtagggtaaaagcagaaatgcctctgcagGCCCCACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAAGAAACTCAACTGAGGAAGGAAGTAGTAGGCCTAAGGGAGCAACTGGTGCATGCCTGCAGCCAAGGgtaagtgcatggtacttgctgtcaggaattggcaaaatattactctttgc Alignment from Exonerate_coding2genome CCAAGACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG acaggcctgacttctcacaccagaccctgtgactggatgcctgtctgtagggtaaaagcagaaatgcctctgcagGCCCCACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAAGAAACTCAACTGAGGAAGGAAGTAGTAGGCCTAAGGGAGCAACTGGTGCATGCCTGCAGCCAAGGgtaagtgcatggtacttgctgtcaggaattggcaaaatattactctttgc Alignment from GeneWise -----ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG acaggcctgacttctcacaccagaccctgtgactggatgcctgtctgtagggtaaaagcagaaatgcctctgcagGCCCCACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGACTCCTGAGGGTCAGTCTCAAGAAACTCAACTGAGGAAGGAAGTAGTAGGCCTAAGGGAGCAACTGGTGCATGCCTGCAGCCAAGGgtaagtgcatggtacttgctgtcaggaattggcaaaatattactctttgc #### Cdc42bpg_ID1586_16 --> 1 - 0 Original Alignment gATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG------ gtacttgctgtcaggaattggcaaaatactcacaccctctctgctcctaggATCAGTGTTGGTAAAATGGAGGTTCTATGCCATCTACAGGCAGTGAACCAGCAGCTGAGTCGAGAACAGGAGTGGGACAACgtaagcatgaagtatgacaaagccagggttgccgccagctggcttgggtt Alignment from CESAR gATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG------ gtacttgctgtcaggaattggcaaaatactcacaccctctctgctcctaggATCAGTGTTGGTAAAATGGAGGTTCTATGCCATCTACAGGCAGTGAACCAGCAGCTGAGTCGAGAACAGGAGTGGGACAACgtaagcatgaagtatgacaaagccagggttgccgccagctggcttgggtt Alignment from Spaln_aa2Genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG------ gtacttgctgtcaggaattggcaaaatactcacaccctctctgctcctagGATCAGTGTTGGTAAAATGGAGGTTCTATGCCATCTACAGGCAGTGAACCAGCAGCTGAGTCGAGAACAGGAGTGGGACAACgtaagcatgaagtatgacaaagccagggttgccgccagctggcttgggtt Alignment from Spaln_nt2Genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGGC----- gtacttgctgtcaggaattggcaaaatactcacaccctctctgctcctagGATCAGTGTTGGTAAAATGGAGGTTCTATGCCATCTACAGGCAGTGAACCAGCAGCTGAGTCGAGAACAGGAGTGGGACAACgtaagcatgaagtatgacaaagccagggttgccgccagctggcttgggtt Alignment from Pairagon GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGA gtacttgctgtcaggaattggcaaaatactcacaccctctctgctcctagGATCAGTGTTGGTAAAATGGAGGTTCTATGCCATCTACAGGCAGTGAACCAGCAGCTGAGTCGAGAACAGGAgtgggacaacgtaagcatgaagtatgacaaagccagggttgccgccagctggcttgggtt Alignment from Exonerate_protein2genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG gtacttgctgtcaggaattggcaaaatactcacaccctctctgctcctagGATCAGTGTTGGTAAAATGGAGGTTCTATGCCATCTACAGGCAGTGAACCAGCAGCTGAGTCGAGAACAGGAGTGGgacaacgtaagcatgaagtatgacaaagccagggttgccgccagctggcttgggtt Alignment from Exonerate_coding2genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG gtacttgctgtcaggaattggcaaaatactcacaccctctctgctcctagGATCAGTGTTGGTAAAATGGAGGTTCTATGCCATCTACAGGCAGTGAACCAGCAGCTGAGTCGAGAACAGGAGTGGgacaacgtaagcatgaagtatgacaaagccagggttgccgccagctggcttgggtt Alignment from GeneWise GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAA------CGG gtacttgctgtcaggaattggcaaaatactcacaccctctctgctcctagGATCAGTGTTGGTAAAATGGAGGTTCTATGCCATCTACAGGCAGTGAACCAGCAGCTGAGTCGAGAACAGGAGTGGGACAACgtaagcatgaagtatgacaaagccagggttgccgccagctggcttgggtt #### Cdc42bpg_ID1592_22 --> 0 - 0 Original Alignment AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG tcacgcaatgcgagttagctgggttttcattttgtgttctttgtttctag---------------------------TCAGCTGAGGGTCCAAGGTCTGGAGCAGAAGCAGAGCTTAGACCAGAGGGCCGGCGCAGTCTACGCATGGGTgtgaggtcataaccaactagaatagaactacaggggatttcctcattgac Alignment from CESAR AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG taacacgtacgtagtggctaagtttttcattttgtgttctttgtttctag---------------------------TCAGCTGAGGGTCCAAGGTCTGGAGCAGAAGCAGAGCTTAGACCAGAGGGCCGGCGCAGTCTACGCATGGGTgtgaggtcataaccaactagaatagaactacaggggatttcctcattgac Alignment from Spaln_aa2Genome GAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG tcacgcaatgcgagttagctgggttttcattttgtgttctttgtttctagtcagCTGAGGGTCCAAGGTCTGGAGCAGAAGCAGAGCTTAGACCAGAGGGCCGGCGCAGTCTACGCATGGGTgtgaggtcataaccaactagaatagaactacaggggatttcctcattgac Alignment from Spaln_nt2Genome TCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG tcacgcaatgcgagttagctgggttttcattttgtgttctttgtttctagTCAGCTGAGGGTCCAAGGTCTGGAGCAGAAGCAGAGCTTAGACCAGAGGGCCGGCGCAGTCTACGCATGGGTgtgaggtcataaccaactagaatagaactacaggggatttcctcattgac Alignment from Pairagon AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG tcacgcaatgcgagttagctgggttttcattttgtgttctttgtttctag---------------------------TCAGCTGAGGGTCCAAGGTCTGGAGCAGAAGCAGAGCTTAGACCAGAGGGCCGGCGCAGTCTACGCATGGGTgtgaggtcataaccaactagaatagaactacaggggatttcctcattgac Alignment from Exonerate_protein2genome GAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG tcacgcaatgcgagttagctgggttttcattttgtgttctttgtttctagtcagCTGAGGGTCCAAGGTCTGGAGCAGAAGCAGAGCTTAGACCAGAGGGCCGGCGCAGTCTACGCATGGGTgtgaggtcataaccaactagaatagaactacaggggatttcctcattgac Alignment from Exonerate_coding2genome GAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG tcacgcaatgcgagttagctgggttttcattttgtgttctttgtttctagtcagCTGAGGGTCCAAGGTCTGGAGCAGAAGCAGAGCTTAGACCAGAGGGCCGGCGCAGTCTACGCATGGGTgtgaggtcataaccaactagaatagaactacaggggatttcctcattgac Alignment from GeneWise GAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG tcacgcaatgcgagttagctgggttttcattttgtgttctttgtttctagtcagCTGAGGGTCCAAGGTCTGGAGCAGAAGCAGAGCTTAGACCAGAGGGCCGGCGCAGTCTACGCATGGGTgtgaggtcataaccaactagaatagaactacaggggatttcctcattgac #### Cdc42bpg_ID1595_25 --> 2 - 0 Original Alignment ccTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC ttatttaatgcatatacttgtgggtccttaaatgtcttctctttaaacagca---GGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATGAGGGCTTTTTGTCAgtgagttgggggggttgttccaatctttttcctgaaacagGTACGACAGC Alignment from CESAR ccTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC atattatttaatgcatatacttgtgccttaaatgtcttctctttaaacagca---GGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATGAGGGCTTTTTGTCAgtgagttgggggggttgttgccatttttgtttgtattcagGTACGACAGC Alignment from Spaln_aa2Genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC ttatttaatgcatatacttgtgggtccttaaatgtcttctctttaaacagCA---GGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATGAGGGCTTTTTGTCAgtgagttgggggggttgttccaatctttttcctgaaacagGTACGACAGC Alignment from Spaln_nt2Genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC ttatttaatgcatatacttgtgggtccttaaatgtcttctctttaaacagC---AGGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATGAGGGCTTTTTGTCAgtgagttgggggggttgttccaatctttttcctgaaacagGTACGACAGC Alignment from Pairagon CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTC----------------------------------------GGTGCCGCGGC ttatttaatgcatatacttgtgggtccttaaatgtcttctctttaaacagcag------GTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATGAGGGCTTTTTGTCAGTGAGTTGGGGGGGTTGTTCCAATCTTTTTCCTGAAACAGGTACGACAGC Alignment from Exonerate_protein2genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC ttatttaatgcatatacttgtgggtccttaaatgtcttctctttaaaCAGCAGGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATGAGGGCTTTTTGTCAgtgagttgggggggttgttccaatctttttcctgaaacagGTACGACAGC Alignment from Exonerate_coding2genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC ttatttaatgcatatacttgtgggtccttaaatgtcttctctttaaaCAGCAGGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATGAGGGCTTTTTGTCAgtgagttgggggggttgttccaatctttttcctgaaacagGTACGACAGC Alignment from GeneWise GTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC ttatttaatgcatatacttgtgggtccttaaatgtcttctctttaaacagCAGGTTATTTCTGTCATTCAGCCTGTGCCTCACAAACCCCTCCTTGCCCCGTGCCCCCTGAACTCCTTCGTACAGCCTTGGGGGTGCACCCCAAAAAGGGAACAGAGACAGCCTATGAGGGCTTTTTGTCAgtgagttgggggggttgttccaatctttttcctgaaacagGTACGACAGC #### Cdc42bpg_ID1596_26 --> 0 - 2 Original Alignment CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAag CTTTTTGTCAgttggctgggggggttgttgccatttttgtttgtattcagGTACGACAGCCATCATGTGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGGCCTTA------aggtgagtcctatggcaggcccagaggacatagggagcccacagcacatcag Alignment from CESAR CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAag CTTTTTGTCAgtgagttgggggggttgttgccatttttgtttgtattcagGTACGACAGCCATCATGTGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGGCCTTA------aggtgagtcctatggcaggcccagaggacatagggagcccacagcacatcag Alignment from Spaln_aa2Genome CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG CTTTTTGTCAgttggctgggggggttgttgccatttttgtttgtattcagGTACGACAGCCATCATGTGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGGCC------TTAAGgtgagtcctatggcaggcccagaggacatagggagcccacagcacatcag Alignment from Spaln_nt2Genome CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG CTTTTTGTCAgttggctgggggggttgttgccatttttgtttgtattcagGTACGACAGCCATCATGTGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGGCCT------TAAGgtgagtcctatggcaggcccagaggacatagggagcccacagcacatcag Alignment from Pairagon CTTCCTGTC----------------------------------------GGTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG CTTTTTGTCAGTTGGCTGGGGGGGTTGTTGCCATTTTTGTTTGTATTCAGGTACGACAGCCATCATGTGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGGCCT------TAAGgtgagtcctatggcaggcccagaggacatagggagcccacagcacatcag Alignment from Exonerate_protein2genome CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGA CTTTTTGTCAgttggctgggggggttgttgccatttttgtttgtattcagGTACGACAGCCATCATGTGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGGCCTTAAGgtgagtcctatggcaggcccagaggacatagggagcccacagcacatcag Alignment from Exonerate_coding2genome CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGA CTTTTTGTCAgttggctgggggggttgttgccatttttgtttgtattcagGTACGACAGCCATCATGTGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGGCCTTAAGgtgagtcctatggcaggcccagaggacatagggagcccacagcacatcag Alignment from GeneWise CTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG CTTTTTGTCAgttggctgggggggttgttgccatttttgtttgtattcagGTACGACAGCCATCATGTGTTCGATGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGTAGCCTAGCAAGTGGCATCCTTCTTCAGGCC------TTAAGgtgagtcctatggcaggcccagaggacatagggagcccacagcacatcag #### Cdc42bpg_ID1597_27 --> 1 - 0 Original Alignment g------------------------------GACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG agtgatgggcgaacaaccaacagtgatccaggttcattttttccttacaggCAACTCACTTGGCATTTCAAGAATGGGGATGACCCCCAATTTTCAGTGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtagagaaactaggtgatataggatatagcctccacaggcttgagcttgc Alignment from CESAR g------------------------------GACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG agtgatgggcgaacaaccaacagtgatccaggttcattttttccttacaggCAACTCACTTGGCATTTCAAGAATGGGGATGACCCCCAATTTTCAGTGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtagagaaactaggtgatataggatatagcctccacaggcttgagcttgc Alignment from Spaln_aa2Genome -------GACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG agtgatgggcgaacaaccaacagtgatccaggttcattttttccttacaggcaactcacttggcatttcaagAATGGGGATGACCCCCAATTTTCAGTGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtagagaaactaggtgatataggatatagcctccacaggcttgagcttgc Alignment from Spaln_nt2Genome GGACCCCCAGTTCTCAGCCACCCC--------TGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG agtgatgggcgaacaaccaacagtgatccaggttcattttttccttacaggcaactcacttggcatttcaagAATGGGGATGACCCCCAATTTTCAGTGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtagagaaactaggtgatataggatatagcctccacaggcttgagcttgc Alignment from Pairagon ---------------------------------------------------------------------------------GACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG AGTGATGGGCGAACAACCAACAGTGATCCAGGTTCATTTTTTCCTTACAGGCAACTCACTTGGCATTTCAAGAATGGGGATGACCCCCAATTTTCAGTGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtagagaaactaggtgatataggatatagcctccacaggcttgagcttgc Alignment from Exonerate_protein2genome G---GACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG agtgatgggcgaacaaccaacagtgatccaggttcattttttccttacaggcaactcacttggcatttcaagaatggGGATGACCCCCAATTTTCAGTGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtagagaaactaggtgatataggatatagcctccacaggcttgagcttgc Alignment from Exonerate_coding2genome G---GACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG agtgatgggcgaacaaccaacagtgatccaggttcattttttccttacaggcaactcacttggcatttcaagaatggGGATGACCCCCAATTTTCAGTGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtagagaaactaggtgatataggatatagcctccacaggcttgagcttgc Alignment from GeneWise ----------------------------AGGGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG agtgatgggcgaacaaccaacagtgatccaggttcattttttccttacagGCAACTCACTTGGCATTTCAAGAATGGGGATGACCCCCAATTTTCAGTGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtagagaaactaggtgatataggatatagcctccacaggcttgagcttgc #### Cdc42bpg_ID1602_32 --> 0 - 1 Original Alignment GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCA---g tggttgtcaaattagtacattgagtggagatgcttacctacgctccacagGTGAGACCCCTCAATCCAGAAGGCTCATTATTCCTTTATGGTACTGAAAAACTCCGCCTGACTTACCTCAGAAACCCACTGGCACTCagtaagtgtacacaatgccaactggctgttatagctataagtgaacagcta Alignment from CESAR GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCA---g tggttgtcaaattagtacattgagtggagatgcttacctacgctccacagGTGAGACCCCTCAATCCAGAAGGCTCATTATTCCTTTATGGTACTGAAAAACTCCGCCTGACTTACCTCAGAAACCCACTGGCACTCagtaagtgtacacaatgccaactggctgttatagctataagtgaacagcta Alignment from Spaln_aa2Genome GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCA---G tggttgtcaaattagtacattgagtggagatgcttacctacgctccacagGTGAGACCCCTCAATCCAGAAGGCTCATTATTCCTTTATGGTACTGAAAAACTCCGCCTGACTTACCTCAGAAACCCACTGGCACTCAgtaagtgtacacaatgccaactggctgttatagctataagtgaacagcta Alignment from Spaln_nt2Genome GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAG--- tggttgtcaaattagtacattgagtggagatgcttacctacgctccacagGTGAGACCCCTCAATCCAGAAGGCTCATTATTCCTTTATGGTACTGAAAAACTCCGCCTGACTTACCTCAGAAACCCACTGGCACTCAgtaagtgtacacaatgccaactggctgttatagctataagtgaacagcta Alignment from Pairagon GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGG-------------------------------------------------------- tggttgtcaaattagtacattgagtggagatgcttacctacgctccacagGTGAGACCCCTCAATCCAGAAGGCTCATTATTCCTTTATGGTACTGAAAAACTCCGCCTGACTTACCTCAGAAACCCACTGGCACTCAGTAAGTGTACACAATGCCAACTGGCTGTTATAGCTATAAGTGAACAGCTA Alignment from Exonerate_protein2genome GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCA---G tggttgtcaaattagtacattgagtggagatgcttacctacgctccacagGTGAGACCCCTCAATCCAGAAGGCTCATTATTCCTTTATGGTACTGAAAAACTCCGCCTGACTTACCTCAGAAACCCACTGGCACTCAgtaagtgtacacaatgccaactggctgttatagctataagtgaacagcta Alignment from Exonerate_coding2genome GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCA---G tggttgtcaaattagtacattgagtggagatgcttacctacgctccacagGTGAGACCCCTCAATCCAGAAGGCTCATTATTCCTTTATGGTACTGAAAAACTCCGCCTGACTTACCTCAGAAACCCACTGGCACTCAgtaagtgtacacaatgccaactggctgttatagctataagtgaacagcta Alignment from GeneWise GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAGAG- tggttgtcaaattagtacattgagtggagatgcttacctacgctccacagGTGAGACCCCTCAATCCAGAAGGCTCATTATTCCTTTATGGTACTGAAAAACTCCGCCTGACTTACCTCAGAAACCCACTGGCACTCAgtaagtgtacacaatgccaactggctgttatagctataagtgaacagcta #### Cdca5_ID1428_2 --> 2 - 0 Original Alignment gg------CCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gccatgtgcctggtgacgtttgtttgtactgttcactgcattttaaacaggaCCTGATCCAAGGACTTTACTAACTCAGCCTTCAGAGTCACTAAAACGCAAGTCAGGTTCAGACCTCACAAACTCATTCTCTGAAACCTGGCAACGGgtgagtactgacccccctggtctgaaagtagttgcatacaccacaattta Alignment from CESAR ggCCC------AGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gccatgtgcctggtgacgtttgtttgtactgttcactgcattttaaacaggaCCTGATCCAAGGACTTTACTAACTCAGCCTTCAGAGTCACTAAAACGCAAGTCAGGTTCAGACCTCACAAACTCATTCTCTGAAACCTGGCAACGGgtgagtactgacccccctggtctgaaagtagttgcatacaccacaattta Alignment from Spaln_aa2Genome GG------CCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gccatgtgcctggtgacgtttgtttgtactgttcactgcattttaaacagGACCTGATCCAAGGACTTTACTAACTCAGCCTTCAGAGTCACTAAAACGCAAGTCAGGTTCAGACCTCACAAACTCATTCTCTGAAACCTGGCAACGGgtgagtactgacccccctggtctgaaagtagttgcatacaccacaattta Alignment from Spaln_nt2Genome GGCCC------AGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gccatgtgcctggtgacgtttgtttgtactgttcactgcattttaaacagGACCTGATCCAAGGACTTTACTAACTCAGCCTTCAGAGTCACTAAAACGCAAGTCAGGTTCAGACCTCACAAACTCATTCTCTGAAACCTGGCAACGGgtgagtactgacccccctggtctgaaagtagttgcatacaccacaattta Alignment from Pairagon GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gccatgtgcctggtgacgtttgtttgtactgttcactgcattttaaacaggacctgatccaag-------GACTTTACTAACTCAGCCTTCAGAGTCACTAAAACGCAAGTCAGGTTCAGACCTCACAAACTCATTCTCTGAAACCTGGCAACGGgtgagtactgacccccctggtctgaaagtagttgcatacaccacaattta Alignment from Exonerate_protein2genome GG------CCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gccatgtgcctggtgacgtttgtttgtactgttcactgcattttaaacagGACCTGATCCAAGGACTTTACTAACTCAGCCTTCAGAGTCACTAAAACGCAAGTCAGGTTCAGACCTCACAAACTCATTCTCTGAAACCTGGCAACGGgtgagtactgacccccctggtctgaaagtagttgcatacaccacaattta Alignment from Exonerate_coding2genome gccatgtgcctggtgacgtttgtttgtactgttcactgcattttaaacaggacctgatccaaggactttactaactcagccttcagagtcactaaaacgcaagtcaggttcagacctcacaaactcattctctgaaacctggcaacgggtgagtactgacccccctggtctgaaagtagttgcatacaccacaattta Alignment from GeneWise CCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gccatgtgcctggtgacgtttgtttgtactgttcactgcattttaaacaggacctgatCCAAGGACTTTACTAACTCAGCCTTCAGAGTCACTAAAACGCAAGTCAGGTTCAGACCTCACAAACTCATTCTCTGAAACCTGGCAACGGgtgagtactgacccccctggtctgaaagtagttgcatacaccacaattta #### Cdk2ap2_ID299_3 --> 0 - 1 Original Alignment GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAg gcccaaacccctattgggggtacttgagatatctgtgatctgtttgccagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAGGAAATCCGACCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAG---ggtaagatgggcaaccatgggtaagctatgacaggacagtgtagtcggaaa Alignment from CESAR GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAg gcccaaacccctattgggggtacttgagatatctgtgatctgtttgccagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAGGAAATCCGACCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAG---ggtaagatgggcaaccatgggtaagctatgacaggacagtgtagtcggaaa Alignment from Spaln_aa2Genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAG- gcccaaacccctattgggggtacttgagatatctgtgatctgtttgccagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAGGAAATCCGACCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGGgtaagatgggcaaccatgggtaagctatgacaggacagtgtagtcggaaa Alignment from Spaln_nt2Genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gcccaaacccctattgggggtacttgagatatctgtgatctgtttgccagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAGGAAATCCGACCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAG---Ggtaagatgggcaaccatgggtaagctatgacaggacagtgtagtcggaaa Alignment from Pairagon GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gcccaaacccctattgggggtacttgagatatctgtgatctgtttgccagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAGGAAATCCGACCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAG---Ggtaagatgggcaaccatgggtaagctatgacaggacagtgtagtcggaaa Alignment from Exonerate_protein2genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gcccaaacccctattgggggtacttgagatatctgtgatctgtttgccagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAGGAAATCCGACCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAG---Ggtaagatgggcaaccatgggtaagctatgacaggacagtgtagtcggaaa Alignment from Exonerate_coding2genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gcccaaacccctattgggggtacttgagatatctgtgatctgtttgccagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAGGAAATCCGACCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAG---Ggtaagatgggcaaccatgggtaagctatgacaggacagtgtagtcggaaa Alignment from GeneWise GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGA gcccaaacccctattgggggtacttgagatatctgtgatctgtttgccagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAGGAAATCCGACCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGGgtaagatgggcaaccatgggtaagctatgacaggacagtgtagtcggaaa #### Chuk_ID8920_8 --> 1 - 2 Original Alignment gCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGT---ag ggggtatggttcttggatgcattacgctaccctacctcttctcttcctaggCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTGCCaggtgagggatgcttagagtctttgggaatatgccccttatctattcatagt Alignment from CESAR gCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGT---ag ggggtatggttcttggatgcattacgctaccctacctcttctcttcctaggCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTGCCaggtgagggatgcttagagtctttgggaatatgccccttatctattcatagt Alignment from Spaln_aa2Genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAGT-- ggggtatggttcttggatgcattacgctaccctacctcttctcttcctagGCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTGCCAGgtgagggatgcttagagtctttgggaatatgccccttatctattcatagt Alignment from Spaln_nt2Genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGT---AG ggggtatggttcttggatgcattacgctaccctacctcttctcttcctagGCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTGCCAGgtgagggatgcttagagtctttgggaatatgccccttatctattcatagt Alignment from Pairagon GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGT---AG ggggtatggttcttggatgcattacgctaccctacctcttctcttcctagGCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTGCCAGgtgagggatgcttagagtctttgggaatatgccccttatctattcatagt Alignment from Exonerate_protein2genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGT---AG ggggtatggttcttggatgcattacgctaccctacctcttctcttcctagGCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTGCCAGgtgagggatgcttagagtctttgggaatatgccccttatctattcatagt Alignment from Exonerate_coding2genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGT---AG ggggtatggttcttggatgcattacgctaccctacctcttctcttcctagGCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTGCCAGgtgagggatgcttagagtctttgggaatatgccccttatctattcatagt Alignment from GeneWise GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAGT-- ggggtatggttcttggatgcattacgctaccctacctcttctcttcctagGCATGAGGAGATTAAGAAGAAAGATCCAAAATGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTGCCAGgtgagggatgcttagagtctttgggaatatgccccttatctattcatagt #### Chuk_ID8921_7 --> 0 - 2 Original Alignment ---GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCtg ttttcaaaactctcaactttatagctcctcctgtcttttctttttcccagTGGGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCtggtatcacagtgctgttcatggttgggggaaactcccagttaaatgagata Alignment from CESAR ---GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCtg ttttcaaaactctcaactttatagctcctcctgtcttttctttttcccagTGGGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCtggtatcacagtgctgttcatggttgggggaaactcccagttaaatgagata Alignment from Spaln_aa2Genome GCCCCAGAGCTCTTT---GAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG ttttcaaaactctcaactttatagctcctcctgtcttttctttttcccagTGGGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtatcacagtgctgttcatggttgggggaaactcccagttaaatgagata Alignment from Spaln_nt2Genome GGCCCCAGAGCTCTTT--GAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG ttttcaaaactctcaactttatagctcctcctgtcttttctttttcccagTGGGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtatcacagtgctgttcatggttgggggaaactcccagttaaatgagata Alignment from Pairagon TTGGCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG ttttcaaaactctcaactttatagctcctcctgtcttttctttttcccagTGGGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtatcacagtgctgttcatggttgggggaaactcccagttaaatgagata Alignment from Exonerate_protein2genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG ttttcaaaactctcaactttatagctcctcctgtcttttctttttcccagtggGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtatcacagtgctgttcatggttgggggaaactcccagttaaatgagata Alignment from Exonerate_coding2genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG ttttcaaaactctcaactttatagctcctcctgtcttttctttttcccagtggGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtatcacagtgctgttcatggttgggggaaactcccagttaaatgagata Alignment from GeneWise --CTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG ttttcaaaactctcaactttatagctcctcctgtcttttctttttcccagtgggcaccagACCTCTTTGAAAATAAGCCATACACAGCTACTGTTGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtatcacagtgctgttcatggttgggggaaactcccagttaaatgagata #### Chuk_ID8922_6 --> 0 - 0 Original Alignment ---ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG ccacaggttttgtggaacttgatgacattctctggtctgtgtccccacagAAAACGGTGCATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTAGGAACATTGAAATACTTGgtgagccaatagtatgttaatcttgattctgttacattcttggtatttca Alignment from CESAR ---ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG ccacaggttttgtggaacttgatgacattctctggtctgtgtccccacagAAAACGGTGCATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTAGGAACATTGAAATACTTGgtgagccaatagtatgttaatcttgattctgttacattcttggtatttca Alignment from Spaln_aa2Genome AAGACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG ccacaggttttgtggaacttgatgacattctctggtctgtgtccccacagAAAACGGTGCATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTAGGAACATTGAAATACTTGgtgagccaatagtatgttaatcttgattctgttacattcttggtatttca Alignment from Spaln_nt2Genome ACAA---TACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG ccacaggttttgtggaacttgatgacattctctggtctgtgtccccacagAAAACGGTGCATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTAGGAACATTGAAATACTTGgtgagccaatagtatgttaatcttgattctgttacattcttggtatttca Alignment from Pairagon AAGACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG ccacaggttttgtggaacttgatgacattctctggtctgtgtccccacagAAAACGGTGCATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTAGGAACATTGAAATACTTGgtgagccaatagtatgttaatcttgattctgttacattcttggtatttca Alignment from Exonerate_protein2genome AAGACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG ccacaggttttgtggaacttgatgacattctctggtctgtgtccccacagAAAACGGTGCATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTAGGAACATTGAAATACTTGgtgagccaatagtatgttaatcttgattctgttacattcttggtatttca Alignment from Exonerate_coding2genome AAGACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG ccacaggttttgtggaacttgatgacattctctggtctgtgtccccacagAAAACGGTGCATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTAGGAACATTGAAATACTTGgtgagccaatagtatgttaatcttgattctgttacattcttggtatttca Alignment from GeneWise ---ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG ccacaggttttgtggaacttgatgacattctctggtctgtgtccccacagAAAACGGTGCATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTAGGAACATTGAAATACTTGgtgagccaatagtatgttaatcttgattctgttacattcttggtatttca #### Col17a1_ID10271_51 --> 2 - 1 Original Alignment gtGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAA---g ttttgcctcttactcatcctcaggcgtattaatttttttttaatttcaaggtGACAGGGATCCAGCTAGGCCACAAGGCCCACCAGGGCAACCTGGTCCTAGAGGGAACAAA---GAAAAGGGTGATAAAGGGggtaagaagtggaaatgagatggggtgcaggggcttagattgtgaaaacta Alignment from CESAR gtGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAA---g ttttgcctcttactcatcctcaggcgtattaatttttttttaatttcaaggtGACAGGGATCCAGCTAGGCCACAAGGCCCACCAGGGCAACCTGGTCCTAGAGGGAACAAA---GAAAAGGGTGATAAAGGGggtaagaagtggaaatgagatggggtgcaggggcttagattgtgaaaacta Alignment from Spaln_aa2Genome GTGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAA---G ttttgcctcttactcatcctcaggcgtattaatttttttttaatttcaagGTGACAGGGATCCAGCTAGGCCACAAGGCCCACCAGGGCAACCTGGTCCTAGAGGGAACAAA---GAAAAGGGTGATAAAGGGGgtaagaagtggaaatgagatggggtgcaggggcttagattgtgaaaacta Alignment from Spaln_nt2Genome GTGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAGG-- ttttgcctcttactcatcctcaggcgtattaatttttttttaatttcaagGTGACAGGGATCCAGCTAGGCCACAAGGCCCACCAGGGCAACCTGGTCCTAGAGGGAACAA---AGAAAAGGGTGATAAAGGGGgtaagaagtggaaatgagatggggtgcaggggcttagattgtgaaaacta Alignment from Pairagon GTGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAG------AAAGGAG ttttgcctcttactcatcctcaggcgtattaatttttttttaatttcaagGTGACAGGGATCCAGCTAGGCCACAAGGCCCACCAGGGCAACCTGGTCCTAGAGGGAACAAAGAAAAGGGTGATAAAGGGGgtaagaagtggaaatgagatggggtgcaggggcttagattgtgaaaacta Alignment from Exonerate_protein2genome GTGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAG ttttgcctcttactcatcctcaggcgtattaatttttttttaatttcaagGTGACAGGGATCCAGCTAGGCCACAAGGCCCACCAGGGCAACCTGGTCCTAGAGGGAACAAA---GAAAAGGGTGATAAAGggggtaagaagtggaaatgagatggggtgcaggggcttagattgtgaaaacta Alignment from Exonerate_coding2genome ttttgcctcttactcatcctcaggcgtattaatttttttttaatttcaaggtgacagggatccagctaggccacaaggcccaccagggcaacctggtcctagagggaacaaagaaaagggtgataaagggggtaagaagtggaaatgagatggggtgcaggggcttagattgtgaaaacta Alignment from GeneWise GTGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAGGT- ttttgcctcttactcatcctcaggcgtattaatttttttttaatttcaagGTGACAGGGATCCAGCTAGGCCACAAGGCCCACCAGGGCAACCTGGTCCTAGAGGGAACAAA---GAAAAGGGTGATAAAGGGGgtaagaagtggaaatgagatggggtgcaggggcttagattgtgaaaacta #### Col17a1_ID10272_50 --> 2 - 1 Original Alignment cc---------TACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAg aaagatacgaatggtcccagctttaaagactgttgtctctactcctgcagccGAATACGCCTATGGTATGATTCCAGGTCCACCTGGC------CGTGATGTAGGGACCCCGGGCCCACAAggtacaaatgccaaatccattgtttagttgagatagtttagttgataacgc Alignment from CESAR cc---------TACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAg aaagatacgaatggtcccagctttaaagactgttgtctctactcctgcagccGAATACGCCTATGGTATGATTCCAGGTCCACCTGGCCGT------GATGTAGGGACCCCGGGCCCACAAggtacaaatgccaaatccattgtttagttgagatagtttagttgataacgc Alignment from Spaln_aa2Genome CC---------TACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAG aaagatacgaatggtcccagctttaaagactgttgtctctactcctgcagCCGAATACGCCTATGGTATGATTCCAGGTCCACCTGGCCGT------GATGTAGGGACCCCGGGCCCACAAGgtacaaatgccaaatccattgtttagttgagatagtttagttgataacgc Alignment from Spaln_nt2Genome CC---------TACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAG aaagatacgaatggtcccagctttaaagactgttgtctctactcctgcagCCGAATACGCCTATGGTATGATTCCAGGTCCACCTGGCC------GTGATGTAGGGACCCCGGGCCCACAAGgtacaaatgccaaatccattgtttagttgagatagtttagttgataacgc Alignment from Pairagon ---------CCTACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAG aaagatacgaatggtcccagctttaaagactgttgtctctactcctgcagCCGAATACGCCTATGGTATGATTCCAGGTCCACCTGGCC------GTGATGTAGGGACCCCGGGCCCACAAGgtacaaatgccaaatccattgtttagttgagatagtttagttgataacgc Alignment from Exonerate_protein2genome CCTACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAG aaagatacgaatggtcccagctttaaagactgttgtctctactcctgcagccgaatacgCCTATGGTATGATTCCAGGTCCACCTGGCCGT------GATGTAGGGACCCCGGGCCCACAAGgtacaaatgccaaatccattgtttagttgagatagtttagttgataacgc Alignment from Exonerate_coding2genome C aaagatacgaatggtcccagctttaaagactgttgtctctactcctgcagccgaatacgcctatggtatgattccaggtccacctggccgtgatgtagggaccccgggcccacaaggtacaaatgccaaatccattgtttagttgagatagtttagttgataacgC Alignment from GeneWise --------ACCTACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAG aaagatacgaatggtcccagctttaaagactgttgtctctactcctgcagCCGAATACGCCTATGGTATGATTCCAGGTCCACCTGGCCGT------GATGTAGGGACCCCGGGCCCACAAGgtacaaatgccaaatccattgtttagttgagatagtttagttgataacgc #### Col17a1_ID10275_47 --> 2 - 1 Original Alignment cc---------------------GCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAa cattcacgtcctgcctaatgctgtttctaatcttataacctcttttaaagccGAGGTGGTGACCCTGAACCCTACAAGTTTGTCGTCCACCCCAGGCCCAGCAGGTCCATCAGGACCACCAGCTCCTCGAGGGCCTCCTGGGGTTTCAACAGCCTCCTCTACATATGCTGCGGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGagtctggatcatagtcattagcatgtttggccagacacaagtgaaactact Alignment from CESAR cc---------------------GCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAa cattcacgtcctgcctaatgctgtttctaatcttataacctcttttaaagccGAGGTGGTGACCCTGAACCCTACAAGTTTGTCGTCCACCCCAGGCCCAGCAGGTCCATCAGGACCACCAGCTCCTCGAGGGCCTCCTGGGGTTTCAACAGCCTCCTCTACATATGCTGCGGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGagtctggatcatagtcattagcatgtttggccagacacaagtgaaactact Alignment from Spaln_aa2Genome TGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA cattcacgtcctgcctaatgctgtttctaatcttataacctcttttaaagccgaggtggtgaccctgaaccctacaagT---TTGTCGTCCACCCCAGGCCCAGCAGGTCCATCAGGACCACCAGCTCCTCGAGGGCCTCCTGGGGTTTCAACAGCCTCCTCTACATATGCTGCGGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGAgtctggatcatagtcattagcatgtttggccagacacaagtgaaactact Alignment from Spaln_nt2Genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA cattcacgtcctgcctaatgctgtttctaatcttataacctcttttaaagccgaggtggtgaccctgaaccctacaag-------TTTGTCGTCCACCCCAGGCCCAGCAGGTCCATCAGGACCACCAGCTCCTCGAGGGCCTCCTGGGGTTTCAACAGCCTCCTCTACATATGCTGCGGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGAgtctggatcatagtcattagcatgtttggccagacacaagtgaaactact Alignment from Pairagon CCGAGCCGCTG----------------GTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA cattcacgtcctgcctaatgctgtttctaatcttataacctcttttaaagCCGAGGTGGTGACCCTGAACCCTACAAGTTTGTCGTCCACCCCAGGCCCAGCAGGTCCATCAGGACCACCAGCTCCTCGAGGGCCTCCTGGGGTTTCAACAGCCTCCTCTACATATGCTGCGGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGAgtctggatcatagtcattagcatgtttggccagacacaagtgaaactact Alignment from Exonerate_protein2genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA cattcacgtcctgcctaatgctgtttctaatcttataacctcttttaaagccgaggtggtgaccctgaaccCTACAAGTTTGTCGTCCACCCCAGGCCCAGCAGGTCCATCAGGACCACCAGCTCCTCGAGGGCCTCCTGGGGTTTCAACAGCCTCCTCTACATATGCTGCGGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGAgtctggatcatagtcattagcatgtttggccagacacaagtgaaactact Alignment from Exonerate_coding2genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA cattcacgtcctgcctaatgctgtttctaatcttataacctcttttaaagccgaggtggtgaccctgaaccCTACAAGTTTGTCGTCCACCCCAGGCCCAGCAGGTCCATCAGGACCACCAGCTCCTCGAGGGCCTCCTGGGGTTTCAACAGCCTCCTCTACATATGCTGCGGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGAgtctggatcatagtcattagcatgtttggccagacacaagtgaaactact Alignment from GeneWise -TTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA cattcacgtcctgcctaatgctgtttctaatcttataacctcttttaaagccgaggtggtgaccctgaaccctacaagTTTGTCGTCCACCCCAGGCCCAGCAGGTCCATCAGGACCACCAGCTCCTCGAGGGCCTCCTGGGGTTTCAACAGCCTCCTCTACATATGCTGCGGAAAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACGAgtctggatcatagtcattagcatgtttggccagacacaagtgaaactact #### Col17a1_ID10276_46 --> 2 - 1 Original Alignment gtTCTGGGATCAGCTTTGGGCATCCTGGC---CCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGA---------g tactctagcaggctcaaaattctcctgctctctctcttttgccatcctaggtGCTGGACTTAGCTTTGGACATCCTGGCCCATCACCT---------------GCTGGAACTTCTTATGAAAAGTTACTGTCCATGCTTAAATATGCTTTCggtaattcaaaacccagaattgtccataaactcagaatggtgcattggggg Alignment from CESAR gtTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGA---------g tactctagcaggctcaaaattctcctgctctctctcttttgccatcctaggtGCTGGACTTAGCTTTGGACATCCTGGCCCATCA---CCTGCT---------GGAACTTCTTATGAAAAGTTACTGTCCATGCTTAAATATGCTTTCggtaattcaaaacccagaattgtccataaactcagaatggtgcattggggg Alignment from Spaln_aa2Genome GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGA---------G tactctagcaggctcaaaattctcctgctctctctcttttgccatcctagGTGCTGGACTTAGCTTTGGACATCCTGGCCCATCA------------CCTGCTGGAACTTCTTATGAAAAGTTACTGTCCATGCTTAAATATGCTTTCGgtaattcaaaacccagaattgtccataaactcagaatggtgcattggggg Alignment from Spaln_nt2Genome GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGA---------G tactctagcaggctcaaaattctcctgctctctctcttttgccatcctagGTGCTGGACTTAGCTTTGGACATCCTGGCCCA-----------TCACCTG-CTGGAACTTCTTATGAAAAGTTACTGTCCATGCTTAAATATGCTTTCGgtaattcaaaacccagaattgtccataaactcagaatggtgcattggggg Alignment from Pairagon GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCT-------------- tactctagcaggctcaaaattctcctgctctctctcttttgccatcctagGTGCTGGACTTAGCTTTGGACATCCTGGCCCATC-----------ACCTGCT-GGAACTTCTTATGAAAAGTTACTGTCCATGCTTAAATATGCTTTCGgtaattcaaaacccagaattgtccataaactcagaatggtgcattggggg Alignment from Exonerate_protein2genome GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAG tactctagcaggctcaaaattctcctgctctctctcttttgccatcctagGTGCTGGACTTAGCTTTGGACATCCTGGC------------CCATCACCTGCTGGAACTTCTTATGAAAAGTTACTGTCCATGCTTAAATatgctttcggtaattcaaaacccagaattgtccataaactcagaatggtgcattggggg Alignment from Exonerate_coding2genome GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAG tactctagcaggctcaaaattctcctgctctctctcttttgccatcctagGTGCTGGACTTAGCTTTGGACATCCTGGC------------CCATCACCTGCTGGAACTTCTTATGAAAAGTTACTGTCCATGCTTAAATatgctttcggtaattcaaaacccagaattgtccataaactcagaatggtgcattggggg Alignment from GeneWise GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAGCCGCTGGT- tactctagcaggctcaaaattctcctgctctctctcttttgccatcctagGTGCTGGACTTAGCTTTGGACATCCTGGCCCA------------TCACCTGCTGGAACTTCTTATGAAAAGTTACTGTCCATGCTTAAATATGCTTTCGgtaattcaaaacccagaattgtccataaactcagaatggtgcattggggg #### Col17a1_ID10277_45 --> 2 - 1 Original Alignment ggAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAa acatagatagggctcaatgactctaagtactattttccttcccacctcaggaAATGATGTGTGGCAAGACCTACGTCAAAATCTAGTAGGTCCTCCAAGTCCTTCAGGGCCATTAGCCATCAGTGGTGAAGGGTTGCTACTGTCT---------GGAGAGCTGAGCCAGCATATTCTCAACTAT------agtaagttatcgcaggcaagtgtacccacctcccaaggatccaggggttac Alignment from CESAR ggAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAa acatagatagggctcaatgactctaagtactattttccttcccacctcaggaAATGATGTGTGGCAAGACCTACGTCAAAATCTAGTAGGTCCTCCAAGTCCTTCAGGGCCATTAGCCATCAGTGGTGAAGGGTTGCTACTGTCT---------GGAGAGCTGAGCCAGCATATTCTCAACTAT------agtaagttatcgcaggcaagtgtacccacctcccaaggatccaggggttac Alignment from Spaln_aa2Genome GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTAT- acatagatagggctcaatgactctaagtactattttccttcccacctcagGAAATGATGTGTGGCAAGACCTACGTCAAAATCTAGTAGGTCCTCCAAGTCCTTCAGGGCCATTAGCCATCAGTGGTGAAGGGTTGCTACTGTCT---------GGAGAGCTGAGCCAGCATATTCTCAACTATAgtaagttatcgcaggcaagtgtacccacctcccaaggatccaggggttac Alignment from Spaln_nt2Genome GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATA acatagatagggctcaatgactctaagtactattttccttcccacctcagGAAATGATGTGTGGCAAGACCTACGTCAAAATCTAGTAGGTCCTCCAAGTCCTTCAGGGCCATTAGCCATCAGTGGTGAAGGGTTGCTACTGTC---------TGGAGAGCTGAGCCAGCATATTCTCAACTATAgtaagttatcgcaggcaagtgtacccacctcccaaggatccaggggttac Alignment from Pairagon GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATA acatagatagggctcaatgactctaagtactattttccttcccacctcagGAAATGATGTGTGGCAAGACCTACGTCAAAATCTAGTAGGTCCTCCAAGTCCTTCAGGGCCATTAGCCATCAGTGGTGAAGGGTTGCTACTGTC---------TGGAGAGCTGAGCCAGCATATTCTCAACTATAgtaagttatcgcaggcaagtgtacccacctcccaaggatccaggggttac Alignment from Exonerate_protein2genome GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAAGTTCTGGGATCA acatagatagggctcaatgactctaagtactattttccttcccacctcagGAAATGATGTGTGGCAAGACCTACGTCAAAATCTAGTAGGTCCTCCAAGTCCTTCAGGGCCATTAGCCATCAGTGGTGAAGGGTTGCTACTGTCT---------GGAGAGCTGAGCCAGCATATTCTCAACTATAGTAAGTTATCGCAGGCAAgtgtacccacctcccaaggatccaggggttac Alignment from Exonerate_coding2genome GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA acatagatagggctcaatgactctaagtactattttccttcccacctcagGAAATGATGTGTGGCAAGACCTACGTCAAAATCTAGTAGGTCCTCCAAGTCCTTCAGGGCCATTAGCCATCAGTGGTGAAGGGTTGCTACTGTCT---------GGAGAGCTGAGCCAGCATATTCTCAACTAT------Agtaagttatcgcaggcaagtgtacccacctcccaaggatccaggggttac Alignment from GeneWise GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATA acatagatagggctcaatgactctaagtactattttccttcccacctcagGAAATGATGTGTGGCAAGACCTACGTCAAAATCTAGTAGGTCCTCCAAGTCCTTCAGGGCCATTAGCCATCAGTGGTGAAGGGTTGCTACTGTCT---------GGAGAGCTGAGCCAGCATATTCTCAACTATAgtaagttatcgcaggcaagtgtacccacctcccaaggatccaggggttac #### Col17a1_ID10279_43 --> 2 - 1 Original Alignment gtGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGG---------t aatctgaaactgtctctgtccagcatgttgaccagccatctctttcacaggtGGCAACATCAGGACAGATCTGCTAGGAGTTCAGGGGCCCCCTGGT------------CCTGGATCTGTAATCACTATTAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACGACCACTGGATtgtgagattttaggaccttctgtgtttttcgcttccccagtctgtattgtt Alignment from CESAR gtGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGG---------t aatctgaaactgtctctgtccagcatgttgaccagccatctctttcacaggtGGCAACATCAGGACAGATCTGCTAGGAGTTCAGGGGCCCCCTGGT------------CCTGGATCTGTAATCACTATTAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACGACCACTGGATtgtgagattttaggaccttctgtgtttttcgcttccccagtctgtattgtt Alignment from Spaln_aa2Genome GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGG---------T aatctgaaactgtctctgtccagcatgttgaccagccatctctttcacagGTGGCAACATCAGGACAGATCTGCTAGGAGTTCAGGGGCCCCCTGGT------------CCTGGATCTGTAATCACTATTAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACGACCACTGGATTgtgagattttaggaccttctgtgtttttcgcttccccagtctgtattgtt Alignment from Spaln_nt2Genome GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGTCAT------ aatctgaaactgtctctgtccagcatgttgaccagccatctctttcacagGTGGCAACATCAGGACAGATCTGCTAGGAGTTCAGGGGCCCCCTGG------------TCCTGGATCTGTAATCACTATTAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACGACCACTGGATTgtgagattttaggaccttctgtgtttttcgcttccccagtctgtattgtt Alignment from Pairagon GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGTCA--------------------------------------------------------- aatctgaaactgtctctgtccagcatgttgaccagccatctctttcacagGTGGCAACATCAGGACAGATCTGCTAGGAGTTCAGGGGCCCCCTGG------------TCCTGGATCTGTAATCACTATTAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACGACCACTGGATTGTGAGATTTTAGGACCTTCTGTGTTTTTCGCTTCCCCAGTCTGTATTGTT Alignment from Exonerate_protein2genome GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCG aatctgaaactgtctctgtccagcatgttgaccagccatctctttcacagGTGGCAACATCAGGACAGATCTGCTAGGAGTTCAGGGGCCCCCTGGT------------CCTGGATCTGTAATCACTATTAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACGaccactggattgtgagattttaggaccttctgtgtttttcgcttccccagtctgtattgtt Alignment from Exonerate_coding2genome GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCG aatctgaaactgtctctgtccagcatgttgaccagccatctctttcacagGTGGCAACATCAGGACAGATCTGCTAGGAGTTCAGGGGCCCCCTGGT------------CCTGGATCTGTAATCACTATTAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACGaccactggattgtgagattttaggaccttctgtgtttttcgcttccccagtctgtattgtt Alignment from GeneWise GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGG---------T aatctgaaactgtctctgtccagcatgttgaccagccatctctttcacagGTGGCAACATCAGGACAGATCTGCTAGGAGTTCAGGGGCCCCCTGGTCCT------------GGATCTGTAATCACTATTAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACGACCACTGGATTgtgagattttaggaccttctgtgtttttcgcttccccagtctgtattgtt #### Col17a1_ID10282_40 --> 2 - 1 Original Alignment aa---ACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAg agcaaatgtgaagtcctaagcaacctgcctttatgatgttatatttgtagtaGTAACATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAggcaagtgcacaacctgaaagctaccaagtgtgatcactggtatgtgacta Alignment from CESAR aaACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAg gagagcaaatgtgaagtcctaagcaaccctttatgatgttatatttgtagtagtaACATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAggcaagtgcacaacctgaaagctaccaagtgtgatcactggtatgtgacta Alignment from Spaln_aa2Genome AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAG agcaaatgtgaagtcctaagcaacctgcctttatgatgttatatttgtagtagTAACATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAGgcaagtgcacaacctgaaagctaccaagtgtgatcactggtatgtgacta Alignment from Spaln_nt2Genome AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAG agcaaatgtgaagtcctaagcaacctgcctttatgatgttatatttgtagtagTAACATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAGgcaagtgcacaacctgaaagctaccaagtgtgatcactggtatgtgacta Alignment from Pairagon AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAG agcaaatgtgaagtcctaagcaacctgcctttatgatgttatatttgtagtagTAACATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAGgcaagtgcacaacctgaaagctaccaagtgtgatcactggtatgtgacta Alignment from Exonerate_protein2genome AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAG agcaaatgtgaagtcctaagcaacctgcctttatgatgttatatttgtagtagTAACATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAGgcaagtgcacaacctgaaagctaccaagtgtgatcactggtatgtgacta Alignment from Exonerate_coding2genome AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAG agcaaatgtgaagtcctaagcaacctgcctttatgatgttatatttgtagtagTAACATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAGgcaagtgcacaacctgaaagctaccaagtgtgatcactggtatgtgacta Alignment from GeneWise AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAGGT-- agcaaatgtgaagtcctaagcaacctgcctttatgatgttatatttgtagtagTAACATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAGGCAAgtgcacaacctgaaagctaccaagtgtgatcactggtatgtgacta #### Col17a1_ID10301_21 --> 2 - 1 Original Alignment gtATCCCTGGGCCCCTGGGCCACCCTGGCCCGGAAGGACCAAAGGGACAAAAAGGCAGCATTg cgagggaaaatcagagtggttttcctcttcactggatcctactaccacaggt---------CCATTGGGCCACCCTGGCCCAGAAGGGCCAAAGGGACAGAAAGGCAGCATCggtaagcgttctcccatatatacatgttcatttgtgatcccttcctaaatc Alignment from CESAR gtATCCCTGGGCCCCTGGGCCACCCTGGCCCGGAAGGACCAAAGGGACAAAAAGGCAGCATTg atgcaacatcgagggaaaatcagagtcttcactggatcctactaccacaggt---------CCATTGGGCCACCCTGGCCCAGAAGGGCCAAAGGGACAGAAAGGCAGCATCggtaagcgttctcccatatatacatgttcatttgtgatcccttcctaaatc Alignment from Spaln_aa2Genome GTATCCCTGGGCCCCTGGGCCACCCTGGCCCGGAAGGACCAAAGGGACAAAAAGGCAGCATTG cgagggaaaatcagagtggttttcctcttcactggatcctactaccacagGT---------CCATTGGGCCACCCTGGCCCAGAAGGGCCAAAGGGACAGAAAGGCAGCATCGgtaagcgttctcccatatatacatgttcatttgtgatcccttcctaaatc Alignment from Spaln_nt2Genome GTATCCCTGGGCCCCTGGGCCACCCTGGCCCGGAAGGACCAAAGGGACAAAAAGGCAGCATTG cgagggaaaatcagagtggttttcctcttcactggatcctactaccacagGT---------CCATTGGGCCACCCTGGCCCAGAAGGGCCAAAGGGACAGAAAGGCAGCATCGgtaagcgttctcccatatatacatgttcatttgtgatcccttcctaaatc Alignment from Pairagon GTATCCCTGGGCCCCTGGGCCACCCTGGCCCGGAAGGACCAAAGGGACAAAAAGGCAGCATTG cgagggaaaatcagagtggttttcctcttcactggatcctactaccacagGT---------CCATTGGGCCACCCTGGCCCAGAAGGGCCAAAGGGACAGAAAGGCAGCATCGgtaagcgttctcccatatatacatgttcatttgtgatcccttcctaaatc Alignment from Exonerate_protein2genome GGCCCCTGGGCCACCCTGGCCCGGAAGGACCAAAGGGACAAAAAGGCAGCATTG cgagggaaaatcagagtggttttcctcttcactggatcctactaccacagGTCCATTGGGCCACCCTGGCCCAGAAGGGCCAAAGGGACAGAAAGGCAGCATCGgtaagcgttctcccatatatacatgttcatttgtgatcccttcctaaatc Alignment from Exonerate_coding2genome GGCCCCTGGGCCACCCTGGCCCGGAAGGACCAAAGGGACAAAAAGGCAGCATTG cgagggaaaatcagagtggttttcctcttcactggatcctactaccacagGTCCATTGGGCCACCCTGGCCCAGAAGGGCCAAAGGGACAGAAAGGCAGCATCGgtaagcgttctcccatatatacatgttcatttgtgatcccttcctaaatc Alignment from GeneWise TCAAGGACCTAAAGGAGACCGAGGCCTTCCTGGGACCCCAGGTATCCCTGGGCCCCTGGGCCACCCTGGCCCGGAAGGACCAAAGGGACAAAAAGGCAGCATTG -------------------------------------------ACCACAGGTCCATTGGGCCACCCTGGCCCAGAAGGGCCAAAGGGACAGAAAGGCAGCATCGgtaagcgttctcccatatatacatgttcatttgtgatcccttcctaaatc #### Col17a1_ID10308_14 --> 2 - 1 Original Alignment ctTCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATg ataaggatataaggacagtgcgcttaagtaccatttttttaatctcatagcaTCTTTCTCAGAAGAGACATTGAAAAAGGAGAAGCAGGCAGCATATGCTGCTGACACCTGCCTCAAGGCA---------ggtatgctaaatggacctttagtaactactgcatgcacaaatctgcacctt Alignment from CESAR ctTCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATg ataaggatataaggacagtgcgcttaagtaccatttttttaatctcatagcaTCTTTCTCAGAAGAGACATTGAAAAAGGAGAAGCAGGCAGCATATGCTGCTGACACCTGCCTCAAGGCA---------ggtatgctaaatggacctttagtaactactgcatgcacaaatctgcacctt Alignment from Spaln_aa2Genome CTTCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCA- ataaggatataaggacagtgcgcttaagtaccatttttttaatctcatagCATCTTTCTCAGAAGAGACATTGAAAAAGGAGAAGCAGGCAGCATATGCTGCTGACACCTGCCTCAAGGCAGgtatgctaaatggacctttagtaactactgcatgcacaaatctgcacctt Alignment from Spaln_nt2Genome CTTCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAG ataaggatataaggacagtgcgcttaagtaccatttttttaatctcatagCATCTTTCTCAGAAGAGACATTGAAAAAGGAGAAGCAGGCAGCATATGCTGCTGACACCTGCCTCAAGGCAGgtatgctaaatggacctttagtaactactgcatgcacaaatctgcacctt Alignment from Pairagon CTTCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAG ataaggatataaggacagtgcgcttaagtaccatttttttaatctcatagCATCTTTCTCAGAAGAGACATTGAAAAAGGAGAAGCAGGCAGCATATGCTGCTGACACCTGCCTCAAGGCAGgtatgctaaatggacctttagtaactactgcatgcacaaatctgcacctt Alignment from Exonerate_protein2genome CTTCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATG ataaggatataaggacagtgcgcttaagtaccatttttttaatctcatagCATCTTTCTCAGAAGAGACATTGAAAAAGGAGAAGCAGGCAGCATATGCTGCTGACACCTGCCTCAAGGCAGGTATGCTAAatggacctttagtaactactgcatgcacaaatctgcacctt Alignment from Exonerate_coding2genome ataaggatataaggacagtgcgcttaagtaccatttttttaatctcatagcatctttctcagaagagacattgaaaaaggagaagcaggcagcatatgctgctgacacctgcctcaaggcaggtatgctaaatggacctttagtaactactgcatgcacaaatctgcacctt Alignment from GeneWise CTTCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTG---AATGGAGACCTA ataaggatataaggacagtgcgcttaagtaccatttttttaatctcatagCATCTTTCTCAGAAGAGACATTGAAAAAGGAGAAGCAGGCAGCATATGCTGCTGACACCTGCCTCAAGGCAGGTATGCTAAATGGACCTTTAgtaactactgcatgcacaaatctgcacctt #### Coro1b_ID352_2 --> 0 - 0 Original Alignment ---------ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gtagatgagccaaaaagcttaagattagtcgttctcctctccttccccagTCTTCCGGGACTGGCCACGTGGACAAGGCATTCCCAACAGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGgtaaataaaacctgttcggtttttattgtatcaagatcaccaacttctag Alignment from CESAR ---------ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gtagatgagccaaaaagcttaagattagtcgttctcctctccttccccagTCTTCCGGGACTGGCCACGTGGACAAGGCATTCCCAACAGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGgtaaataaaacctgttcggtttttattgtatcaagatcaccaacttctag Alignment from Spaln_aa2Genome CTAAACAAGACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gtagatgagccaaaaagcttaagattagtcgttctcctctccttccccagTCTTCCGGGACTGGCCACGTGGACAAGGCATTCCCAACAGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGgtaaataaaacctgttcggtttttattgtatcaagatcaccaacttctag Alignment from Spaln_nt2Genome ---------ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gtagatgagccaaaaagcttaagattagtcgttctcctctccttccccagTCTTCCGGGACTGGCCACGTGGACAAGGCATTCCCAACAGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGgtaaataaaacctgttcggtttttattgtatcaagatcaccaacttctag Alignment from Pairagon ---------ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gtagatgagccaaaaagcttaagattagtcgttctcctctccttccccagTCTTCCGGGACTGGCCACGTGGACAAGGCATTCCCAACAGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGgtaaataaaacctgttcggtttttattgtatcaagatcaccaacttctag Alignment from Exonerate_protein2genome CTAAACAAGACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gtagatgagccaaaaagcttaagattagtcgttctcctctccttccccagTCTTCCGGGACTGGCCACGTGGACAAGGCATTCCCAACAGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGgtaaataaaacctgttcggtttttattgtatcaagatcaccaacttctag Alignment from Exonerate_coding2genome CTAAACAAGACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gtagatgagccaaaaagcttaagattagtcgttctcctctccttccccagTCTTCCGGGACTGGCCACGTGGACAAGGCATTCCCAACAGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGgtaaataaaacctgttcggtttttattgtatcaagatcaccaacttctag Alignment from GeneWise ---------ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gtagatgagccaaaaagcttaagattagtcgttctcctctccttccccagTCTTCCGGGACTGGCCACGTGGACAAGGCATTCCCAACAGTCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGgtaaataaaacctgttcggtttttattgtatcaagatcaccaacttctag #### Coro1b_ID354_4 --> 2 - 0 Original Alignment gtTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA tgattaaactcattacaaatatgacttgtgactgtgactttctcttgcagga---------GTGCTACTTATCTGGAATGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAACGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtatctacaaatgagtattctgtcttttgacttgtgcctgtgattcctta Alignment from CESAR gtTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA gtgctgtgctgattaaactcattacttgtgactgtgactttctcttgcagga---------GTGCTACTTATCTGGAATGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAACGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtatctacaaatgagtattctgtcttttgacaacttttttctgatatccg Alignment from Spaln_aa2Genome GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA tgattaaactcattacaaatatgacttgtgactgtgactttctcttgcagGA---------GTGCTACTTATCTGGAATGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAACGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtatctacaaatgagtattctgtcttttgacttgtgcctgtgattcctta Alignment from Spaln_nt2Genome GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA tgattaaactcattacaaatatgacttgtgactgtgactttctcttgcagG---------AGTGCTACTTATCTGGAATGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAACGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtatctacaaatgagtattctgtcttttgacttgtgcctgtgattcctta Alignment from Pairagon GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA tgattaaactcattacaaatatgacttgtgactgtgactttctcttgcagG---------AGTGCTACTTATCTGGAATGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAACGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtatctacaaatgagtattctgtcttttgacttgtgcctgtgattcctta Alignment from Exonerate_protein2genome GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA tgattaaactcattacaaatatgacttgtgactgtgactttctcttgcagGA---------GTGCTACTTATCTGGAATGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAACGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtatctacaaatgagtattctgtcttttgacttgtgcctgtgattcctta Alignment from Exonerate_coding2genome GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA tgattaaactcattacaaatatgacttgtgactgtgactttctcttgcagGA---------GTGCTACTTATCTGGAATGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAACGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtatctacaaatgagtattctgtcttttgacttgtgcctgtgattcctta Alignment from GeneWise GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA tgattaaactcattacaaatatgacttgtgactgtgactttctcttgcagGA---------GTGCTACTTATCTGGAATGTGGATGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAACGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtatctacaaatgagtattctgtcttttgacttgtgcctgtgattcctta #### Coro1b_ID357_7 --> 0 - 2 Original Alignment GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCag tggatactaatggacattcctttgattgcttcaatttgttcttgattcagGGTGATTCTAGTATCCGGTACTTTGAGAACACAGATGAACCC---CACATCCATTTCTTGAACACATTTGCTAGCAAAGAACCCCAAAGGGGTATGGGCAGCATGCTG------------------------------------cggtagggacaatcagtggttgtatatcagttacctcatttagagaacacgc Alignment from CESAR GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCag tggatactaatggacattcctttgattgcttcaatttgttcttgattcagGGTGATTCTAGTATCCGGTACTTTGAGAACACAGATGAA---CCCCACATCCATTTCTTGAACACATTTGCTAGCAAAGAACCCCAAAGGGGTATGGGCAGCATG------------CTG------------------------cggtagggacaatcagtggttgtatatcagttacctcatttagagaacacgc Alignment from Spaln_aa2Genome GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAA tggatactaatggacattcctttgattgcttcaatttgttcttgattcagGGTGATTCTAGTATCCGGTACTTTGAGAACACAGATGAA---CCCCACATCCATTTCTTGAACACATTTGCTAGCAAAGAACCCCAAAGGGGTATGGGCAGCATGCTGCGgtagggacaatcagtggttgtatatcagttacctcatttagagaacacgc Alignment from Spaln_nt2Genome GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTG tggatactaatggacattcctttgattgcttcaatttgttcttgattcagGGTGATTCTAGTATCCGGTACTTTGAGAACACAGATGAACCCC---ACATCCATTTCTTGAACACATTTGCTAGCAAAGAACCCCAAAGGGGTATGGGCAGCATGC------TGCGGTAG--GGACAATCAGTGgttgtatatcagttacctcatttagagaacac Alignment from Pairagon GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG tggatactaatggacattcctttgattgcttcaatttgttcttgattcagGGTGATTCTAGTATCCGGTACTTTGAGAACACAGATGAACCCC---ACATCCATTTCTTGAACACATTTGCTAGCAAAGAACCCCAAAGGGGTATGGGCAGCATGC----------------------------------TGC--Ggtagggacaatcagtggttgtatatcagttacctcatttagagaacacgc Alignment from Exonerate_protein2genome GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG tggatactaatggacattcctttgattgcttcaatttgttcttgattcagGGTGATTCTAGTATCCGGTACTTTGAGAACACAGATGAA---CCCCACATCCATTTCTTGAACACATTTGCTAGCAAAGAACCCCAAAGGGGTATGGGCAGCATGCTGCGGTAGGGACAATCAGTGGTTGTATATCAGTTACCTCAtttagagaacacgc Alignment from Exonerate_coding2genome GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG tggatactaatggacattcctttgattgcttcaatttgttcttgattcagGGTGATTCTAGTATCCGGTACTTTGAGAACACAGATGAA---CCCCACATCCATTTCTTGAACACATTTGCTAGCAAAGAACCCCAAAGGGGTATGGGCAGCATGCTGCGGTAGGGACAATCAGTGGTTGTATATCAGTTACCTCAtttagagaacacgc Alignment from GeneWise GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG tggatactaatggacattcctttgattgcttcaatttgttcttgattcagGGTGATTCTAGTATCCGGTACTTTGAGAACACAGATGAACCC---CACATCCATTTCTTGAACACATTTGCTAGCAAAGAACCCCAAAGGGGTATGGGCAGCATG------------------------------------CTGCGgtagggacaatcagtggttgtatatcagttacctcatttagagaacacgc #### Cpsf7_ID2863_3 --> 0 - 2 Original Alignment TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCAAATGGCCAGTCTAAAgg ctgctaaatttgatctgtcatttgatctgatttgtgaattttcactttagTGGACTACAGATCAGCAACTGATTCAGGTTATCCACTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTGCAGAGAATCGGGCTAATGGCCCGTCT---gggtaagaggcgtcaaaactgtgggggaacccttgacttatcttttgagtga Alignment from CESAR TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCAAATGGCCAGTCTAAAgg ctgctaaatttgatctgtcatttgatctgatttgtgaattttcactttagTGGACTACAGATCAGCAACTGATTCAGGTTATCCACTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTGCAGAGAATCGGGCTAATGGCCCGTCT---gggtaagaggcgtcaaaactgtgggggaacccttgacttatcttttgagtga Alignment from Spaln_aa2Genome TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCAAATGGCCAGTCTAA ctgctaaatttgatctgtcatttgatctgatttgtgaattttcactttagTGGACTACAGATCAGCAACTGATTCAGGTTATCCACTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTGCAGAGAATCGGGCTAATGGCCCGTCTGGgtaagaggcgtcaaaactgtgggggaacccttgacttatcttttgagtga Alignment from Spaln_nt2Genome TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCAAATGGCCAGTCTAAAGG ctgctaaatttgatctgtcatttgatctgatttgtgaattttcactttagTGGACTACAGATCAGCAACTGATTCAGGTTATCCACTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTGCAGAGAATCGGGCTAATGGCCCGTCT---GGgtaagaggcgtcaaaactgtgggggaacccttgacttatcttttgagtga Alignment from Pairagon TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCAAATGGCCAGTCTAAAGG ctgctaaatttgatctgtcatttgatctgatttgtgaattttcactttagTGGACTACAGATCAGCAACTGATTCAGGTTATCCACTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTGCAGAGAATCGGGCTAATGGCCCGTCT---GGgtaagaggcgtcaaaactgtgggggaacccttgacttatcttttgagtga Alignment from Exonerate_protein2genome TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCAAATGGCCAGTCTAAAGG ctgctaaatttgatctgtcatttgatctgatttgtgaattttcactttagTGGACTACAGATCAGCAACTGATTCAGGTTATCCACTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTGCAGAGAATCGGGCTAATGGCCCGTCT---GGgtaagaggcgtcaaaactgtgggggaacccttgacttatcttttgagtga Alignment from Exonerate_coding2genome TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCAAATGGCCAGTCTAAAGG ctgctaaatttgatctgtcatttgatctgatttgtgaattttcactttagTGGACTACAGATCAGCAACTGATTCAGGTTATCCACTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTGCAGAGAATCGGGCTAATGGCCCGTCT---GGgtaagaggcgtcaaaactgtgggggaacccttgacttatcttttgagtga Alignment from GeneWise TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCAAATGGCCAGTCTAA ctgctaaatttgatctgtcatttgatctgatttgtgaattttcactttagTGGACTACAGATCAGCAACTGATTCAGGTTATCCACTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTGCAGAGAATCGGGCTAATGGCCCGTCTGGgtaagaggcgtcaaaactgtgggggaacccttgacttatcttttgagtga #### Csf2ra_ID13432_8 --> 0 - 1 Original Alignment ------------------------------------------GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCg ggtccacaaagacacgttcttactcccaaccacacttgtttcctcctcagCCAGTTTCCACAGATTTTGCTGTGTACAACGTCGTGGTCCATGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGACACTAGGATGAAGCACTGGGGAAAATGG------GTGCAGCCTCTCggtgagccaactgttatgcttgattcccgccaaaaatatacctgctgtcca Alignment from CESAR tactttggcaactagcacacacacatacatgtactagtgtacactcgcata Alignment from Spaln_aa2Genome ------------GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggtccacaaagacacgttcttactcccaaccacacttgtttcctcctcagccagtttccacagattttgctgtgtacaacGTCGTGGTCCATGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGACACTAGGATGAAGCACTGGGGAAAATGG------GTGCAGCCTCTCGgtgagccaactgttatgcttgattcccgccaaaaatatacctgctgtcca Alignment from Spaln_nt2Genome GAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggtccacaaagacacgttcttactcccaaccacacttgtttcctcctcagccagtttccacagattttgctgtgtacaacgtcgtggtccatgtcctggttgttgagGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGACACTAGGATGAAGCACTGGGGAAAATGG------GTGCAGCCTCTCGgtgagccaactgttatgcttgattcccgccaaaaatatacctgctgtcca Alignment from Pairagon -----------------------------GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggtccacaaagacacgttcttactcccaaccacacttgtttcctcctcagccagtttccacagATTTTGCTGTGTACAACGTCGTGGTCCATGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGACACTAGGATGAAGCACTGGGGAAAATGG------GTGCAGCCTCTCGgtgagccaactgttatgcttgattcccgccaaaaatatacctgctgtcca Alignment from Exonerate_protein2genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggtccacaaagacacgttcttactcccaaccacacttgtttcctcctcagccagtttccacagattttgctgtgtacaacgtcgtggtccatGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGACACTAGGATGAAGCACTGGGGAAAATGG------GTGCAGCCTCTCGgtgagccaactgttatgcttgattcccgccaaaaatatacctgctgtcca Alignment from Exonerate_coding2genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATC ggtccacaaagacacgttcttactcccaaccacacttgtttcctcctcagccagtttccacagattttgctgtgtacaacgtcgtggtccatGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGACACTAGGATGAAGCACTGGGGAAAATGGGTGCAGCCTCTCGgtgagccaactgttatgcttgattcccgccaaaaatatacctgctgtcca Alignment from GeneWise ------AGCGCAGAGCCAGGA------AGCACACCCCGGAAGGTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggtccacaaagacacgttcttactcccaaccacacttgtttcctcctcagCCAGTTTCCACAGATTTTGCTGTGTACAACGTCGTGGTCCATGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGAGCAGGTGACACTAGGATGAAGCACTGGGGAAAATGG------GTGCAGCCTCTCGgtgagccaactgttatgcttgattcccgccaaaaatatacctgctgtcca #### Csf2ra_ID13437_3 --> 0 - 1 Original Alignment CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAA---------g atagaacgctcagtgcattaccctaacctaatggctcgctgtgttggcagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGACGTCAATGGCACAGTTGGAGGTGCAGCCGCACATTGGAAGCTCAGCTTTGTTAATGAGCTTCTTCCTggtgaggatagatgttggggactccatgatacactttctactaagctatca Alignment from CESAR CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAA---------g atagaacgctcagtgcattaccctaacctaatggctcgctgtgttggcagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGACGTCAATGGCACAGTTGGAGGTGCAGCCGCACATTGGAAGCTCAGCTTTGTTAATGAGCTTCTTCCTggtgaggatagatgttggggactccatgatacactttctactaagctatca Alignment from Spaln_aa2Genome CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAGGCGCGGCGG atagaacgctcagtgcattaccctaacctaatggctcgctgtgttggcagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGACGTCAATGGCACAGTTGGAGGTGCAGCCGCACATTGGAAGCTCAGCTTTGTTAATGAGCTTCTTCCTGgtgaggatagatgttggggactccatgatacactttctactaagctatca Alignment from Spaln_nt2Genome CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAA---------G atagaacgctcagtgcattaccctaacctaatggctcgctgtgttggcagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGACGTCAATGGCACAGTTGGAGGTGCAGCCGCACATTGGAAGCTCAGCTTTGTTAATGAGCTTCTTCCTGgtgaggatagatgttggggactccatgatacactttctactaagctatca Alignment from Pairagon CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAA---------G atagaacgctcagtgcattaccctaacctaatggctcgctgtgttggcagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGACGTCAATGGCACAGTTGGAGGTGCAGCCGCACATTGGAAGCTCAGCTTTGTTAATGAGCTTCTTCCTGgtgaggatagatgttggggactccatgatacactttctactaagctatca Alignment from Exonerate_protein2genome CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAGGCGCGGCGG atagaacgctcagtgcattaccctaacctaatggctcgctgtgttggcagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGACGTCAATGGCACAGTTGGAGGTGCAGCCGCACATTGGAAGCTCAGCTTTGTTAATGAGCTTCTTCCTGgtgaggatagatgttggggactccatgatacactttctactaagctatca Alignment from Exonerate_coding2genome CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAGGCGCGGCGG atagaacgctcagtgcattaccctaacctaatggctcgctgtgttggcagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGACGTCAATGGCACAGTTGGAGGTGCAGCCGCACATTGGAAGCTCAGCTTTGTTAATGAGCTTCTTCCTGgtgaggatagatgttggggactccatgatacactttctactaagctatca Alignment from GeneWise CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAA---------G atagaacgctcagtgcattaccctaacctaatggctcgctgtgttggcagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGACGTCAATGGCACAGTTGGAGGTGCAGCCGCACATTGGAAGCTCAGCTTTGTTAATGAGCTTCTTCCTGgtgaggatagatgttggggactccatgatacactttctactaagctatca #### Csf2ra_ID13438_2 --> 2 - 0 Original Alignment ct---------CCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG aggtcctccaccacccactaccaagacactgctttgtctttgtataacagccTTATCAAAACCAACCACTCCGTATGTTGGCTCTGCCCTCAACCTGATCTTTGATCCTTGGACCCGCATGCTGACCTGGGCTTGTGATGCTGCTGCAGACAATGTCATGGTGATGTCATGCACAGTAACTGTTACATCATGGGAAGCATCAATACACCGGCGAGTTTCAgtgagaaagtaagatttgatactgggcctaataatcccatgaggcccaat Alignment from CESAR ct---------CCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTGACC------TCGCGGGAGGCGGGGATACACCGGCGAGTCTCG aggtcctccaccacccactaccaagacactgctttgtctttgtataacagccTTATCAAAACCAACCACTCCGTATGTTGGCTCTGCCCTCAACCTGATCTTTGATCCTTGGACCCGCATGCTGACCTGGGCTTGTGATGCTGCTGCAGACAATGTCATGGTGATGTCATGCACAGTAACTGTTACATCATGGGAAGCATCAATACACCGGCGAGTTTCAgtgagaaagtaagatttgatactgggcctaataatcccatgaggcccaat Alignment from Spaln_aa2Genome CT---------CCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG aggtcctccaccacccactaccaagacactgctttgtctttgtataacagCCTTATCAAAACCAACCACTCCGTATGTTGGCTCTGCCCTCAACCTGATCTTTGATCCTTGGACCCGCATGCTGACCTGGGCTTGTGATGCTGCTGCAGACAATGTCATGGTGATGTCATGCACAGTAACTGTTACATCATGGGAAGCATCAATACACCGGCGAGTTTCAgtgagaaagtaagatttgatactgggcctaataatcccatgaggcccaat Alignment from Spaln_nt2Genome CT---------CCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTGACC------TCGCGGGAGGCGGGGATACACCGGCGAGTCTCG aggtcctccaccacccactaccaagacactgctttgtctttgtataacagCCTTATCAAAACCAACCACTCCGTATGTTGGCTCTGCCCTCAACCTGATCTTTGATCCTTGGACCCGCATGCTGACCTGGGCTTGTGATGCTGCTGCAGACAATGTCATGGTGATGTCATGCACAGTAACTGTTACATCATGGGAAGCATCAATACACCGGCGAGTTTCAgtgagaaagtaagatttgatactgggcctaataatcccatgaggcccaat Alignment from Pairagon CT---------CCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTGACC------TCGCGGGAGGCGGGGATACACCGGCGAGTCTCG aggtcctccaccacccactaccaagacactgctttgtctttgtataacagCCTTATCAAAACCAACCACTCCGTATGTTGGCTCTGCCCTCAACCTGATCTTTGATCCTTGGACCCGCATGCTGACCTGGGCTTGTGATGCTGCTGCAGACAATGTCATGGTGATGTCATGCACAGTAACTGTTACATCATGGGAAGCATCAATACACCGGCGAGTTTCAgtgagaaagtaagatttgatactgggcctaataatcccatgaggcccaat Alignment from Exonerate_protein2genome CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG aggtcctccaccacccactaccaagacactgctttgtctttgtataacagccttatcaaAACCAACCACTCCGTATGTTGGCTCTGCCCTCAACCTGATCTTTGATCCTTGGACCCGCATGCTGACCTGGGCTTGTGATGCTGCTGCAGACAATGTCATGGTGATGTCATGCACAGTAACTGTTACATCATGGGAAGCATCAATACACCGGCGAGTTTCAgtgagaaagtaagatttgatactgggcctaataatcccatgaggcccaat Alignment from Exonerate_coding2genome CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG aggtcctccaccacccactaccaagacactgctttgtctttgtataacagccttatcaaAACCAACCACTCCGTATGTTGGCTCTGCCCTCAACCTGATCTTTGATCCTTGGACCCGCATGCTGACCTGGGCTTGTGATGCTGCTGCAGACAATGTCATGGTGATGTCATGCACAGTAACTGTTACATCATGGGAAGCATCAATACACCGGCGAGTTTCAgtgagaaagtaagatttgatactgggcctaataatcccatgaggcccaat Alignment from GeneWise --------GCTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTGACC------TCGCGGGAGGCGGGGATACACCGGCGAGTCTCG aggtcctccaccacccactaccaagacactgctttgtctttgtataacagCCTTATCAAAACCAACCACTCCGTATGTTGGCTCTGCCCTCAACCTGATCTTTGATCCTTGGACCCGCATGCTGACCTGGGCTTGTGATGCTGCTGCAGACAATGTCATGGTGATGTCATGCACAGTAACTGTTACATCATGGGAAGCATCAATACACCGGCGAGTTTCAgtgagaaagtaagatttgatactgggcctaataatcccatgaggcccaat #### Ctsf_ID675_3 --> 0 - 1 Original Alignment ------CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAg tagggtatatcacatctgtgaatcaataactgatcactttctctccccagCTAACTCTCTGTAGTTTTGAAGCCCTTGAAGCACTTAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCTGTGAATGCCCAGATCACTggtgagggattgctcaagtagatggacagaaagagataatacccaagtaag Alignment from CESAR ------CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAg tagggtatatcacatctgtgaatcaataactgatcactttctctccccagCTAACTCTCTGTAGTTTTGAAGCCCTTGAAGCACTTAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCTGTGAATGCCCAGATCACTggtgagggattgctcaagtagatggacagaaagagataatacccaagtaag Alignment from Spaln_aa2Genome CTCTGCAGTTTT------GAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAG tagggtatatcacatctgtgaatcaataactgatcactttctctccccagCTAACTCTCTGTAGTTTTGAAGCCCTTGAAGCACTTAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCTGTGAATGCCCAGATCACTGgtgagggattgctcaagtagatggacagaaagagataatacccaagtaag Alignment from Spaln_nt2Genome CTCTGCAGTTT------TGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAG tagggtatatcacatctgtgaatcaataactgatcactttctctccccagCTAACTCTCTGTAGTTTTGAAGCCCTTGAAGCACTTAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCTGTGAATGCCCAGATCACTGgtgagggattgctcaagtagatggacagaaagagataatacccaagtaag Alignment from Pairagon ------CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAG tagggtatatcacatctgtgaatcaataactgatcactttctctccccagCTAACTCTCTGTAGTTTTGAAGCCCTTGAAGCACTTAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCTGTGAATGCCCAGATCACTGgtgagggattgctcaagtagatggacagaaagagataatacccaagtaag Alignment from Exonerate_protein2genome ------CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAG tagggtatatcacatctgtgaatcaataactgatcactttctctccccagCTAACTCTCTGTAGTTTTGAAGCCCTTGAAGCACTTAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCTGTGAATGCCCAGATCACTGgtgagggattgctcaagtagatggacagaaagagataatacccaagtaag Alignment from Exonerate_coding2genome ------CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAG tagggtatatcacatctgtgaatcaataactgatcactttctctccccagCTAACTCTCTGTAGTTTTGAAGCCCTTGAAGCACTTAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCTGTGAATGCCCAGATCACTGgtgagggattgctcaagtagatggacagaaagagataatacccaagtaag Alignment from GeneWise ------CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAG tagggtatatcacatctgtgaatcaataactgatcactttctctccccagCTAACTCTCTGTAGTTTTGAAGCCCTTGAAGCACTTAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCTGTGAATGCCCAGATCACTGgtgagggattgctcaagtagatggacagaaagagataatacccaagtaag #### Ctsf_ID679_7 --> 2 - 0 Original Alignment ag---------GAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTG------AAGAACCAG taggatggtgccctgatgcccattctggctacctgatacttctttggcagagATGCATCCTGAAGAAATTCATACCATTGGCCTGATCCCTCTCTTACAGAAGCAATCTGGCAGGAAGATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGGTGAAGAATGAAgtaagtgtaatttgaaattgggagggggttcaaggcctattagagctaac Alignment from CESAR ag---------GAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAA------GTGAAGAACCAG taggatggtgccctgatgcccattctggctacctgatacttctttggcagagATGCATCCTGAAGAAATTCATACCATTGGCCTGATCCCTCTCTTACAGAAGCAATCTGGCAGGAAGATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGGTGAAGAATGAAgtaagtgtaatttgaaattgggagggggttcaaggcctattagagctaac Alignment from Spaln_aa2Genome ACCTCACAGAGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAG taggatggtgccctgatgcccattctggctacctgatacttctttggcagAGATGCATCCTGAAGAAATTCATACCATTGGCCTGATCCCTCTCTTACAGAAGCAATCTGGCAGGAAGATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGgtgaagaatgaagtaagtgtaatttgaaattgggagggggttcaaggcctattagagctaac Alignment from Spaln_nt2Genome AG---------GAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAG taggatggtgccctgatgcccattctggctacctgatacttctttggcagAGATGCATCCTGAAGAAATTCATACCATTGGCCTGATCCCTCTCTTACAGAAGCAATCTGGCAGGAAGATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGgtgaagaatgaagtaagtgtaatttgaaattgggagggggttcaaggcctattagagctaac Alignment from Pairagon AG---------GAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAA------GTGAAGAA------------------------------------------------------ taggatggtgccctgatgcccattctggctacctgatacttctttggcagAGATGCATCCTGAAGAAATTCATACCATTGGCCTGATCCCTCTCTTACAGAAGCAATCTGGCAGGAAGATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGGTGAAGAATGAAGTAAGTGTAATTTGAAATTGGGAGGGGGTTCAAGGCCTATTAGAGCTAAC Alignment from Exonerate_protein2genome AG---------GAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAG taggatggtgccctgatgcccattctggctacctgatacttctttggcagAGATGCATCCTGAAGAAATTCATACCATTGGCCTGATCCCTCTCTTACAGAAGCAATCTGGCAGGAAGATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGgtgaagaatgaagtaagtgtaatttgaaattgggagggggttcaaggcctattagagctaac Alignment from Exonerate_coding2genome AG---------GAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAG taggatggtgccctgatgcccattctggctacctgatacttctttggcagAGATGCATCCTGAAGAAATTCATACCATTGGCCTGATCCCTCTCTTACAGAAGCAATCTGGCAGGAAGATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGgtgaagaatgaagtaagtgtaatttgaaattgggagggggttcaaggcctattagagctaac Alignment from GeneWise --------GAGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTG------AAGAACCAG taggatggtgccctgatgcccattctggctacctgatacttctttggcagAGATGCATCCTGAAGAAATTCATACCATTGGCCTGATCCCTCTCTTACAGAAGCAATCTGGCAGGAAGATGAGTTCAGCGAAATCCATAACTGACCTTGCTCCACCTGAGTGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGGTGAAGAATGAAgtaagtgtaatttgaaattgggagggggttcaaggcctattagagctaac #### Ctsf_ID682_10 --> 2 - 1 Original Alignment gaGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATa gcagagcataaggttgtcatatttccctgagcctcccatctgtcccacagga---------ACAGAAGATGACTATGGCTATCAGGACCATGTTCAGACCTGTAACTTCTCAGCACAGATGGCAAAAGTCTACATCAACGATTCGGTGGAGCTGAGTCAAAATGAAAATagtgagtgagggctaccataagtgacttggggtaacacaacttccctgctc Alignment from CESAR gaGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATa gcttttgtagcagagcataaggttgcctgagcctcccatctgtcccacagga---------ACAGAAGATGACTATGGCTATCAGGACCATGTTCAGACCTGTAACTTCTCAGCACAGATGGCAAAAGTCTACATCAACGATTCGGTGGAGCTGAGTCAAAATGAAAATagtgagtgagggctaccataagtgacttggggtaacacaactttcatccat Alignment from Spaln_aa2Genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gcagagcataaggttgtcatatttccctgagcctcccatctgtcccacagGA---------ACAGAAGATGACTATGGCTATCAGGACCATGTTCAGACCTGTAACTTCTCAGCACAGATGGCAAAAGTCTACATCAACGATTCGGTGGAGCTGAGTCAAAATGAAAATAgtgagtgagggctaccataagtgacttggggtaacacaacttccctgctc Alignment from Spaln_nt2Genome GA-CAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gcagagcataaggttgtcatatttccctgagcctcccatctgtcccacagGAACAGAAGATGACTATGGCTATCAGGACCATGTTCAGACCTGTAACTTCTCAGCACAGATGGCAAAAGTCTACATCAACGATTCGGTGGAGCTGAGTCAAAATGAAAATAgtgagtgagggctaccataagtgacttggggtaacacaacttccctgctc Alignment from Pairagon GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gcagagcataaggttgtcatatttccctgagcctcccatctgtcccacagGA---------ACAGAAGATGACTATGGCTATCAGGACCATGTTCAGACCTGTAACTTCTCAGCACAGATGGCAAAAGTCTACATCAACGATTCGGTGGAGCTGAGTCAAAATGAAAATAgtgagtgagggctaccataagtgacttggggtaacacaacttccctgctc Alignment from Exonerate_protein2genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gcagagcataaggttgtcatatttccctgagcctcccatctGTCCCACAGGAACAGAAGATGACTATGGCTATCAGGACCATGTTCAGACCTGTAACTTCTCAGCACAGATGGCAAAAGTCTACATCAACGATTCGGTGGAGCTGAGTCAAAATGAAAATAgtgagtgagggctaccataagtgacttggggtaacacaacttccctgctc Alignment from Exonerate_coding2genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gcagagcataaggttgtcatatttccctgagcctcccatctGTCCCACAGGAACAGAAGATGACTATGGCTATCAGGACCATGTTCAGACCTGTAACTTCTCAGCACAGATGGCAAAAGTCTACATCAACGATTCGGTGGAGCTGAGTCAAAATGAAAATAgtgagtgagggctaccataagtgacttggggtaacacaacttccctgctc Alignment from GeneWise GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gcagagcataaggttgtcatatttccctgagcctcccatctgtcccacagGA---------ACAGAAGATGACTATGGCTATCAGGACCATGTTCAGACCTGTAACTTCTCAGCACAGATGGCAAAAGTCTACATCAACGATTCGGTGGAGCTGAGTCAAAATGAAAATAgtgagtgagggctaccataagtgacttggggtaacacaacttccctgctc #### Ctsf_ID683_11 --> 2 - 0 Original Alignment agATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG acttggggtaacacaactttcatccatgttcatgtctggttgttctgaagag---------TGGCTGGCCCAGAAAGGTCCTATTTCAGTTGCCATCAATGCCTTTGGAATGCAGgtaaaggtgtttcattggaatgcaggcatagcgattctggcctccctgtg Alignment from CESAR agATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG ccataagtgacttggggtaacacaaatgttcatgtctggttgttctgaagag---------TGGCTGGCCCAGAAAGGTCCTATTTCAGTTGCCATCAATGCCTTTGGAATGCAGgtaaaggtgtttcattggaatgcaggcatagcgattctggcctccctgtg Alignment from Spaln_aa2Genome AGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG acttggggtaacacaactttcatccatgttcatgtctggttgttctgaagAG---------TGGCTGGCCCAGAAAGGTCCTATTTCAGTTGCCATCAATGCCTTTGGAATGCAGgtaaaggtgtttcattggaatgcaggcatagcgattctggcctccctgtg Alignment from Spaln_nt2Genome AGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG acttggggtaacacaactttcatccatgttcatgtctggttgttctgaagAG---------TGGCTGGCCCAGAAAGGTCCTATTTCAGTTGCCATCAATGCCTTTGGAATGCAGgtaaaggtgtttcattggaatgcaggcatagcgattctggcctccctgtg Alignment from Pairagon AGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG acttggggtaacacaactttcatccatgttcatgtctggttgttctgaagAG---------TGGCTGGCCCAGAAAGGTCCTATTTCAGTTGCCATCAATGCCTTTGGAATGCAGgtaaaggtgtttcattggaatgcaggcatagcgattctggcctccctgtg Alignment from Exonerate_protein2genome TGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG acttggggtaacacaactttcatccatgttcatgtctggttgttctgaagagTGGCTGGCCCAGAAAGGTCCTATTTCAGTTGCCATCAATGCCTTTGGAATGCAGgtaaaggtgtttcattggaatgcaggcatagcgattctggcctccctgtg Alignment from Exonerate_coding2genome TGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG acttggggtaacacaactttcatccatgttcatgtctggttgttctgaagagTGGCTGGCCCAGAAAGGTCCTATTTCAGTTGCCATCAATGCCTTTGGAATGCAGgtaaaggtgtttcattggaatgcaggcatagcgattctggcctccctgtg Alignment from GeneWise AGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG acttggggtaacacaactttcatccatgttcatgtctggttgttctgaagAG---------TGGCTGGCCCAGAAAGGTCCTATTTCAGTTGCCATCAATGCCTTTGGAATGCAGgtaaaggtgtttcattggaatgcaggcatagcgattctggcctccctgtg #### Ctsf_ID685_13 --> 2 - 0 Original Alignment gcTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG GGTTACTACTACTTGTAC aagctccggtaattccttactactctaatttttattactcaaaattttaggt---AACATTCCCTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGgtaatcttgttaagtacctttgtgtcttgtagGGGTACTATTACTTATAC Alignment from CESAR gcTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG GGTTACTACTACTTGTAC cttaagctccggtaattccttactataatttttattactcaaaattttaggt---AACATTCCCTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGgtaatcttgtaagaactgctgtttccctatagGGGTACTATTACTTATAC Alignment from Spaln_aa2Genome GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG GGTTACTACTACTTGTAC aagctccggtaattccttactactctaatttttattactcaaaattttagGT---AACATTCCCTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGgtaatcttgttaagtacctttgtgtcttgtagGGGTACTATTACTTATAC Alignment from Spaln_nt2Genome GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGG--------------------------------AGGGTTACTACTACTTGTAC aagctccggtaattccttactactctaatttttattactcaaaattttagG---TAACATTCCCTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGGTAATCTTGTTAAGTACCTTTGTGTCTTGTAGGGGTACTATTACTTATAC Alignment from Pairagon GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG GGTTACTACTACTTGTAC aagctccggtaattccttactactctaatttttattactcaaaattttagG---TAACATTCCCTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGgtaatcttgttaagtacctttgtgtcttgtagGGGTACTATTACTTATAC Alignment from Exonerate_protein2genome CTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG GGTTACTACTACTTGTAC aagctccggtaattccttactactctaatttttattactcaaaattttagGTAACATTCCCTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGgtaatcttgttaagtacctttgtgtcttgtagGGGTACTATTACTTATAC Alignment from Exonerate_coding2genome CTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG GGTTACTACTACTTGTAC aagctccggtaattccttactactctaatttttattactcaaaattttagGTAACATTCCCTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGgtaatcttgttaagtacctttgtgtcttgtagGGGTACTATTACTTATAC Alignment from GeneWise --AACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG GGTTACTACTACTTGTAC aagctccggtaattccttactactctaatttttattactcaaaattttagGTAACATTCCCTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGgtaatcttgttaagtacctttgtgtcttgtagGGGTACTATTACTTATAC #### Ctsw_ID1018_8 --> 2 - 0 Original Alignment caATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG aggtagatatgccaccctctaaaatttgcatcttcactgtgcttcctcagtg---GCACACTACCTCACTGCACATGGGCCCATCACTGTGACCATTAACATGAAACTACTTCTGgtattttgtccagcacaataagaggaagtggggctctggaagctctcttc Alignment from CESAR caATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG tggaggtagatatgccaccctctaattgcatcttcactgtgcttcctcagtg---GCACACTACCTCACTGCACATGGGCCCATCACTGTGACCATTAACATGAAACTACTTCTGgtattttgtccagcacaataagaggaagtggggctctggaagctctcttc Alignment from Spaln_aa2Genome GCAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG tagatatgccaccctctaaaatttgcatcttcactgtgcttcctca gTGGCACACTACCTCACTGCACATGGGCCCATCACTGTGACCATTAACATGAAACTACTTCTGgtattttgtccagcacaataagaggaagtggggctctggaagctctcttc Alignment from Spaln_nt2Genome TGCC-CACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG aggtagatatgccaccctctaaaatttgcatcttcactgtgcttcctcagTGGCACACTACCTCACTGCACATGGGCCCATCACTGTGACCATTAACATGAAACTACTTCTGgtattttgtccagcacaataagaggaagtggggctctggaagctctcttc Alignment from Pairagon CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG aggtagatatgccaccctctaaaatttgcatcttcactgtgcttcctcag---TGGCACACTACCTCACTGCACATGGGCCCATCACTGTGACCATTAACATGAAACTACTTCTGgtattttgtccagcacaataagaggaagtggggctctggaagctctcttc Alignment from Exonerate_protein2genome CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG aggtagatatgccaccctctaaaatttgcatcttcactgtgcttcctCAGTGGCACACTACCTCACTGCACATGGGCCCATCACTGTGACCATTAACATGAAACTACTTCTGgtattttgtccagcacaataagaggaagtggggctctggaagctctcttc Alignment from Exonerate_coding2genome CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG aggtagatatgccaccctctaaaatttgcatcttcactgtgcttcctCAGTGGCACACTACCTCACTGCACATGGGCCCATCACTGTGACCATTAACATGAAACTACTTCTGgtattttgtccagcacaataagaggaagtggggctctggaagctctcttc Alignment from GeneWise CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG aggtagatatgccaccctctaaaatttgcatcttcactgtgcttcctcagTG---GCACACTACCTCACTGCACATGGGCCCATCACTGTGACCATTAACATGAAACTACTTCTGgtattttgtccagcacaataagaggaagtggggctctggaagctctcttc #### Ctsw_ID1021_5 --> 0 - 1 Original Alignment ---GGAAGCTGCAAA---------------------------TGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGg tggtttccatttatctaacccaaggacatttttgtatgtttacgttttagGTGAGAGGGTGCAACCATTTCCCTGGCCGATGGATCAGTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATCCAGTCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGGATGTCTCAGTCCAGggttagtggggtttccatgtggttagctgtattctctctttgcataccagc Alignment from CESAR ---GGAAGCTGCAAA---------------------------TGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGg tggtttccatttatctaacccaaggacatttttgtatgtttacgttttagGTGAGAGGGTGCAACCATTTCCCTGGCCGATGGATCAGTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATCCAGTCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGGATGTCTCAGTCCAGggttagtggggtttccatgtggttagctgtattctctctttgcataccagc Alignment from Spaln_aa2Genome TG CAAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGG TGgtttccatttatctaacccaaggacatttttgtatgtttacgttttaggtgagagggtgcaaccatttccctggccgatggatcagTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATCCAGTCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGGATGTCTCAGTCCAGGgttagtggggtttccatgtggttagctgtattctctctttgcataccagc Alignment from Spaln_nt2Genome GGAAGCTGCAAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGG tggtttccatttatctaacccaaggacatttttgtatgtttacgttttaggtgagagggtgcaaccatttccctggccgatggatcagTG----TG----TGCTGTTGGGCAATGGCAGCTGCTGACAACATCCAGTCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGGATGTCTCAGTCCAGGgttagtggggtttccatgtggttagctgtattctctctttgcataccagc Alignment from Pairagon ------------------------------------------------------GAAGCTGCAA---------------------------ATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGG TGGTTTCCATTTATCTAACCCAAGGACATTTTTGTATGTTTACGTTTTAGGTGAGAGGGTGCAACCATTTCCCTGGCCGATGGATCAGTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATCCAGTCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGGATGTCTCAGTCCAGGgttagtggggtttccatgtggttagctgtattctctctttgcataccagc Alignment from Exonerate_protein2genome GGAAGCTGCAAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGG tggtttccatttatctaacccaaggacatttttgtatgtttacgttttaggtgagagggtgcaaccatttccctggccgaTGGATCAGTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATCCAGTCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGGATGTCTCAGTCCAGGgttagtggggtttccatgtggttagctgtattctctctttgcataccagc Alignment from Exonerate_coding2genome GGAAGCTGCAAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGG tggtttccatttatctaacccaaggacatttttgtatgtttacgttttaggtgagagggtgcaaccatttccctggccgaTGGATCAGTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATCCAGTCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGGATGTCTCAGTCCAGGgttagtggggtttccatgtggttagctgtattctctctttgcataccagc Alignment from GeneWise TG CAAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGG TGgtttccatttatctaacccaaggacatttttgtatgtttacgttttaggtgagagggtgcaaccatttccctggccgatggatcagTGTGTGCTGTTGGGCAATGGCAGCTGCTGACAACATCCAGTCTTTGTGGTGCATAAAGCACCAGAAGTTTGTGGATGTCTCAGTCCAGGgttagtggggtttccatgtggttagctgtattctctctttgcataccagc #### Ctsw_ID1022_4 --> 2 - 0 Original Alignment agGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG tagcctctccaactaattaatcgaaaccattccatttgttgttttcacagag------------------------AGA---AGATCCCCAGAACGGACCCCGAATATGACCAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAATCAGgtaagtgccttagcttggtttccatttatctaacccaaggacaccttctc Alignment from CESAR agGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accacacttttgccaccctgctgctaccattccatttgttgttttcacagag---------------------------AGAAGATCCCCAGAACGGACCCCGAATATGACCAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAATCAGgtaagtgccttagcttggtttccatttatctaacccaaggacaacctctt Alignment from Spaln_aa2Genome AGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAGGGAAGCTGC-------- tagcctctccaactaattaatcgaaaccattccatttgttgttttcacagAGAGAAGATCCCCAGAACGGACCCCGAATATGACCAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAATCAGGTAAGTGCCTTAGCTTGgtttccatttatctaacccaaggacaccttctc Alignment from Spaln_nt2Genome AGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG tagcctctccaactaattaatcgaaaccattccatttgttgttttcacagAGAGAAGATCCCCAGAACGGACCCCGAATATGACCAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAATCAGgtaagtgccttagcttggtttccatttatctaacccaaggacaccttctc Alignment from Pairagon ACAGAGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG tagcctctccaactaattaatcgaaaccattccatttgttgttttcacagAGAGA-------------------------------AGATCCCCAGAACGGACCCCGAATATGACCAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAATCAGgtaagtgccttagcttggtttccatttatctaacccaaggacaccttctc Alignment from Exonerate_protein2genome TATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG tagcctctccaactaattaatcgaaaccattccatttgttgTTTTCACAGAGAGAAGATCCCCAGAACGGACCCCGAATATGACCAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAATCAGgtaagtgccttagcttggtttccatttatctaacccaaggacaccttctc Alignment from Exonerate_coding2genome TATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG tagcctctccaactaattaatcgaaaccattccatttgttgTTTTCACAGAGAGAAGATCCCCAGAACGGACCCCGAATATGACCAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAATCAGgtaagtgccttagcttggtttccatttatctaacccaaggacaccttctc Alignment from GeneWise GGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAGGGAAGC---------TG tagcctctccaactaattaatcgaaaccattccatttgttgttttcacagAGAGA---AGATCCCCAGAACGGACCCCGAATATGACCAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAATCAGGTAAGTGCCTTAGCTTGgtttccatttatctaacccaaggacaccttctc #### Ctsw_ID1024_2 --> 0 - 1 Original Alignment GATGCAGGTCCCCGGCCACTGGAGCTGAAGGAAGTCTTCAAGCTGTTCCAGATCCGGTTCAACCGGAGTTACTGGAACCCAGCA---------------------------------------------g gaccaggatgacagataagaaccatgagtgtcctttattgtgcttcctagGATACAGGTCCCCGACCACTTGAGGTGAAGGAAGTCTTTAGGCTGTTTGACATACGGCTCAATCAGAGCTACTGGAACCCAGCACCCAGATCCGTGAACTGGGTACACTTGGCCGTGTCTGATCGAGCAggtaagtccaggcatagatgttcctggtacaacttctgttgttggctgcaa Alignment from CESAR GATGCAGGTCCCCGGCCACTGGAGCTGAAGGAAGTCTTCAAGCTGTTCCAGATCCGGTTCAACCGGAGTTACTGGAACCCAGCAg gaccaggatgacagataagaaccatgagtgtcctttattgtgcttcctagGATACAGGTCCCCGACCACTTGAGGTGAAGGAAGTCTTTAGGCTGTTTGACATACGGCTCAATCAGAGCTACTGGAACCCAGCAcccagatccgtgaactgggtacacttggccgtgtctgatcgagcaggtaagtccaggcatagatgttcctggtacaacttctgttgttggctgcaa Alignment from Spaln_aa2Genome GATGCAGGTCCCCGGCCACTGGAGCTGAAGGAAGTCTTCAAGCTGTTCCAGATCCGGTTCAACCGGAGTTACTGGAACCCAGCA------GAG gaccaggatgacagataagaaccatgagtgtcctttattgtgcttcctagGATACAGGTCCCCGACCACTTGAGGTGAAGGAAGTCTTTAGGCTGTTTGACATACGGCTCAATCAGAGCTACTGGAACCCAGCACCCAGATCCgtgaactgggtacacttggccgtgtctgatcgagcaggtaagtccaggcatagatgttcctggtacaacttctgttgttggctgcaa Alignment from Spaln_nt2Genome GATGCAGGTCCCCGGCCACTGGAGCTGAAGGAAGTCTTCAAGCTGTTCCAGATCCGGTTCAACCGGAGTTACTGGAACCCAGCAG-------- gaccaggatgacagataagaaccatgagtgtcctttattgtgcttcctagGATACAGGTCCCCGACCACTTGAGGTGAAGGAAGTCTTTAGGCTGTTTGACATACGGCTCAATCAGAGCTACTGGAACCCAGCACCCAGATCCgtgaactgggtacacttggccgtgtctgatcgagcaggtaagtccaggcatagatgttcctggtacaacttctgttgttggctgcaa Alignment from Pairagon GATGCAGGTCCCCGGCCACTGGAGCTGAAGGAAGTCTTCAAGCTGTTCCAGATCCGGTTCAACCGGAGTTACTGGAACCC---------------------------------------------AGCAG gaccaggatgacagataagaaccatgagtgtcctttattgtgcttcctagGATACAGGTCCCCGACCACTTGAGGTGAAGGAAGTCTTTAGGCTGTTTGACATACGGCTCAATCAGAGCTACTGGAACCCAGCACCCAGATCCGTGAACTGGGTACACTTGGCCGTGTCTGATCGAGCAGgtaagtccaggcatagatgttcctggtacaacttctgttgttggctgcaa Alignment from Exonerate_protein2genome GATGCAGGTCCCCGGCCACTGGAGCTGAAGGAAGTCTTCAAGCTGTTCCAGATCCGGTTCAACCGGAGTTACTGGAACCCAGCAG gaccaggatgacagataagaaccatgagtgtcctttattgtgcttcctagGATACAGGTCCCCGACCACTTGAGGTGAAGGAAGTCTTTAGGCTGTTTGACATACGGCTCAATCAGAGCTACTGGAACCCAGCACccagatccgtgaactgggtacacttggccgtgtctgatcgagcaggtaagtccaggcatagatgttcctggtacaacttctgttgttggctgcaa Alignment from Exonerate_coding2genome GATGCAGGTCCCCGGCCACTGGAGCTGAAGGAAGTCTTCAAGCTGTTCCAGATCCGGTTCAACCGGAGTTACTGGAACCCAGCAG gaccaggatgacagataagaaccatgagtgtcctttattgtgcttcctagGATACAGGTCCCCGACCACTTGAGGTGAAGGAAGTCTTTAGGCTGTTTGACATACGGCTCAATCAGAGCTACTGGAACCCAGCACccagatccgtgaactgggtacacttggccgtgtctgatcgagcaggtaagtccaggcatagatgttcctggtacaacttctgttgttggctgcaa Alignment from GeneWise GATGCAGGTCCCCGGCCACTGGAGCTGAAGGAAGTCTTCAAGCTGTTCCAGATCCGGTTCAACCGGAGTTACTGGAACCCAGCAGAG------ gaccaggatgacagataagaaccatgagtgtcctttattgtgcttcctagGATACAGGTCCCCGACCACTTGAGGTGAAGGAAGTCTTTAGGCTGTTTGACATACGGCTCAATCAGAGCTACTGGAACCCAGCACCCAGATCCgtgaactgggtacacttggccgtgtctgatcgagcaggtaagtccaggcatagatgttcctggtacaacttctgttgttggctgcaa #### Cyp17a1_ID9993_7 --> 1 - 1 Original Alignment cATTGGAGAGTTTGCCATCCCGAAGGACACACATGTGATCATCAATCTCTGGGCACTGCATCACGATAAAAATGAATGGGACCAGCCAGATCGGTTTATGCCTg taaagtaactattgcaaatcaagcccgtttctctttttgtattccgacagt---------------ATCCTGAAAGATACTCATGTAATCATCAACCTGTGGGCACTGCATCATGACAAAAATGAA---TATCAGGCAGATCAGTTCATGCCTggtgagcccctctccactccatgctaacttctgtaccatgtagtttctcat Alignment from CESAR cATTGGAGAGTTTGCCATCCCGAAGGACACACATGTGATCATCAATCTCTGGGCACTGCATCACGATAAAAATGAATGGGACCAGCCAGATCGGTTTATGCCTg cttaagacttttggctaaagtaactcgtttctctttttgtattccgacagt---------------ATCCTGAAAGATACTCATGTAATCATCAACCTGTGGGCACTGCATCATGACAAAAATGAATAT---CAGGCAGATCAGTTCATGCCTggtgagcccctctccactccatgctaacttctgtaccatgtagtttctcat Alignment from Spaln_aa2Genome CATTGGAGAGTTTGCCATCCCGAAGGACACACATGTGATCATCAATCTCTGGGCACTGCATCACGATAAAAATGAATGGGACCAGCCAGATCGGTTTATGCCTG taaagtaactattgcaaatcaagcccgtttctctttttgtattccgacagT---------------ATCCTGAAAGATACTCATGTAATCATCAACCTGTGGGCACTGCATCATGACAAAAATGAATAT---CAGGCAGATCAGTTCATGCCTGgtgagcccctctccactccatgctaacttctgtaccatgtagtttctcat Alignment from Spaln_nt2Genome ---- -ATCCCGAAGGACACACATGTGATCATCAATCTCTGGGCACTGCATCACGATAAAAATGAATGGGACCAGCCAGATCGGTTTATGCCTG TAAAgtaactattgcaaatcaagcccgtttctctttttgtattccgacagTATCCTGAAAGATACTCATGTAATCATCAACCTGTGGGCACTGCATCATGACAAAAATGAAT---ATCAGGCAGATCAGTTCATGCCTGgtgagcccctctccactccatgctaacttctgtaccatgtagtttctcat Alignment from Pairagon CATTGGAGAGTTTGCCATCCCGAAGGACACACATGTGATCATCAATCTCTGGGCACTGCATCACGATAAAAATGAATGGGACCAGCCAGATCGGTTTATGCCTG taaagtaactattgcaaatcaagcccgtttctctttttgtattccgacag---------------TATCCTGAAAGATACTCATGTAATCATCAACCTGTGGGCACTGCATCATGACAAAAATGAAT---ATCAGGCAGATCAGTTCATGCCTGgtgagcccctctccactccatgctaacttctgtaccatgtagtttctcat Alignment from Exonerate_protein2genome CATTGGAGAGTTTGCCATCCCGAAGGACACACATGTGATCATCAATCTCTGGGCACTGCATCACGATAAAAATGAATGGGACCAGCCAGATCGGTTTATGCCTG taaagtaactattgcaaatcaagcccgtttctcttTTTGTATTCCGACAGTATCCTGAAAGATACTCATGTAATCATCAACCTGTGGGCACTGCATCATGACAAAAATGAATAT---CAGGCAGATCAGTTCATGCCTGgtgagcccctctccactccatgctaacttctgtaccatgtagtttctcat Alignment from Exonerate_coding2genome CATTGGAGAGTTTGCCATCCCGAAGGACACACATGTGATCATCAATCTCTGGGCACTGCATCACGATAAAAATGAATGGGACCAGCCAGATCGGTTTATGCCTG taaagtaactattgcaaatcaagcccgtttctcttTTTGTATTCCGACAGTATCCTGAAAGATACTCATGTAATCATCAACCTGTGGGCACTGCATCATGACAAAAATGAATAT---CAGGCAGATCAGTTCATGCCTGgtgagcccctctccactccatgctaacttctgtaccatgtagtttctcat Alignment from GeneWise ----------AGCATTGGAGAGTTTGCCATCCCGAAGGACACACATGTGATCATCAATCTCTGGGCACTGCATCACGATAAAAATGAATGGGACCAGCCAGATCGGTTTATGCCTG taaagtaactattgcaaatcaagCCCGTTTCTCTTTTTGTATTCCGACAGTATCCTGAAAGATACTCATGTAATCATCAACCTGTGGGCACTGCATCATGACAAAAATGAATAT---CAGGCAGATCAGTTCATGCCTGgtgagcccctctccactccatgctaacttctgtaccatgtagtttctcat #### Cyp17a1_ID9996_4 --> 0 - 0 Original Alignment ATTTTTCCCAATAAAAACTTGGAAATGATAAAGGAACACACTAAAATTCGAGAAAAAACACTGGTTGAAATGTTTGAAAAATGCAAG ctactccgcctacttgtcaatgctctccgttttctttattttaattatagATTTTGCCCAATAAGAACTTGGAAATGATAAAAGAGCATACTAAGATCCAGGATAAA------GTTGATATGTTTGAA---------gtaaggagttgaccgacttagagtttcagatgttgggctgacaggattcc Alignment from CESAR ATTTTTCCCAATAAAAACTTGGAAATGATAAAGGAACACACTAAAATTCGAGAAAAAACACTGGTTGAAATGTTTGAAAAATGCAAG ctactccgcctacttgtcaatgctctccgttttctttattttaattatagATTTTGCCCAATAAGAACTTGGAAATGATAAAAGAGCATACTAAGATCCAGGATAAA------GTTGATATGTTTGAA---------gtaaggagttgaccgacttagagtttcagatgttgggctga Alignment from Spaln_aa2Genome ATTTTTCCCAATAAAAACTTGGAAATGATAAAGGAACACACTAAAATTCGAGAAAAAACACTGGTTGAAATGTTTGAA ctactccgcctacttgtcaatgctctccgttttctttattttaattatagATTTTGCCCAATAAGAACTTGGAAATGATAAAAGAGCATACTAAGATCCAGGATAAA------GTTGATATGTTTGAAgtaaggagttgaccgacttagagtttcagatgttgggctgacaggattcc Alignment from Spaln_nt2Genome ATTTTTCCCAATAAAAACTTGGAAATGATAAAGGAACACACTAAAATTCGAGAAAAAACACTGGTTGAAATGTTTGAA ctactccgcctacttgtcaatgctctccgttttctttattttaattatagATTTTGCCCAATAAGAACTTGGAAATGATAAAAGAGCATACTAAGATCCAGGATAAA------GTTGATATGTTTGAAgtaaggagttgaccgacttagagtttcagatgttgggctgacaggattcc Alignment from Pairagon ATTTTTCCCAATAAAAACTTGGAAATGATAAAGGAACACACTAAAATTCGAGAAAAAACACTGGTTGAAATGTTTGAA ctactccgcctacttgtcaatgctctccgttttctttattttaattatagATTTTGCCCAATAAGAACTTGGAAATGATAAAAGAGCATACTAAGATCCAGGATAAA------GTTGATATGTTTGAAgtaaggagttgaccgacttagagtttcagatgttgggctgacaggattcc Alignment from Exonerate_protein2genome ATTTTTCCCAATAAAAACTTGGAAATGATAAAGGAACACACTAAAATTCGAGAAAAA ctactccgcctacttgtcaatgctctccgttttctttattttaattatagATTTTGCCCAATAAGAACTTGGAAATGATAAAAGAGCATACTAAGATCCAGGATAAAgttgatatgtttgaagtaaggagttgaccgacttagagtttcagatgttgggctgacaggattcc Alignment from Exonerate_coding2genome ATTTTTCCCAATAAAAACTTGGAAATGATAAAGGAACACACTAAAATTCGAGAAAAA ctactccgcctacttgtcaatgctctccgttttctttattttaattatagATTTTGCCCAATAAGAACTTGGAAATGATAAAAGAGCATACTAAGATCCAGGATAAAgttgatatgtttgaagtaaggagttgaccgacttagagtttcagatgttgggctgacaggattcc Alignment from GeneWise ---TTTCCCAATAAAAACTTGGAAATGATAAAGGAACACACTAAAATTCGAGAAAAAACACTGGTTGAAATGTTTGAAAAATGCAAG ctactccgcctacttgtcaatgctctccgttttctttattttaattatagATTTTGCCCAATAAGAACTTGGAAATGATAAAAGAGCATACTAAGATCCAGGATAAA------GTTGATATGTTT---------GAAgtaaggagttgaccgacttagagtttcagatgttgggctgacaggattcc #### Cyp26a1_ID7414_2 --> 0 - 0 Original Alignment CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTAGTGTCAGTTCACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTAACCTGTATGATTCCTCACATAAGAAACAAAAG---gtaatgggtactggaaggccaattaaggtaatgactggaaggccaattcc Alignment from CESAR CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTAGTGTCAGTTCACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTAACCTGTATGATTCCTCACATAAGAAACAA---AAGgtaatgggtactggaaggccaattaaggtaatgactggaaggccaattcc Alignment from Spaln_aa2Genome CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTAGTGTCAGTTCACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTAACCTGTATGATTCCTCACATAAG---AAACAAAAGgtaatgggtactggaaggccaattaaggtaatgactggaaggccaattcc Alignment from Spaln_nt2Genome CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTAGTGTCAGTTCACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTAACCTGTATGATTCCTCACATAAGAAACAAAAGgtaatgggtactggaaggccaattaaggtaatgactggaaggccaattcc Alignment from Pairagon CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTAGTGTCAGTTCACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTAACCTGTATGATTCCTCACATAAGAAACAAAAGgtaatgggtactggaaggccaattaaggtaatgactggaaggccaattcc Alignment from Exonerate_protein2genome CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTAGTGTCAGTTCACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTAACCTGTATGATTCCTCACATAAGAAACAAAAGGTAatgggtactggaaggccaattaaggtaatgactggaaggccaattcc Alignment from Exonerate_coding2genome CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTAGTGTCAGTTCACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTAACCTGTATGATTCCTCACATAAGAAACAAAAGGTAatgggtactggaaggccaattaaggtaatgactggaaggccaattcc Alignment from GeneWise CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ccccctgcaaaccatggccacttccatggcccacttgctctcttatgcagCGCAGGAAGTTTCTTCAGATGGAGCACAGGAAGTATGGCTTCATCTACAAGACACATCTGTTTGGCTGGCCAACGGTGCGTGTGATGGGTACAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTAGTGTCAGTTCACTGGCCTGCATCAGTACGCATCATCCTGGGTGCTGGCTGCCTTTCTAACCTGTATGATTCCTCACATAAG---AAACAAAAGgtaatgggtactggaaggccaattaaggtaatgactggaaggccaattcc #### Cyp26a1_ID7418_6 --> 0 - 0 Original Alignment ---------GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tatgtttgggtttgtaatccttgtgaagtgctgctacctctcctttgcagATCAGCCCAGGCTTACTTTGCAAGAGCAATCAGGATAACAAGTTGGACATGGAAACGTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCTAGAGGGTTTCGGGTTGCTCTGAAGACCTTTGGGCTGAATgtaagtgcactccttctccactggacatagcccttgcccttatacactat Alignment from CESAR ---------GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tatgtttgggtttgtaatccttgtgaagtgctgctacctctcctttgcagATCAGCCCAGGCTTACTTTGCAAGAGCAATCAGGATAACAAGTTGGACATGGAAACGTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCTAGAGGGTTTCGGGTTGCTCTGAAGACCTTTGGGCTGAATgtaagtgcactccttctccactggacatagcccttgcccttatacactat Alignment from Spaln_aa2Genome GGCTTACTTTGC---------AAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tatgtttgggtttgtaatccttgtgaagtgctgctacctctcctttgcagATCAGCCCAGGCTTACTTTGCAAGAGCAATCAGGATAACAAGTTGGACATGGAAACGTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCTAGAGGGTTTCGGGTTGCTCTGAAGACCTTTGGGCTGAATgtaagtgcactccttctccactggacatagcccttgcccttatacactat Alignment from Spaln_nt2Genome GGCTTACTTT---------GCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tatgtttgggtttgtaatccttgtgaagtgctgctacctctcctttgcagATCAGCCCAGGCTTACTTTGCAAGAGCAATCAGGATAACAAGTTGGACATGGAAACGTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCTAGAGGGTTTCGGGTTGCTCTGAAGACCTTTGGGCTGAATgtaagtgcactccttctccactggacatagcccttgcccttatacactat Alignment from Pairagon ---------GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tatgtttgggtttgtaatccttgtgaagtgctgctacctctcctttgcagATCAGCCCAGGCTTACTTTGCAAGAGCAATCAGGATAACAAGTTGGACATGGAAACGTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCTAGAGGGTTTCGGGTTGCTCTGAAGACCTTTGGGCTGAATgtaagtgcactccttctccactggacatagcccttgcccttatacactat Alignment from Exonerate_protein2genome ---------GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tatgtttgggtttgtaatccttgtgaagtgctgctacctctcctttgcagATCAGCCCAGGCTTACTTTGCAAGAGCAATCAGGATAACAAGTTGGACATGGAAACGTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCTAGAGGGTTTCGGGTTGCTCTGAAGACCTTTGGGCTGAATgtaagtgcactccttctccactggacatagcccttgcccttatacactat Alignment from Exonerate_coding2genome ---------GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tatgtttgggtttgtaatccttgtgaagtgctgctacctctcctttgcagATCAGCCCAGGCTTACTTTGCAAGAGCAATCAGGATAACAAGTTGGACATGGAAACGTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCTAGAGGGTTTCGGGTTGCTCTGAAGACCTTTGGGCTGAATgtaagtgcactccttctccactggacatagcccttgcccttatacactat Alignment from GeneWise ---------GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tatgtttgggtttgtaatccttgtgaagtgctgctacctctcctttgcagATCAGCCCAGGCTTACTTTGCAAGAGCAATCAGGATAACAAGTTGGACATGGAAACGTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCTAGAGGGTTTCGGGTTGCTCTGAAGACCTTTGGGCTGAATgtaagtgcactccttctccactggacatagcccttgcccttatacactat #### Cyp2c37_ID7840_3 --> 2 - 1 Original Alignment gcCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg agcatggaatctttttgctgcacctgtgacactttgaattttctccttagga------TTCAGTAAAGGAAATGTATGGAGAAACATGAAGCACTACTCAGTCATGCCATTGCGTAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAAACTAACtgtgagttaggtctatgggtaattctttacttattaaaagcgattgtcaca Alignment from CESAR gcCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg gagcatagcatggaatctttttgctgtgacactttgaattttctccttagga------TTCAGTAAAGGAAATGTATGGAGAAACATGAAGCACTACTCAGTCATGCCATTGCGTAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAAACTAACtgtgagttaggtctatgggtaattctttacttattaaaagcgattgtcaca Alignment from Spaln_aa2Genome GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agcatggaatctttttgctgcacctgtgacactttgaattttctccttagGA------TTCAGTAAAGGAAATGTATGGAGAAACATGAAGCACTACTCAGTCATGCCATTGCGTAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAAACTAACTgtgagttaggtctatgggtaattctttacttattaaaagcgattgtcaca Alignment from Spaln_nt2Genome --TTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agcatggaatctttttgctgcacctgtgacactttgaattttctccttagGATTCAGTAAAGGAAATGTATGGAGAAACATGAAGCACTACTCAGTCATGCCATTGCGTAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAAACTAACTgtgagttaggtctatgggtaattctttacttattaaaagcgattgtcaca Alignment from Pairagon ---------------------------------------------CCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG AGCATGGAATCTTTTTGCTGCACCTGTGACACTTTGAATTTTCTCCTTAGGATTCAGTAAAGGAAATGTATGGAGAAACATGAAGCACTACTCAGTCATGCCATTGCGTAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAAACTAACTgtgagttaggtctatgggtaattctttacttattaaaagcgattgtcaca Alignment from Exonerate_protein2genome CATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agcatggaatctttttgctgcacctgtgacactttgaattttctccttagGATTCAGTAAAGGAAATGTATGGAGAAACATGAAGCACTACTCAGTCATGCCATTGCGTAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAAACTAACTgtgagttaggtctatgggtaattctttacttattaaaagcgattgtcaca Alignment from Exonerate_coding2genome CATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agcatggaatctttttgctgcacctgtgacactttgaattttctccttagGATTCAGTAAAGGAAATGTATGGAGAAACATGAAGCACTACTCAGTCATGCCATTGCGTAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAAACTAACTgtgagttaggtctatgggtaattctttacttattaaaagcgattgtcaca Alignment from GeneWise GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agcatggaatctttttgctgcacctgtgacactttgaattttctccttagGA------TTCAGTAAAGGAAATGTATGGAGAAACATGAAGCACTACTCAGTCATGCCATTGCGTAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAAACTAACTgtgagttaggtctatgggtaattctttacttattaaaagcgattgtcaca #### Cyp2c50_ID7862_3 --> 2 - 1 Original Alignment gcATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg gtgcattgcagctagcaattgaaattactcccttttctcctcatctgtaggg------------AAGGGAAATGTATGGAAAAATATAAGACACTTCTCACTTACCACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATggtgaagcaaagtgcagacccagaacctagtgtgattttaatctagttttt Alignment from CESAR gcATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg aggaaagtgtgagtgcattgcagcttactcccttttctcctcatctgtaggg------------AAGGGAAATGTATGGAAAAATATAAGACACTTCTCACTTACCACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATggtgaagcaaagtgcagacccagaacctagtgtgattttaatctagttttt Alignment from Spaln_aa2Genome GGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG gtgcattgcagctagcaattgaaattactcccttttctcctcatctgtagggaagGGAAATGTATGGAAAAATATAAGACACTTCTCACTTACCACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgaagcaaagtgcagacccagaacctagtgtgattttaatctagttttt Alignment from Spaln_nt2Genome GTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG gtgcattgcagctagcaattgaaattactcccttttctcctcatctgtagGGAAGGGAAATGTATGGAAAAATATAAGACACTTCTCACTTACCACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgaagcaaagtgcagacccagaacctagtgtgattttaatctagttttt Alignment from Pairagon GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG gtgcattgcagctagcaattgaaattactcccttttctcctcatctgtag------------GGAAGGGAAATGTATGGAAAAATATAAGACACTTCTCACTTACCACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgaagcaaagtgcagacccagaacctagtgtgattttaatctagttttt Alignment from Exonerate_protein2genome GTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG gtgcattgcagctagcaattgaaattactcccttttctcctcatctgtagGGAAGGGAAATGTATGGAAAAATATAAGACACTTCTCACTTACCACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgaagcaaagtgcagacccagaacctagtgtgattttaatctagttttt Alignment from Exonerate_coding2genome GTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG gtgcattgcagctagcaattgaaattactcccttttctcctcatctgtagGGAAGGGAAATGTATGGAAAAATATAAGACACTTCTCACTTACCACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgaagcaaagtgcagacccagaacctagtgtgattttaatctagttttt Alignment from GeneWise GTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG gtgcattgcagctagcaattgaaattactcccttttctcctcatctgtagGGAAGGGAAATGTATGGAAAAATATAAGACACTTCTCACTTACCACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgaagcaaagtgcagacccagaacctagtgtgattttaatctagttttt #### Cyp2c50_ID7863_4 --> 2 - 0 Original Alignment gcTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTTAATTTGATGGAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTGCAG agtggatttgtgtaagctactatttgtctactgtagctttccctttccaggcTCACCGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTTAATTTGATGGAAAAGTTAAATAAAATATCT---------------------------gtaaggtcaggtatttggaatgacacctcggaagactgtccagagtgatc Alignment from CESAR gcTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTTAATTTGATGGAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTGCAG agtggatttgtgtaagctactatttgtctactgtagctttccctttccaggcTCACCGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTTAATTTGATGGAAAAGTTAAATAAAATATCT---------------------------gtaaggtcaggtatttggaatga Alignment from Spaln_aa2Genome GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTTAATTTGATGGAAAAACTGAATGAAATAACC agtggatttgtgtaagctactatttgtctactgtagctttccctttccagGCTCACCGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTTAATTTGATGGAAAAGTTAAATAAAATATCTgtaaggtcaggtatttggaatgacacctcggaagactgtccagagtgatc Alignment from Spaln_nt2Genome GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTTAATTTGATGGAAAAACTGAATGAAATAACCAAGAT agtggatttgtgtaagctactatttgtctactgtagctttccctttccagGCTCACCGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTTAATTTGATGGAAAAGTTAAATAAAATATCTGTAAGgtcaggtatttggaatgacacctcggaagactgtccagagtgatc Alignment from Pairagon GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTTAATTTGATGGAAAAACTGAATGAAATAACC agtggatttgtgtaagctactatttgtctactgtagctttccctttccagGCTCACCGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTTAATTTGATGGAAAAGTTAAATAAAATATCTgtaaggtcaggtatttggaatgacacctcggaagactgtccagagtgatc Alignment from Exonerate_protein2genome GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTTAATTTGATGGAAAAACTGAATGAAATAACCAAGAT agtggatttgtgtaagctactatttgtctactgtagctttccctttccagGCTCACCGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTTAATTTGATGGAAAAGTTAAATAAAATATCTGTAAGgtcaggtatttggaatgacacctcggaagactgtccagagtgatc Alignment from Exonerate_coding2genome GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTTAATTTGATGGAAAAACTGAATGAAATAACCAAGAT agtggatttgtgtaagctactatttgtctactgtagctttccctttccagGCTCACCGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTTAATTTGATGGAAAAGTTAAATAAAATATCTGTAAGgtcaggtatttggaatgacacctcggaagactgtccagagtgatc Alignment from GeneWise GCTCACCCTGTGATCCCACCTTCATCCTGGGCTGTGCTCCCTGCAATGTCATCTGCTCAATTATTTTCCAGGATCGTTTTGATTATAAAGATCGGGATTTTCTTAATTTGATGGAAAAACTGAATGAAATAACCAAGATAATGAGCACCCCTTGGTTGCAG agtggatttgtgtaagctactatttgtctactgtagctttccctttccagGCTCACCGTGTGATCCTGCCTTCATCTTGGGTTGTGCTCCCTGCAATGATATCCGCTCAATTATTTTTGATGATCGATTTGAGTATAAAGATCGGGATTTTCTTAATTTGATGGAAAAGTTAAATAAAATA---------------------------TCTgtaaggtcaggtatttggaatgacacctcggaagactgtccagagtgatc #### D19Ertd737e_ID13191_3 --> 2 - 2 Original Alignment gc---------AAATTGAAGAATGAAAAGGAATCTCACag tttgcaacacagaaggctagatgtcagtgcatcatgcctctccccatcaggcGAAGGACAGAAGTTGAAAAATGAGAGAGAATCTCACaggtgagtataggcaataaaatatgtatgctaactaaccttttagcatggcc Alignment from CESAR gc---------AAATTGAAGAATGAAAAGGAATCTCACag tttgcaacacagaaggctagatgtcagtgcatcatgcctctccccatcaggcGAAGGACAGAAGTTGAAAAATGAGAGAGAATCTCACaggtgagtataggcaataaaatatgtatgctaactaaccttttagcatggcc Alignment from Spaln_aa2Genome GCAAATTGAAGAAT---GAAAAGGAATCTCACAG tttgcaacacagaaggctagatgtcagtgcatcatgcctctccccatcaggcgaagGACAGAAGTTGAAAAATGAGAGAGAATCTCACAGgtgagtataggcaataaaatatgtatgctaactaaccttttagcatggcc Alignment from Spaln_nt2Genome GCAAA---------TTGAAGAATGAAAAGGAATCTCACAG tttgcaacacagaaggctagatgtcagtgcatcatgcctctccccatcagGCGAAGGACAGAAGTTGAAAAATGAGAGAGAATCTCACAGgtgagtataggcaataaaatatgtatgctaactaaccttttagcatggcc Alignment from Pairagon GC---------AAATTGAAGAATGAAAAGGAATCTCACAG tttgcaacacagaaggctagatgtcagtgcatcatgcctctccccatcagGCGAAGGACAGAAGTTGAAAAATGAGAGAGAATCTCACAGgtgagtataggcaataaaatatgtatgctaactaaccttttagcatggcc Alignment from Exonerate_protein2genome GC---------AAATTGAAGAATGAAAAGGAATCTCACAG tttgcaacacagaaggctagatgtcagtgcatcatgcctctccccatcagGCGAAGGACAGAAGTTGAAAAATGAGAGAGAATCTCACAGgtgagtataggcaataaaatatgtatgctaactaaccttttagcatggcc Alignment from Exonerate_coding2genome tttgcaacacagaaggctagatgtcagtgcatcatgcctctccccatcaggcgaaggacagaagttgaaaaatgagagagaatctcacaggtgagtataggcaataaaatatgtatgctaactaaccttttagcatggcc Alignment from GeneWise tttgcaacacagaaggctagatgtcagtgcatcatgcctctccccatcaggcgaaggacagaagttgaaaaatgagagagaatctcacaggtgagtataggcaataaaatatgtatgctaactaaccttttagcatggcc #### D19Ertd737e_ID13192_2 --> 0 - 1 Original Alignment AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAA---g atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAAAACTCAGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGGATggttggtgtagcttagggatgtgggcttacatctaagttaattaggccatt Alignment from CESAR AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAA---g atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAAAACTCAGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGGATggttggtgtagcttagggatgtgggcttacatctaagttaattaggccatt Alignment from Spaln_aa2Genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAA---G atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAAAACTCAGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGGATGgttggtgtagcttagggatgtgggcttacatctaagttaattaggccatt Alignment from Spaln_nt2Genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG--- atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAAAACTCAGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGGATGgttggtgtagcttagggatgtgggcttacatctaagttaattaggccatt Alignment from Pairagon AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAA------------------------------------------------------- atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAAAACTCAGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGGATGGTTGGTGTAGCTTAGGGATGTGGGCTTACATCTAAGTTAATTAGGCCATT Alignment from Exonerate_protein2genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAAAACTCAGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGGatggttggtgtagcttagggatgtgggcttacatctaagttaattaggccatt Alignment from Exonerate_coding2genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAA---GGCAAATTGAAGAATGAAAAGGAATCTCACAG atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAAAACTCAGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGGATGGTTGGTGTAGCTTAGGGATGTGGGCTTACATctaagttaattaggccatt Alignment from GeneWise AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAGGC- atgcccatctcctgcctacatgtacacattaaatattctattccatttagAAGTTTCAAGAATTGCATAAAAAAAACTCAGAACAAAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCAAAAAAGGATGgttggtgtagcttagggatgtgggcttacatctaagttaattaggccatt #### Dagla_ID2758_12 --> 0 - 0 Original Alignment GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG ttgctctgatgttgaaggtctatccttctctgttttgattttatttgtag------GTACTGGCAGCTGAGTACATTAAGAAGAAGCTGGAACAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGgtgagttttgatttgaactattctcaaacctgcactaacctgtaccaatg Alignment from CESAR GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG tcacaattgctctgatgttgaaggtttctctgttttgattttatttgtag------GTACTGGCAGCTGAGTACATTAAGAAGAAGCTGGAACAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGgtgagttttgatttgaactattctcaaacctgcactaacctgtaccaatg Alignment from Spaln_aa2Genome GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG ttgctctgatgttgaaggtctatccttctctgttttgattttatttgtag------GTACTGGCAGCTGAGTACATTAAGAAGAAGCTGGAACAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGgtgagttttgatttgaactattctcaaacctgcactaacctgtaccaatg Alignment from Spaln_nt2Genome GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG ttgctctgatgttgaaggtctatccttctctgttttgattttatttgtag------GTACTGGCAGCTGAGTACATTAAGAAGAAGCTGGAACAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGgtgagttttgatttgaactattctcaaacctgcactaacctgtaccaatg Alignment from Pairagon GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG ttgctctgatgttgaaggtctatccttctctgttttgattttatttgtag------GTACTGGCAGCTGAGTACATTAAGAAGAAGCTGGAACAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGgtgagttttgatttgaactattctcaaacctgcactaacctgtaccaatg Alignment from Exonerate_protein2genome GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG ttgctctgatgttgaaggtctatccttctctgttttgattttatTTGTAGGTACTGGCAGCTGAGTACATTAAGAAGAAGCTGGAACAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGgtgagttttgatttgaactattctcaaacctgcactaacctgtaccaatg Alignment from Exonerate_coding2genome CTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG ttgctctgatgttgaaggtctatccttctctgttttgattttatttgtaggtactggcagCTGAGTACATTAAGAAGAAGCTGGAACAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGgtgagttttgatttgaactattctcaaacctgcactaacctgtaccaatg Alignment from GeneWise GTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG ttgctctgatgttgaaggtctatccttctctgttttgattttatttgtagGTACTGGCAGCTGAGTACATTAAGAAGAAGCTGGAACAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGgtgagttttgatttgaactattctcaaacctgcactaacctgtaccaatg #### Dagla_ID2759_11 --> 0 - 0 Original Alignment GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG acttttgttacactaccactatgtgatttctcattcttgtctctggctag---------ACTGATTTGACAGGTGATGCAGAGCACCTTCCTGCAGAGACACACAGAGTTGCCTGGTTGGGGCATAAAgtaggtggttaactgatgttccagcgtctcacaattgctctgatgttgaa Alignment from CESAR GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG ttacactctacttttgttacactacatttctcattcttgtctctggctag---------ACTGATTTGACAGGTGATGCAGAGCACCTTCCTGCAGAGACACACAGAGTTGCCTGGTTGGGGCATAAAgtaggtggttaactgatgttccagcgtctcacaattgctctgatgttgaa Alignment from Spaln_aa2Genome GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG acttttgttacactaccactatgtgatttctcattcttgtctctggctag---------ACTGATTTGACAGGTGATGCAGAGCACCTTCCTGCAGAGACACACAGAGTTGCCTGGTTGGGGCATAAAgtaggtggttaactgatgttccagcgtctcacaattgctctgatgttgaa Alignment from Spaln_nt2Genome GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG acttttgttacactaccactatgtgatttctcattcttgtctctggctag---------ACTGATTTGACAGGTGATGCAGAGCACCTTCCTGCAGAGACACACAGAGTTGCCTGGTTGGGGCATAAAgtaggtggttaactgatgttccagcgtctcacaattgctctgatgttgaa Alignment from Pairagon ------------------------------------------ATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG ACTTTTGTTACACTACCACTATGTGATTTCTCATTCTTGTCTCTGGCTAGACTGATTTGACAGGTGATGCAGAGCACCTTCCTGCAGAGACACACAGAGTTGCCTGGTTGGGGCATAAAgtaggtggttaactgatgttccagcgtctcacaattgctctgatgttgaa Alignment from Exonerate_protein2genome CCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG acttttgttacactaccactatgtgatttctcattcttgtctctgGCTAGACTGATTTGACAGGTGATGCAGAGCACCTTCCTGCAGAGACACACAGAGTTGCCTGGTTGGGGCATAAAgtaggtggttaactgatgttccagcgtctcacaattgctctgatgttgaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG acttttgttacactaccactatgtgatttctcattcttgtctctggctagACT---------GATTTGACAGGTGATGCAGAGCACCTTCCTGCAGAGACACACAGAGTTGCCTGGTTGGGGCATAAAgtaggtggttaactgatgttccagcgtctcacaattgctctgatgttgaa #### Dak_ID2897_16 --> 0 - 0 Original Alignment ------------CTGGATTCTCTGTGGGCAGCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG tgggccctcctatggtgctaagatctggcaggttttatgtttgttttcagACTCGAAACTTTCTAGACTCTCTGTGGTCAGCAGCACAGGAGTTCCAAGCCTGGAAAAGTCCCGGTGCTAGCCTCCTTCCAGTCCTTACAAAAGCTGTGAAGgtcattcactcactagtaatttagctgcaccattaaggatccaaggattc Alignment from CESAR ------------CTGGATTCTCTGTGGGCAGCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG tgggccctcctatggtgctaagatctggcaggttttatgtttgttttcagACTCGAAACTTTCTAGACTCTCTGTGGTCAGCAGCACAGGAGTTCCAAGCCTGGAAAAGTCCCGGTGCTAGCCTCCTTCCAGTCCTTACAAAAGCTGTGAAGgtcattcactcactagtaatttagctgcaccattaaggatccaaggattc Alignment from Spaln_aa2Genome CTGGATTCTCTGTGG------------GCAGCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG tgggccctcctatggtgctaagatctggcaggttttatgtttgttttcagACTCGAAACTTTCTAGACTCTCTGTGGTCAGCAGCACAGGAGTTCCAAGCCTGGAAAAGTCCCGGTGCTAGCCTCCTTCCAGTCCTTACAAAAGCTGTGAAGgtcattcactcactagtaatttagctgcaccattaaggatccaaggattc Alignment from Spaln_nt2Genome ATTCTCTGTGGGCAGCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG tgggccctcctatggtgctaagatctggcaggttttatgtttgttttcagactcgaaactttctagACTCTCTGTGGTCAGCAGCACAGGAGTTCCAAGCCTGGAAAAGTCCCGGTGCTAGCCTCCTTCCAGTCCTTACAAAAGCTGTGAAGgtcattcactcactagtaatttagctgcaccattaaggatccaaggattc Alignment from Pairagon ------------CTGGATTCTCTGTGGGCAGCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG tgggccctcctatggtgctaagatctggcaggttttatgtttgttttcagACTCGAAACTTTCTAGACTCTCTGTGGTCAGCAGCACAGGAGTTCCAAGCCTGGAAAAGTCCCGGTGCTAGCCTCCTTCCAGTCCTTACAAAAGCTGTGAAGgtcattcactcactagtaatttagctgcaccattaaggatccaaggattc Alignment from Exonerate_protein2genome GACAGGACAATGCTGGATTCTCTGTGGGCAGCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG tgggccctcctatggtgctaagatctggcaggttttatgtttgttttcagACTCGAAACTTTCTAGACTCTCTGTGGTCAGCAGCACAGGAGTTCCAAGCCTGGAAAAGTCCCGGTGCTAGCCTCCTTCCAGTCCTTACAAAAGCTGTGAAGgtcattcactcactagtaatttagctgcaccattaaggatccaaggattc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTATGGAAAG------GCTGCACCAGGAGACAGGACAATGCTGGATTCTCTGTGGGCAGCAGCACAGGAGTTCCAAGCCTGGAAGAGCCCAGGGGCCAGTCTCCTCCCAGTCCTGACTAAAGCAGTCAAG tgggccctcctatggtgctaagATCTGGCAGGTTTTATGTTTGTTTTCAGACTCGAAACTTTCTAGACTCTCTGTGGTCAGCAGCACAGGAGTTCCAAGCCTGGAAAAGTCCCGGTGCTAGCCTCCTTCCAGTCCTTACAAAAGCTGTGAAGgtcattcactcactagtaatttagctgcaccattaaggatccaaggattc #### Dak_ID2899_14 --> 0 - 2 Original Alignment CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAG---------aa ccttactacagctagtgccaattaattcaacaccaccccatgtgctccagCTATATGGATTGTTCCTCACTGCTTCAGCCCAACCTCTG------AAAACTGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAGACTCCATGCAGAACGCGTGCaagtgagtcagtgtctttacctcccagcaaaaagtgaggttgtgccatatgc Alignment from CESAR CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAG---------aa ccttactacagctagtgccaattaattcaacaccaccccatgtgctccagCTATATGGATTGTTCCTCACTGCTTCAGCCCAACCTCTG------AAAACTGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAGACTCCATGCAGAACGCGTGCaagtgagtcagtgtctttacctcccagcaaaaagtgaggttgtgccatatgc Alignment from Spaln_aa2Genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAAG-------- ccttactacagctagtgccaattaattcaacaccaccccatgtgctccagCTATATGGATTGTTCCTCACTGCTTCAGCCCAACCTCTG------AAAACTGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAGACTCCATGCAGAACGCGTGCAAgtgagtcagtgtctttacctcccagcaaaaagtgaggttgtgccatatgc Alignment from Spaln_nt2Genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAA--- ccttactacagctagtgccaattaattcaacaccaccccatgtgctccagCTATATGGATTGTTCCTCACTGCTTCAGCCCAACCTCT------GAAAACTGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAGACTCCATGCAGAACGCgtgcaagtgagtcagtgtctttacctcccagcaaaaagtgaggttgtgccatatgc Alignment from Pairagon CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAA--------- ccttactacagctagtgccaattaattcaacaccaccccatgtgctccagCTATATGGATTGTTCCTCACTGCTTCAGCCCAACCTCT------GAAAACTGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAGACTCCATGCAGAACGCGTGCAAgtgagtcagtgtctttacctcccagcaaaaagtgaggttgtgccatatgc Alignment from Exonerate_protein2genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAAG ccttactacagctagtgccaattaattcaacaccaccccatgtgctccagCTATATGGATTGTTCCTCACTGCTTCAGCCCAACCTCTG------AAAACTGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAGACTCCATGCAGAACgcgtgcaagtgagtcagtgtctttacctcccagcaaaaagtgaggttgtgccatatgc Alignment from Exonerate_coding2genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAAG ccttactacagctagtgccaattaattcaacaccaccccatgtgctccagCTATATGGATTGTTCCTCACTGCTTCAGCCCAACCTC------TGAAAACTGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAGACTCCATGCAGAACgcgtgcaagtgagtcagtgtctttacctcccagcaaaaagtgaggttgtgccatatgc Alignment from GeneWise CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAAG-- ccttactacagctagtgccaattaattcaacaccaccccatgtgctccagCTATATGGATTGTTCCTCACTGCTTCAGCCCAACCTCTGAAA------ACTGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAGACTCCATGCAGAACGCgtgcaagtgagtcagtgtctttacctcccagcaaaaagtgaggttgtgccatatgc #### Dak_ID2900_13 --> 2 - 0 Original Alignment ccATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agtggcttgtagttcagatagccttgcctcaacttctttgatctttacagcc---------TGGTTGAAGGAGGGCCCATCACTGACCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaacagaacagttcttaggaccattgtagaaagccttactacagctag Alignment from CESAR ccATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaattaaagtggcttgtagttcagcctcaacttctttgatctttacagcc---------TGGTTGAAGGAGGGCCCATCACTGACCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaacagaacagttcttaggaccattgtagaaagccttactacagctag Alignment from Spaln_aa2Genome GCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agtggcttgtagttcagatagccttgcctcaacttctttgatctttacagCCTGGTTGAAGGAGGGCCCATCACTGACCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaacagaacagttcttaggaccattgtagaaagccttactacagctag Alignment from Spaln_nt2Genome GCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agtggcttgtagttcagatagccttgcctcaacttctttgatctttacagCCTGGTTGAAGGAGGGCCCATCACTGACCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaacagaacagttcttaggaccattgtagaaagccttactacagctag Alignment from Pairagon CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agtggcttgtagttcagatagccttgcctcaacttctttgatctttacagC---------CTGGTTGAAGGAGGGCCCATCACTGACCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaacagaacagttcttaggaccattgtagaaagccttactacagctag Alignment from Exonerate_protein2genome GCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agtggcttgtagttcagatagccttgcctcaacttctttgatctttacagCCTGGTTGAAGGAGGGCCCATCACTGACCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaacagaacagttcttaggaccattgtagaaagccttactacagctag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agtggcttgtagttcagatagccttgcctcaacttctttgatctttacagCC---------TGGTTGAAGGAGGGCCCATCACTGACCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaacagaacagttcttaggaccattgtagaaagccttactacagctag #### Dak_ID2902_11 --> 2 - 1 Original Alignment at---------GCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTG------------------ACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAg gtatgtccaggcactattggtgtatgaattttgctttgcctatgtgacagatGGGGCTGAGGCTGAGTCAACTGCAAAACGT---TAT---ATGACCAAAGTCTCTGTCATGACCAAAGTCTCTGTAACTGGGAGGAAACAGATCAGGGCATCCCCCACAGAGCCACCTGAGTCCCCGGAAGCTACTGTTGCAGGGggtaccaagcccagatgtgaatactaaggcccccccttggcagctgaacct Alignment from CESAR at---------GCTGAAACTACTGCAAAAGCCTGG------------CCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAg gtatgtccaggcactattggtgtatgaattttgctttgcctatgtgacagatGGGGCTGAGGCTGAGTCAACTGCAAAACGTTATATGACCAAAGTCTCTGTCATGACCAAAGTCTCTGTAACTGGGAGGAAACAGATCAGGGCATCCCCCACAGAGCCACCTGAGTCCCCGGAAGCTACTGTTGCAGGGggtaccaagcccagatgtgaatactaaggcccccccttggcagctgaacct Alignment from Spaln_aa2Genome AT---------GCTGAAACTACTGCAAAAGCCTGG------------CCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG gtatgtccaggcactattggtgtatgaattttgctttgcctatgtgacagATGGGGCTGAGGCTGAGTCAACTGCAAAACGTTATATGACCAAAGTCTCTGTCATGACCAAAGTCTCTGTAACTGGGAGGAAACAGATCAGGGCATCCCCCACAGAGCCACCTGAGTCCCCGGAAGCTACTGTTGCAGGGGgtaccaagcccagatgtgaatactaaggcccccccttggcagctgaacct Alignment from Spaln_nt2Genome GC-CTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG gtatgtccaggcactattggtgtatgaattttgctttgcctatgtgacagatggggctgaggctgagtcaactgcaaaacgttatatgaccaaagTCTCTGTCATGACCAAAGTCTCTGTAACTGGGAGGAAACAGATCAGGGCATCCCCCACAGAGCCACCTGAGTCCCCGGAAGCTACTGTTGCAGGGGgtaccaagcccagatgtgaatactaaggcccccccttggcagctgaacct Alignment from Pairagon AT---------GCTGAAACTACTGCA---------------AAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG gtatgtccaggcactattggtgtatgaattttgctttgcctatgtgacagATGGGGCTGAGGCTGAGTCAACTGCAAAACGTTATATGACCAAAGTCT---CTGTCATGACCAAAGTCTCTGTAACTGGGAGGAAACAGATCAGGGCATCCCCCACAGAGCCACCTGAGTCCCCGGAAGCTACTGTTGCAGGGGgtaccaagcccagatgtgaatactaaggcccccccttggcagctgaacct Alignment from Exonerate_protein2genome TCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG gtatgtccaggcactattggtgtatgaattttgctttgcctatgtgacagatggggctgaggctgagtcaactgcaaaacgttatatgaccaaagtctctgtcatgaccaaagTCTCTGTAACTGGGAGGAAACAGATCAGGGCATCCCCCACAGAGCCACCTGAGTCCCCGGAAGCTACTGTTGCAGGGGgtaccaagcccagatgtgaatactaaggcccccccttggcagctgaacct Alignment from Exonerate_coding2genome gtatgtccaggcactattggtgtatgaattttgctttgcctatgtgacagatggggctgaggctgagtcaactgcaaaacgttatatgaccaaagtctctgtcatgaccaaagtctctgtaactgggaggaaacagatcagggcatcccccacagagccacctgagtccccggaagctactgttgcagggggtaccaagcccagatgtgaatactaaggcccccccttggcagctgaacct Alignment from GeneWise --------GATGCTGAAACTACTGCAAAAGCCTGG------------CCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG gtatgtccaggcactattggtgtatgaattttgctttgcctatgtgacagATGGGGCTGAGGCTGAGTCAACTGCAAAACGTTATATGACCAAAGTCTCTGTCATGACCAAAGTCTCTGTAACTGGGAGGAAACAGATCAGGGCATCCCCCACAGAGCCACCTGAGTCCCCGGAAGCTACTGTTGCAGGGGgtaccaagcccagatgtgaatactaaggcccccccttggcagctgaacct #### Dak_ID2904_9 --> 2 - 1 Original Alignment gcTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGg gtttgtccaagcgtgctccaagcgtgctttttttcctgctgtttttacaggtTCTTCAGTGGTACTGATAGTGAATAATCTTGGTGGTCTGTCCTTCCGGGAACTGGGTATCACAGCTGATGCTGCCATACGT------ggtaagtcccggaacacttcatcaggcatccatgtggagaccctttaatgc Alignment from CESAR gcTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGg gtttgtccaagcgtgctccaagcgtgctttttttcctgctgtttttacaggtTCTTCAGTGGTACTGATAGTGAATAATCTTGGTGGTCTGTCCTTCCGGGAACTGGGTATCACAGCTGATGCTGCCATACGT------ggtaagtcccggaacacttcatcaggcatccatgtggagaccctttaatgc Alignment from Spaln_aa2Genome GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGC- gtttgtccaagcgtgctccaagcgtgctttttttcctgctgtttttacagGTTCTTCAGTGGTACTGATAGTGAATAATCTTGGTGGTCTGTCCTTCCGGGAACTGGGTATCACAGCTGATGCTGCCATACGTGgtaagtcccggaacacttcatcaggcatccatgtggagaccctttaatgc Alignment from Spaln_nt2Genome GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACG-- gtttgtccaagcgtgctccaagcgtgctttttttcctgctgtttttacagGTTCTTCAGTGGTACTGATAGTGAATAATCTTGGTGGTCTGTCCTTCCGGGAACTGGGTATCACAGCTGATGCTGCCATACGTGgtaagtcccggaacacttcatcaggcatccatgtggagaccctttaatgc Alignment from Pairagon GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gtttgtccaagcgtgctccaagcgtgctttttttcctgctgtttttacagGTTCTTCAGTGGTACTGATAGTGAATAATCTTGGTGGTCTGTCCTTCCGGGAACTGGGTATCACAGCTGATGCTGCCATACGT------Ggtaagtcccggaacacttcatcaggcatccatgtggagaccctttaatgc Alignment from Exonerate_protein2genome GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCT gtttgtccaagcgtgctccaagcgtgctttttttcctgctgtttttacagGTTCTTCAGTGGTACTGATAGTGAATAATCTTGGTGGTCTGTCCTTCCGGGAACTGGGTATCACAGCTGATGCTGCCATACGTGgtaagtcccggaacacttcatcaggcatccatgtggagaccctttaatgc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCT gtttgtccaagcgtgctccaagcgtgctttttttcctgctgtttttacagGTTCTTCAGTGGTACTGATAGTGAATAATCTTGGTGGTCTGTCCTTCCGGGAACTGGGTATCACAGCTGATGCTGCCATACGTGgtaagtcccggaacacttcatcaggcatccatgtggagaccctttaatgc #### Dak_ID2907_6 --> 2 - 1 Original Alignment gtACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGg caaccccctctaaattaccaactatctctcgccttgcctttgtctttcaggtACCCTAGGTGTGACCTTGTCATCCTGTAGTGTGCCTGGCACCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAG---------ggtaaggataagctccaggctgtaacactgtttgttacgttgtgtcagctg Alignment from CESAR gtACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGg caaccccctctaaattaccaactatctctcgccttgcctttgtctttcaggtACCCTAGGTGTGACCTTGTCATCCTGTAGTGTGCCTGGCACCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAG---------ggtaaggataagctccaggctgtaacactgtttgttacgttgtgtcagctg Alignment from Spaln_aa2Genome GTACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAG- caaccccctctaaattaccaactatctctcgccttgcctttgtctttcagGTACCCTAGGTGTGACCTTGTCATCCTGTAGTGTGCCTGGCACCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGGgtaaggataagctccaggctgtaacactgtttgttacgttgtgtcagctg Alignment from Spaln_nt2Genome GTACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGC caaccccctctaaattaccaactatctctcgccttgcctttgtctttcagGTACCCTAGGTGTGACCTTGTCATCCTGTAGTGTGCCTGGCACCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGGgtaaggataagctccaggctgtaacactgtttgttacgttgtgtcagctg Alignment from Pairagon GTACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGG caaccccctctaaattaccaactatctctcgccttgcctttgtctttcagGTACCCTAGGTGTGACCTTGTCATCCTGTAGTGTGCCTGGCACCACACACACCTTTGAGCTTGCAGCTGATGAAATAGA---------GGgtaaggataagctccaggctgtaacactgtttgttacgttgtgtcagctg Alignment from Exonerate_protein2genome GTACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGG caaccccctctaaattaccaactatctctcgccttgcctttgtctttcagGTACCCTAGGTGTGACCTTGTCATCCTGTAGTGTGCCTGGCACCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAG---GGTAAGGataagctccaggctgtaacactgtttgttacgttgtgtcagctg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGC caaccccctctaaattaccaactatctctcgccttgcctttgtctttcagGTACCCTAGGTGTGACCTTGTCATCCTGTAGTGTGCCTGGCACCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGGgtaaggataagctccaggctgtaacactgtttgttacgttgtgtcagctg #### Dak_ID2910_3 --> 2 - 1 Original Alignment gtTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAg tgcagctttgggaccactatgcatacctctgtcttctatccttttataaggcTTTATTGGCAAAGGG---CTAACAGGTATTATTGTAGGGTTGGTGTTTGCCTCTCCTCCTGTGGGCAGCATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGC---ggtaaacagatgtgtaccagactggataggttgtggaggggagcacatttt Alignment from CESAR gtTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAg tgcagctttgggaccactatgcatacctctgtcttctatccttttataaggcTTTATTGGCAAAGGG---CTAACAGGTATTATTGTAGGGTTGGTGTTTGCCTCTCCTCCTGTGGGCAGCATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGC---ggtaaacagatgtgtaccagactggataggttgtggaggggagcatgattg Alignment from Spaln_aa2Genome GTTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCA tgcagctttgggaccactatgcatacctctgtcttctatccttttataagGCTTTATTGGCAAAGGG---CTAACAGGTATTATTGTAGGGTTGGTGTTTGCCTCTCCTCCTGTGGGCAGCATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCGgtaaacagatgtgtaccagactggataggttgtggaggggagcacatttt Alignment from Spaln_nt2Genome GTTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCA tgcagctttgggaccactatgcatacctctgtcttctatccttttataagGCTTTATTGGCAAAGG---GCTAACAGGTATTATTGTAGGGTTGGTGTTTGCCTCTCCTCCTGTGGGCAGCATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCGgtaaacagatgtgtaccagactggataggttgtggaggggagcacatttt Alignment from Pairagon GTTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCA-------------------------------------------------- tgcagctttgggaccactatgcatacctctgtcttctatccttttataagGCTTTATTGGCAAAGG---GCTAACAGGTATTATTGTAGGGTTGGTGTTTGCCTCTCCTCCTGTGGGCAGCATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCGGTAAACAGATGTGTACCAGACTGGATAGGTTGTGGAGGGGAGCACATTTT Alignment from Exonerate_protein2genome GTTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcagctttgggaccactatgcatacctctgtcttctatccttttataagGCTTTATTGGCAAAGGG---CTAACAGGTATTATTGTAGGGTTGGTGTTTGCCTCTCCTCCTGTGGGCAGCATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGC---Ggtaaacagatgtgtaccagactggataggttgtggaggggagcacatttt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGC--------------------------------------------------- tgcagctttgggaccactatgcatacctctgtcttctatccttttataagGCTTTATTGGCAAAGGG---CTAACAGGTATTATTGTAGGGTTGGTGTTTGCCTCTCCTCCTGTGGGCAGCATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCGGTAAACAGATGTGTACCAGACTGGATAGGTTGTGGAGGGGAGCACATTTT #### Ddb1_ID2917_2 --> 2 - 0 Original Alignment gaCACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG------ tgacatgaacagctctccttgattgcaaccagtgtcctccctgtgcacaggcCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCAGAGGGTGTGCGCCCAGTAAAAGAGGTTGGAATGTATGGCAAGATTGCAGTTATGGAACTATTCAGGCCCAAGCTCAGTgttagtgactctgacagtgcaagaaacaacctggtaagaggggtgcacag Alignment from CESAR gaCACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG------ tgacatgaacagctctccttgattgcaaccagtgtcctccctgtgcacaggcCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCAGAGGGTGTGCGCCCAGTAAAAGAGGTTGGAATGTATGGCAAGATTGCAGTTATGGAACTATTCAGGCCCAAGCTCAGTgttagtgactctgacagtgcaagaaacaacctggtaagaggggtgcacag Alignment from Spaln_aa2Genome GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG------ tgacatgaacagctctccttgattgcaaccagtgtcctccctgtgcacagGCCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCAGAGGGTGTGCGCCCAGTAAAAGAGGTTGGAATGTATGGCAAGATTGCAGTTATGGAACTATTCAGGCCCAAGCTCAGTgttagtgactctgacagtgcaagaaacaacctggtaagaggggtgcacag Alignment from Spaln_nt2Genome GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAA tgacatgaacagctctccttgattgcaaccagtgtcctccctgtgcacagGCCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCAGAGGGTGTGCGCCCAGTAAAAGAGGTTGGAATGTATGGCAAGATTGCAGTTATGGAACTATTCAGGCCCAAgctcagtgttagtgactctgacagtgcaagaaacaacctggtaagaggggtgcacag Alignment from Pairagon GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG------ tgacatgaacagctctccttgattgcaaccagtgtcctccctgtgcacagGCCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCAGAGGGTGTGCGCCCAGTAAAAGAGGTTGGAATGTATGGCAAGATTGCAGTTATGGAACTATTCAGGCCCAAGCTCAGTgttagtgactctgacagtgcaagaaacaacctggtaagaggggtgcacag Alignment from Exonerate_protein2genome GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tgacatgaacagctctccttgattgcaaccagtgtcctccctgtgcacagGCCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCAGAGGGTGTGCGCCCAGTAAAAGAGGTTGGAATGTATGGCAAGATTGCAGTTATGGAACTATTCAGGCCCAAGctcagtgttagtgactctgacagtgcaagaaacaacctggtaagaggggtgcacag Alignment from Exonerate_coding2genome GTGAACGGCTGTGTGACCGGACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tgacatgaacagctctccttgattgcaaccaGTGTCCTCCCTGTGCACAGGCCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCAGAGGGTGTGCGCCCAGTAAAAGAGGTTGGAATGTATGGCAAGATTGCAGTTATGGAACTATTCAGGCCCAAGctcagtgttagtgactctgacagtgcaagaaacaacctggtaagaggggtgcacag Alignment from GeneWise GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG------ tgacatgaacagctctccttgattgcaaccagtgtcctccctgtgcacagGCCACTTTACCCCAGCGGAGGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCAGAGGGTGTGCGCCCAGTAAAAGAGGTTGGAATGTATGGCAAGATTGCAGTTATGGAACTATTCAGGCCCAAGCTCAGTgttagtgactctgacagtgcaagaaacaacctggtaagaggggtgcacag #### Ddb1_ID2929_14 --> 1 - 1 Original Alignment cCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAg ctcatttcttcgattaatgttaaaagacagcattaactgctttattttagt---------ATGGAACATGAAGTAGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAggtaagccttttgtttaccttcaagacaacagcctagtaagggtaaacaag Alignment from CESAR cCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAg tgtctagcactcatttcttcgattagacagcattaactgctttattttagt---------ATGGAACATGAAGTAGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAggtaagccttttgtttaccttcaagacaacagcctagtaagggtaaacaag Alignment from Spaln_aa2Genome CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG ctcatttcttcgattaatgttaaaagacagcattaactgctttattttagT---------ATGGAACATGAAGTAGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgtaagccttttgtttaccttcaagacaacagcctagtaagggtaaacaag Alignment from Spaln_nt2Genome CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG ctcatttcttcgattaatgttaaaagacagcattaactgctttattttag---------TATGGAACATGAAGTAGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgtaagccttttgtttaccttcaagacaacagcctagtaagggtaaacaag Alignment from Pairagon CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG ctcatttcttcgattaatgttaaaagacagcattaactgctttattttag---------TATGGAACATGAAGTAGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgtaagccttttgtttaccttcaagacaacagcctagtaagggtaaacaag Alignment from Exonerate_protein2genome CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG ctcatttcttcgattaatgttaaaagacagcattaactgctTTATTTTAGTATGGAACATGAAGTAGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgtaagccttttgtttaccttcaagacaacagcctagtaagggtaaacaag Alignment from Exonerate_coding2genome CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG ctcatttcttcgattaatgttaaaagacagcattaactgctTTATTTTAGTATGGAACATGAAGTAGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgtaagccttttgtttaccttcaagacaacagcctagtaagggtaaacaag Alignment from GeneWise CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG ctcatttcttcgattaatgttaaaagacagcattaactgctttattttagT---------ATGGAACATGAAGTAGCATGTTTGGACACTACCCCATTAGGGGATAGCAATGGTCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCTTGAGGCTCCCGTCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgtaagccttttgtttaccttcaagacaacagcctagtaagggtaaacaag #### Ddb1_ID2930_15 --> 2 - 1 Original Alignment ag---------ATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAg cttggtccaccctgatggtcctagtatattccttttgttttctcctgcagagGAGAACTACATCATTCCTCGATCCATATTGATGACCACCTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAggtacgcctggagatgatttgaatgctgggtattctccagaatacagatcc Alignment from CESAR ag---------ATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAg cttggtccaccctgatggtcctagtatattccttttgttttctcctgcagagGAGAACTACATCATTCCTCGATCCATATTGATGACCACCTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAggtacgcctggagatgatttgaatgctgggtattctccagaatacagatcc Alignment from Spaln_aa2Genome AG---------ATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG cttggtccaccctgatggtcctagtatattccttttgttttctcctgcagAGGAGAACTACATCATTCCTCGATCCATATTGATGACCACCTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAGgtacgcctggagatgatttgaatgctgggtattctccagaatacagatcc Alignment from Spaln_nt2Genome AG---------ATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG cttggtccaccctgatggtcctagtatattccttttgttttctcctgcagAGGAGAACTACATCATTCCTCGATCCATATTGATGACCACCTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAGgtacgcctggagatgatttgaatgctgggtattctccagaatacagatcc Alignment from Pairagon AG---------ATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG cttggtccaccctgatggtcctagtatattccttttgttttctcctgcagAGGAGAACTACATCATTCCTCGATCCATATTGATGACCACCTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAGgtacgcctggagatgatttgaatgctgggtattctccagaatacagatcc Alignment from Exonerate_protein2genome AG---------ATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG cttggtccaccctgatggtcctagtatattccttttgttttctcctgcagAGGAGAACTACATCATTCCTCGATCCATATTGATGACCACCTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAGgtacgcctggagatgatttgaatgctgggtattctccagaatacagatcc Alignment from Exonerate_coding2genome AG---------ATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG cttggtccaccctgatggtcctagtatattccttttgttttctcctgcagAGGAGAACTACATCATTCCTCGATCCATATTGATGACCACCTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAGgtacgcctggagatgatttgaatgctgggtattctccagaatacagatcc Alignment from GeneWise --------GAGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG cttggtccaccctgatggtcctagtatattccttttgttttctcctgcagAGGAGAACTACATCATTCCTCGATCCATATTGATGACCACCTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAGgtacgcctggagatgatttgaatgctgggtattctccagaatacagatcc #### Ddb1_ID2931_16 --> 2 - 2 Original Alignment gtTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACag gtgccctattttgcctcccagtgacttactgcaccttttgatgtttgtaggt---------GACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACaggtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc Alignment from CESAR gtTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACag gtaagaactgtgccctattttgcctttactgcaccttttgatgtttgtaggt---------GACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACaggtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc Alignment from Spaln_aa2Genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtgccctattttgcctcccagtgacttactgcaccttttgatgtttgtagGT---------GACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc Alignment from Spaln_nt2Genome GTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtgccctattttgcctcccagtgacttactgcaccttttgatgtttgtagGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc Alignment from Pairagon GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtgccctattttgcctcccagtgacttactgcaccttttgatgtttgtag---------GTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc Alignment from Exonerate_protein2genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtgccctattttgcctcccagtgacttactgcaccttttgaTGTTTGTAGGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc Alignment from Exonerate_coding2genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtgccctattttgcctcccagtgacttactgcaccttttgaTGTTTGTAGGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc Alignment from GeneWise GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtgccctattttgcctcccagtgacttactgcaccttttgatgtttgtagGT---------GACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACTGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctaggtgtcccaagtaggggtcacatatccttttctgattc #### Dkk1_ID6482_3 --> 2 - 1 Original Alignment ga------ATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAg tcaaaggagcagggatggaacgccccacgccagtatttgatgtcttacaggtGTCTTTATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAAGGAAAGGACTGTTGAAATGCTCGGTAATGACCACAATGCTGCTGCAGGGGATGGATTTCCCAGAAAGACTGCATTGGCTTCAAAGATTTATCATACTAAAggtgagtgaacagcttaagaacttcaaacttaatctgcaaaaacaatgaga Alignment from CESAR ga------ATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAg tcaaaggagcagggatggaacgccccacgccagtatttgatgtcttacaggtGTCTTTATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAAGGAAAGGACTGTTGAAATGCTCGGTAATGACCACAATGCTGCTGCAGGGGATGGATTTCCCAGAAAGACTGCATTGGCTTCAAAGATTTATCATACTAAAggtgagtgaacagcttaagaacttcaaacttaatctgcaaaaacaatgaga Alignment from Spaln_aa2Genome GA------ATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG tcaaaggagcagggatggaacgccccacgccagtatttgatgtcttacagGTGTCTTTATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAAGGAAAGGACTGTTGAAATGCTCGGTAATGACCACAATGCTGCTGCAGGGGATGGATTTCCCAGAAAGACTGCATTGGCTTCAAAGATTTATCATACTAAAGgtgagtgaacagcttaagaacttcaaacttaatctgcaaaaacaatgaga Alignment from Spaln_nt2Genome GA------ATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG tcaaaggagcagggatggaacgccccacgccagtatttgatgtcttacagGTGTCTTTATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAAGGAAAGGACTGTTGAAATGCTCGGTAATGACCACAATGCTGCTGCAGGGGATGGATTTCCCAGAAAGACTGCATTGGCTTCAAAGATTTATCATACTAAAGgtgagtgaacagcttaagaacttcaaacttaatctgcaaaaacaatgaga Alignment from Pairagon G------AATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG tcaaaggagcagggatggaacgccccacgccagtatttgatgtcttacagGTGTCTTTATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAAGGAAAGGACTGTTGAAATGCTCGGTAATGACCACAATGCTGCTGCAGGGGATGGATTTCCCAGAAAGACTGCATTGGCTTCAAAGATTTATCATACTAAAGgtgagtgaacagcttaagaacttcaaacttaatctgcaaaaacaatgaga Alignment from Exonerate_protein2genome GA------ATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG tcaaaggagcagggatggaacgccccacgccagtatttgatgtcttacagGTGTCTTTATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAAGGAAAGGACTGTTGAAATGCTCGGTAATGACCACAATGCTGCTGCAGGGGATGGATTTCCCAGAAAGACTGCATTGGCTTCAAAGATTTATCATACTAAAGgtgagtgaacagcttaagaacttcaaacttaatctgcaaaaacaatgaga Alignment from Exonerate_coding2genome GA------ATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG tcaaaggagcagggatggaacgccccacgccagtatttgatgtcttacagGTGTCTTTATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAAGGAAAGGACTGTTGAAATGCTCGGTAATGACCACAATGCTGCTGCAGGGGATGGATTTCCCAGAAAGACTGCATTGGCTTCAAAGATTTATCATACTAAAGgtgagtgaacagcttaagaacttcaaacttaatctgcaaaaacaatgaga Alignment from GeneWise -----GGAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG tcaaaggagcagggatggaacgccccacgccagtatttgatgtcttacagGTGTCTTTATATGCATGCCATCCAGGCATAGCCACTTCCCATGTGGGGAAGTCAAGGAAAGGACTGTTGAAATGCTCGGTAATGACCACAATGCTGCTGCAGGGGATGGATTTCCCAGAAAGACTGCATTGGCTTCAAAGATTTATCATACTAAAGgtgagtgaacagcttaagaacttcaaacttaatctgcaaaaacaatgaga #### Dkk1_ID6483_2 --> 0 - 1 Original Alignment CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAAT---g cgacttgggaactcaactgatctacctgtaatgaacttttttaatatcagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGCT---GTTGAT------CAGATCTGCTTGGCTTGCCGAAGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATGCAcgtaagaatcccccagtatctattgttgtctttggttaacaagttctatgg Alignment from CESAR CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAAT---g cgacttgggaactcaactgatctacctgtaatgaacttttttaatatcagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGCT---GTTGAT------CAGATCTGCTTGGCTTGCCGAAGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATGCAcgtaagaatcccccagtatctattgttgtctttggttaacaagttctatgg Alignment from Spaln_aa2Genome CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAAT---G cgacttgggaactcaactgatctacctgtaatgaacttttttaatatcagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGCT---------GTTGATCAGATCTGCTTGGCTTGCCGAAGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATGCACgtaagaatcccccagtatctattgttgtctttggttaacaagttctatgg Alignment from Spaln_nt2Genome CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATGGA- cgacttgggaactcaactgatctacctgtaatgaacttttttaatatcagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGC---------TGTTGATCAGATCTGCTTGGCTTGCCGAAGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATGCACgtaagaatcccccagtatctattgttgtctttggttaacaagttctatgg Alignment from Pairagon CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG--- cgacttgggaactcaactgatctacctgtaatgaacttttttaatatcagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGCT---------GTTGATCAGATCTGCTTGGCTTGCCGAAGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATGCACgtaagaatcccccagtatctattgttgtctttggttaacaagttctatgg Alignment from Exonerate_protein2genome CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAAT---G cgacttgggaactcaactgatctacctgtaatgaacttttttaatatcagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGCT---------GTTGATCAGATCTGCTTGGCTTGCCGAAGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATGCACgtaagaatcccccagtatctattgttgtctttggttaacaagttctatgg Alignment from Exonerate_coding2genome CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAAT---G cgacttgggaactcaactgatctacctgtaatgaacttttttaatatcagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGCT---------GTTGATCAGATCTGCTTGGCTTGCCGAAGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATGCACgtaagaatcccccagtatctattgttgtctttggttaacaagttctatgg Alignment from GeneWise CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATGGA- cgacttgggaactcaactgatctacctgtaatgaacttttttaatatcagCCATTCCCTTGTGTTATAGATGAGGAGTGTGGTTCTGATAAATATTGTCCCAGTCCCAGCTGTGGAGCAGCTGTTGAT---------CAGATCTGCTTGGCTTGCCGAAGACATAGGAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATGCACgtaagaatcccccagtatctattgttgtctttggttaacaagttctatgg #### Dnajc4_ID1965_3 --> 0 - 2 Original Alignment CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACag actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTAACTATGACCACCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATAAACAG---------aggtgagttacacaattaccagaaggcacaacctgagtttgttctccccatc Alignment from CESAR CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACag actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTAACTATGACCACCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATAAACAG---------aggtgagttacacaattaccagaaggcacaacctgagtttgttctccccatc Alignment from Spaln_aa2Genome CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACA actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTAACTATGACCACCAGCTGCATCCAGCCTCT---------------GGCAGCACTGCTGAGCCTAAGTATAAACAGAGgtgagttacacaattaccagaaggcacaacctgagtttgttctccccatc Alignment from Spaln_nt2Genome CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTAACTATGACCACCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATA---AACAG------AGgtgagttacacaattaccagaaggcacaacctgagtttgttctccccatc Alignment from Pairagon CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTAACTATGACCACCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTAT---------AAACAGAGgtgagttacacaattaccagaaggcacaacctgagtttgttctccccatc Alignment from Exonerate_protein2genome CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTAACTATGACCACCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATAAACAG---------AGgtgagttacacaattaccagaaggcacaacctgagtttgttctccccatc Alignment from Exonerate_coding2genome CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTAACTATGACCACCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATAAACAG---------AGgtgagttacacaattaccagaaggcacaacctgagtttgttctccccatc Alignment from GeneWise CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACA actgactgtggcagcacttgagtcatatcagtctttctttacccttgcagCTGCGCCCTGATCGGGATCTGGGTAATCCGGCCCTACATAGCCGATTTGTGGAACTGAATGAG------CGTGTACTCAGCCATGAAGAAAGCCGTCGTAACTATGACCACCAGCTGCATCCAGCCTCT---------------GGCAGCACTGCTGAGCCTAAGTATAAACAGAGgtgagttacacaattaccagaaggcacaacctgagtttgttctccccatc #### Dock8_ID5412_31 --> 0 - 0 Original Alignment ---------CCCTATAAGCAGTACAACATGCTGAATGCAGACACCACCCGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGCCTCATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccagactactccaagttcctctgtcctaccctgtcagCAGGAAGGTCCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCACCACCTCATGATCTGCTTTCTGTGGATCATGAGGAATGCTGATCAGAGCCTCATCAGGAGGTGGATCGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtatccactgggaatgaaacactagttagctcttccattccaaccttctt Alignment from CESAR ---------CCCTATAAGCAGTACAACATGCTGAATGCAGACACCACCCGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGCCTCATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccagactactccaagttcctctgtcctaccctgtcagCAGGAAGGTCCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCACCACCTCATGATCTGCTTTCTGTGGATCATGAGGAATGCTGATCAGAGCCTCATCAGGAGGTGGATCGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtatccactgggaatgaaacactagttagctcttccattccaaccttctt Alignment from Spaln_aa2Genome CCTTGCCCTATAAGCAGTACAACATGCTGAATGCAGACACCACCCGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGCCTCATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccagactactccaagttcctctgtcctaccctgtcagcaggaagGT---CCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCACCACCTCATGATCTGCTTTCTGTGGATCATGAGGAATGCTGATCAGAGCCTCATCAGGAGGTGGATCGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtatccactgggaatgaaacactagttagctcttccattccaaccttctt Alignment from Spaln_nt2Genome CCTTG-CCCTATAAGCAGTACAACATGCTGAATGCAGACACCACCCGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGCCTCATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccagactactccaagttcctctgtcctaccctgtcagcagGAAGGTCCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCACCACCTCATGATCTGCTTTCTGTGGATCATGAGGAATGCTGATCAGAGCCTCATCAGGAGGTGGATCGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtatccactgggaatgaaacactagttagctcttccattccaaccttctt Alignment from Pairagon -----------------------------------------------------------CCCTATAAGCAGTACAACATGCTGAATGCAGACACCACCCGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGCCTCATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG TTCTATACTCTGGCCAGACTACTCCAAGTTCCTCTGTCCTACCCTGTCAGCAGGAAGGTCCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCACCACCTCATGATCTGCTTTCTGTGGATCATGAGGAATGCTGATCAGAGCCTCATCAGGAGGTGGATCGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtatccactgggaatgaaacactagttagctcttccattccaaccttctt Alignment from Exonerate_protein2genome TCTTCCTTGCCCTATAAGCAGTACAACATGCTGAATGCAGACACCACCCGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGCCTCATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccagactactccaagttcctctgtcctaccctgtcagCAGGAAGGTCCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCACCACCTCATGATCTGCTTTCTGTGGATCATGAGGAATGCTGATCAGAGCCTCATCAGGAGGTGGATCGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtatccactgggaatgaaacactagttagctcttccattccaaccttctt Alignment from Exonerate_coding2genome TCTTCCTTGCCCTATAAGCAGTACAACATGCTGAATGCAGACACCACCCGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGCCTCATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccagactactccaagttcctctgtcctaccctgtcagCAGGAAGGTCCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCACCACCTCATGATCTGCTTTCTGTGGATCATGAGGAATGCTGATCAGAGCCTCATCAGGAGGTGGATCGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtatccactgggaatgaaacactagttagctcttccattccaaccttctt Alignment from GeneWise TGCCCTATAAGCAGTACAACATGCTGAATGCAGACACCACCCGCCACCTCATGATTTGCTTCCTGTGGATCATGAAAAATGCTGATCAGAGCCTCATCAGGAAGTGGATCGCTGACCTGCCTTCCATGCAGCTCAATAGGATTCTGGACCTGCTGTTCATCTGTGTCTCCTGCTTTGAATACAAG ttctatactctggccagactactccaagttcctctgtcctaccctgtcagcaggaagGTCCCTATAAGCAGTATAATATGCTGAATGCAGATGCTACTCACCACCTCATGATCTGCTTTCTGTGGATCATGAGGAATGCTGATCAGAGCCTCATCAGGAGGTGGATCGCTGACCTGCCTTCCATGCAGCTCAACAGGGTTTTAGACCTACTGTTCATCTGTGTCTCCTGTTTTGAATACAAGgtatccactgggaatgaaacactagttagctcttccattccaaccttctt #### Dock8_ID5413_32 --> 0 - 1 Original Alignment GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAg tggagacctagtaaactcaaagtgatggttacctctctctccttctgtag------CAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAggtgagtttccaacactgtaaccttaagttagtcaagcttgttgcatagag Alignment from CESAR GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAg tcctggtggagacctagtaaactcatggttacctctctctccttctgtag------CAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAggtgagtttccaacactgtaaccttaagttagtcaagcttgttgcatagag Alignment from Spaln_aa2Genome GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tggagacctagtaaactcaaagtgatggttacctctctctccttctgtag------CAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagtttccaacactgtaaccttaagttagtcaagcttgttgcatagag Alignment from Spaln_nt2Genome CAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tggagacctagtaaactcaaagtgatggttacctctctctccttctgtagCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagtttccaacactgtaaccttaagttagtcaagcttgttgcatagag Alignment from Pairagon GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tggagacctagtaaactcaaagtgatggttacctctctctccttctgtag------CAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagtttccaacactgtaaccttaagttagtcaagcttgttgcatagag Alignment from Exonerate_protein2genome GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tggagacctagtaaactcaaagtgatggttacctctctctccttCTGTAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagtttccaacactgtaaccttaagttagtcaagcttgttgcatagag Alignment from Exonerate_coding2genome GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tggagacctagtaaactcaaagtgatggttacctctctctccttCTGTAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagtttccaacactgtaaccttaagttagtcaagcttgttgcatagag Alignment from GeneWise CAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG tggagacctagtaaactcaaagtgatggttacctctctctccttctgtagCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagtttccaacactgtaaccttaagttagtcaagcttgttgcatagag #### Dpf2_ID1309_5 --> 0 - 0 Original Alignment CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG AGTAAGGGTGTG atctgtgagctatacatgtttttgttttctagttctctcctacccaccag---------GAACCTGATGACTTCTTTGATGACCTGGATGATGAGGACTATGATGAAGATACGCCAAAGCGTCGGGGTAAGGGCAAGTCCAAAgtgcgtagtttctccttttaaaactctgtgtaatttagGGTACAGGTGTT Alignment from CESAR CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG AGTAAGGGTGTG ggataagatatctgtgagctatacatttctagttctctcctacccaccag---------GAACCTGATGACTTCTTTGATGACCTGGATGATGAGGACTATGATGAAGATACGCCAAAGCGTCGGGGTAAGGGCAAGTCCAAAgtgcgtagtttctcctcttgcccttttcacttttccagGGTACAGGTGTT Alignment from Spaln_aa2Genome CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAGAGTAAGG GTGTG atctgtgagctatacatgtttttgttttctagttctctcctacccaccag---------GAACCTGATGACTTCTTTGATGACCTGGATGATGAGGACTATGATGAAGATACGCCAAAGCGTCGGGGTAAGGGCAAGTCCAAAGTGCGTAgtttctccttttaaaactctgtgtaatttagggtacagGTGTT Alignment from Spaln_nt2Genome GAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG AGTAAGGGTGTG atctgtgagctatacatgtttttgttttctagttctctcctacccaccagGAACCTGATGACTTCTTTGATGACCTGGATGATGAGGACTATGATGAAGATACGCCAAAGCGTCGGGGTAAGGGCAAGTCCAAAgtgcgtagtttctccttttaaaactctgtgtaatttagGGTACAGGTGTT Alignment from Pairagon CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCA--------------------------------------AGAGTAAGGGTGTG atctgtgagctatacatgtttttgttttctagttctctcctacccaccag---------GAACCTGATGACTTCTTTGATGACCTGGATGATGAGGACTATGATGAAGATACGCCAAAGCGTCGGGGTAAGGGCAAGTCCAAAGTGCGTAGTTTCTCCTTTTAAAACTCTGTGTAATTTAGGGTACAGGTGTT Alignment from Exonerate_protein2genome CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG AGTAAGGGTGTG atctgtgagctatacatgtttttgttttctagttctctcctACCCACCAGGAACCTGATGACTTCTTTGATGACCTGGATGATGAGGACTATGATGAAGATACGCCAAAGCGTCGGGGTAAGGGCAAGTCCAAAgtgcgtagtttctccttttaaaactctgtgtaatttagGGTACAGGTGTT Alignment from Exonerate_coding2genome CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG AGTAAGGGTGTG atctgtgagctatacatgtttttgttttctagttctctcctACCCACCAGGAACCTGATGACTTCTTTGATGACCTGGATGATGAGGACTATGATGAAGATACGCCAAAGCGTCGGGGTAAGGGCAAGTCCAAAgtgcgtagtttctccttttaaaactctgtgtaatttagGGTACAGGTGTT Alignment from GeneWise ---------CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG AGTAAGGGTGTG atctgtgagctatacatgtttttgttttctagTTCTCTCCTACCCACCAGGAACCTGATGACTTCTTTGATGACCTGGATGATGAGGACTATGATGAAGATACGCCAAAGCGTCGGGGTAAGGGCAAGTCCAAAgtgcgtagtttctccttttaaaactctgtgtaatttagGGTACAGGTGTT #### Dpp3_ID742_11 --> 0 - 0 Original Alignment GACCTGTATATCCGCTGGAAGGGGCCGTCCTTTGATGTGCAGGTGGGGTTACACGAGCTGTTGGGCCATGGCAGCGGCAAGCTCTTTGTACAG aatgtggctatggctggagtggccagtgtcacacaccctccttttcgcagGATCTGTATATCCACTGGAAAGGTCCATCGTTTGATGTACAAGTGGGCTTACATGAGCTATTAAGCCATGGCAGTGGCAAGCTCTTT------gtaagacgagggggtcccaaaggcagatcctgttacaggtgctactgatc Alignment from CESAR GACCTGTATATCCGCTGGAAGGGGCCGTCCTTTGATGTGCAGGTGGGGTTACACGAGCTGTTGGGCCATGGCAGCGGCAAGCTCTTTGTACAG aatgtggctatggctggagtggccagtgtcacacaccctccttttcgcagGATCTGTATATCCACTGGAAAGGTCCATCGTTTGATGTACAAGTGGGCTTACATGAGCTATTAAGCCATGGCAGTGGCAAGCTCTTT------gtaagacgagggggtcccaaaggcagatcctgttacaggtgcta Alignment from Spaln_aa2Genome GACCTGTATATCCGCTGGAAGGGGCCGTCCTTTGATGTGCAGGTGGGGTTACACGAGCTGTTGGGCCATGGCAGCGGCAAGCTCTTTGTA aatgtggctatggctggagtggccagtgtcacacaccctccttttcgcagGATCTGTATATCCACTGGAAAGGTCCATCGTTTGATGTACAAGTGGGCTTACATGAGCTATTAAGCCATGGCAGTGGCAAGCTCTTT gtaagacgagggggtcccaaaggcagatcctgttacaggtgctactg Alignment from Spaln_nt2Genome GACCTGTATATCCGCTGGAAGGGGCCGTCCTTTGATGTGCAGGTGGGGTTACACGAGCTGTTGGGCCATGGCAGCGGCAAGCTCTTTGTACA-------G aatgtggctatggctggagtggccagtgtcacacaccctccttttcgcagGATCTGTATATCCACTGGAAAGGTCCATCGTTTGATGTACAAGTGGGCTTACATGAGCTATTAAGCCATGGCAGTGGCAAGCTCTTTGTAAGACGAGGGGgtcccaaaggcagatcctgttacaggtgctactgatc Alignment from Pairagon GACCTGTATATCCGCTGGAAGGGGCCGTCCTTTGATGTGCAGGTGGGGTTACACGAGCTGTTGGGCCATGGCAGCGGCAAGCTCTTT aatgtggctatggctggagtggccagtgtcacacaccctccttttcgcagGATCTGTATATCCACTGGAAAGGTCCATCGTTTGATGTACAAGTGGGCTTACATGAGCTATTAAGCCATGGCAGTGGCAAGCTCTTTgtaagacgagggggtcccaaaggcagatcctgttacaggtgctactgatc Alignment from Exonerate_protein2genome GACCTGTATATCCGCTGGAAGGGGCCGTCCTTTGATGTGCAGGTGGGGTTACACGAGCTGTTGGGCCATGGCAGCGGCAAGCTCTTT aatgtggctatggctggagtggccagtgtcacacaccctccttttcgcagGATCTGTATATCCACTGGAAAGGTCCATCGTTTGATGTACAAGTGGGCTTACATGAGCTATTAAGCCATGGCAGTGGCAAGCTCTTTgtaagacgagggggtcccaaaggcagatcctgttacaggtgctactgatc Alignment from Exonerate_coding2genome GACCTGTATATCCGCTGGAAGGGGCCGTCCTTTGATGTGCAGGTGGGGTTACACGAGCTGTTGGGCCATGGCAGCGGCAAGCTCTTT aatgtggctatggctggagtggccagtgtcacacaccctccttttcgcagGATCTGTATATCCACTGGAAAGGTCCATCGTTTGATGTACAAGTGGGCTTACATGAGCTATTAAGCCATGGCAGTGGCAAGCTCTTTgtaagacgagggggtcccaaaggcagatcctgttacaggtgctactgatc Alignment from GeneWise GACCTGTATATCCGCTGGAAGGGGCCGTCCTTTGATGTGCAGGTGGGGTTACACGAGCTGTTGGGCCATGGCAGCGGCAAGCTCTTT aatgtggctatggctggagtggccagtgtcacacaccctccttttcgcagGATCTGTATATCCACTGGAAAGGTCCATCGTTTGATGTACAAGTGGGCTTACATGAGCTATTAAGCCATGGCAGTGGCAAGCTCTTTgtaagacgagggggtcccaaaggcagatcctgttacaggtgctactgatc #### Dpp3_ID746_7 --> 0 - 2 Original Alignment GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGag gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTT------aggtaagtattcattgtcatccaagcctcccaatatctctttcaatacaccc Alignment from CESAR GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGag gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTT------aggtaagtattcattgtcatccaagcctcccaatatctctttcaatacaccc Alignment from Spaln_aa2Genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGT gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTAGgtaagtattcattgtcatccaagcctcccaatatctctttcaatacaccc Alignment from Spaln_nt2Genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTT------AGgtaagtattcattgtcatccaagcctcccaatatctctttcaatacaccc Alignment from Pairagon GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTT------AGgtaagtattcattgtcatccaagcctcccaatatctctttcaatacaccc Alignment from Exonerate_protein2genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTT------AGgtaagtattcattgtcatccaagcctcccaatatctctttcaatacaccc Alignment from Exonerate_coding2genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTT------AGgtaagtattcattgtcatccaagcctcccaatatctctttcaatacaccc Alignment from GeneWise GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGT gaatgtgtggattgatcaaaatgaagatttattttgttattcttgttaagGCATATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTGTTAGgtaagtattcattgtcatccaagcctcccaatatctctttcaatacaccc #### Drap1_ID984_6 --> 0 - 2 Original Alignment GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGag tggatgactgggataatgtcccaaaatcatcagctgtcttccccacacagGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGTCACCCCCCTGCT---------aggtaaggtttgcgctgttgacataggaagtgtaacactttttttatcctga Alignment from CESAR GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGag tggatgactgggataatgtcccaaaatcatcagctgtcttccccacacagGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGTCACCCCCCTGCT---------aggtaaggtttgcgctgttgacataggaagtgtaacactttttttatcctga Alignment from Spaln_aa2Genome GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCA tggatgactgggataatgtcccaaaatcatcagctgtcttccccacacagGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGTCACCCCCCTGCTAGgtaaggtttgcgctgttgacataggaagtgtaacactttttttatcctga Alignment from Spaln_nt2Genome GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG tggatgactgggataatgtcccaaaatcatcagctgtcttccccacacagGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGTCACCCCCCTG----CTAGGTAAGgtttgcgctgttgacataggaagtgtaacactttttttatcctga Alignment from Pairagon GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG tggatgactgggataatgtcccaaaatcatcagctgtcttccccacacagGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGTCACCCCCCTGCT---------AGgtaaggtttgcgctgttgacataggaagtgtaacactttttttatcctga Alignment from Exonerate_protein2genome GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCA tggatgactgggataatgtcccaaaatcatcagctgtcttccccacacagGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGTCACCCCCCTGCTAGgtaaggtttgcgctgttgacataggaagtgtaacactttttttatcctga Alignment from Exonerate_coding2genome AGGATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCA tggatgactgggataatgtcccaaaatcatcagctgtcttccccacacAGGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGTCACCCCCCTGCTAGgtaaggtttgcgctgttgacataggaagtgtaacactttttttatcctga Alignment from GeneWise GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCA tggatgactgggataatgtcccaaaatcatcagctgtcttccccacacagGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGTCACCCCCCTGCTAGgtaaggtttgcgctgttgacataggaagtgtaacactttttttatcctga #### Drap1_ID985_5 --> 1 - 0 Original Alignment CCTCGAag gGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAaggtcagttaggggcctgcttccttctcaaaaatgtgtctgcaga---TGTAAACCAGGTAGCAGTGGCAAGAAAAATGGTGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTGGGACAGATTCCGAACAAGAGgtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc Alignment from CESAR CCTCGAag gGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAaggtaaagggctaggggccttccttctcaaaaatgtgtctgcagaTGT---AAACCAGGTAGCAGTGGCAAGAAAAATGGTGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTGGGACAGATTCCGAACAAGAGgtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc Alignment from Spaln_aa2Genome CCTCGAAG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAAGgtcagttaggggcctgcttccttctcaaaaatgtgtctgcagA---TGTAAACCAGGTAGCAGTGGCAAGAAAAATGGTGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTGGGACAGATTCCGAACAAGAGgtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc Alignment from Spaln_nt2Genome CCTCGAAG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAAGgtcagttaggggcctgcttccttctcaaaaatgtgtctgcag---ATGTAAACCAGGTAGCAGTGGCAAGAAAAATGGTGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTGGGACAGATTCCGAACAAGAGgtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc Alignment from Pairagon CCTCGA---------AGGGGCC------------------------------GGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAAGGTCAGTTAGGGGCCTGCTTCCTTCTCAAAAATGTGTCTGCAGATGTAAACCAGGTAGCAGTGGCAAGAAAAATGGTGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTGGGACAGATTCCGAACAAGAGgtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc Alignment from Exonerate_protein2genome CCTCGAAG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAAGgtcagttaggggcctgcttccttctcaaaaatgtgtctgcagA---TGTAAACCAGGTAGCAGTGGCAAGAAAAATGGTGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTGGGACAGATTCCGAACAAGAGgtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc Alignment from Exonerate_coding2genome CCTCGAAGGGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGG CCTCGAAGGTCAGTTAGGGGCCTGCTTCCTTCTCAAAAATGTGTCTGCAGATGTAAACCAGGTAGCAGTGGCAAGAAAAATGGTGGCACAGGAAGCAAGGgtaaagataaaaagctctctgggacagattccgaacaagaggtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc Alignment from GeneWise CCTCGAAGGGGCCGG---------------------------------------AAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAAGGTCAGTTAGGGGCCTGCTTCCTTCTCAAAAATGTGTCTGCAGATGTAAACCAGGTAGCAGTGGCAAGAAAAATGGTGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTGGGACAGATTCCGAACAAGAGgtgagtgggctagtaagtgatgagttatgtctgctttttgtagccaagcc #### Drap1_ID986_4 --> 1 - 2 Original Alignment gAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAag gGGCCGGA tttcccaagtagtttagtggcagccaactctgttctctttacaatcccagaATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCACTAGTAGCATCAGTACCTGACATGCAGGGGGACAGGGAAGACAACCATGTGGATGGGGAA------------aggtaatgggctagctaacttgcatccacccgccccgcccacagaGGCTGTA Alignment from CESAR gAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAag gGGCCGGA tttcccaagtagtttagtggcagccaactctgttctctttacaatcccagaATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCACTAGTAGCATCAGTACCTGACATGCAGGGGGACAGGGAAGACAACCATGTGGATGGGGAA------------aggtaatgggctagctaactgcttcttttcttgttgcttttcagaGGCTGTA Alignment from Spaln_aa2Genome GAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAA GGGTCCTC tttcccaagtagtttagtggcagccaactctgttctctttacaatcccagAATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCACTAGTAGCATCAGTACCTGACATGCAGGGGGACAGGGAAGACAACCATGTGGATGGGGAAAGgtaatgggctagctaacttgcatccacccgccccgcccacagA------- Alignment from Spaln_nt2Genome GAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAG GGGCCGGA tttcccaagtagtttagtggcagccaactctgttctctttacaatcccagAATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCACTAGTAGCATCAGTACCTGACATGCAGGGGGACAGGGAAGACAACCATGTGGATGGGGA------------AAGgtaatgggctagctaacttgcatccacccgccccgcccacagAGGCTGTA Alignment from Pairagon GAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAGG------------------------------------------GGCCGGA tttcccaagtagtttagtggcagccaactctgttctctttacaatcccagAATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCACTAGTAGCATCAGTACCTGACATGCAGGGGGACAGGGAAGACAACCATGTGGATGGGGA------------AAGGTAATGGGCTAGCTAACTTGCATCCACCCGCCCCGCCCACAGAGGCTGTA Alignment from Exonerate_protein2genome GAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAG GGGCCGGA tttcccaagtagtttagtggcagccaactctgttctctttacaatcccagAATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCACTAGTAGCATCAGTACCTGACATGCAGGGGGACAGGGAAGACAACCATGTGGATGGGGAAAGGTAATGGGCTAGctaacttgcatccacccgccccgcccacagAGGCTGTA Alignment from Exonerate_coding2genome GAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAG---------GGTCCTCGAAGGGGCCGGAAACCGGGCAGCAGCGGCAGGA tttcccaagtagtttagtggcagccaactctgttctctttacaatcccagAATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCACTAGTAGCATCAGTACCTGACATGCAGGGGGACAGGGAAGACAACCATGTGGATGGGGAAAGGTAATGGGCTAGCTAACTTGCATCCACCCGCCCCGCCCACAGAGGCTGTA Alignment from GeneWise GAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAA GGGTCCTC tttcccaagtagtttagtggcagccaactctgttctctttacaatcccagAATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCACTAGTAGCATCAGTACCTGACATGCAGGGGGACAGGGAAGACAACCATGTGGATGGGGAAAGgtaatgggctagctaacttgcatccacccgccccgcccacagAGGC---- #### Eef1g_ID2567_9 --> 2 - 0 Original Alignment ggATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG taaggataaacagagccaggagggtaatttccttctcacccaccatccaggt---TTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACTAATAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCCAGGAGCTTGCCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa Alignment from CESAR ggATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG gaataaggataaacagagccaggagaatttccttctcacccaccatccaggt---TTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACTAATAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCCAGGAGCTTGCCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa Alignment from Spaln_aa2Genome GGATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG taaggataaacagagccaggagggtaatttccttctcacccaccatccagGT---TTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACTAATAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCCAGGAGCTTGCCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa Alignment from Spaln_nt2Genome GGATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG taaggataaacagagccaggagggtaatttccttctcacccaccatccagG---TTTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACTAATAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCCAGGAGCTTGCCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa Alignment from Pairagon GGATGTTT-CAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG taaggataaacagagccaggagggtaatttccttctcacccaccatccag----GTTTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACTAATAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCCAGGAGCTTGCCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa Alignment from Exonerate_protein2genome GGATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG taaggataaacagagccaggagggtaatttccttctcacccaccatccagGT---TTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACTAATAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCCAGGAGCTTGCCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa Alignment from Exonerate_coding2genome GGATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG taaggataaacagagccaggagggtaatttccttctcacccaccatccagGT---TTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACTAATAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCCAGGAGCTTGCCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa Alignment from GeneWise ----------------------------------------------------TTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG TAAGGATAAACAGAGCCAGGAGGGTAATTTCCTTCTCACCCACCATCCAGGTTTCCAACGGCTGGACAAACTGCGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACTAATAACAGCAGTTCTATTTCTGGAGTTTGGGTCTTTCGTGGCCAGGAGCTTGCCTATCCAgtgagtcttcagtatgagagcctcatggtggggacttagaagcttggaaa #### Efemp2_ID1032_5 --> 2 - 1 Original Alignment acATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGg gaaacatccaagttgtttggctgggctatctcagtctctcctgtcaccagacATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCATTCCGATGCCAATGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGT---ggtatcttgttggtgtgtcctgcaagtctctaaccttcaagtggaaccact Alignment from CESAR acATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGg gaaacatccaagttgtttggctgggctatctcagtctctcctgtcaccagacATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCATTCCGATGCCAATGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGT---ggtatcttgttggtgtgtcctgcaagtctctaaccttcaagtggaaccact Alignment from Spaln_aa2Genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGT- gaaacatccaagttgtttggctgggctatctcagtctctcctgtcaccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCATTCCGATGCCAATGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGgtatcttgttggtgtgtcctgcaagtctctaaccttcaagtggaaccact Alignment from Spaln_nt2Genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTG gaaacatccaagttgtttggctgggctatctcagtctctcctgtcaccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCATTCCGATGCCAATGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGgtatcttgttggtgtgtcctgcaagtctctaaccttcaagtggaaccact Alignment from Pairagon ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTG gaaacatccaagttgtttggctgggctatctcagtctctcctgtcaccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCATTCCGATGCCAATGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGgtatcttgttggtgtgtcctgcaagtctctaaccttcaagtggaaccact Alignment from Exonerate_protein2genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gaaacatccaagttgtttggctgggctatctcagtctctcctgtcaccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCATTCCGATGCCAATGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGT---Ggtatcttgttggtgtgtcctgcaagtctctaaccttcaagtggaaccact Alignment from Exonerate_coding2genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gaaacatccaagttgtttggctgggctatctcagtctctcctgtcaccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCATTCCGATGCCAATGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGT---Ggtatcttgttggtgtgtcctgcaagtctctaaccttcaagtggaaccact Alignment from GeneWise ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTG gaaacatccaagttgtttggctgggctatctcagtctctcctgtcaccagACATCGATGAGTGCCGTTACCGCTATTGCCAGCATCGATGTGTGATCCTACCAGGCTCATTCCGATGCCAATGTGAGCCAGGCTTCCAATTGGGACCTAACATTCGTTCCTGTGgtatcttgttggtgtgtcctgcaagtctctaaccttcaagtggaaccact #### Efemp2_ID1033_6 --> 2 - 1 Original Alignment atGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCg gtagtccatgactttcaccttcctatctactagtgttgcatctattacagatGTGAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTCTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCC------ggtaagtcggcgcgtcaactgtgacatcccctttatgccatgcagcatgat Alignment from CESAR atGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCg gtagtccatgactttcaccttcctatctactagtgttgcatctattacagatGTGAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTCTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCC------ggtaagtcggcgcgtcaactgtgacatcccctttatgccatgcagcatgat Alignment from Spaln_aa2Genome ATGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCC- gtagtccatgactttcaccttcctatctactagtgttgcatctattacagATGTGAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTCTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCGgtaagtcggcgcgtcaactgtgacatcccctttatgccatgcagcatgat Alignment from Spaln_nt2Genome ATGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTG gtagtccatgactttcaccttcctatctactagtgttgcatctattacagATGTGAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTCTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCC-Ggtaagtcggcgcgtcaactgtgacatcccctttatgccatgcagcatgat Alignment from Pairagon ATGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCTGCAGCG gtagtccatgactttcaccttcctatctactagtgttgcatctattacagATGTGAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTCTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTC------CGgtaagtcggcgcgtcaactgtgacatcccctttatgccatgcagcatgat Alignment from Exonerate_protein2genome ATGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCT gtagtccatgactttcaccttcctatctactagtgttgcatctattacagATGTGAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTCTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCGgtaagtcggcgcgtcaactgtgacatcccctttatgccatgcagcatgat Alignment from Exonerate_coding2genome ATGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCT gtagtccatgactttcaccttcctatctactagtgttgcatctattacagATGTGAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTCTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCGgtaagtcggcgcgtcaactgtgacatcccctttatgccatgcagcatgat Alignment from GeneWise ATGTGAATGAGTGTGACATGGGAGCCCCATGTGAGCAGCGCTGCTTCAACTCCTATGGGACCTTCCTGTGTCGCTGTAACCAGGGCTATGAGCTGCACCGGGATGGCTTCTCCT gtagtccatgactttcaccttcctatctactagtgttgcatctattacagATGTGAATGAATGTGACATGGGAGCCCCTTGTGAGCAGCGTTGTTTCAATTCATATGGGACCTTTCTGTGCCGGTGTAACCAGGGCTATGAGCTACACTGGGATGGCTTCTCCGgtaagtcggcgcgtcaactgtgacatcccctttatgccatgcagcatgat #### Efemp2_ID1034_7 --> 2 - 1 Original Alignment at---ATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAg tctcaaattttctgcatgaccaataacttctctatggtttctgtctttagatTATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATGAGCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAggtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag Alignment from CESAR at---ATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAg tctcaaattttctgcatgaccaataacttctctatggtttctgtctttagatTATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATGAGCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAggtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag Alignment from Spaln_aa2Genome GCGATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttctgcatgaccaataacttctctatggtttctgtctttagATTATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATGAGCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAGgtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag Alignment from Spaln_nt2Genome AT---ATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttctgcatgaccaataacttctctatggtttctgtctttagATTATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATGAGCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAGgtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag Alignment from Pairagon ---ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttctgcatgaccaataacttctctatggtttctgtctttagATTATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATGAGCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAGgtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag Alignment from Exonerate_protein2genome AT---ATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttctgcatgaccaataacttctctatggtttctgtctttagATTATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATGAGCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAGgtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag Alignment from Exonerate_coding2genome AT---ATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttctgcatgaccaataacttctctatggtttctgtctttagATTATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATGAGCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAGgtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag Alignment from GeneWise GCGATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaattttctgcatgaccaataacttctctatggtttctgtctttagATTATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAATGAGCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGCTGGCAACGAGGCTCTGCCAAGgtgagtaggcttgggttgacaagcacagaaattccataatttaccatgag #### Ehbp1l1_ID1220_15 --> 0 - 1 Original Alignment ---------------------------------------CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAg gtggcttaggtgaggtcacctgtcctctacatatagttctctcttcaaagAGGGGGTCAATGCTCGCTACAGCCATATTTACACTGCCACATCGGTTACAGGACACAAGTCAGTATGTGTGTGCAGAGCAACAAGCCCTTGAGCAAGAACAGGGACAGGTTGATGGCAGGGCTCCTGAAGTGCAGAAGCAATTTCGGAGCCTGATGGAATCAggtatgtccccctagtttcgtctttgcttaaaacctgatacagttgagcca Alignment from CESAR cccaagatgtttctattctcaaatggttctacacagtattaatgattctgt Alignment from Spaln_aa2Genome AGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG gtggcttaggtgaggtcacctgtcctctacatatagttctctcttcaaagagggggtcaatgctcgctacagccatatttacactgccacatcggttacAGGACACAAGTCAGTATGTGTGTGCAGAGCAACAAGCCCTTGAGCAAGAACAGGGACAGGTTGATGGCAGGGCTCCTGAAGTGCAGAAGCAATTTCGGAGCCTGATGGAATCAGgtatgtccccctagtttcgtctttgcttaaaacctgatacagttgagcca Alignment from Spaln_nt2Genome GACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG gtggcttaggtgaggtcacctgtcctctacatatagttctctcttcaaagagggggtcaatgctcgctacagccatatttacactgccacatcggttacagGACACAAGTCAGTATGTGTGTGCAGAGCAACAAGCCCTTGAGCAAGAACAGGGACAGGTTGATGGCAGGGCTCCTGAAGTGCAGAAGCAATTTCGGAGCCTGATGGAATCAGgtatgtccccctagtttcgtctttgcttaaaacctgatacagttgagcca Alignment from Pairagon -----------------------------------------------------------------------------------------CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG GTGGCTTAGGTGAGGTCACCTGTCCTCTACATATAGTTCTCTCTTCAAAGAGGGGGTCAATGCTCGCTACAGCCATATTTACACTGCCACATCGGTTACAGGACACAAGTCAGTATGTGTGTGCAGAGCAACAAGCCCTTGAGCAAGAACAGGGACAGGTTGATGGCAGGGCTCCTGAAGTGCAGAAGCAATTTCGGAGCCTGATGGAATCAGgtatgtccccctagtttcgtctttgcttaaaacctgatacagttgagcca Alignment from Exonerate_protein2genome CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG gtggcttaggtgaggtcacctgtcctctacatatagttctctcttcaaagagggggtcaatgctcgctacagccatatttacactgccaCATCGGTTACAGGACACAAGTCAGTATGTGTGTGCAGAGCAACAAGCCCTTGAGCAAGAACAGGGACAGGTTGATGGCAGGGCTCCTGAAGTGCAGAAGCAATTTCGGAGCCTGATGGAATCAGgtatgtccccctagtttcgtctttgcttaaaacctgatacagttgagcca Alignment from Exonerate_coding2genome TGAGGAGTCATCACCCAGCCTGGGGGAAGAGACAGGCCTGCAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG gtggcttaggtgaggtcacctgtcctctacatatagttctctcttcaaaGAGGGGGTCAATGCTCGCTACAGCCATATTTACACTGCCACATCGGTTACAGGACACAAGTCAGTATGTGTGTGCAGAGCAACAAGCCCTTGAGCAAGAACAGGGACAGGTTGATGGCAGGGCTCCTGAAGTGCAGAAGCAATTTCGGAGCCTGATGGAATCAGgtatgtccccctagtttcgtctttgcttaaaacctgatacagttgagcca Alignment from GeneWise -----------------CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG gtggcttaggtgaggtcacctgtcctctacatatagttctctcttcaaagagggggtcaatgctcgctacagCCATATTTACACTGCCACATCGGTTACAGGACACAAGTCAGTATGTGTGTGCAGAGCAACAAGCCCTTGAGCAAGAACAGGGACAGGTTGATGGCAGGGCTCCTGAAGTGCAGAAGCAATTTCGGAGCCTGATGGAATCAGgtatgtccccctagtttcgtctttgcttaaaacctgatacagttgagcca #### Ehbp1l1_ID1228_7 --> 2 - 1 Original Alignment atCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCAg tttgtatgacttcattcctcagactctttaatgctctgcttttcctctagat------TGTGAGTTGAAGACACTCTGTGAGGAAGAAGATGAAGGTCACATACGTCCCCAGCAGTCAggtaggactggtaatgggaaggcaatccgaacctgcaaaagctgcatagct Alignment from CESAR atCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCAg agttcctttgtatgacttcattcctctttaatgctctgcttttcctctagat------TGTGAGTTGAAGACACTCTGTGAGGAAGAAGATGAAGGTCACATACGTCCCCAGCAGTCAggtaggactggtaatgggaaggcaatccgaacctgcaaaagctgcattcca Alignment from Spaln_aa2Genome ATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCAG tttgtatgacttcattcctcagactctttaatgctctgcttttcctctagAT------TGTGAGTTGAAGACACTCTGTGAGGAAGAAGATGAAGGTCACATACGTCCCCAGCAGTCAGgtaggactggtaatgggaaggcaatccgaacctgcaaaagctgcatagct Alignment from Spaln_nt2Genome TGT CTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCAG TTTgtatgacttcattcctcagactctttaatgctctgcttttcctctagATTGTGAGTTGAAGACACTCTGTGAGGAAGAAGATGAAGGTCACATACGTCCCCAGCAGTCAGgtaggactggtaatgggaaggcaatccgaacctgcaaaagctgcatagct Alignment from Pairagon ATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCAG tttgtatgacttcattcctcagactctttaatgctctgcttttcctctagA------TTGTGAGTTGAAGACACTCTGTGAGGAAGAAGATGAAGGTCACATACGTCCCCAGCAGTCAGgtaggactggtaatgggaaggcaatccgaacctgcaaaagctgcatagct Alignment from Exonerate_protein2genome tttgtatgacttcattcctcagactctttaatgctctgcttttcctctagattgtgagttgaagacactctgtgaggaagaagatgaaggtcacatacgtccccagcagtcaggtaggactggtaatgggaaggcaatccgaacctgcaaaagctgcatagct Alignment from Exonerate_coding2genome tttgtatgacttcattcctcagactctttaatgctctgcttttcctctagattgtgagttgaagacactctgtgaggaagaagatgaaggtcacatacgtccccagcagtcaggtaggactggtaatgggaaggcaatccgaacctgcaaaagctgcatagct Alignment from GeneWise ATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCAG tttgtatgacttcattcctcagactctttaatgctctgcttttcctctagATTGT------GAGTTGAAGACACTCTGTGAGGAAGAAGATGAAGGTCACATACGTCCCCAGCAGTCAGgtaggactggtaatgggaaggcaatccgaacctgcaaaagctgcatagct #### Ehbp1l1_ID1229_6 --> 1 - 1 Original Alignment g------GATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAg catagatgatgtgtgaagtagtctggcttccttatgtgtctccattccagaCTATCCGATGATGATATGCAAAGTCTTGCCAGCCTCATGAGTGTGAAGCCTAGTGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGGGGCCCCCAGTCTggtaatgatattgttgttcagattgctggtacctgaggtggatactagtcc Alignment from CESAR g------GATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAg catagatgatgtgtgaagtagtctggcttccttatgtgtctccattccagaCTATCCGATGATGATATGCAAAGTCTTGCCAGCCTCATGAGTGTGAAGCCTAGTGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGGGGCCCCCAGTCTggtaatgatattgttgttcagattgctggtacctgaggtggatactagtcc Alignment from Spaln_aa2Genome G------GATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCA catagatgatgtgtgaagtagtctggcttccttatgtgtctccattccagACTATCCGATGATGATATGCAAAGTCTTGCCAGCCTCATGAGTGTGAAGCCTAGTGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGGGGCCCCCAGTCTGgtaatgatattgttgttcagattgctggtacctgaggtggatactagtcc Alignment from Spaln_nt2Genome -----CGGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG catagatgatgtgtgaagtagtctggcttccttatgtgtctccattccagACTATCCGATGATGATATGCAAAGTCTTGCCAGCCTCATGAGTGTGAAGCCTAGTGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGGGGCCCCCAGTCTGgtaatgatattgttgttcagattgctggtacctgaggtggatactagtcc Alignment from Pairagon ---------------------------------------------------------GATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG CATAGATGATGTGTGAAGTAGTCTGGCTTCCTTATGTGTCTCCATTCCAGACTATCCGATGATGATATGCAAAGTCTTGCCAGCCTCATGAGTGTGAAGCCTAGTGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGGGGCCCCCAGTCTGgtaatgatattgttgttcagattgctggtacctgaggtggatactagtcc Alignment from Exonerate_protein2genome catagatgatgtgtgaagtagtctggcttccttatgtgtctccattccagactatccgatgatgatatgcaaagtcttgccagcctcatgagtgtgaagcctagtgatgtgggaaacctggatgactttgctgagagtgatgaggaggaagctaatggccctggggctcctgaggttcagaccaggggcccccagtctggtaatgatattgttgttcagattgctggtacctgaggtggatactagtcc Alignment from Exonerate_coding2genome catagatgatgtgtgaagtagtctggcttccttatgtgtctccattccagactatccgatgatgatatgcaaagtcttgccagcctcatgagtgtgaagcctagtgatgtgggaaacctggatgactttgctgagagtgatgaggaggaagctaatggccctggggctcctgaggttcagaccaggggcccccagtctggtaatgatattgttgttcagattgctggtacctgaggtggatactagtcc Alignment from GeneWise ----ACGGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG catagatgatgtgtgaagtagtctggcttccttatgtgtctccattccagACTATCCGATGATGATATGCAAAGTCTTGCCAGCCTCATGAGTGTGAAGCCTAGTGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTTCAGACCAGGGGCCCCCAGTCTGgtaatgatattgttgttcagattgctggtacctgaggtggatactagtcc #### Ehbp1l1_ID1230_5 --> 0 - 2 Original Alignment GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCac cacccctgccagagtacggaactaatgatttctttctttctttcctgcag------AAGGGACAGCGGAAAGTATTAGCCACAGTTGGTGTCAATTCAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTACATGCTGAGCTTAGCCTCACACTTGCAGTC---CTTCTACAAGAAGGCCGTGCCatgtaagtgtacctttacgctgttttacactgaggcttggcagcacgcatta Alignment from CESAR GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCac ctctcccacccctgccagagtacggtgatttctttctttctttcctgcag------AAGGGACAGCGGAAAGTATTAGCCACAGTTGGTGTCAATTCAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTACATGCTGAGCTTAGCCTCACACTTGCA---GTCCTTCTACAAGAAGGCCGTGCCatgtaagtgtacctttacgctgttttacactgaggcttggcagcacgcatta Alignment from Spaln_aa2Genome TCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC cacccctgccagagtacggaactaatgatttctttctttctttcctgcagAAGGGACAGCGG---AAAGTATTAGCCACAGTTGGTGTCAATTCAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTACATGCTGAGCTTAGCCTCACACTTGCA---GTCCTTCTACAAGAAGGCCGTGCCATgtaagtgtacctttacgctgttttacactgaggcttggcagcacgcatta Alignment from Spaln_nt2Genome GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC cacccctgccagagtacggaactaatgatttctttctttctttcctgcag------AAGGGACAGCGGAAAGTATTAGCCACAGTTGGTGTCAATTCAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTACATGCTGAGCTTAGCCTCACACT---TGCAGTCCTTCTACAAGAAGGCCGTGCCATgtaagtgtacctttacgctgttttacactgaggcttggcagcacgcatta Alignment from Pairagon GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC cacccctgccagagtacggaactaatgatttctttctttctttcctgcag------AAGGGACAGCGGAAAGTATTAGCCACAGTTGGTGTCAATTCAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTACATGCTGAGCTTAGCCTCACACT---TGCAGTCCTTCTACAAGAAGGCCGTGCCATgtaagtgtacctttacgctgttttacactgaggcttggcagcacgcatta Alignment from Exonerate_protein2genome cacccctgccagagtacggaactaatgatttctttctttctttcctgcagaagggacagcggaaagtattagccacagttggtgtcaattcagaccatcatgcagggcccctacctgcccagatctcacttcaattgcggcagaagcccaagtccatcaaagttgtacatgctgagcttagcctcacacttgcagtccttctacaagaaggccgtgccatgtaagtgtacctttacgctgttttacactgaggcttggcagcacgcatta Alignment from Exonerate_coding2genome cacccctgccagagtacggaactaatgatttctttctttctttcctgcagaagggacagcggaaagtattagccacagttggtgtcaattcagaccatcatgcagggcccctacctgcccagatctcacttcaattgcggcagaagcccaagtccatcaaagttgtacatgctgagcttagcctcacacttgcagtccttctacaagaaggccgtgccatgtaagtgtacctttacgctgttttacactgaggcttggcagcacgcatta Alignment from GeneWise GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC cacccctgccagagtacggaactaatgatttctttctttctttcctgcagAAG------GGACAGCGGAAAGTATTAGCCACAGTTGGTGTCAATTCAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCATCAAAGTTGTACATGCTGAGCTTAGCCTCACACTTGCA---GTCCTTCTACAAGAAGGCCGTGCCATgtaagtgtacctttacgctgttttacactgaggcttggcagcacgcatta #### Eif1ad_ID949_2 --> 0 - 1 Original Alignment GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGA------g acaatgcaaattctagataatgagtgattgcatgtgcactgtccatccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGGTCAGCATGCCCTCCAAATACCGTAAGAACATCTGGATCAAGAGAATTGAAggttggttctatttgctttttgaactaccaaacatgataccactttgtccc Alignment from CESAR GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGA------g acaatgcaaattctagataatgagtgattgcatgtgcactgtccatccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGGTCAGCATGCCCTCCAAATACCGTAAGAACATCTGGATCAAGAGAATTGAAggttggttctatttgctttttgaactaccaaacatgataccactttgtccc Alignment from Spaln_aa2Genome GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGA------G acaatgcaaattctagataatgagtgattgcatgtgcactgtccatccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGGTCAGCATGCCCTCCAAATACCGTAAGAACATCTGGATCAAGAGAATTGAAGgttggttctatttgctttttgaactaccaaacatgataccactttgtccc Alignment from Spaln_nt2Genome GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGA------G acaatgcaaattctagataatgagtgattgcatgtgcactgtccatccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGGTCAGCATGCCCTCCAAATACCGTAAGAACATCTGGATCAAGAGAATTGAAGgttggttctatttgctttttgaactaccaaacatgataccactttgtccc Alignment from Pairagon GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAG---------------------------------------------------------- acaatgcaaattctagataatgagtgattgcatgtgcactgtccatccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGGTCAGCATGCCCTCCAAATACCGTAAGAACATCTGGATCAAGAGAATTGAAGGTTGGTTCTATTTGCTTTTTGAACTACCAAACATGATACCACTTTGTCCC Alignment from Exonerate_protein2genome GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAG acaatgcaaattctagataatgagtgattgcatgtgcactgtccatccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGGTCAGCATGCCCTCCAAATACCGTAAGAACATCTGGATCAAGAGAAttgaaggttggttctatttgctttttgaactaccaaacatgataccactttgtccc Alignment from Exonerate_coding2genome GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAG acaatgcaaattctagataatgagtgattgcatgtgcactgtccatccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGGTCAGCATGCCCTCCAAATACCGTAAGAACATCTGGATCAAGAGAAttgaaggttggttctatttgctttttgaactaccaaacatgataccactttgtccc Alignment from GeneWise GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGA------G acaatgcaaattctagataatgagtgattgcatgtgcactgtccatccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACTGCTCAGGGGCAACGCTTCCTGGTCAGCATGCCCTCCAAATACCGTAAGAACATCTGGATCAAGAGAATTGAAGgttggttctatttgctttttgaactaccaaacatgataccactttgtccc #### Eif1ad_ID950_3 --> 2 - 2 Original Alignment ggGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACtg tgctcctcaacacaatttattcttttttgatctgattttattccatgtaggg------------GTTGAACCTTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAAtggtaagccagtctctctgtgcccctgcccggcattaagggactgtttgtag Alignment from CESAR ggGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACtg aataatgcctcatgctcctcaacactttgatctgattttattccatgtaggg------------GTTGAACCTTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAAtggtaagccagtctctctgtgcccctgcccggcattaagggactgtttgtag Alignment from Spaln_aa2Genome GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG tgctcctcaacacaatttattcttttttgatctgattttattccatgtagGG------------GTTGAACCTTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtaagccagtctctctgtgcccctgcccggcattaagggactgtttgtag Alignment from Spaln_nt2Genome GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG tgctcctcaacacaatttattcttttttgatctgattttattccatgtagGG------------GTTGAACCTTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtaagccagtctctctgtgcccctgcccggcattaagggactgtttgtag Alignment from Pairagon GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG tgctcctcaacacaatttattcttttttgatctgattttattccatgtagGG------------GTTGAACCTTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtaagccagtctctctgtgcccctgcccggcattaagggactgtttgtag Alignment from Exonerate_protein2genome CTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG tgctcctcaacacaatttattcttttttgatctgattttattccatGTAGGGGTTGAACCTTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtaagccagtctctctgtgcccctgcccggcattaagggactgtttgtag Alignment from Exonerate_coding2genome CTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG tgctcctcaacacaatttattcttttttgatctgattttattccatGTAGGGGTTGAACCTTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtaagccagtctctctgtgcccctgcccggcattaagggactgtttgtag Alignment from GeneWise TTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG tgctcctcaacacaatttattcttttttgatctgattttattccatgtagGGGTTGAACCTTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCCTTTGTACTCTGCAAGAACCATGTTCACACCCTGCAGAAGGAGGGCCAATGgtaagccagtctctctgtgcccctgcccggcattaagggactgtttgtag #### Eml3_ID2503_3 --> 1 - 2 Original Alignment cAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACac gCCCCGAAGAAATTCTTCCTCCTCC tagaattagtccaatgtgttgggtaatgctggtctgctgtcccctcacagcAGCATTACAGTCCCACCAGGGCTGCCACCAATCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCTCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGCTGCCGCAGTAGTAGTGGGTCAGGTTCACCTGGGCCTCCAGGAATCCTCAGGCCAGTGCAGCCT---------------acgtctgcttcttccatcctgccacaggCCCCGAAGAAATTCTTCGTCCTCA Alignment from CESAR cAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACac gCCCCGAAGAAATTCTTCCTCCTCC tagaattagtccaatgtgttgggtaatgctggtctgctgtcccctcacagcAGCATTACAGTCCCACCAGGGCTGCCACCAATCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCTCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGCTGCCGCAGTAGTAGTGGGTCAGGTTCACCTGGGCCTCCAGGAATCCTCAGGCCAGTGCAGCCT---------------acgtacaggcctgttcttgcttttcaggCCCCGAAGAAATTCTTCGTCCTCA Alignment from Spaln_aa2Genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCT----------CTTCAGCGTTCTGACACGCCCCGAAGAAATTCTTCCTCCTCC tagaattagtccaatgtgttgggtaatgctggtctgctgtcccctcacagCAGCATTACAGTCCCACCAGGGCTGCCACCAATCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCTCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGCTGCCGCAGTAGTAGTGGGTCAGGTTCACCTGGGCCTCCAGGAATCCTCAGGCCAGTGCAGCCTACGTCTGCTtCTTCCATCCTGCCACAGGCCCCGAAGAAATTCTTCGTCCTCA Alignment from Spaln_nt2Genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCT-------CTTCAGCGTTC-TGACAC--GCCCCGAAGAAATTCTTCCTCCTCC tagaattagtccaatgtgttgggtaatgctggtctgctgtcccctcacagCAGCATTACAGTCCCACCAGGGCTGCCACCAATCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCTCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGCTGCCGCAGTAGTAGTGGGTCAGGTTCACCTGGGCCTCCAGGAATCCTCAGGCCAGTGCAGCCTACGTCTGCTTCTTCCATCCTGCCACAGGCCCCGAAGAAATTCTTCGTCCTCA Alignment from Pairagon CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCT----------------------CTTCAGCGTTCTGACACGCCCCGAAGAAAT tagaattagtccaatgtgttgggtaatgctggtctgctgtcccctcacagCAGCATTACAGTCCCACCAGGGCTGCCACCAATCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCTCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGCTGCCGCAGTAGTAGTGGGTCAGGTTCACCTGGGCCTCCAGGAATCCTCAGGCCAGTGCAGCCTACGTCTGCTTCTTCCATCCTGCC------------ACAGGCCCCGAAGAAAT Alignment from Exonerate_protein2genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGAC---ACGCCCCGA----AGAAATTCTTCCTCCTCCTCC tagaattagtccaatgtgttgggtaatgctggtctgctgtcccctcacagCAGCATTACAGTCCCACCAGGGCTGCCACCAATCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCTCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGCTGCCGCAGTAGTAGTGGGTCAGGTTCACCTGGGCCTCCAGGAATCCTCAGGCCAGTGCAGCCTACGTCTGCTTCTTCCATCCTGCCACAGGCCCCGAAGAAATTCTTCGTCCTCA Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCT-GACACG---------CCCCGAAGAAATTCTTCCTCCTCC tagaattagtccaatgtgttgggtaatgctggtctgctgtcccctcacagCAGCATTACAGTCCCACCAGGGCTGCCACCAATCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCTCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGCTGCCGCAGTAGTAGTGGGTCAGGTTCACCTGGGCCTCCAGGAATCCTCAGGCCAGTGCAGCCTACGTCTGCTTCTTCCATCCTGCCACAGGCCCCGAAGAAATTCTTCGTCCTCA #### Eml3_ID2507_6 --> 2 - 2 Original Alignment aaGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGgt gtgccaagtgctctcctaaaagaagggttgttgttgttgtttttttgtagaaGGGATCTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATTACAATGTACATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCCTGACCCTTGAA---gtgtgatgagtggttgaaactgtcacacacaatagaaaggctggcatttttg Alignment from CESAR aaGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGgt gtgccaagtgctctcctaaaagaagggttgttgttgttgtttttttgtagaaGGGATCTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATTACAATGTACATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCCTGACCCTTGAA---gtgtgatgagtggttgaaactgtcacacacaatagaaaggctggcatttttg Alignment from Spaln_aa2Genome AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTG gtgccaagtgctctcctaaaagaagggttgttgttgttgtttttttgtagAAGGGATCTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATTACAATGTACATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCCTGACCCTTGAAGTgtgatgagtggttgaaactgtcacacacaatagaaaggctggcatttttg Alignment from Spaln_nt2Genome AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT gtgccaagtgctctcctaaaagaagggttgttgttgttgtttttttgtagAAGGGATCTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATTACAATGTACATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCCTGACCCTTGA---AGTgtgatgagtggttgaaactgtcacacacaatagaaaggctggcatttttg Alignment from Pairagon AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGAC gtgccaagtgctctcctaaaagaagggttgttgttgttgtttttttgtagAAGGGATCTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATTACAATGTACATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCCTGACCCTTGAAgtgtgatgagtggttgaaactgtcacacacaatagaaaggctggcatttttg Alignment from Exonerate_protein2genome AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT gtgccaagtgctctcctaaaagaagggttgttgttgttgtttttttgtagAAGGGATCTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATTACAATGTACATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCCTGACCCTTGAAGTGTGatgagtggttgaaactgtcacacacaatagaaaggctggcatttttg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTG gtgccaagtgctctcctaaaagaagggttgttgttgttgtttttttgtagAAGGGATCTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATTACAATGTACATTCCATCTGGGGTCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCGGAGACCCTGACCCTTGAAGTgtgatgagtggttgaaactgtcacacacaatagaaaggctggcatttttg #### Eml3_ID2510_9 --> 0 - 0 Original Alignment CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG------ gatcattgatcaagttttctgtccttctcgataatcaatttcctttctagCCCCTGCAGCCGGTGGTTCATACCTGGGACTCAGAAACACTCCTAAAACTGCAGGAAATTGGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCATCCACTgtaccacagggatggggacatgtttgtgaccccattatcttgtttattaa Alignment from CESAR CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG------ gatcattgatcaagttttctgtccttctcgataatcaatttcctttctagCCCCTGCAGCCGGTGGTTCATACCTGGGACTCAGAAACACTCCTAAAACTGCAGGAAATTGGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCATCCACTgtaccacagggatggggacatgtttgtgaccccattatcttgtttattaa Alignment from Spaln_aa2Genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCGGATCAA gatcattgatcaagttttctgtccttctcgataatcaatttcctttctagCCCCTGCAGCCGGTGGTTCATACCTGGGACTCAGAAACACTCCTAAAACTGCAGGAAATTGGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCATCCACTgtaccacagggatggggacatgtttgtgaccccattatcttgtttattaa Alignment from Spaln_nt2Genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG------ gatcattgatcaagttttctgtccttctcgataatcaatttcctttctagCCCCTGCAGCCGGTGGTTCATACCTGGGACTCAGAAACACTCCTAAAACTGCAGGAAATTGGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCATCCACTgtaccacagggatggggacatgtttgtgaccccattatcttgtttattaa Alignment from Pairagon CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG------ gatcattgatcaagttttctgtccttctcgataatcaatttcctttctagCCCCTGCAGCCGGTGGTTCATACCTGGGACTCAGAAACACTCCTAAAACTGCAGGAAATTGGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCATCCACTgtaccacagggatggggacatgtttgtgaccccattatcttgtttattaa Alignment from Exonerate_protein2genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAG gatcattgatcaagttttctgtccttctcgataatcaatttcctttctagCCCCTGCAGCCGGTGGTTCATACCTGGGACTCAGAAACACTCCTAAAACTGCAGGAAATTGGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGcatccactgtaccacagggatggggacatgtttgtgaccccattatcttgtttattaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCGGATCAA gatcattgatcaagttttctgtccttctcgataatcaatttcctttctagCCCCTGCAGCCGGTGGTTCATACCTGGGACTCAGAAACACTCCTAAAACTGCAGGAAATTGGCCTGGGTGCCTCTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAGCAGCATCCACTgtaccacagggatggggacatgtttgtgaccccattatcttgtttattaa #### Eml3_ID2512_11 --> 0 - 0 Original Alignment AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG--- gagggcctgcacttactcagtgtgggtatcctagttgtttttttctctagAGTACAAATGACTCCGTACTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTCACTAGTGGAAAATCACATGTCCACTTTTGGAACTGGAGTGGTGGTACAGGGGCTCCTGGGAATGGACTCCTTGCACGGAAGCAGGGTGTTCTTGGGATGgtaggatgggtaaggtcaacaaaggcatggcataataacacactgtgcct Alignment from CESAR AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG--- gagggcctgcacttactcagtgtgggtatcctagttgtttttttctctagAGTACAAATGACTCCGTACTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTCACTAGTGGAAAATCACATGTCCACTTTTGGAACTGGAGTGGTGGTACAGGGGCTCCTGGGAATGGACTCCTTGCACGGAAGCAGGGTGTTCTTGGGATGgtaggatgggtaaggtcaacaaaggcatggcataataacacactgtgcct Alignment from Spaln_aa2Genome AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGGAAA gagggcctgcacttactcagtgtgggtatcctagttgtttttttctctagAGTACAAATGACTCCGTACTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTCACTAGTGGAAAATCACATGTCCACTTTTGGAACTGGAGTGGTGGTACAGGGGCTCCTGGGAATGGACTCCTTGCACGGAAGCAGGGTGTTCTTGGGATGgtaggatgggtaaggtcaacaaaggcatggcataataacacactgtgcct Alignment from Spaln_nt2Genome AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGGAAA gagggcctgcacttactcagtgtgggtatcctagttgtttttttctctagAGTACAAATGACTCCGTACTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTCACTAGTGGAAAATCACATGTCCACTTTTGGAACTGGAGTGGTGGTACAGGGGCTCCTGGGAATGGACTCCTTGCACGGAAGCAGGGTGTTCTTGGGATGgtaggatgggtaaggtcaacaaaggcatggcataataacacactgtgcct Alignment from Pairagon AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGG------------------------------------------------------ gagggcctgcacttactcagtgtgggtatcctagttgtttttttctctagAGTACAAATGACTCCGTACTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTCACTAGTGGAAAATCACATGTCCACTTTTGGAACTGGAGTGGTGGTACAGGGGCTCCTGGGAATGGACTCCTTGCACGGAAGCAGGGTGTTCTTGGGATGGTAGGATGGGTAAGGTCAACAAAGGCATGGCATAATAACACACTGTGCCT Alignment from Exonerate_protein2genome AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGGAAA gagggcctgcacttactcagtgtgggtatcctagttgtttttttctctagAGTACAAATGACTCCGTACTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTCACTAGTGGAAAATCACATGTCCACTTTTGGAACTGGAGTGGTGGTACAGGGGCTCCTGGGAATGGACTCCTTGCACGGAAGCAGGGTGTTCTTGGGATGgtaggatgggtaaggtcaacaaaggcatggcataataacacactgtgcct Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGGAAA gagggcctgcacttactcagtgtgggtatcctagttgtttttttctctagAGTACAAATGACTCCGTACTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTCACTAGTGGAAAATCACATGTCCACTTTTGGAACTGGAGTGGTGGTACAGGGGCTCCTGGGAATGGACTCCTTGCACGGAAGCAGGGTGTTCTTGGGATGgtaggatgggtaaggtcaacaaaggcatggcataataacacactgtgcct #### Eml3_ID2513_12 --> 0 - 1 Original Alignment AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAg cctgccgatctattctacttattctattcctttgtctcttccttatgtagAAGGACAAAAAACCTAAATTCAGCCCATGCTTCATATTCTTGCCTGATGGAGATATTCTAACTGGGGACTCTGAGGGAAACATACTTACCTGGGATCAGAGTATCTCAGAT------------------------------ggtacagtaaggcaggtgagtacagtactgcactgggccaaaagatgactc Alignment from CESAR AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAg cctgccgatctattctacttattctattcctttgtctcttccttatgtagAAGGACAAAAAACCTAAATTCAGCCCATGCTTCATATTCTTGCCTGATGGAGATATTCTAACTGGGGACTCTGAGGGAAACATACTTACCTGGGATCAGAGTATCTCAGAT------------------------------ggtacagtaaggcaggtgagtacagtactgcactgggccaaaagatgactc Alignment from Spaln_aa2Genome AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACC cctgccgatctattctacttattctattcctttgtctcttccttatgtagAAGGACAAAAAACCTAAATTCAGCCCATGCTTCATATTCTTGCCTGATGGAGATATTCTAACTGGGGACTCTGAGGGAAACATACTTACCTGGGATCAGAGTATCTCAGATGGT---ACAgtaaggcaggtgagtacagtactgcactgggccaaaagatga Alignment from Spaln_nt2Genome AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGT cctgccgatctattctacttattctattcctttgtctcttccttatgtagAAGGACAAAAAACCTAAATTCAGCCCATGCTTCATATTCTTGCCTGATGGAGATATTCTAACTGGGGACTCTGAGGGAAACATACTTACCTGGGATCAGAGTATCTCAGATGGTA------CAGTAAGGCAGgtgagtacagtactgcactgggccaaaaga Alignment from Pairagon AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAG cctgccgatctattctacttattctattcctttgtctcttccttatgtagAAGGACAAAAAACCTAAATTCAGCCCATGCTTCATATTCTTGCCTGATGGAGATATTCTAACTGGGGACTCTGAGGGAAACATACTTACCTGGGATCAGAGTATCTCAGAT------------------------------Ggtacagtaaggcaggtgagtacagtactgcactgggccaaaagatgactc Alignment from Exonerate_protein2genome AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGC cctgccgatctattctacttattctattcctttgtctcttccttatgtagAAGGACAAAAAACCTAAATTCAGCCCATGCTTCATATTCTTGCCTGATGGAGATATTCTAACTGGGGACTCTGAGGGAAACATACTTACCTGGGATCAGAGTATCTCAGATGGTACAGTAAGGCAGgtgagtacagtactgcactgggccaaaagatgactc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAGAG cctgccgatctattctacttattctattcctttgtctcttccttatgtagAAGGACAAAAAACCTAAATTCAGCCCATGCTTCATATTCTTGCCTGATGGAGATATTCTAACTGGGGACTCTGAGGGAAACATACTTACCTGGGATCAGAGTATCTCAGAT------------------GGTACAGTAAGGCAGgtgagtacagtactgcactgggccaaaagatgactc #### Eml3_ID2518_17 --> 1 - 1 Original Alignment gTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAg aagtgtaaggcaagatcttttctctatgtactctcatttctgttgcttaggTGGTTGGTCTTGGACACCGAGACCAGGGAAATTGTGTCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGGTAC------ggtaagtgactatacacttccccttgcctgaatcctgctctgagttctggc Alignment from CESAR gTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAg aagtgtaaggcaagatcttttctctatgtactctcatttctgttgcttaggTGGTTGGTCTTGGACACCGAGACCAGGGAAATTGTGTCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGGTAC------ggtaagtgactatacacttccccttgcctgaatcctgctctgagttctggc Alignment from Spaln_aa2Genome GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTAC- aagtgtaaggcaagatcttttctctatgtactctcatttctgttgcttagGTGGTTGGTCTTGGACACCGAGACCAGGGAAATTGTGTCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGGTACGgtaagtgactatacacttccccttgcctgaatcctgctctgagttctggc Alignment from Spaln_nt2Genome GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaagatcttttctctatgtactctcatttctgttgcttagGTGGTTGGTCTTGGACACCGAGACCAGGGAAATTGTGTCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGGTAC------Ggtaagtgactatacacttccccttgcctgaatcctgctctgagttctggc Alignment from Pairagon GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaagatcttttctctatgtactctcatttctgttgcttagGTGGTTGGTCTTGGACACCGAGACCAGGGAAATTGTGTCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGGTAC------Ggtaagtgactatacacttccccttgcctgaatcctgctctgagttctggc Alignment from Exonerate_protein2genome GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACA aagtgtaaggcaagatcttttctctatgtactctcatttctgttgcttagGTGGTTGGTCTTGGACACCGAGACCAGGGAAATTGTGTCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGGTACGgtaagtgactatacacttccccttgcctgaatcctgctctgagttctggc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACA aagtgtaaggcaagatcttttctctatgtactctcatttctgttgcttagGTGGTTGGTCTTGGACACCGAGACCAGGGAAATTGTGTCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGGTACGgtaagtgactatacacttccccttgcctgaatcctgctctgagttctggc #### Eml3_ID2519_18 --> 2 - 0 Original Alignment atGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG cagcttctggtgtcacaaatgtgcctgatctcggctcgggttgggcacagat---------CTTGCAATAGGTTCACATGATAATATGATTTACATATACAGTATTTCCAGTTGTGGTACCAAATCTAGCCGCTTTGGAAGGTGTATGgtgtgtctacctgaatgtctacagaacttaaaaacctactgtgaggaaga Alignment from CESAR atGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatgacagcttctggtgtcactgatctcggctcgggttgggcacagat---------CTTGCAATAGGTTCACATGATAATATGATTTACATATACAGTATTTCCAGTTGTGGTACCAAATCTAGCCGCTTTGGAAGGTGTATGgtgtgtctacctgaatgtctacagaacttaaaaacctactgtgaggaaga Alignment from Spaln_aa2Genome ACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG cagcttctggtgtcacaaatgtgcctgatctcggctcgggttgggcacagATCTTGCAATAGGTTCACATGATAATATGATTTACATATACAGTATTTCCAGTTGTGGTACCAAATCTAGCCGCTTTGGAAGGTGTATGgtgtgtctacctgaatgtctacagaacttaaaaacctactgtgaggaaga Alignment from Spaln_nt2Genome GTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG cagcttctggtgtcacaaatgtgcctgatctcggctcgggttgggcacag-----ATCTTGCAATAGGTTCACATGATAATATGATTTACATATACAGTATTTCCAGTTGTGGTACCAAATCTAGCCGCTTTGGAAGGTGTATGgtgtgtctacctgaatgtctacagaacttaaaaacctactgtgaggaaga Alignment from Pairagon ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG cagcttctggtgtcacaaatgtgcctgatctcggctcgggttgggcacagAT---------CTTGCAATAGGTTCACATGATAATATGATTTACATATACAGTATTTCCAGTTGTGGTACCAAATCTAGCCGCTTTGGAAGGTGTATGgtgtgtctacctgaatgtctacagaacttaaaaacctactgtgaggaaga Alignment from Exonerate_protein2genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG cagcttctggtgtcacaaatgtgcctgatctcggctcgggtTGGGCACAGATCTTGCAATAGGTTCACATGATAATATGATTTACATATACAGTATTTCCAGTTGTGGTACCAAATCTAGCCGCTTTGGAAGGTGTATGgtgtgtctacctgaatgtctacagaacttaaaaacctactgtgaggaaga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG cagcttctggtgtcacaaatgtgcctgatctcggctcgggttgggcacagAT---------CTTGCAATAGGTTCACATGATAATATGATTTACATATACAGTATTTCCAGTTGTGGTACCAAATCTAGCCGCTTTGGAAGGTGTATGgtgtgtctacctgaatgtctacagaacttaaaaacctactgtgaggaaga #### Eml3_ID2522_21 --> 2 - 0 Original Alignment gtGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG agagaaactttaagtggaagccaaaggatctgacctctctctatacgcaggtGTATGGCCTGGTGGCTGTGATGGTACGGGCATCAATTCCCTATGCCCTTCACACAATGAACGGGTGGTAGCTGTGGCGGATGATTGCTGTAAAGTACATGTCTTTCAGTACCCCTGTGCCCGGGCC---gtgagaagtctctatcagcctattgtgtcaactaacgaacaatcgtggtt Alignment from CESAR gtGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG agagaaactttaagtggaagccaaaggatctgacctctctctatacgcaggtGTATGGCCTGGTGGCTGTGATGGTACGGGCATCAATTCCCTATGCCCTTCACACAATGAACGGGTGGTAGCTGTGGCGGATGATTGCTGTAAAGTACATGTCTTTCAGTACCCCTGTGCCCGGGCC---gtgagaagtctctatcagcctattgtgtcaactaacgaacaatcgtg Alignment from Spaln_aa2Genome GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCC agagaaactttaagtggaagccaaaggatctgacctctctctatacgcagGTGTATGGCCTGGTGGCTGTGATGGTACGGGCATCAATTCCCTATGCCCTTCACACAATGAACGGGTGGTAGCTGTGGCGGATGATTGCTGTAAAGTACATGTCTTTCAGTACCCCTGTGCCCGGGCCgtgagaagtctctatcagcctattgtgtcaactaacgaacaatcgtggtt Alignment from Spaln_nt2Genome GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG---- agagaaactttaagtggaagccaaaggatctgacctctctctatacgcagGTGTATGGCCTGGTGGCTGTGATGGTACGGGCATCAATTCCCTATGCCCTTCACACAATGAACGGGTGGTAGCTGTGGCGGATGATTGCTGTAAAGTACATGTCTTTCAGTACCCCTGTGCCCGGGCCGTGAGAAgtctctatcagcctattgtgtcaactaacgaacaatcgtggtt Alignment from Pairagon GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCC agagaaactttaagtggaagccaaaggatctgacctctctctatacgcagGTGTATGGCCTGGTGGCTGTGATGGTACGGGCATCAATTCCCTATGCCCTTCACACAATGAACGGGTGGTAGCTGTGGCGGATGATTGCTGTAAAGTACATGTCTTTCAGTACCCCTGTGCCCGGGCCgtgagaagtctctatcagcctattgtgtcaactaacgaacaatcgtggtt Alignment from Exonerate_protein2genome GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG agagaaactttaagtggaagccaaaggatctgacctctctctatacgcagGTGTATGGCCTGGTGGCTGTGATGGTACGGGCATCAATTCCCTATGCCCTTCACACAATGAACGGGTGGTAGCTGTGGCGGATGATTGCTGTAAAGTACATGTCTTTCAGTACCCCTGTGCCCGGGCCGTGagaagtctctatcagcctattgtgtcaactaacgaacaatcgtggtt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG agagaaactttaagtggaagccaaaggatctgacctctctctatacgcagGTGTATGGCCTGGTGGCTGTGATGGTACGGGCATCAATTCCCTATGCCCTTCACACAATGAACGGGTGGTAGCTGTGGCGGATGATTGCTGTAAAGTACATGTCTTTCAGTACCCCTGTGCCCGG---GCCgtgagaagtctctatcagcctattgtgtcaactaacgaacaatcgtggtt #### Fads1_ID2688_2 --> 0 - 0 Original Alignment GATCCTTTTGTGGCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT gttctcattgccataggttctcattctctcactgcctttgtccccctcag---CCTTTTGTGGCATTCCACTTCAACAAGGGTCTTGTGAGAAAATATATGAATTATCTT---CTTGGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt Alignment from CESAR GATCCTTTTGTGGCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT taggttctcattgccataggttctcctctcactgcctttgtccccctcag---CCTTTTGTGGCATTCCACTTCAACAAGGGTCTTGTGAGAAAATATATGAATTATCTTCTT---GGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt Alignment from Spaln_aa2Genome GATCCTTTTGTGGCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT gttctcattgccataggttctcattctctcactgcctttgtccccctcag---CCTTTTGTGGCATTCCACTTCAACAAGGGTCTTGTGAGAAAATATATGAATTATCTTCTT---GGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt Alignment from Spaln_nt2Genome CCTTTTGTGGCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT gttctcattgccataggttctcattctctcactgcctttgtccccctcagCCTTTTGTGGCATTCCACTTCAACAAGGGTCTTGTGAGAAAATATATGAATTA---TCTTCTTGGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt Alignment from Pairagon CCTTTTGTGGCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT gttctcattgccataggttctcattctctcactgcctttgtccccctcagCCTTTTGTGGCATTCCACTTCAACAAGGGTCTTGTGAGAAAATATATGAATTATCTTC---TTGGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt Alignment from Exonerate_protein2genome CCTTTTGTGGCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT gttctcattgccataggttctcattctctcactgcctttgtccccctcagCCTTTTGTGGCATTCCACTTCAACAAGGGTCTTGTGAGAAAATATATGAATTATCTTCTT---GGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt Alignment from Exonerate_coding2genome CCTTTTGTGGCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT gttctcattgccataggttctcattctctcactgcctttgtccccctcagCCTTTTGTGGCATTCCACTTCAACAAGGGTCTTGTGAGAAAATATATGAATTATCTTCTT---GGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt Alignment from GeneWise CCTTTTGTGGCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT gttctcattgccataggttctcattctctcactgcctttgtccccctcagCCTTTTGTGGCATTCCACTTCAACAAGGGTCTTGTGAGAAAATATATGAATTATCTTCTT---GGGGAGCTAGCTCCAGAGCAACCCAGCTTTGAACCCACCAAGAATgtaagaaaacagaccctgtaaattagggataccattgttgctctcctggt #### Fads1_ID2689_3 --> 0 - 0 Original Alignment AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gaaagtgctatctaatgatgttcacgctactgttctctttcaacccttag---GTACTATCTGATGAATTTCGAGAACTGCGGGCCACCGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCCCTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACTGTTCAGgtgaggtctacttctgagcctaaaccacagataccaaaagagtggtctgt Alignment from CESAR AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG actgaaagtgctatctaatgatgttgctactgttctctttcaacccttag---GTACTATCTGATGAATTTCGAGAACTGCGGGCCACCGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCCCTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACTGTTCAGgtgaggtctacttctgagcctaaaccacagataccaaaagagtggtctgt Alignment from Spaln_aa2Genome AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gaaagtgctatctaatgatgttcacgctactgttctctttcaacccttag---GTACTATCTGATGAATTTCGAGAACTGCGGGCCACCGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCCCTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACTGTTCAGgtgaggtctacttctgagcctaaaccacagataccaaaagagtggtctgt Alignment from Spaln_nt2Genome AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gaaagtgctatctaatgatgttcacgctactgttctctttcaacccttag---GTACTATCTGATGAATTTCGAGAACTGCGGGCCACCGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCCCTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCC---CATACTTTGTGCAGTATTACTCAGTACTGTTCAGgtgaggtctacttctgagcctaaaccacagataccaaaagagtggtctgt Alignment from Pairagon AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gaaagtgctatctaatgatgttcacgctactgttctctttcaacccttag---GTACTATCTGATGAATTTCGAGAACTGCGGGCCACCGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCCCTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCC---CATACTTTGTGCAGTATTACTCAGTACTGTTCAGgtgaggtctacttctgagcctaaaccacagataccaaaagagtggtctgt Alignment from Exonerate_protein2genome GCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gaaagtgctatctaatgatgttcacgctactgttctctttcaacccttagGTACTATCTGATGAATTTCGAGAACTGCGGGCCACCGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCCCTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACTGTTCAGgtgaggtctacttctgagcctaaaccacagataccaaaagagtggtctgt Alignment from Exonerate_coding2genome GCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gaaagtgctatctaatgatgttcacgctactgttctctttcaacccttagGTACTATCTGATGAATTTCGAGAACTGCGGGCCACCGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCCCTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACTGTTCAGgtgaggtctacttctgagcctaaaccacagataccaaaagagtggtctgt Alignment from GeneWise AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gaaagtgctatctaatgatgttcacgctactgttctctttcaacccttagGTA---CTATCTGATGAATTTCGAGAACTGCGGGCCACCGTAGAGCGAATAGGTCTCATGAAAGCTAATCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCCCTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACATCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACTGTTCAGgtgaggtctacttctgagcctaaaccacagataccaaaagagtggtctgt #### Fads3_ID2664_7 --> 2 - 0 Original Alignment ttGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG catttgtataccccatggccgagggtaatttttttcttatgtttttgcagtt---CCACCGCTTTTCACGTTAGTGAATTATGAAGTTGAAAATCTGGCTTACATGTTGGTATGCATGCAGTGGACTgtaagcaacttgacttcaaaagctaaggtatgattggtctgttgaaaact Alignment from CESAR ttGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG tatcatttgtataccccatggccgataatttttttcttatgtttttgcagtt---CCACCGCTTTTCACGTTAGTGAATTATGAAGTTGAAAATCTGGCTTACATGTTGGTATGCATGCAGTGGACTgtaagcaacttgacttcaaaagctaaggtatgattggtctgttgaaaact Alignment from Spaln_aa2Genome TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG catttgtataccccatggccgagggtaatttttttcttatgtttttgcagTT---CCACCGCTTTTCACGTTAGTGAATTATGAAGTTGAAAATCTGGCTTACATGTTGGTATGCATGCAGTGGACTgtaagcaacttgacttcaaaagctaaggtatgattggtctgttgaaaact Alignment from Spaln_nt2Genome TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG catttgtataccccatggccgagggtaatttttttcttatgtttttgcagTT---CCACCGCTTTTCACGTTAGTGAATTATGAAGTTGAAAATCTGGCTTACATGTTGGTATGCATGCAGTGGACTgtaagcaacttgacttcaaaagctaaggtatgattggtctgttgaaaact Alignment from Pairagon TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG catttgtataccccatggccgagggtaatttttttcttatgtttttgcagTT---CCACCGCTTTTCACGTTAGTGAATTATGAAGTTGAAAATCTGGCTTACATGTTGGTATGCATGCAGTGGACTgtaagcaacttgacttcaaaagctaaggtatgattggtctgttgaaaact Alignment from Exonerate_protein2genome TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG catttgtataccccatggccgagggtaatttttttcttatgtttttgcagTT---CCACCGCTTTTCACGTTAGTGAATTATGAAGTTGAAAATCTGGCTTACATGTTGGTATGCATGCAGTGGACTgtaagcaacttgacttcaaaagctaaggtatgattggtctgttgaaaact Alignment from Exonerate_coding2genome TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG catttgtataccccatggccgagggtaatttttttcttatgtttttgcagTT---CCACCGCTTTTCACGTTAGTGAATTATGAAGTTGAAAATCTGGCTTACATGTTGGTATGCATGCAGTGGACTgtaagcaacttgacttcaaaagctaaggtatgattggtctgttgaaaact Alignment from GeneWise TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG catttgtataccccatggccgagggtaatttttttcttatgtttttgcagTT---CCACCGCTTTTCACGTTAGTGAATTATGAAGTTGAAAATCTGGCTTACATGTTGGTATGCATGCAGTGGACTgtaagcaacttgacttcaaaagctaaggtatgattggtctgttgaaaact #### Fads3_ID2665_8 --> 0 - 2 Original Alignment GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCag tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTT---------cggtgagatgccaggctggaaacatgctgggcaccaaatctatttaagtcct Alignment from CESAR GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCag tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTT---------cggtgagatgccaggctggaaacatgctgggcaccaaatctatttaagtcct Alignment from Spaln_aa2Genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGT tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTCGgtgagatgccaggctggaaacatgctgggcaccaaatctatttaagtcct Alignment from Spaln_nt2Genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGT tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTCGgtgagatgccaggctggaaacatgctgggcaccaaatctatttaagtcct Alignment from Pairagon GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTT---------CGgtgagatgccaggctggaaacatgctgggcaccaaatctatttaagtcct Alignment from Exonerate_protein2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGT tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTCGgtgagatgccaggctggaaacatgctgggcaccaaatctatttaagtcct Alignment from Exonerate_coding2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGT tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTCGgtgagatgccaggctggaaacatgctgggcaccaaatctatttaagtcct Alignment from GeneWise GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGT tttctgggcccttaggtccccagacaacgatttacacctgttaccacaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTCGgtgagatgccaggctggaaacatgctgggcaccaaatctatttaagtcct #### Fam160b1_ID12353_4 --> 0 - 0 Original Alignment TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGGCAGCCC------CTGCTTCCACACATCAACGTACACAGGCCTGTGCAG--- gtcccacaccacctctttgcctgtagtcgacagctggtgtttttttctagTGCCCTCCAGGAATGAAACAGCAGGTGTTAGTACTTTACACCAAACTACTTGAGCAAATCCAGCAGCCCCAACCACTACTCCCACACGTCAATGTGCACAGGCCAGTGCAGTCCgtgagcaagtataattgaatatagtatacttacttctaactccgcagggt Alignment from CESAR TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGGCAGCCC------CTGCTTCCACACATCAACGTACACAGGCCTGTGCAG--- gtcccacaccacctctttgcctgtagtcgacagctggtgtttttttctagTGCCCTCCAGGAATGAAACAGCAGGTGTTAGTACTTTACACCAAACTACTTGAGCAAATCCAGCAGCCCCAACCACTACTCCCACACGTCAATGTGCACAGGCCAGTGCAGTCCgtgagcaagtataattgaatatagtatacttacttctaactccgcagggt Alignment from Spaln_aa2Genome TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGG------CAGCCCCTGCTTCCACACATCAACGTACACAGGCCTGTGCAGAAA gtcccacaccacctctttgcctgtagtcgacagctggtgtttttttctagTGCCCTCCAGGAATGAAACAGCAGGTGTTAGTACTTTACACCAAACTACTTGAGCAAATCCAGCAGCCCCAACCACTACTCCCACACGTCAATGTGCACAGGCCAGTGCAGTCCgtgagcaagtataattgaatatagtatacttacttctaactccgcagggt Alignment from Spaln_nt2Genome TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGGCAGCCCC------TGCTTCCACACATCAACGTACACAGGCCTGTGCA G gtcccacaccacctctttgcctgtagtcgacagctggtgtttttttctagTGCCCTCCAGGAATGAAACAGCAGGTGTTAGTACTTTACACCAAACTACTTGAGCAAATCCAGCAGCCCCAACCACTACTCCCACACGTCAATGTGCACAGGCCAGTGCAgtccgtgagcaagtataattgaatatagtatacttacttctaactccgcagGgt Alignment from Pairagon TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGGCAGCCC------CTGCTTCCACACATCAACGTACACAGGCCTGTGCAGAAA gtcccacaccacctctttgcctgtagtcgacagctggtgtttttttctagTGCCCTCCAGGAATGAAACAGCAGGTGTTAGTACTTTACACCAAACTACTTGAGCAAATCCAGCAGCCCCAACCACTACTCCCACACGTCAATGTGCACAGGCCAGTGCAGTCCgtgagcaagtataattgaatatagtatacttacttctaactccgcagggt Alignment from Exonerate_protein2genome TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGG------CAGCCCCTGCTTCCACACATCAACGTACACAGGCCTGTGCAGAAA gtcccacaccacctctttgcctgtagtcgacagctggtgtttttttctagTGCCCTCCAGGAATGAAACAGCAGGTGTTAGTACTTTACACCAAACTACTTGAGCAAATCCAGCAGCCCCAACCACTACTCCCACACGTCAATGTGCACAGGCCAGTGCAGTCCgtgagcaagtataattgaatatagtatacttacttctaactccgcagggt Alignment from Exonerate_coding2genome TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGG------CAGCCCCTGCTTCCACACATCAACGTACACAGGCCTGTGCAGAAA gtcccacaccacctctttgcctgtagtcgacagctggtgtttttttctagTGCCCTCCAGGAATGAAACAGCAGGTGTTAGTACTTTACACCAAACTACTTGAGCAAATCCAGCAGCCCCAACCACTACTCCCACACGTCAATGTGCACAGGCCAGTGCAGTCCgtgagcaagtataattgaatatagtatacttacttctaactccgcagggt Alignment from GeneWise TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGG------CAGCCCCTGCTTCCACACATCAACGTACACAGGCCTGTGCAGAAA gtcccacaccacctctttgcctgtagtcgacagctggtgtttttttctagTGCCCTCCAGGAATGAAACAGCAGGTGTTAGTACTTTACACCAAACTACTTGAGCAAATCCAGCAGCCCCAACCACTACTCCCACACGTCAATGTGCACAGGCCAGTGCAGTCCgtgagcaagtataattgaatatagtatacttacttctaactccgcagggt #### Fibp_ID1010_7 --> 1 - 0 Original Alignment cCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cagaacttactatactcagtctacagaaaaccttgtcactgtctcagcagcCTAGTCTGCACTGCCCTTCGTGGAAAACTTGGTGTCTTTTCTGAGATGGAA------------gtcattttgctctcagtcgtgctcggcattcatagtcccctggttagatc Alignment from CESAR cCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cagaacttactatactcagtctacagaaaaccttgtcactgtctcagcagcCTAGTCTGCACTGCCCTTCGTGGAAAACTTGGTGTCTTTTCTGAGATGGAA------------gtcattttgctctcagtcgtgctcggcattcatagtcc Alignment from Spaln_aa2Genome CCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAAC---TTCAAG cagaacttactatactcagtctacagaaaaccttgtcactgtctcagcagCCTAGTCTGCACTGCCCTTCGTGGAAAACTTGGTGTCTTTTCTGAGATGGAAGTCATTTTGCTCTCAgtcgtgctcggcattcatagtcccctggttagatc Alignment from Spaln_nt2Genome CCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAA cagaacttactatactcagtctacagaaaaccttgtcactgtctcagcagCCTAGTCTGCACTGCCCTTCGTGGAAAACTTGGTGTCTTTTCTGAGATGGAAgtcattttgctctcagtcgtgctcggcattcatagtcccctggttagatc Alignment from Pairagon CCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAA cagaacttactatactcagtctacagaaaaccttgtcactgtctcagcagCCTAGTCTGCACTGCCCTTCGTGGAAAACTTGGTGTCTTTTCTGAGATGGAAgtcattttgctctcagtcgtgctcggcattcatagtcccctggttagatc Alignment from Exonerate_protein2genome CCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAA cagaacttactatactcagtctacagaaaaccttgtcactgtctcagcagCCTAGTCTGCACTGCCCTTCGTGGAAAACTTGGTGTCTTTTCTGAGATGGAAgtcattttgctctcagtcgtgctcggcattcatagtcccctggttagatc Alignment from Exonerate_coding2genome CCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAA cagaacttactatactcagtctacagaaaaccttgtcactgtctcagcagCCTAGTCTGCACTGCCCTTCGTGGAAAACTTGGTGTCTTTTCTGAGATGGAAgtcattttgctctcagtcgtgctcggcattcatagtcccctggttagatc Alignment from GeneWise CCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAGAAT cagaacttactatactcagtctacagaaaaccttgtcactgtctcagcagCCTAGTCTGCACTGCCCTTCGTGGAAAACTTGGTGTCTTTTCTGAGATGGAAGTCATTTTGCTCTCAgtcgtgctcggcattcatagtcccctggttagatc #### Fkbp2_ID1945_4 --> 2 - 1 Original Alignment ggTATGGAGAGCGGGGAGCCCCCCCAAAGATCCCAg gtGGA ggtgcccagcccttagtaatgtctcacccctttcatgcgatttcctacaggt------GAGTGGGGAGCCCCCCCAAAGATCCCAggtaagtccccacacccctaccatcttcctctttattcttgaccaggtGGA Alignment from CESAR ggTATGGAGAGCGGGGAGCCCCCCCAAAGATCCCAg gtGGA ttgtgaggtgcccagcccttagtaaacccctttcatgcgatttcctacaggt------GAGTGGGGAGCCCCCCCAAAGATCCCAggtaagtccccacacccctaccatatttgggggctttttgctttaggtGGA Alignment from Spaln_aa2Genome GGTATGGAGAGCGGGGAGCCCCCCCAAAGATCCCAG GTGGA ggtgcccagcccttagtaatgtctcacccctttcatgcgatttcctacagGT------GAGTGGGGAGCCCCCCCAAAGATCCCAGgtaagtccccacacccctaccatcttcctctttattcttgaccagGTGGA Alignment from Spaln_nt2Genome GAGAGCGGGGAGCCCCCCCAAAGATCCCAG GTGGA ggtgcccagcccttagtaatgtctcacccctttcatgcgatttcctacagGTGAGTGGGGAGCCCCCCCAAAGATCCCAGgtaagtccccacacccctaccatcttcctctttattcttgaccagGTGGA Alignment from Pairagon GGTATGGAGAGCGGGGAGCCCCCCCAAAGATCCCAG GTGGA ggtgcccagcccttagtaatgtctcacccctttcatgcgatttcctacag------GTGAGTGGGGAGCCCCCCCAAAGATCCCAGgtaagtccccacacccctaccatcttcctctttattcttgaccagGTGGA Alignment from Exonerate_protein2genome GAGAGCGGGGAGCCCCCCCAAAGATCCCAG GTGGA ggtgcccagcccttagtaatgtctcacccctttcatgcgatttcctacagGTGAGTGGGGAGCCCCCCCAAAGATCCCAGgtaagtccccacacccctaccatcttcctctttattcttgaccagGTGGA Alignment from Exonerate_coding2genome GAGAGCGGGGAGCCCCCCCAAAGATCCCAG GTGGA ggtgcccagcccttagtaatgtctcacccctttcatgcgatttcctacagGTGAGTGGGGAGCCCCCCCAAAGATCCCAGgtaagtccccacacccctaccatcttcctctttattcttgaccagGTGGA Alignment from GeneWise ggtgcccagcccttagtaatgtctcacccctttcatgcgatttcctacaggtgagtggggagcccccccaaagatcccaggtaagtccccacacccctaccatcttcctctttattcttgaccaggtgga #### Fth1_ID2624_3 --> 0 - 0 Original Alignment ---AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacgattgaaagcatcttgttccacagCTGAAGCCTGACCGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACTGGCAACTGATAAGAATGACCCCCATgtaagattcaataggctggatctagatggctcgctattgcttggagaaaa Alignment from CESAR ---AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacgattgaaagcatcttgttccacagCTGAAGCCTGACCGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACTGGCAACTGATAAGAATGACCCCCATgtaagattcaataggctggatctagatggctcgctattgcttggagaaaa Alignment from Spaln_aa2Genome AAACCAGAC---CGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacgattgaaagcatcttgttccacagCTGAAGCCTGACCGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACTGGCAACTGATAAGAATGACCCCCATgtaagattcaataggctggatctagatggctcgctattgcttggagaaaa Alignment from Spaln_nt2Genome GAAACCAGACCGTG--ATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCC tacattgggggtttaatgattatgacgattgaaagcatcttgttccacagCTGAAGCCTGACCGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACTGGCAACTGATAAGAATGACCCCCatgtaagattcaataggctggatctagatggctcgctattgcttggagaaaa Alignment from Pairagon ---AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacgattgaaagcatcttgttccacagCTGAAGCCTGACCGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACTGGCAACTGATAAGAATGACCCCCATgtaagattcaataggctggatctagatggctcgctattgcttggagaaaa Alignment from Exonerate_protein2genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacgattgaaagcatcttgttccacagctgAAGCCTGACCGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACTGGCAACTGATAAGAATGACCCCCATgtaagattcaataggctggatctagatggctcgctattgcttggagaaaa Alignment from Exonerate_coding2genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacgattgaaagcatcttgttccacagctgAAGCCTGACCGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACTGGCAACTGATAAGAATGACCCCCATgtaagattcaataggctggatctagatggctcgctattgcttggagaaaa Alignment from GeneWise ---AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tacattgggggtttaatgattatgacgattgaaagcatcttgttccacagCTGAAGCCTGACCGTGAGGATTGGGAGAGTGGGCTAAATGGAATAGAATGTGCACTACACTTGGAAAAGAGTGTGAACCAGTCCCTACTGGAGCTGCATGAACTGGCAACTGATAAGAATGACCCCCATgtaagattcaataggctggatctagatggctcgctattgcttggagaaaa #### Ganab_ID2474_13 --> 0 - 1 Original Alignment CTGGTGGCCATTGTGGACCCCCACATCAAGGTA------GACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCAg gc aaacaatttctctgctgctccagacgagttatgccttctttcttacacag------------------CCACATATCAAGGTTAAAGTAGACTCTGGCTACCGGGTTCATGATGAGTTGCAA---------------ATCAAGACTCGGGATGGCTCTGATTATGAAGGCTGGTGTTGGCCAggtaagttctgtgatcaatgaagttttgtgcctctggacctcctcttaggc Alignment from CESAR CTGGTGGCCATTGTGGACCCCCACATCAAG------GTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCAg gc ggaagggcattgtaatctaaacaatgagttatgccttctttcttacacag------------------CCACATATCAAGGTTAAAGTAGACTCTGGCTACCGGGTTCATGATGAGTTGCAA---------------ATCAAGACTCGGGATGGCTCTGATTATGAAGGCTGGTGTTGGCCAggtaagttctgtgatcaatgaagttttatatttattgctttttttctaggc Alignment from Spaln_aa2Genome GCCATTGTGGACCCCCACATCAAGGTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCAG GC aaacaatttctctgctgctccagacgagttatgccttctttcttacacagCCACATATC------AAGGTTAAAGTAGACTCTGGCTACCGGGTTCATGATGAGTTGCAA---------------ATCAAGACTCGGGATGGCTCTGATTATGAAGGCTGGTGTTGGCCAGgtaagttctgtgatcaatgaagttttgtgcctctggacctcctcttagGC Alignment from Spaln_nt2Genome CC-CACATCAAGGT------AGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCAG GC aaacaatttctctgctgctccagacgagttatgccttctttcttacacagCCACATATCAAGGTTAAAGTAGACTCTGGCTACCGGGTTCATGATGAGTTGCAAA---------------TCAAGACTCGGGATGGCTCTGATTATGAAGGCTGGTGTTGGCCAGgtaagttctgtgatcaatgaagttttgtgcctctggacctcctcttagGC Alignment from Pairagon CTGGTGGCCATTGTGGACCCCCACATCAAG------GTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCAG GC aaacaatttctctgctgctccagacgagttatgccttctttcttacacag------------------CCACATATCAAGGTTAAAGTAGACTCTGGCTACCGGGTTCATGATGAGTTGCAAA---------------TCAAGACTCGGGATGGCTCTGATTATGAAGGCTGGTGTTGGCCAGgtaagttctgtgatcaatgaagttttgtgcctctggacctcctcttagGC Alignment from Exonerate_protein2genome CTGGTGGCCATTGTGGACCCCCACATC------AAGGTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCAG GC aaacaatttctctgctgctccagacgagttatGCCTTCTTTCTTACACAGCCACATATCAAGGTTAAAGTAGACTCTGGCTACCGGGTTCATGATGAGTTGCAA---------------ATCAAGACTCGGGATGGCTCTGATTATGAAGGCTGGTGTTGGCCAGgtaagttctgtgatcaatgaagttttgtgcctctggacctcctcttagGC Alignment from Exonerate_coding2genome CTGGTGGCCATTGTGGACCCCCACATC------AAGGTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCAG GC aaacaatttctctgctgctccagacgagttatGCCTTCTTTCTTACACAGCCACATATCAAGGTTAAAGTAGACTCTGGCTACCGGGTTCATGATGAGTTGCAA---------------ATCAAGACTCGGGATGGCTCTGATTATGAAGGCTGGTGTTGGCCAGgtaagttctgtgatcaatgaagttttgtgcctctggacctcctcttagGC Alignment from GeneWise ---------CTGGTGGCCATTGTGGACCCCCACATC------AAGGTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCAG GC aaacaatttctctgctgctccagACGAGTTATGCCTTCTTTCTTACACAGCCACATATCAAGGTTAAAGTAGACTCTGGCTACCGGGTTCATGATGAGTTGCAA---------------ATCAAGACTCGGGATGGCTCTGATTATGAAGGCTGGTGTTGGCCAGgtaagttctgtgatcaatgaagttttgtgcctctggacctcctcttagGC #### Ganab_ID2477_16 --> 0 - 1 Original Alignment ---------CACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTg accaggaagtaggttgtaggttttctttacccaggtccctcttcccccagCCATCTTCACATATGGCAACCACTGATGGGCTGATACAGTGTTCAGGGGGTGTTGAGCGTTCATTTGTGTTGAGTAGGTCTTTTTCCTCAGGTTTCCAGCGCTTTggtaagttgttgaaactagtgtcaaaactctagtcacttatggttaacctg Alignment from CESAR ---------CACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTg accaggaagtaggttgtaggttttctttacccaggtccctcttcccccagCCATCTTCACATATGGCAACCACTGATGGGCTGATACAGTGTTCAGGGGGTGTTGAGCGTTCATTTGTGTTGAGTAGGTCTTTTTCCTCAGGTTTCCAGCGCTTTggtaagttgttgaaactagtgtcaaaactctagtcacttatggttaacctg Alignment from Spaln_aa2Genome CACATGGCGACT---------GCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTG accaggaagtaggttgtaggttttctttacccaggtccctcttcccccagCCATCTTCACATATGGCAACCACTGATGGGCTGATACAGTGTTCAGGGGGTGTTGAGCGTTCATTTGTGTTGAGTAGGTCTTTTTCCTCAGGTTTCCAGCGCTTTGgtaagttgttgaaactagtgtcaaaactctagtcacttatggttaacctg Alignment from Spaln_nt2Genome CACATGGCGACTGCTGA---------TGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTG accaggaagtaggttgtaggttttctttacccaggtccctcttcccccagCCATCTTCACATATGGCAACCACTGATGGGCTGATACAGTGTTCAGGGGGTGTTGAGCGTTCATTTGTGTTGAGTAGGTCTTTTTCCTCAGGTTTCCAGCGCTTTGgtaagttgttgaaactagtgtcaaaactctagtcacttatggttaacctg Alignment from Pairagon ---------CACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTG accaggaagtaggttgtaggttttctttacccaggtccctcttcccccagCCATCTTCACATATGGCAACCACTGATGGGCTGATACAGTGTTCAGGGGGTGTTGAGCGTTCATTTGTGTTGAGTAGGTCTTTTTCCTCAGGTTTCCAGCGCTTTGgtaagttgttgaaactagtgtcaaaactctagtcacttatggttaacctg Alignment from Exonerate_protein2genome CACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTG accaggaagtaggttgtaggttttctttacccaggtccctcttcccccagccatcttcaCATATGGCAACCACTGATGGGCTGATACAGTGTTCAGGGGGTGTTGAGCGTTCATTTGTGTTGAGTAGGTCTTTTTCCTCAGGTTTCCAGCGCTTTGgtaagttgttgaaactagtgtcaaaactctagtcacttatggttaacctg Alignment from Exonerate_coding2genome CACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTG accaggaagtaggttgtaggttttctttacccaggtccctcttcccccagccatcttcaCATATGGCAACCACTGATGGGCTGATACAGTGTTCAGGGGGTGTTGAGCGTTCATTTGTGTTGAGTAGGTCTTTTTCCTCAGGTTTCCAGCGCTTTGgtaagttgttgaaactagtgtcaaaactctagtcacttatggttaacctg Alignment from GeneWise ---------CACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTG accaggaagtaggttgtaggttttctttacccaggtccctcttcccccagCCATCTTCACATATGGCAACCACTGATGGGCTGATACAGTGTTCAGGGGGTGTTGAGCGTTCATTTGTGTTGAGTAGGTCTTTTTCCTCAGGTTTCCAGCGCTTTGgtaagttgttgaaactagtgtcaaaactctagtcacttatggttaacctg #### Ganab_ID2478_17 --> 2 - 1 Original Alignment gaGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAg cacccctccagcagcgtctactattttgtgaatttcattgcctctaacaggaGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCAGCTTGGCATTG---------------------ggtaagcgcagtaatcatctgggggttccataatcttgtcgatggtcttgc Alignment from CESAR gaGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAg cacccctccagcagcgtctactattttgtgaatttcattgcctctaacaggaGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCAGCTTGGCATTG---------------------ggtaagcgcagtaatcatctgggggttccataatcttgtcgatggtcttgc Alignment from Spaln_aa2Genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGG cacccctccagcagcgtctactattttgtgaatttcattgcctctaacagGAGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCAGCTTGGCATTGGgtaagcgcagtaatcatctgggggttccataatcttgtcgatggtcttgc Alignment from Spaln_nt2Genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGG cacccctccagcagcgtctactattttgtgaatttcattgcctctaacagGAGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCAGCTTGGCATTGGgtaagcgcagtaatcatctgggggttccataatcttgtcgatggtcttgc Alignment from Pairagon GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGG cacccctccagcagcgtctactattttgtgaatttcattgcctctaacagGAGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCAGCTTGGCATTGGgtaagcgcagtaatcatctgggggttccataatcttgtcgatggtcttgc Alignment from Exonerate_protein2genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGG cacccctccagcagcgtctactattttgtgaatttcattgcctctaacagGAGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCAGCTTGGCATTGGgtaagcgcagtaatcatctgggggttccataatcttgtcgatggtcttgc Alignment from Exonerate_coding2genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGG cacccctccagcagcgtctactattttgtgaatttcattgcctctaacagGAGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCAGCTTGGCATTGGgtaagcgcagtaatcatctgggggttccataatcttgtcgatggtcttgc Alignment from GeneWise GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGG cacccctccagcagcgtctactattttgtgaatttcattgcctctaacagGAGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGCCTCAGCTTGGCATTGGgtaagcgcagtaatcatctgggggttccataatcttgtcgatggtcttgc #### Ganab_ID2481_20 --> 2 - 0 Original Alignment gt------GATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggatcaggctgctcagatgcgtgcaaaagcttccttccctgtctttacaggtATCGAGGACACACTCCTTATTCACCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtgagctgccaaatagcaaagcccaaatggcaaatacataggtgccttag Alignment from CESAR gt------GATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggatcaggctgctcagatgcgtgcaaaagcttccttccctgtctttacaggtATCGAGGACACACTCCTTATTCACCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtgagctgccaaatagcaaagcccaaatggcaaatacataggtgccttag Alignment from Spaln_aa2Genome GT------GATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggatcaggctgctcagatgcgtgcaaaagcttccttccctgtctttacagGTATCGAGGACACACTCCTTATTCACCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtgagctgccaaatagcaaagcccaaatggcaaatacataggtgccttag Alignment from Spaln_nt2Genome GTGATGCACTCCTTA------TTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggatcaggctgctcagatgcgtgcaaaagcttccttccctgtctttacagGTATCGAGGACACACTCCTTATTCACCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtgagctgccaaatagcaaagcccaaatggcaaatacataggtgccttag Alignment from Pairagon ----------------------------------------------------------GATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA GGATCAGGCTGCTCAGATGCGTGCAAAAGCTTCCTTCCCTGTCTTTACAGGTATCGAGGACACACTCCTTATTCACCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtgagctgccaaatagcaaagcccaaatggcaaatacataggtgccttag Alignment from Exonerate_protein2genome GT------GATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggatcaggctgctcagatgcgtgcaaaagcttccttccctgtctttacagGTATCGAGGACACACTCCTTATTCACCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtgagctgccaaatagcaaagcccaaatggcaaatacataggtgccttag Alignment from Exonerate_coding2genome GT------GATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggatcaggctgctcagatgcgtgcaaaagcttccttccctgtctttacagGTATCGAGGACACACTCCTTATTCACCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtgagctgccaaatagcaaagcccaaatggcaaatacataggtgccttag Alignment from GeneWise -----GGTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA-------------------------------------------------- ggatcaggctgctcagatgcgtgcaaaagcttccttccctgtctttacagGTATCGAGGACACACTCCTTATTCACCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAGTGAGCTGCCAAATAGCAAAGCCCAAATGGCAAATACATAGGTGCCTTAG #### Ganab_ID2483_22 --> 0 - 0 Original Alignment ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG------------------ gcatagcataaaaggaatgaagtcatctaatcgccctggtgtccttttagATCCCTGTGTTCCAGCGTGGTGGCACCATTGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGACATCTACGTCCCAACTAgtaagtatccaatcaccaggactgggttaattatagatttattttaaatc Alignment from CESAR ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG------------------ gcatagcataaaaggaatgaagtcatctaatcgccctggtgtccttttagATCCCTGTGTTCCAGCGTGGTGGCACCATTGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGACATCTACGTCCCAACTAgtaagtatccaatcaccaggactgggttaattatagatttattttaaatc Alignment from Spaln_aa2Genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG------------------ gcatagcataaaaggaatgaagtcatctaatcgccctggtgtccttttagATCCCTGTGTTCCAGCGTGGTGGCACCATTGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGACATCTACGTCCCAACTAgtaagtatccaatcaccaggactgggttaattatagatttattttaaatc Alignment from Spaln_nt2Genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG-------- gcatagcataaaaggaatgaagtcatctaatcgccctggtgtccttttagATCCCTGTGTTCCAGCGTGGTGGCACCATTGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGACATCTACgtcccaactagtaagtatccaatcaccaggactgggttaattatagatttattttaaatc Alignment from Pairagon ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG------------------ gcatagcataaaaggaatgaagtcatctaatcgccctggtgtccttttagATCCCTGTGTTCCAGCGTGGTGGCACCATTGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGACATCTACGTCCCAACTAgtaagtatccaatcaccaggactgggttaattatagatttattttaaatc Alignment from Exonerate_protein2genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gcatagcataaaaggaatgaagtcatctaatcgccctggtgtccttttagATCCCTGTGTTCCAGCGTGGTGGCACCATTGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGacatctacgtcccaactagtaagtatccaatcaccaggactgggttaattatagatttattttaaatc Alignment from Exonerate_coding2genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gcatagcataaaaggaatgaagtcatctaatcgccctggtgtccttttagATCCCTGTGTTCCAGCGTGGTGGCACCATTGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGacatctacgtcccaactagtaagtatccaatcaccaggactgggttaattatagatttattttaaatc Alignment from GeneWise ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG------------------ gcatagcataaaaggaatgaagtcatctaatcgccctggtgtccttttagATCCCTGTGTTCCAGCGTGGTGGCACCATTGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGACATCTACGTCCCAACTAgtaagtatccaatcaccaggactgggttaattatagatttattttaaatc #### Ganab_ID2484_23 --> 0 - 2 Original Alignment GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCT---------ag aggtggacagaccacactgtttgttaggttatctcaaattcttctcctagGGTACTGCGCAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTTTCTGGCAGCACACTGGTATCTAAAATCCATaggtaagtcttatgccctgcctccagtttctgctatgtgttcctggaatctt Alignment from CESAR GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCT---------ag aggtggacagaccacactgtttgttaggttatctcaaattcttctcctagGGTACTGCGCAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTTTCTGGCAGCACACTGGTATCTAAAATCCATaggtaagtcttatgccctgcctccagtttctgctatgtgtttttgccttttt Alignment from Spaln_aa2Genome GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCTAGTTCA----- aggtggacagaccacactgtttgttaggttatctcaaattcttctcctagGGTACTGCGCAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTTTCTGGCAGCACACTGGTATCTAAAATCCATAGgtaagtcttatgccctgcctccagtttctgctatgtgttcctggaatctt Alignment from Spaln_nt2Genome GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCTA---------G aggtggacagaccacactgtttgttaggttatctcaaattcttctcctagGGTACTGCGCAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTTTCTGGCAGCACACTGGTATCTAAAATCCATAGgtaagtcttatgccctgcctccagtttctgctatgtgttcctggaatctt Alignment from Pairagon GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCTA----------------------------------------------GTTC---------- aggtggacagaccacactgtttgttaggttatctcaaattcttctcctagGGTACTGCGCAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTTTCTGGCAGCACACTGGTATCTAAAATCCATAGGTAAGTCTTATGCCCTGCCTCCAGTTTCTGCTATGTGTTCCTGGAATCTT Alignment from Exonerate_protein2genome GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCT---------AG aggtggacagaccacactgtttgttaggttatctcaaattcttctcctagGGTACTGCGCAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTTTCTGGCAGCACACTGGTATCTAAAATCCATAGgtaagtcttatgccctgcctccagtttctgctatgtgttcctggaatctt Alignment from Exonerate_coding2genome GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCT---------AG aggtggacagaccacactgtttgttaggttatctcaaattcttctcctagGGTACTGCGCAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTTTCTGGCAGCACACTGGTATCTAAAATCCATAGgtaagtcttatgccctgcctccagtttctgctatgtgttcctggaatctt Alignment from GeneWise GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCT---------AG aggtggacagaccacactgtttgttaggttatctcaaattcttctcctagGGTACTGCGCAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTTTCTGGCAGCACACTGGTATCTAAAATCCATAGgtaagtcttatgccctgcctccagtttctgctatgtgttcctggaatctt #### Gbf1_ID9800_19 --> 0 - 0 Original Alignment AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCATGCTGAACACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATG---------gtatgtgcactactgcccgaatagctgtctaactttagaagcctaatctc Alignment from CESAR AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCATGCTGAACACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATG---------gtatgtgcactactgcccgaatagctgtctaactttagaag Alignment from Spaln_aa2Genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCATGCTGAACACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATGgtatgtgcactactgcccgaatagctgtctaactttagaagcctaatctc Alignment from Spaln_nt2Genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCATGCTGAACACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATGgtatgtgcactactgcccgaatagctgtctaactttagaagcctaatctc Alignment from Pairagon AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCATGCTGAACACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATGgtatgtgcactactgcccgaatagctgtctaactttagaagcctaatctc Alignment from Exonerate_protein2genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCATGCTGAACACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATGgtatgtgcactactgcccgaatagctgtctaactttagaagcctaatctc Alignment from Exonerate_coding2genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCATGCTGAACACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATGgtatgtgcactactgcccgaatagctgtctaactttagaagcctaatctc Alignment from GeneWise AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATG ggtaaaaatttcatcatgaggtgttacatatgacttgtaatttctttaagAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCCTAGCCTATGGTGCCATCATGCTGAACACTGACCAGCATAACCACAATGTTCAAAAGCAGAATACAACCATGgtatgtgcactactgcccgaatagctgtctaactttagaagcctaatctc #### Gbf1_ID9803_22 --> 1 - 0 Original Alignment gAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ggaaatgtgcaccaggtgtttcattttgttatgctttctattctttgcagg------GCCACAATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtatggaattaacaagtaaactagtcaggggctaatgctccacctcctcc Alignment from CESAR gAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG gggcctggaaatgtgcaccaggtgtttgttatgctttctattctttgcagg------GCCACAATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtatggaattaacaagtaaactagtcaggggctaatgctccacctcctcc Alignment from Spaln_aa2Genome GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ggaaatgtgcaccaggtgtttcattttgttatgctttctattctttgcagG------GCCACAATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtatggaattaacaagtaaactagtcaggggctaatgctccacctcctcc Alignment from Spaln_nt2Genome GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ggaaatgtgcaccaggtgtttcattttgttatgctttctattctttgcagG------GCCACAATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtatggaattaacaagtaaactagtcaggggctaatgctccacctcctcc Alignment from Pairagon GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ggaaatgtgcaccaggtgtttcattttgttatgctttctattctttgcagG------GCCACAATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtatggaattaacaagtaaactagtcaggggctaatgctccacctcctcc Alignment from Exonerate_protein2genome GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ggaaatgtgcaccaggtgtttcattttgttatgctttctattctttgcagG------GCCACAATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtatggaattaacaagtaaactagtcaggggctaatgctccacctcctcc Alignment from Exonerate_coding2genome GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ggaaatgtgcaccaggtgtttcattttgttatgctttctattctttgcagG------GCCACAATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtatggaattaacaagtaaactagtcaggggctaatgctccacctcctcc Alignment from GeneWise GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ggaaatgtgcaccaggtgtttcattttgttatgctttctattctttgcagG------GCCACAATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtatggaattaacaagtaaactagtcaggggctaatgctccacctcctcc #### Gbf1_ID9806_25 --> 1 - 0 Original Alignment a------------------------GGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatattatcagttctatagcaatctgcaacttttaacagaCGGCTTGGAATAAACATAGTTCGGGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGTCCATCTACAGAGAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtaaagtgttgacccaatgttacaaggataaccatgcacggatattatag Alignment from CESAR g aGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG agtgagttttgattaatatgtgggccagagaagcagatattatcagttcgacggcttggaataaacatagttcggGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGTCCATCTACAGAGAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtaaagtgttgacccaatgttacaaggataaccatgcacggatattatag Alignment from Spaln_aa2Genome TCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatattatcagttctatagcaatctgcaacttttaacagacggcttggaataaacatagttcggggaaagTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGTCCATCTACAGAGAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtaaagtgttgacccaatgttacaaggataaccatgcacggatattatag Alignment from Spaln_nt2Genome ---GAGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatattatcagttctatagcaatctgcaacttttaacagacggcttggaataaacatagTTCGGGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGTCCATCTACAGAGAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtaaagtgttgacccaatgttacaaggataaccatgcacggatattatag Alignment from Pairagon ------------------------------------------------------------------------CGAGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG CCAGAGAAGCAGATATTATCAGTTCTATAGCAATCTGCAACTTTTAACAGACGGCTTGGAATAAACATAGTTCGGGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGTCCATCTACAGAGAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtaaagtgttgacccaatgttacaaggataaccatgcacggatattatag Alignment from Exonerate_protein2genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatattatcagttctatagcaatctgcaacttttaacagacggcttggaataaacatagttcgGGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGTCCATCTACAGAGAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtaaagtgttgacccaatgttacaaggataaccatgcacggatattatag Alignment from Exonerate_coding2genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatattatcagttctatagcaatctgcaacttttaacagacggcttggaataaacatagttcgGGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGTCCATCTACAGAGAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtaaagtgttgacccaatgttacaaggataaccatgcacggatattatag Alignment from GeneWise ----------------------CGAGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG ccagagaagcagatattatcagttctatagcaatctgcaacttttaacagACGGCTTGGAATAAACATAGTTCGGGGAAAGTCAACAGTTTTGAGCTTTGTAAGCTGGCGGACTTTGAGTGGCCCTCAACAGTCAAGTGTCCAGGGTCCATCTACAGAGAACCAGGAGGCCAAAAGGGTGGCCTTAGATTGTATTAAGgtaaagtgttgacccaatgttacaaggataaccatgcacggatattatag #### Gbf1_ID9808_27 --> 0 - 2 Original Alignment ---GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACag gagggtgctggaatcccaactcctttgtcctttggttatcttttctctagCGAGCTCTGGTCTCAGTAACCCCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTTTGTCTTGAAATGCTGCTAAGGATTGTTCTAGAGAACaggtatgataagttgagcctgtagaacccagaaggttctaaagtggcttacc Alignment from CESAR ---GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACag gagggtgctggaatcccaactcctttgtcctttggttatcttttctctagCGAGCTCTGGTCTCAGTAACCCCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTTTGTCTTGAAATGCTGCTAAGGATTGTTCTAGAGAACaggtatgataagttgagcctgtagaacccagaaggttctaaagtggcttacc Alignment from Spaln_aa2Genome GCTCTGGTCTCAGTG---ACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACAG gagggtgctggaatcccaactcctttgtcctttggttatcttttctctagCGAGCTCTGGTCTCAGTAACCCCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTTTGTCTTGAAATGCTGCTAAGGATTGTTCTAGAGAACAGgtatgataagttgagcctgtagaacccagaaggttctaaagtggcttacc Alignment from Spaln_nt2Genome GCTCTGGTCT---CAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACAG gagggtgctggaatcccaactcctttgtcctttggttatcttttctctagCGAGCTCTGGTCTCAGTAACCCCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTTTGTCTTGAAATGCTGCTAAGGATTGTTCTAGAGAACAGgtatgataagttgagcctgtagaacccagaaggttctaaagtggcttacc Alignment from Pairagon ---GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACAG gagggtgctggaatcccaactcctttgtcctttggttatcttttctctagCGAGCTCTGGTCTCAGTAACCCCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTTTGTCTTGAAATGCTGCTAAGGATTGTTCTAGAGAACAGgtatgataagttgagcctgtagaacccagaaggttctaaagtggcttacc Alignment from Exonerate_protein2genome GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACAG gagggtgctggaatcccaactcctttgtcctttggttatcttttctctagcgaGCTCTGGTCTCAGTAACCCCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTTTGTCTTGAAATGCTGCTAAGGATTGTTCTAGAGAACAGgtatgataagttgagcctgtagaacccagaaggttctaaagtggcttacc Alignment from Exonerate_coding2genome GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACAG gagggtgctggaatcccaactcctttgtcctttggttatcttttctctagcgaGCTCTGGTCTCAGTAACCCCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTTTGTCTTGAAATGCTGCTAAGGATTGTTCTAGAGAACAGgtatgataagttgagcctgtagaacccagaaggttctaaagtggcttacc Alignment from GeneWise ---GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACAG gagggtgctggaatcccaactcctttgtcctttggttatcttttctctagCGAGCTCTGGTCTCAGTAACCCCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTTTGTCTTGAAATGCTGCTAAGGATTGTTCTAGAGAACAGgtatgataagttgagcctgtagaacccagaaggttctaaagtggcttacc #### Gbf1_ID9818_37 --> 0 - 1 Original Alignment TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGg agtgtccattcaaaccactacttctcctaatgtctcgctcctccccgtagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCCCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATC---ggtatgtagcgcagatttgataaccaagcagtttacaaactaacagaacta Alignment from CESAR TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGg agtgtccattcaaaccactacttctcctaatgtctcgctcctccccgtagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCCCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATC---ggtatgtagcgcagatttgataaccaagcagtttacaaactaacagaacta Alignment from Spaln_aa2Genome TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATC- agtgtccattcaaaccactacttctcctaatgtctcgctcctccccgtagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCCCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATCGgtatgtagcgcagatttgataaccaagcagtttacaaactaacagaacta Alignment from Spaln_nt2Genome TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtgtccattcaaaccactacttctcctaatgtctcgctcctccccgtagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCCCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATC---Ggtatgtagcgcagatttgataaccaagcagtttacaaactaacagaacta Alignment from Pairagon TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtgtccattcaaaccactacttctcctaatgtctcgctcctccccgtagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCCCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATC---Ggtatgtagcgcagatttgataaccaagcagtttacaaactaacagaacta Alignment from Exonerate_protein2genome TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtgtccattcaaaccactacttctcctaatgtctcgctcctccccgtagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCCCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATC---Ggtatgtagcgcagatttgataaccaagcagtttacaaactaacagaacta Alignment from Exonerate_coding2genome TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtgtccattcaaaccactacttctcctaatgtctcgctcctccccgtagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCCCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATC---Ggtatgtagcgcagatttgataaccaagcagtttacaaactaacagaacta Alignment from GeneWise TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCC agtgtccattcaaaccactacttctcctaatgtctcgctcctccccgtagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCCCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTAATCGgtatgtagcgcagatttgataaccaagcagtttacaaactaacagaacta #### Gif_ID3278_2 --> 2 - 1 Original Alignment ct---------GTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAg gtcattctgtggagcagcacacatgtagttctctgcttctacgtccccagctTTGGTGGCCGTTCCCCCAGATCAGCAGCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAATTCAGTGACCGACTCTGACTTCCCTAACCCAACCATG---ATTGCCAAGAACCTGGCTGGTGCGTACATTGTGGGACCTCAAAAACTCCTGACTTACCAGCTAATGGCCAGTGAAAGTGCAggtggggcactaagggcacatcctcaccctgagtctctcatgctcacccaa Alignment from CESAR ct---------GTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAg gtcattctgtggagcagcacacatgtagttctctgcttctacgtccccagctTTGGTGGCCGTTCCCCCAGATCAGCAGCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAATTCAGTGACCGACTCTGACTTCCCTAACCCAACC---ATGATTGCCAAGAACCTGGCTGGTGCGTACATTGTGGGACCTCAAAAACTCCTGACTTACCAGCTAATGGCCAGTGAAAGTGCAggtggggcactaagggcacatcctcaccctgagtctctcatgctcacccaa Alignment from Spaln_aa2Genome CT---------GTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG gtcattctgtggagcagcacacatgtagttctctgcttctacgtccccagCTTTGGTGGCCGTTCCCCCAGATCAGCAGCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAATTCAGTGACCGACTCTGACTTCCCTAACCCAACCATG---ATTGCCAAGAACCTGGCTGGTGCGTACATTGTGGGACCTCAAAAACTCCTGACTTACCAGCTAATGGCCAGTGAAAGTGCAGgtggggcactaagggcacatcctcaccctgagtctctcatgctcacccaa Alignment from Spaln_nt2Genome CTGTGCCCCCAGAT---------CAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG gtcattctgtggagcagcacacatgtagttctctgcttctacgtccccagCTTTGGTGGCCGTTCCCCCAGATCAGCAGCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAATTCAGTGACCGACTCTGACTTCCCTAACCCAACCA---TGATTGCCAAGAACCTGGCTGGTGCGTACATTGTGGGACCTCAAAAACTCCTGACTTACCAGCTAATGGCCAGTGAAAGTGCAGgtggggcactaagggcacatcctcaccctgagtctctcatgctcacccaa Alignment from Pairagon CT---------GTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG gtcattctgtggagcagcacacatgtagttctctgcttctacgtccccagCTTTGGTGGCCGTTCCCCCAGATCAGCAGCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAATTCAGTGACCGACTCTGACTTCCCTAACCCAACCA---TGATTGCCAAGAACCTGGCTGGTGCGTACATTGTGGGACCTCAAAAACTCCTGACTTACCAGCTAATGGCCAGTGAAAGTGCAGgtggggcactaagggcacatcctcaccctgagtctctcatgctcacccaa Alignment from Exonerate_protein2genome CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG gtcattctgtggagcagcacacatgtagttctctgcttctacgtccccagctttggtggCCGTTCCCCCAGATCAGCAGCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAATTCAGTGACCGACTCTGACTTCCCTAACCCAACC---ATGATTGCCAAGAACCTGGCTGGTGCGTACATTGTGGGACCTCAAAAACTCCTGACTTACCAGCTAATGGCCAGTGAAAGTGCAGgtggggcactaagggcacatcctcaccctgagtctctcatgctcacccaa Alignment from Exonerate_coding2genome CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG gtcattctgtggagcagcacacatgtagttctctgcttctacgtccccagctttggtggCCGTTCCCCCAGATCAGCAGCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAATTCAGTGACCGACTCTGACTTCCCTAACCCAACC---ATGATTGCCAAGAACCTGGCTGGTGCGTACATTGTGGGACCTCAAAAACTCCTGACTTACCAGCTAATGGCCAGTGAAAGTGCAGgtggggcactaagggcacatcctcaccctgagtctctcatgctcacccaa Alignment from GeneWise --------TCTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG gtcattctgtggagcagcacacatgtagttctctgcttctacgtccccagCTTTGGTGGCCGTTCCCCCAGATCAGCAGCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAATTCAGTGACCGACTCTGACTTCCCTAACCCAACC---ATGATTGCCAAGAACCTGGCTGGTGCGTACATTGTGGGACCTCAAAAACTCCTGACTTACCAGCTAATGGCCAGTGAAAGTGCAGgtggggcactaagggcacatcctcaccctgagtctctcatgctcacccaa #### Gif_ID3279_3 --> 2 - 1 Original Alignment acCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAa gtgcacgtccgctcaactgcgtatgtctaggctacttggtgtctccttagac------------------------------ATGGCTTTCACATCCTCTTGCAGAGATCCAGGTAGTAAGGTTTCTACTCTG---AGGAAAATGGAAAACTGGTCACCTTCAagtgggtgtggcttgtgggggcattgggaggaagagagtgtcatccatgca Alignment from CESAR acCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAa ctccctctttgtcttgtgtagtatgtctaggctacttggtgtctccttagac------------------------------ATGGCTTTCACATCCTCTTGCAGAGATCCAGGTAGTAAGGTTTCTACT---CTGAGGAAAATGGAAAACTGGTCACCTTCAagtgggtgtggcttgtgggggcattgggaggaagagagtgtcatccatgca Alignment from Spaln_aa2Genome TGGGCAGCTTGCCCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA gtgcacgtccgctcaactgcgtatgtctagGCTACTTGGTGTCTCCTTAGACATGGCTTTCACATCCTCTTGCAGAGATCCAGGTAGTAAGGTTTCTACTCTGAGGAAA---ATGGAAAACTGGTCACCTTCAAgtgggtgtggcttgtgggggcattgggaggaagagagtgtcatccatgca Alignment from Spaln_nt2Genome ACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA gtgcacgtccgctcaactgcgtatgtctaggctacttggtgtctccttagAC----ATGGCTTTCACATCCTCTTGCAGAGATCCAGGTAGTAAGGTTTCTACT---CTGAGGAAAATGGAAAACTGGTCACCTTCAAgtgggtgtggcttgtgggggcattgggaggaagagagtgtcatccatgca Alignment from Pairagon ACCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA gtgcacgtccgctcaactgcgtatgtctaggctacttggtgtctccttagAC------------------------------ATGGCTTTCACATCCTCTTGCAGAGATCCAGGTAGTAAGGTTTCTACT---CTGAGGAAAATGGAAAACTGGTCACCTTCAAgtgggtgtggcttgtgggggcattgggaggaagagagtgtcatccatgca Alignment from Exonerate_protein2genome ACCTGACAAGTGGGCAGCTTGCCCTCACCGTT---ATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA gtgcacgtccgctcaacTGCGTATGTCTAGGCTACTTGGTGTCTCCTTAGACATGGCTTTCACATCCTCTTGCAGAGATCCAGGTAGTAAGGTTTCTACT---CTGAGGAAAATGGAAAACTGGTCACCTTCAAgtgggtgtggcttgtgggggcattgggaggaagagagtgtcatccatgca Alignment from Exonerate_coding2genome ACCTGACAAGTGGGCAGCTTGCCCTCACCGTT---ATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA gtgcacgtccgctcaacTGCGTATGTCTAGGCTACTTGGTGTCTCCTTAGACATGGCTTTCACATCCTCTTGCAGAGATCCAGGTAGTAAGGTTTCTACT---CTGAGGAAAATGGAAAACTGGTCACCTTCAAgtgggtgtggcttgtgggggcattgggaggaagagagtgtcatccatgca Alignment from GeneWise ---ACAAGTGGGCAGCTTGCCCTCACC---------------------GTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA gTGCACGTCCGCTCAACTGCGTATGTCTAGGCTACTTGGTGTCTCCTTAGACATGGCTTTCACATCCTCTTGCAGAGATCCAGGTAGTAAGGTTTCTACTCTG---AGGAAAATGGAAAACTGGTCACCTTCAAgtgggtgtggcttgtgggggcattgggaggaagagagtgtcatccatgca #### Gldc_ID6401_14 --> 0 - 0 Original Alignment GGATCCTGCACCATGAAGCTCAATAGCTCCTCCGAACTTGCA ggttgtaggaagtattgctgggtatgtcttgcattcccttttcccctcagGGATCTTGCACCATGAAGCTTAATAGCTCAGCTGAG------gtaaaatagtccccagtaattaccatatgatgtcatgctcacttcatgag Alignment from CESAR GGATCCTGCACCATGAAGCTCAATAGCTCCTCCGAACTTGCA ggttgtaggaagtattgctgggtatgtcttgcattcccttttcccctcagGGATCTTGCACCATGAAGCTTAATAGCTCAGCTGAG------gtaaaatagtccccagtaattaccatatgatgtcatgctcactt Alignment from Spaln_aa2Genome GGATCCTGCACCATGAAGCTCAATAGCTCCTCCGAA ggttgtaggaagtattgctgggtatgtcttgcattcccttttcccctcagGGATCTTGCACCATGAAGCTTAATAGCTCAGCTGAGgtaaaatagtccccagtaattaccatatgatgtcatgctcacttcatgag Alignment from Spaln_nt2Genome GGATCCTGCACCATGAAGCTCAATAGCTCCTCCGAA ggttgtaggaagtattgctgggtatgtcttgcattcccttttcccctcagGGATCTTGCACCATGAAGCTTAATAGCTCAGCTGAGgtaaaatagtccccagtaattaccatatgatgtcatgctcacttcatgag Alignment from Pairagon GGATCCTGCACCATGAAGCTCAATAGCT----------------------- ggttgtaggaagtattgctgggtatgtcttgcattcccttttcccctcagGGATCTTGCACCATGAAGCTTAATAGCTCAGCTGAGGTAAAATAGTCCCCAgtaattaccatatgatgtcatgctcacttcatgag Alignment from Exonerate_protein2genome GGATCCTGCACCATGAAGCTCAATAGCTCCTCCGAACTTGCA ggttgtaggaagtattgctgggtatgtcttgcattcccttttcccctcagGGATCTTGCACCATGAAGCTTAATAGCTCAGCTGAGGTAAAAtagtccccagtaattaccatatgatgtcatgctcacttcatgag Alignment from Exonerate_coding2genome GGATCCTGCACCATGAAGCTCAATAGCTCCTCCGAACTTGCA ggttgtaggaagtattgctgggtatgtcttgcattcccttttcccctcagGGATCTTGCACCATGAAGCTTAATAGCTCAGCTGAGGTAAAAtagtccccagtaattaccatatgatgtcatgctcacttcatgag Alignment from GeneWise GGATCCTGCACCATGAAGCTCAATAGCTCCTCCGAACTTGCA ggttgtaggaagtattgctgggtatgtcttgcattcccttttcccctcagGGATCTTGCACCATGAAGCTTAATAGCTCAGCT------GAGgtaaaatagtccccagtaattaccatatgatgtcatgctcacttcatgag #### Gm815_ID5778_2 --> 0 - 1 Original Alignment ---------------------------TCCTTAGGAACGATGCTTCTGTGCTGCGTAGAAGCCCATGCCATGGGATTCCAGAACACTTCCTTCTCTACGTTTAGAACTGCTTCCCATACTTTTTTCCCCCACt cagctttttttgacaccacaccattttctcttctccctctctcccttcagCCCCTCTGGGTAATGTATCCTGGTGATTCCTTAGGGACTATGCTTCTATGT------------------------------------------------------------TCACAGACT------CACCACtgtaagtaaaaaagatgtacccataagcttagtaaagttgatgtggttatg Alignment from CESAR ---------------------------TCCTTAGGAACGATGCTTCTGTGCTGCGTAGAAGCCCATGCCATGGGATTCCAGAACACTTCCTTCTCTACGTTTAGAACTGCTTCCCATACTTTTTTCCCCCACt cagctttttttgacaccacaccattttctcttctccctctctcccttcagCCCCTCTGGGTAATGTATCCTGGTGATTCCTTAGGGACTATGCTTCTATGT------------------------------------------------------------TCACAGACT------CACCACtgtaagtaaaaaagatgtacccataagcttagtaaagttgatgtggttatg Alignment from Spaln_aa2Genome ATGGCCCTGTCTGAGTCCTTAGGAACGATGCTTCTGTGCTGCGTAGAAGCCCATGCCAT cagctttttttgacaccacaccattttctcttctccctctctcccttcagcccctctgggtaATGTATCCTGGTGATTCCTTAGGGACTATGCTTCTATGTTCACAGACTCACCACTGTAAgtaaaaaagatgtacccataagcttagtaaagttgatgtggttatg Alignment from Spaln_nt2Genome GAACGATGCTTCTGTGCTGCGTAGAAGCCCATGCCATG cagctttttttgacaccacaccattttctcttctccctctctcccttcagcccctctgggtaatgtatcctggtgattccttagGGACTATGCTTCTATG-TTCACAGA--CTCA--CCACTgtaagtaaaaaagatgtacccataagcttagtaaagttgatgtggttatg Alignment from Pairagon ---------------------------TCCTTAGGAACGATGCTTCTGTGCTGCGTAGAAGCCCATGCCATGGGATTCCAGAACACTTCCTTCTCTACGTTTAGAACTGCTTCCCATACTTTTTTCCCCCACT cagctttttttgacaccacaccattttctcttctccctctctcccttcagCCCCTCTGGGTAATGTATCCTGGTGATTCCTTAGGGACTATGCTTCTATG------------------------------------------------------------TTCACAGACT------CACCACTgtaagtaaaaaagatgtacccataagcttagtaaagttgatgtggttatg Alignment from Exonerate_protein2genome ATGGCCCTGTCTGAGTCCTTAGGAACGATGCTTCTGTGCTGCGTAGAAGCCCATG cagctttttttgacaccacaccattttctcttctccctctctcccttcagcccctctgggtaATGTATCCTGGTGATTCCTTAGGGACTATGCTTCTATGTTCACAGACTCACCACTgtaagtaaaaaagatgtacccataagcttagtaaagttgatgtggttatg Alignment from Exonerate_coding2genome cagctttttttgacaccacaccattttctcttctccctctctcccttcagcccctctgggtaatgtatcctggtgattccttagggactatgcttctatgttcacagactcaccactgtaagtaaaaaagatgtacccataagcttagtaaagttgatgtggttatg Alignment from GeneWise cagctttttttgacaccacaccattttctcttctccctctctcccttcagcccctctgggtaatgtatcctggtgattccttagggactatgcttctatgttcacagactcaccactgtaagtaaaaaagatgtacccataagcttagtaaagttgatgtggttatg #### Gm815_ID5779_3 --> 2 - 0 Original Alignment gtGCCTCAAGAGAGGAAGGACAAAGTGATACCCACTGGGGTCCAGCCAGCCCATCATTCCTGCATATTGACCCCGGAGGCCGGTGCCAGTGGAATAGCAGT------ catcatgatactctgcatctcctactttttcttgtttttctcttctacaggtGCCTCAAGAGAGGAAGGGCAAAGTGACACCCACTGGGGTCCAGCCTGCCCATCATTCCTACATATTGACCCTGGAGGCCGGTGCCAGTGGAATAGCAGTTGTCTGgtaggtgttgtgtgtctgcttaggtcctcatgctcctaaattgtgggaac Alignment from CESAR gtGCCTCAAGAGAGGAAGGACAAAGTGATACCCACTGGGGTCCAGCCAGCCCATCATTCCTGCATATTGACCCCGGAGGCCGGTGCCAGTGGAATAGCAGT------ catcatgatactctgcatctcctactttttcttgtttttctcttctacaggtGCCTCAAGAGAGGAAGGGCAAAGTGACACCCACTGGGGTCCAGCCTGCCCATCATTCCTACATATTGACCCTGGAGGCCGGTGCCAGTGGAATAGCAGTTGTCTGgtaggtgttgtgtgtctgcttaggtcctcatgctcctaaattgtgggaac Alignment from Spaln_aa2Genome GTGCCTCAAGAGAGGAAGGACAAAGTGATACCCACTGGGGTCCAGCCAGCCCATCATTCCTGCATATTGACCCCGGAGGCCGGTGCCAGTGGAATAGCAGT------ catcatgatactctgcatctcctactttttcttgtttttctcttctacagGTGCCTCAAGAGAGGAAGGGCAAAGTGACACCCACTGGGGTCCAGCCTGCCCATCATTCCTACATATTGACCCTGGAGGCCGGTGCCAGTGGAATAGCAGTTGTCTGgtaggtgttgtgtgtctgcttaggtcctcatgctcctaaattgtgggaac Alignment from Spaln_nt2Genome ACTTCCTTCTCTACGTTTAGAACTGCTTCCCATACTTTTTTCCCCCACTG-TGCCTCAAGAGAGGAAGGACAAAGTGATACCCACTGGGGTCCAGCCAGCCCATCATTCCTGCATATTGACCCCGGAGGCCGGTGCCAGTGGAATAGCAGT------ TCATGATACTCTGCATCTCCTACT--TTTTCTTGTTTTTCTCTTCTACAGGTGCCTCAAGAGAGGAAGGGCAAAGTGACACCCACTGGGGTCCAGCCTGCCCATCATTCCTACATATTGACCCTGGAGGCCGGTGCCAGTGGAATAGCAGTTGTCTGgtaggtgttgtgtgtctgcttaggtcctcatgctcctaaattgtgggaac Alignment from Pairagon GTGCCTCAAGAGAGGAAGGACAAAGTGATACCCACTGGGGTCCAGCCAGCCCATCATTCCTGCATATTGACCCCGGAGGCCGGTGCCAGTGGAATAGCAGT------ catcatgatactctgcatctcctactttttcttgtttttctcttctacagGTGCCTCAAGAGAGGAAGGGCAAAGTGACACCCACTGGGGTCCAGCCTGCCCATCATTCCTACATATTGACCCTGGAGGCCGGTGCCAGTGGAATAGCAGTTGTCTGgtaggtgttgtgtgtctgcttaggtcctcatgctcctaaattgtgggaac Alignment from Exonerate_protein2genome GCCTCAAGAGAGGAAGGACAAAGTGATACCCACTGGGGTCCAGCCAGCCCATCATTCCTGCATATTGACCCCGGAGGCCGGTGCCAGTGGAATAGCAG catcatgatactctgcatctcctactttttcttgtttttctcttctacaggtGCCTCAAGAGAGGAAGGGCAAAGTGACACCCACTGGGGTCCAGCCTGCCCATCATTCCTACATATTGACCCTGGAGGCCGGTGCCAGTGGAATAGCAGttgtctggtaggtgttgtgtgtctgcttaggtcctcatgctcctaaattgtgggaac Alignment from Exonerate_coding2genome GCCTCAAGAGAGGAAGGACAAAGTGATACCCACTGGGGTCCAGCCAGCCCATCATTCCTGCATATTGACCCCGGAGGCCGGTGCCAGTGGAATAGCAG catcatgatactctgcatctcctactttttcttgtttttctcttctacaggtGCCTCAAGAGAGGAAGGGCAAAGTGACACCCACTGGGGTCCAGCCTGCCCATCATTCCTACATATTGACCCTGGAGGCCGGTGCCAGTGGAATAGCAGttgtctggtaggtgttgtgtgtctgcttaggtcctcatgctcctaaattgtgggaac Alignment from GeneWise GCCTCAAGAGAGGAAGGACAAAGTGATACCCACTGGGGTCCAGCCAGCCCATCATTCCTGCATATTGACCCCGGAGGCCGGTGCCAGTGGAATAGCAGT------ catcatgatactctgcatctcctactttttcttgtttttctcttctacaggtGCCTCAAGAGAGGAAGGGCAAAGTGACACCCACTGGGGTCCAGCCTGCCCATCATTCCTACATATTGACCCTGGAGGCCGGTGCCAGTGGAATAGCAGTTGTCTGgtaggtgttgtgtgtctgcttaggtcctcatgctcctaaattgtgggaac #### Gpam_ID11543_6 --> 1 - 0 Original Alignment gCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG attctccggctatcatgatgcaggcctttcctcccatgtcttctccacagg------GGCTGGGTATTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATCCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACCGAGgtaggatccgaatttaaaaacctaaaggaagatgtgcattactggatgtt Alignment from CESAR gCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gtggccattctccggctatcatgatctttcctcccatgtcttctccacagg------GGCTGGGTATTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATCCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACCGAGgtaggatccgaatttaaaaacctaaaggaagatgtgcattactggatgtt Alignment from Spaln_aa2Genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG attctccggctatcatgatgcaggcctttcctcccatgtcttctccacagG------GGCTGGGTATTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATCCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACCGAGgtaggatccgaatttaaaaacctaaaggaagatgtgcattactggatgtt Alignment from Spaln_nt2Genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG attctccggctatcatgatgcaggcctttcctcccatgtcttctccacagG------GGCTGGGTATTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATCCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACCGAGgtaggatccgaatttaaaaacctaaaggaagatgtgcattactggatgtt Alignment from Pairagon GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG attctccggctatcatgatgcaggcctttcctcccatgtcttctccacagG------GGCTGGGTATTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATCCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACCGAGgtaggatccgaatttaaaaacctaaaggaagatgtgcattactggatgtt Alignment from Exonerate_protein2genome TGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG attctccggctatcatgatgcaggcctttcctcccatgtcttctccacagGGGCTGGGTATTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATCCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACCGAGgtaggatccgaatttaaaaacctaaaggaagatgtgcattactggatgtt Alignment from Exonerate_coding2genome TGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG attctccggctatcatgatgcaggcctttcctcccatgtcttctccacagGGGCTGGGTATTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATCCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACCGAGgtaggatccgaatttaaaaacctaaaggaagatgtgcattactggatgtt Alignment from GeneWise GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG attctccggctatcatgatgcaggcctttcctcccatgtcttctccacagG------GGCTGGGTATTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATCCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACCGAGgtaggatccgaatttaaaaacctaaaggaagatgtgcattactggatgtt #### Gpr137_ID1885_6 --> 0 - 2 Original Alignment AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCag ttgtagtagaagggtggaacaccagtctgtcctatcactcccacctgcag---ACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGATAGCTGCTCCGGGGAGCACAGCCAAAGCAAGAGCACTaggtaagaacccagctctttacccaaataggagaggcctaagtagaggcata Alignment from CESAR AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCag aggttgtagtagaagggtggaacactctgtcctatcactcccacctgcag---ACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGATAGCTGCTCCGGGGAGCACAGCCAAAGCAAGAGCACTaggtaagaacccagctctttacccaaataggagaggcctaagtagaggcata Alignment from Spaln_aa2Genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAG ttgtagtagaagggtggaacaccagtctgtcctatcactcccacctgcag---ACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGATAGCTGCTCCGGGGAGCACAGCCAAAGCAAGAGCACTAGgtaagaacccagctctttacccaaataggagaggcctaagtagaggcata Alignment from Spaln_nt2Genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAG ttgtagtagaagggtggaacaccagtctgtcctatcactcccacctgcag---ACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGATAGCTGCTCCGGGGAGCACAGCCAAAGCAAGAGCACTAGgtaagaacccagctctttacccaaataggagaggcctaagtagaggcata Alignment from Pairagon AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAG ttgtagtagaagggtggaacaccagtctgtcctatcactcccacctgcag---ACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGATAGCTGCTCCGGGGAGCACAGCCAAAGCAAGAGCACTAGgtaagaacccagctctttacccaaataggagaggcctaagtagaggcata Alignment from Exonerate_protein2genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAG ttgtagtagaagggtggaacaccagtctgtcctatcactcccacctgCAGACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGATAGCTGCTCCGGGGAGCACAGCCAAAGCAAGAGCACTAGgtaagaacccagctctttacccaaataggagaggcctaagtagaggcata Alignment from Exonerate_coding2genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAG ttgtagtagaagggtggaacaccagtctgtcctatcactcccacctgCAGACCAGTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGATAGCTGCTCCGGGGAGCACAGCCAAAGCAAGAGCACTAGgtaagaacccagctctttacccaaataggagaggcctaagtagaggcata Alignment from GeneWise TCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAG ttgtagtagaagggtggaacaccagtctgtcctatcactcccacctgcagaccagTCAAATCCTTAATGGCCAAGTCTTTGGTTCCCGATCGTACTTCTTTGATAGGGCTGGACACTGTGAGGATGATAGCTGCTCCGGGGAGCACAGCCAAAGCAAGAGCACTAGgtaagaacccagctctttacccaaataggagaggcctaagtagaggcata #### Gpr137_ID1887_4 --> 0 - 0 Original Alignment GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaaactcgggaccccttgtctctacccccacctcctagGGAACAAGTGTATGTCAGGTGGCTGCAATAGGG---CCCATGATCTTGATTTATGCCAGCCGGGCCTGCTACAACCTGGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCGGAC---gtaagaaagtacacattattctgggctgacaaggctgcacattagcaaat Alignment from CESAR GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaaactcgggaccccttgtctctacccccacctcctagGGAACAAGTGTATGTCAGGTGGCTGCAATAGGG---CCCATGATCTTGATTTATGCCAGCCGGGCCTGCTACAACCTGGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCGGAC---gtaagaaagtacacattattctgggctgacaaggctgcacattaaat Alignment from Spaln_aa2Genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGAC taaacatacctagaaactcgggaccccttgtctctacccccacctcctagGGAACAAGTGTATGTCAGGTGGCTGCAATA---GGGCCCATGATCTTGATTTATGCCAGCCGGGCCTGCTACAACCTGGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCGGACgtaagaaagtacacattattctgggctgacaaggctgcacattagcaaat Alignment from Spaln_nt2Genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACC-----AG taaacatacctagaaactcgggaccccttgtctctacccccacctcctagGGAACAAGTGTATGTCAGGTGGCTGCAATAGGG---CCCATGATCTTGATTTATGCCAGCCGGGCCTGCTACAACCTGGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCGGACGTAAGAAAgtacacattattctgggctgacaaggctgcacattagcaaat Alignment from Pairagon GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGAC-------------------------------------------------- taaacatacctagaaactcgggaccccttgtctctacccccacctcctagGGAACAAGTGTATGTCAGGTGGCTGCAATAGGG---CCCATGATCTTGATTTATGCCAGCCGGGCCTGCTACAACCTGGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCGGACGTAAGAAAGTACACATTATTCTGGGCTGACAAGGCTGCACATTAGCAAAT Alignment from Exonerate_protein2genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaaactcgggaccccttgtctctacccccacctcctagGGAACAAGTGTATGTCAGGTGGCTGCAATA---GGGCCCATGATCTTGATTTATGCCAGCCGGGCCTGCTACAACCTGGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCGGAC---gtaagaaagtacacattattctgggctgacaaggctgcacattagca Alignment from Exonerate_coding2genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaacatacctagaaactcgggaccccttgtctctacccccacctcctagGGAACAAGTGTATGTCAGGTGGCTGCAATA---GGGCCCATGATCTTGATTTATGCCAGCCGGGCCTGCTACAACCTGGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCGGAC---gtaagaaagtacacattattctgggctgacaaggctgcacattagca Alignment from GeneWise GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGAC ----- taaacatacctagaaactcgggaccccttgtctctacccccacctcctagGGAACAAGTGTATGTCAGGTGGCTGCAATAGGG---CCCATGATCTTGATTTATGCCAGCCGGGCCTGCTACAACCTGGCAGCCTTGGCCTTGGCACCTCAGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTCTCGGACgtaagaaagtacacattattctgggctgacaaggctgcacattagCAAAT #### Hells_ID7706_13 --> 0 - 2 Original Alignment ---------AAGGAAACAGTTGAGCTAAGTCCTACTGGAAGACCAAAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGag ccttgccatctgcgcactaagaacaaaccattttctttctccaatcccagGGCAGCTGTAAAGATACAGTAGAGCTTAGCCCAATTGGAAGACCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTAATAAGCCAAATACAG---CAAGCTAACAGAGATaggtgagtcactataatgacctttaaactagggcatctgttgatgctcgttt Alignment from CESAR ---------AAGGAAACAGTTGAGCTAAGTCCTACTGGAAGACCAAAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGag ccttgccatctgcgcactaagaacaaaccattttctttctccaatcccagGGCAGCTGTAAAGATACAGTAGAGCTTAGCCCAATTGGAAGACCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTAATAAGCCAAATACAGCAA---GCTAACAGAGATaggtgagtcactataatgacctttaaactagggctttccccacttgctttca Alignment from Spaln_aa2Genome -------AAGGAAACAGTTGAGCTAAGTCCTACTGGAAGACCAAAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGAG ccttgccatctgcgcactaagaacaaaccattttctttctccaatcccagGGCAGCTGTAAAGATACAGTAGAGCTTAGCCCAATTGGAAGACCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTAATAAGCCAAATACAG---CAAGCTAACAGAGATAGgtgagtcactataatgacctttaaactagggcatctgttgatgctcgttt Alignment from Spaln_nt2Genome ----AAGGAAACAGTTGAGCTAAGTCCTACTGGAAGACCAAAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGAG ccttgccatctgcgcactaagaacaaaccattttctttctccaatcccagggcagCTGTAAAGATACAGTAGAGCTTAGCCCAATTGGAAGACCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTAATAAGCCAAATACAGC---AAGCTAACAGAGATAGgtgagtcactataatgacctttaaactagggcatctgttgatgctcgttt Alignment from Pairagon ---------AAGGAAACAGTTGAGCTAAGTCCTACTGGAAGACCAAAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGAG ccttgccatctgcgcactaagaacaaaccattttctttctccaatcccagGGCAGCTGTAAAGATACAGTAGAGCTTAGCCCAATTGGAAGACCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTAATAAGCCAAATACAGC---AAGCTAACAGAGATAGgtgagtcactataatgacctttaaactagggcatctgttgatgctcgttt Alignment from Exonerate_protein2genome TCCTGTGAGAAGGAAACAGTTGAGCTAAGTCCTACTGGAAGACCAAAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGAG ccttgccatctgcgcactaagaacaaaccattttctttctccaatcccagGGCAGCTGTAAAGATACAGTAGAGCTTAGCCCAATTGGAAGACCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTAATAAGCCAAATACAG---CAAGCTAACAGAGATAGgtgagtcactataatgacctttaaactagggcatctgttgatgctcgttt Alignment from Exonerate_coding2genome TCCTGTGAGAAGGAAACAGTTGAGCTAAGTCCTACTGGAAGACCAAAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGAG ccttgccatctgcgcactaagaacaaaccattttctttctccaatcccagGGCAGCTGTAAAGATACAGTAGAGCTTAGCCCAATTGGAAGACCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTAATAAGCCAAATACAG---CAAGCTAACAGAGATAGgtgagtcactataatgacctttaaactagggcatctgttgatgctcgttt Alignment from GeneWise ---------AAGGAAACAGTTGAGCTAAGTCCTACTGGAAGACCAAAACGACGAAGTAGAAAGTCAATAAATTACAGCGAACTAGATCAGTTCCCTAGTGAATTAGAAAAACTAATAAGTCAAATACAGCCAGAAGTAAACAGAGAGAG ccttgccatctgcgcactaagaacaaaccattttctttctccaatcccagGGCAGCTGTAAAGATACAGTAGAGCTTAGCCCAATTGGAAGACCTAAAAGACGAAGTAGAAAG---ATAAATTACAGTGAACTAGATCAGTTTCCCAGTGAACTTGAGAAACTAATAAGCCAAATACAG---CAAGCTAACAGAGATAGgtgagtcactataatgacctttaaactagggcatctgttgatgctcgttt #### Hells_ID7707_14 --> 1 - 0 Original Alignment gACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAAG tgccactataatgacctttaaactagggctttccccacttgctttcatagaACAGTTGTGGAAGGTAATATTCCTATAGAATCAGAAGTTAATTTGAAGCTGCGGAATATCATGATGTTACTCCAGAGATGCTGTAATCACCCTTACATGATTGAATATCCCATTGACCCAGTCACACAG---------gtatgttatacgtaggtttggggtgcagcattggagggacaaatgaatat Alignment from CESAR gACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAAG agtcactataatgacctttaaactagggctttccccacttgctttcatagaACAGTTGTGGAAGGTAATATTCCTATAGAATCAGAAGTTAATTTGAAGCTGCGGAATATCATGATGTTACTCCAGAGATGCTGTAATCACCCTTACATGATTGAATATCCCATTGACCCAGTCACACAG---------gtatgttatacgtaggtttggggtgcagcattggagggaca Alignment from Spaln_aa2Genome GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAA tgccactataatgacctttaaactagggctttccccacttgctttcatagAACAGTTGTGGAAGGTAATATTCCTATAGAATCAGAAGTTAATTTGAAGCTGCGGAATATCATGATGTTACTCCAGAGATGCTGTAATCACCCTTACATGATTGAATATCCCATTGACCCAGTCACACAGgtatgttatacgtaggtttggggtgcagcattggagggacaaatgaatat Alignment from Spaln_nt2Genome GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAAT-TTA-AG tgccactataatgacctttaaactagggctttccccacttgctttcatagAACAGTTGTGGAAGGTAATATTCCTATAGAATCAGAAGTTAATTTGAAGCTGCGGAATATCATGATGTTACTCCAGAGATGCTGTAATCACCCTTACATGATTGAATATCCCATTGACCCAGTCACACAGGTATGTTATACgtaggtttggggtgcagcattggagggacaaatgaatat Alignment from Pairagon ---------------------------------------------------ACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAAG TGCCACTATAATGACCTTTAAACTAGGGCTTTCCCCACTTGCTTTCATAGAACAGTTGTGGAAGGTAATATTCCTATAGAATCAGAAGTTAATTTGAAGCTGCGGAATATCATGATGTTACTCCAGAGATGCTGTAATCACCCTTACATGATTGAATATCCCATTGACCCAGTCACAC---------AGgtatgttatacgtaggtttggggtgcagcattggagggacaaatgaatat Alignment from Exonerate_protein2genome GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAAGAT tgccactataatgacctttaaactagggctttccccacttgctttcatagAACAGTTGTGGAAGGTAATATTCCTATAGAATCAGAAGTTAATTTGAAGCTGCGGAATATCATGATGTTACTCCAGAGATGCTGTAATCACCCTTACATGATTGAATATCCCATTGACCCAGTCACACAGGTATGTTATACgtaggtttggggtgcagcattggagggacaaatgaatat Alignment from Exonerate_coding2genome GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAAGAT tgccactataatgacctttaaactagggctttccccacttgctttcatagAACAGTTGTGGAAGGTAATATTCCTATAGAATCAGAAGTTAATTTGAAGCTGCGGAATATCATGATGTTACTCCAGAGATGCTGTAATCACCCTTACATGATTGAATATCCCATTGACCCAGTCACACAGGTATGTTATACgtaggtttggggtgcagcattggagggacaaatgaatat Alignment from GeneWise GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAA tgccactataatgacctttaaactagggctttccccacttgctttcatagAACAGTTGTGGAAGGTAATATTCCTATAGAATCAGAAGTTAATTTGAAGCTGCGGAATATCATGATGTTACTCCAGAGATGCTGTAATCACCCTTACATGATTGAATATCCCATTGACCCAGTCACACAGgtatgttatacgtaggtttggggtgcagcattggagggacaaatgaatat #### Hif1an_ID9067_5 --> 0 - 2 Original Alignment GTGGACTTTGACAATCCTGACTACGAGAGGTTCCCCAATTTCCGAAATGTGGTTGGTTATGAGACAGTGGTTGGCCCTGGGGATGTTCTTTACATCCCAATGTAC---------------------------------------------tg cacttgtgtgaagtgacaacttgatagtcctgatcaccttttccctgcagGTGGACTTTGATAATCCAGACTATGAGAGGTTCCCCAATTTTCGTAATGTGGTTGGTTATGAGACAGTAGTTGGCCCTGGGGATGTACTATACATCCCTATGTATGGCCGTGGAGTGTACGTTGCTCGTGCCATTTCAGACTCAGACACCtggtaagatgcaaacgaataaagggcaggacaagaccaaaaggcagtgcttt Alignment from CESAR GTGGACTTTGACAATCCTGACTACGAGAGGTTCCCCAATTTCCGAAATGTGGTTGGTTATGAGACAGTGGTTGGCCCTGGGGATGTTCTTTACATCCCAATGTAC---------tg cacttgtgtgaagtgacaacttgatagtcctgatcaccttttccctgcagGTGGACTTTGATAATCCAGACTATGAGAGGTTCCCCAATTTTCGTAATGTGGTTGGTTATGAGACAGTAGTTGGCCCTGGGGATGTACTATACATCCCTATGTATGGCCGTGGAgtgtacgttgctcgtgccatttcagactcagacacctggtaagatgcaaacgaataaagggcaggacaagaccaaaaggcagtgcttt Alignment from Spaln_aa2Genome GTGGACTTTGACAATCCTGACTACGAGAGGTTCCCCAATTTCCGAAATGTGGTTGGTTATGAGACAGTGGTTGGCCCTGGGGATGTTCTTTACATCCCAATGTACTGG-------- cacttgtgtgaagtgacaacttgatagtcctgatcaccttttccctgcagGTGGACTTTGATAATCCAGACTATGAGAGGTTCCCCAATTTTCGTAATGTGGTTGGTTATGAGACAGTAGTTGGCCCTGGGGATGTACTATACATCCCTATGTATGGCCGTGGAGTgtacgttgctcgtgccatttcagactcagacacctggtaagatgcaaacgaataaagggcaggacaagaccaaaaggcagtgcttt Alignment from Spaln_nt2Genome GTGGACTTTGACAATCCTGACTACGAGAGGTTCCCCAATTTCCGAAATGTGGTTGGTTATGAGACAGTGGTTGGCCCTGGGGATGTTCTTTACATCCCAATGTACTG cacttgtgtgaagtgacaacttgatagtcctgatcaccttttccctgcagGTGGACTTTGATAATCCAGACTATGAGAGGTTCCCCAATTTTCGTAATGTGGTTGGTTATGAGACAGTAGTTGGCCCTGGGGATGTACTATACATCCCTATGTA-TGgccgtggagtgtacgttgctcgtgccatttcagactcagacacctggtaagatgcaaacgaataaagggcaggacaagaccaaaaggcagtgcttt Alignment from Pairagon GTGGACTTTGACAATCCTGACTACGAGAGGTTCCCCAATTTCCGAAATGTGGTTGGTTATGAGACAGTGGTTGGCCCTGGGGATGTTCTTTACATCCCAATGTA---------------------------------------------CTG cacttgtgtgaagtgacaacttgatagtcctgatcaccttttccctgcagGTGGACTTTGATAATCCAGACTATGAGAGGTTCCCCAATTTTCGTAATGTGGTTGGTTATGAGACAGTAGTTGGCCCTGGGGATGTACTATACATCCCTATGTATGGCCGTGGAGTGTACGTTGCTCGTGCCATTTCAGACTCAGACACCTGgtaagatgcaaacgaataaagggcaggacaagaccaaaaggcagtgcttt Alignment from Exonerate_protein2genome GTGGACTTTGACAATCCTGACTACGAGAGGTTCCCCAATTTCCGAAATGTGGTTGGTTATGAGACAGTGGTTGGCCCTGGGGATGTTCTTTACATCCCAATGTACTG cacttgtgtgaagtgacaacttgatagtcctgatcaccttttccctgcagGTGGACTTTGATAATCCAGACTATGAGAGGTTCCCCAATTTTCGTAATGTGGTTGGTTATGAGACAGTAGTTGGCCCTGGGGATGTACTATACATCCCTATGTATGGccgtggagtgtacgttgctcgtgccatttcagactcagacacctggtaagatgcaaacgaataaagggcaggacaagaccaaaaggcagtgcttt Alignment from Exonerate_coding2genome GTGGACTTTGACAATCCTGACTACGAGAGGTTCCCCAATTTCCGAAATGTGGTTGGTTATGAGACAGTGGTTGGCCCTGGGGATGTTCTTTACATCCCAATGTACTG cacttgtgtgaagtgacaacttgatagtcctgatcaccttttccctgcagGTGGACTTTGATAATCCAGACTATGAGAGGTTCCCCAATTTTCGTAATGTGGTTGGTTATGAGACAGTAGTTGGCCCTGGGGATGTACTATACATCCCTATGTATGGccgtggagtgtacgttgctcgtgccatttcagactcagacacctggtaagatgcaaacgaataaagggcaggacaagaccaaaaggcagtgcttt Alignment from GeneWise GTGGACTTTGACAATCCTGACTACGAGAGGTTCCCCAATTTCCGAAATGTGGTTGGTTATGAGACAGTGGTTGGCCCTGGGGATGTTCTTTACATCCCAATGTAC---------TG cacttgtgtgaagtgacaacttgatagtcctgatcaccttttccctgcagGTGGACTTTGATAATCCAGACTATGAGAGGTTCCCCAATTTTCGTAATGTGGTTGGTTATGAGACAGTAGTTGGCCCTGGGGATGTACTATACATCCCTATGTATGGCCGTGGAGTgtacgttgctcgtgccatttcagactcagacacctggtaagatgcaaacgaataaagggcaggacaagaccaaaaggcagtgcttt #### Hoga1_ID8381_4 --> 0 - 0 Original Alignment GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT--- ataaacaagggttgacactggaaatggctcccctgacctctgtgttgcagATTGCTGATGTTTCCCCAATCCCTGTAGTGTTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATGAAgtgaggcgttgtagcatccaatttgcccaagcacccaccaccccaggtcg Alignment from CESAR GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT--- ataaacaagggttgacactggaaatggctcccctgacctctgtgttgcagATTGCTGATGTTTCCCCAATCCCTGTAGTGTTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATGAAgtgaggcgttgtagcatccaatttgcccaagcacccaccaccccaggtcg Alignment from Spaln_aa2Genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT--- ataaacaagggttgacactggaaatggctcccctgacctctgtgttgcagATTGCTGATGTTTCCCCAATCCCTGTAGTGTTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATGAAgtgaggcgttgtagcatccaatttgcccaagcacccaccaccccaggtcg Alignment from Spaln_nt2Genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT--- ataaacaagggttgacactggaaatggctcccctgacctctgtgttgcagATTGCTGATGTTTCCCCAATCCCTGTAGTGTTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATGAAgtgaggcgttgtagcatccaatttgcccaagcacccaccaccccaggtcg Alignment from Pairagon GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT--- ataaacaagggttgacactggaaatggctcccctgacctctgtgttgcagATTGCTGATGTTTCCCCAATCCCTGTAGTGTTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATGAAgtgaggcgttgtagcatccaatttgcccaagcacccaccaccccaggtcg Alignment from Exonerate_protein2genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT--- ataaacaagggttgacactggaaatggctcccctgacctctgtgttgcagATTGCTGATGTTTCCCCAATCCCTGTAGTGTTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATGAAgtgaggcgttgtagcatccaatttgcccaagcacccaccaccccaggtcg Alignment from Exonerate_coding2genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT--- ataaacaagggttgacactggaaatggctcccctgacctctgtgttgcagATTGCTGATGTTTCCCCAATCCCTGTAGTGTTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATGAAgtgaggcgttgtagcatccaatttgcccaagcacccaccaccccaggtcg Alignment from GeneWise GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGATGTG ataaacaagggttgacactggaaatggctcccctgacctctgtgttgcagATTGCTGATGTTTCCCCAATCCCTGTAGTGTTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATGAAgtgaggcgttgtagcatccaatttgcccaagcacccaccaccccaggtcg #### Hoga1_ID8382_5 --> 0 - 1 Original Alignment GTGACCAGGATTGGACTGATAGTTCAC---AAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTG---g taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACTGGCAGGGTCTGTTGGCTCCCTTCTAGCTAGCTATTCTGTAGGGggtgagtttgctgtcagttctaaaccaccagctccaaccaagccctgttgc Alignment from CESAR GTGACCAGGATTGGACTGATAGTT---CACAAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTG---g taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACTGGCAGGGTCTGTTGGCTCCCTTCTAGCTAGCTATTCTGTAGGGggtgagtttgctgtcagttctaaaccaccagctccaaccaagccctgttgc Alignment from Spaln_aa2Genome GTGACCAGGATTGGACTGATAGTT---CACAAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGGGAG taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACTGGCAGGGTCTGTTGGCTCCCTTCTAGCTAGCTATTCTGTAGGGGgtgagtttgctgtcagttctaaaccaccagctccaaccaagccctgttgc Alignment from Spaln_nt2Genome GTGACCAGGATTGGACTGATAGT---TCACAAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGT---GG taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACTGGCAGGGTCTGTTGGCTCCCTTCTAGCTAGCTATTCTGTAGGGGgtgagtttgctgtcagttctaaaccaccagctccaaccaagccctgttgc Alignment from Pairagon GTGACCAGGATTGGACTGATAGT---TCACAAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGT---GG taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACTGGCAGGGTCTGTTGGCTCCCTTCTAGCTAGCTATTCTGTAGGGGgtgagtttgctgtcagttctaaaccaccagctccaaccaagccctgttgc Alignment from Exonerate_protein2genome GTGACCAGGATTGGACTGATAGTT---CACAAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGGGAG taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACTGGCAGGGTCTGTTGGCTCCCTTCTAGCTAGCTATTCTGTAGGGGgtgagtttgctgtcagttctaaaccaccagctccaaccaagccctgttgc Alignment from Exonerate_coding2genome GTGACCAGGATTGGACTGATAGTT---CACAAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGGGAG taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACTGGCAGGGTCTGTTGGCTCCCTTCTAGCTAGCTATTCTGTAGGGGgtgagtttgctgtcagttctaaaccaccagctccaaccaagccctgttgc Alignment from GeneWise GTGACCAGGATTGGACTGATAGTTCAC---AAGACCAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGGGAG taaatgtaatggggagaggaggatcattctcatttctcttttttgtgaagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTAGCAAGCAGGATTTTCAGGTACTGGCAGGGTCTGTTGGCTCCCTTCTAGCTAGCTATTCTGTAGGGGgtgagtttgctgtcagttctaaaccaccagctccaaccaagccctgttgc #### Hps1_ID8614_14 --> 1 - 2 Original Alignment gGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGA---AATGTCACCATGGTGtc aggatgcaagtagttattgcacttttatcttgtatgttttttccctttagg------CTTTTGTACTGGAAGGATTTTTCCTTGGTGAATAGCTGGAGAAGAAATGTCACCATGGTAgcgtgagttattgattatatattcataagattaatacagctattgaagcttc Alignment from CESAR gGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGC---CGGAGAAATGTCACCATGGTGtc agttagaggatgcaagtagttattgtatcttgtatgttttttccctttagg------CTTTTGTACTGGAAGGATTTTTCCTTGGTGAATAGCTGGAGAAGAAATGTCACCATGGTAgcgtgagttattgattatatattcataagattaatacagctattgaagcttc Alignment from Spaln_aa2Genome GGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGC---CGGAGAAATGTCACCATGGTGTC aggatgcaagtagttattgcacttttatcttgtatgttttttccctttagG------CTTTTGTACTGGAAGGATTTTTCCTTGGTGAATAGCTGGAGAAGAAATGTCACCATGGTAGCgtgagttattgattatatattcataagattaatacagctattgaagcttc Alignment from Spaln_nt2Genome GAGAG GCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGG---AGAAATGTCACCATGGTGTC AGGATgcaagtagttattgcacttttatcttgtatgttttttccctttagGCTTTTGTACTGGAAGGATTTTTCCTTGGTGAATAGCTGGAGAAGAAATGTCACCATGGTAGCgtgagttattgattatatattcataagattaatacagctattgaagcttc Alignment from Pairagon GGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGG---AGAAATGTCACCATGGTGTC aggatgcaagtagttattgcacttttatcttgtatgttttttccctttag------GCTTTTGTACTGGAAGGATTTTTCCTTGGTGAATAGCTGGAGAAGAAATGTCACCATGGTAGCgtgagttattgattatatattcataagattaatacagctattgaagcttc Alignment from Exonerate_protein2genome ACTCATGAAGGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGC---CGGAGAAATGTCACCATGGTGTC aggatgcaagtagttattgcacttttatcttgtatGTTTTTTCCCTTTAGGCTTTTGTACTGGAAGGATTTTTCCTTGGTGAATAGCTGGAGAAGAAATGTCACCATGGTAGCgtgagttattgattatatattcataagattaatacagctattgaagcttc Alignment from Exonerate_coding2genome aggatgcaagtagttattgcacttttatcttgtatgttttttccctttaggcttttgtactggaaggatttttccttggtgaatagctggagaagaaatgtcaccatggtagcgtgagttattgattatatattcataagattaatacagctattgaagcttc Alignment from GeneWise GCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGC---CGGAGAAATGTCACCATGGTGTC aggatgcaagtagttattgcacttttatcttgtatgttttttccctttagGCTTTTGTACTGGAAGGATTTTTCCTTGGTGAATAGCTGGAGAAGAAATGTCACCATGGTAGCgtgagttattgattatatattcataagattaatacagctattgaagcttc #### Hps1_ID8616_12 --> 0 - 2 Original Alignment AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGga gtggggaacactcccttatgcatttctgttctctcacttccttctggcag---GCCTGGCTGGAATTTAAGAGTAAAGTCTTTTCTAAGGGTCAGCCAGGTTCATCGTGGgagtatgcctataaagtcaaagattatatacagtcattggccttgttttccc Alignment from CESAR AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGga tttgtggggaacactcccttatgcactgttctctcacttccttctggcag---GCCTGGCTGGAATTTAAGAGTAAAGTCTTTTCTAAGGGTCAGCCAGGTTCATCGTGGgagtatgcctataaagtcaaagattatatacagtcattggccttgttttccc Alignment from Spaln_aa2Genome AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGGA gtggggaacactcccttatgcatttctgttctctcacttccttctggcag---GCCTGGCTGGAATTTAAGAGTAAAGTCTTTTCTAAGGGTCAGCCAGGTTCATCGTGGGAgtatgcctataaagtcaaagattatatacagtcattggccttgttttccc Alignment from Spaln_nt2Genome ACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGGA gtggggaacactcccttatgcatttctgttctctcacttccttctggcagGCCTGGCTGGAATTTAAGAGTAAAGTCTTTTCTAAGGGTCAGCCAGGTTCATCGTGGGAgtatgcctataaagtcaaagattatatacagtcattggccttgttttccc Alignment from Pairagon AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGGA gtggggaacactcccttatgcatttctgttctctcacttccttctggcag---GCCTGGCTGGAATTTAAGAGTAAAGTCTTTTCTAAGGGTCAGCCAGGTTCATCGTGGGAgtatgcctataaagtcaaagattatatacagtcattggccttgttttccc Alignment from Exonerate_protein2genome AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGGA gtggggaacactcccttatgcatttctgttctctcacttccttctggCAGGCCTGGCTGGAATTTAAGAGTAAAGTCTTTTCTAAGGGTCAGCCAGGTTCATCGTGGGAgtatgcctataaagtcaaagattatatacagtcattggccttgttttccc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGGA gtggggaacactcccttatgcatttctgttctctcacttccttctggcagGCC---TGGCTGGAATTTAAGAGTAAAGTCTTTTCTAAGGGTCAGCCAGGTTCATCGTGGGAgtatgcctataaagtcaaagattatatacagtcattggccttgttttccc #### Hps1_ID8617_11 --> 0 - 0 Original Alignment AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG--- gacctgtgttattgcgcttggtgcccccccttttttttgtgtgttttcagAGCCCTGGTGCCCCACTAACCCAAATCCTATGCCAACTGCTGGATGGATTCTCCCTTCTGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGTAGTGCCTTACGATCCCAGCCCTTTGTGACTGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTCCAAATGgtaagctcacagaactaatgtggactgattttgggaccctggctagggcc Alignment from CESAR AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG--- gacctgtgttattgcgcttggtgcccccccttttttttgtgtgttttcagAGCCCTGGTGCCCCACTAACCCAAATCCTATGCCAACTGCTGGATGGATTCTCCCTTCTGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGTAGTGCCTTACGATCCCAGCCCTTTGTGACTGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTCCAAATGgtaagctcacagaactaatgtggactgattttgggaccctggctagggcc Alignment from Spaln_aa2Genome AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG--- gacctgtgttattgcgcttggtgcccccccttttttttgtgtgttttcagAGCCCTGGTGCCCCACTAACCCAAATCCTATGCCAACTGCTGGATGGATTCTCCCTTCTGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGTAGTGCCTTACGATCCCAGCCCTTTGTGACTGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTCCAAATGgtaagctcacagaactaatgtggactgattttgggaccctggctagggcc Alignment from Spaln_nt2Genome AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCA---G gacctgtgttattgcgcttggtgcccccccttttttttgtgtgttttcagAGCCCTGGTGCCCCACTAACCCAAATCCTATGCCAACTGCTGGATGGATTCTCCCTTCTGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGTAGTGCCTTACGATCCCAGCCCTTTGTGACTGACCCACACCAGAACA---ACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTCCAAATGgtaagctcacagaactaatgtggactgattttgggaccctggctagggcc Alignment from Pairagon AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCA---G gacctgtgttattgcgcttggtgcccccccttttttttgtgtgttttcagAGCCCTGGTGCCCCACTAACCCAAATCCTATGCCAACTGCTGGATGGATTCTCCCTTCTGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGTAGTGCCTTACGATCCCAGCCCTTTGTGACTGACCCACACCAGAACA---ACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTCCAAATGgtaagctcacagaactaatgtggactgattttgggaccctggctagggcc Alignment from Exonerate_protein2genome AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG--- gacctgtgttattgcgcttggtgcccccccttttttttgtgtgttttcagAGCCCTGGTGCCCCACTAACCCAAATCCTATGCCAACTGCTGGATGGATTCTCCCTTCTGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGTAGTGCCTTACGATCCCAGCCCTTTGTGACTGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTCCAAATGgtaagctcacagaactaatgtggactgattttgggaccctggctagggcc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAGAAC gacctgtgttattgcgcttggtgcccccccttttttttgtgtgttttcagAGCCCTGGTGCCCCACTAACCCAAATCCTATGCCAACTGCTGGATGGATTCTCCCTTCTGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGTAGTGCCTTACGATCCCAGCCCTTTGTGACTGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTCCAAATGgtaagctcacagaactaatgtggactgattttgggaccctggctagggcc #### Hps1_ID8620_8 --> 0 - 1 Original Alignment GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAg aaatagggtgtactctctgtgacactctctcaccaatccggttctttcag------------AATTCC---CCGGAAGAGTATTTCACTCCCTCTCCTTCCCCAAGT------GGTCCAggtgagagaagcaggtgtgttgccctgttgtgtcacttagctaagttcaga Alignment from CESAR GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAg ctgtaagcaaaatagggtgtactcttctctcaccaatccggttctttcagAATTCC---------------CCGGAAGAGTATTTCACTCCCTCTCCTTCCCCAAGT------GGTCCAggtgagagaagcaggtgtgttgccctgttgtgtcacttagctaagttcaga Alignment from Spaln_aa2Genome GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAGGTA aaatagggtgtactctctgtgacactctctcaccaatccggttctttcagAATTCC---------------CCGGAAGAGTATTTCACTCCCTCTCCTTCCCCAAGTGGTCCAGGTGAGAGAAgcaggtgtgttgccctgttgtgtcacttagctaagttcaga Alignment from Spaln_nt2Genome AGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAG aaatagggtgtactctctgtgacactctctcaccaatccggttctttcagA--AT-TC---CCCGGAAGAGTATTTCACTCCCTCTCCTTCCCCAAGTG------GTCCAGgtgagagaagcaggtgtgttgccctgttgtgtcacttagctaagttcaga Alignment from Pairagon -------------------------------------------------------CCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAG AAATAGGGTGTACTCTCTGTGACACTCTCTCACCAATCCGGTTCTTTCAGAATTCCCCGGAAGAGTATTTCACTCCCTCTCCTTCCCCAAGTG------GTCCAGgtgagagaagcaggtgtgttgccctgttgtgtcacttagctaagttcaga Alignment from Exonerate_protein2genome ATC TCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAGGTAGCCT AAAtagggtgtactctctgtgacactctctcaccaatccggttctttcagAATTCCCCGGAAGAGTATTTCACTCCCTCTCCTTCCCCAAGTGGTCCAGGTGAGAGAAGCAGgtgtgttgccctgttgtgtcacttagctaagttcaga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise --------------------GACAGCATCTCC---------------------CTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAGGTAGCCT AAATAGGGTGTACTCTCTGTGACACTCTCTCACCAATCCGGTTCTTTCAGAATTCCCCGGAAGAGTATTTCACTCCCTCTCCTTCCCCAAGTGGTCCAGGTGAGAGAAGCAGgtgtgttgccctgttgtgtcacttagctaagttcaga #### Hps1_ID8621_7 --> 0 - 0 Original Alignment AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA gctatgctattctgctccatcattaaagctcttttctttctttgaaacag---CGTCCAAAGAGTAGCCAAAATATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAGACAgtgggtcctaggctgtaagcaaaatagggtgtactctctgtctttttttt Alignment from CESAR AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tgtgctatgctattctgctccatcaaagctcttttctttctttgaaacag---CGTCCAAAGAGTAGCCAAAATATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAGACAgtgggtcctaggctgtaagcaaaatagggtgtactctctgtgacactcta Alignment from Spaln_aa2Genome AGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA gctatgctattctgctccatcattaaagctcttttctttctttgaaacagCGTCCAAAGAGTAGCCAAAATATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAGACAgtgggtcctaggctgtaagcaaaatagggtgtactctctgtctttttttt Alignment from Spaln_nt2Genome AGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA gctatgctattctgctccatcattaaagctcttttctttctttgaaacagCGTCCAAAGAGTAGCCAAAATATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAGACAgtgggtcctaggctgtaagcaaaatagggtgtactctctgtctttttttt Alignment from Pairagon AGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA gctatgctattctgctccatcattaaagctcttttctttctttgaaacagcgtccaaagAGTAGCCAAAATATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAGACAgtgggtcctaggctgtaagcaaaatagggtgtactctctgtctttttttt Alignment from Exonerate_protein2genome AGCCCTCAGAGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA gctatgctattctgctccatcattaaagctcttttcttTCTTTGAAACAGCGTCCAAAGAGTAGCCAAAATATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAGACAgtgggtcctaggctgtaagcaaaatagggtgtactctctgtctttttttt Alignment from Exonerate_coding2genome AGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA gctatgctattctgctccatcattaaagctcttttctttctttgaaacagCGTCCAAAGAGTAGCCAAAATATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAGACAgtgggtcctaggctgtaagcaaaatagggtgtactctctgtctttttttt Alignment from GeneWise AGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA gctatgctattctgctccatcattaaagctcttttctttctttgaaacagCGTCCAAAGAGTAGCCAAAATATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGCCAGGGGTTGTAAGGAGACAgtgggtcctaggctgtaagcaaaatagggtgtactctctgtctttttttt #### Incenp_ID2605_14 --> 1 - 0 Original Alignment gGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttccctgcattgttggggactagcagaccaccccttccttctctgcacaggGAGATGCAAGAGAGAGAGAAGGCCTTGAGACTCCAAAAGGAACGACTTCAAAAG------------------------gtaagcgccttgcagacatgtattgctgcgatctagcgcgccgggactct Alignment from CESAR gGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttccctgcattgttggggactagcagaccaccccttccttctctgcacaggGAGATGCAAGAGAGAGAGAAGGCCTTGAGACTCCAAAAGGAACGACTTCAA------------------------AAGgtaagcgccttgcagacatgtattgctgcgatctagcgcgccgggactct Alignment from Spaln_aa2Genome GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAG ttccctgcattgttggggactagcagaccaccccttccttctctgcacagGGAGATGCAAGAGAGAGAGAAGGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGgtaagcgccttgcagacatgtattgctgcgatctagcgcgccgggactct Alignment from Spaln_nt2Genome GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAG ttccctgcattgttggggactagcagaccaccccttccttctctgcacagGGAGATGCAAGAGAGAGAGAAGGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGgtaagcgccttgcagacatgtattgctgcgatctagcgcgccgggactct Alignment from Pairagon GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAG ttccctgcattgttggggactagcagaccaccccttccttctctgcacagGGAGATGCAAGAGAGAGAGAAGGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGgtaagcgccttgcagacatgtattgctgcgatctagcgcgccgggactct Alignment from Exonerate_protein2genome GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGA ttccctgcattgttggggactagcagaccaccccttccttctctgcacagGGAGATGCAAGAGAGAGAGAAGGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGTAAGCGCCTTGCAGACATgtattgctgcgatctagcgcgccgggactct Alignment from Exonerate_coding2genome GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAG ttccctgcattgttggggactagcagaccaccccttccttctctgcacagGGAGATGCAAGAGAGAGAGAAGGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGgtaagcgccttgcagacatgtattgctgcgatctagcgcgccgggactct Alignment from GeneWise GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttccctgcattgttggggactagcagaccaccccttccttctctgcacagGGAGATGCAAGAGAGAGAGAAGGCCTTGAGACTCCAAAAGGAACGACTTCAA------------------------AAGgtaagcgccttgcagacatgtattgctgcgatctagcgcgccgggactct #### Incenp_ID2611_8 --> 1 - 0 Original Alignment gAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG--------- ggcagtgacatgtagactgatattctagacatggtgtccttgcaaagtaggAGGAAACGTAGTTACAAAAAGGCTATAAGTAAGCCCGATGAGGATCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTTCAGCC------CCACCCAACAAGTCAGTCCTGgtatgcgtctgctcatcttttatgccctaattttgcattctgtccaagcc Alignment from CESAR gAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG--------- ggcagtgacatgtagactgatattctagacatggtgtccttgcaaagtaggAGGAAACGTAGTTACAAAAAGGCTATAAGTAAGCCCGATGAGGATCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTTCAGCC------CCACCCAACAAGTCAGTCCTGgtatgcgtctgctcatcttttatgccctaattttgcattctgtccaagcc Alignment from Spaln_aa2Genome GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG ggcagtgacatgtagactgatattctagacatggtgtccttgcaaagtagGAGGAAACGTAGTTACAAAAAGGCTATAAGTAAGCCCGATGAGGATCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTTCAGCCCCA---CCCAACAAGTCAgtcctggtatgcgtctgctcatcttttatgccctaattttgcattctgtccaagcc Alignment from Spaln_nt2Genome GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAA ggcagtgacatgtagactgatattctagacatggtgtccttgcaaagtagGAGGAAACGTAGTTACAAAAAGGCTATAAGTAAGCCCGATGAGGATCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTT---CAGCC---CCACCCAACAAgtcagtcctggtatgcgtctgctcatcttttatgccctaattttgcattctgtccaagcc Alignment from Pairagon GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTT---CCCCACCCTGTCCAGCCAACAAG--------- ggcagtgacatgtagactgatattctagacatggtgtccttgcaaagtagGAGGAAACGTAGTTACAAAAAGGCTATAAGTAAGCCCGATGAGGATCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTTCAGCCCCAC---------CCAACAAGTCAGTCCTGgtatgcgtctgctcatcttttatgccctaattttgcattctgtccaagcc Alignment from Exonerate_protein2genome GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCC---CCACCCTGTCCAGCCAACAAG ggcagtgacatgtagactgatattctagacatggtgtccttgcaaagtagGAGGAAACGTAGTTACAAAAAGGCTATAAGTAAGCCCGATGAGGATCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTTCAGCCCCACCCAACAAGTCAGTCCTGgtatgcgtctgctcatcttttatgccctaattttgcattctgtccaagcc Alignment from Exonerate_coding2genome GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCC---CCACCCTGTCCAGCCAACAAG ggcagtgacatgtagactgatattctagacatggtgtccttgcaaagtagGAGGAAACGTAGTTACAAAAAGGCTATAAGTAAGCCCGATGAGGATCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTTCAGCCCCACCCAACAAGTCAGTCCTGgtatgcgtctgctcatcttttatgccctaattttgcattctgtccaagcc Alignment from GeneWise -AGGAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG ggcagtgacatgtagactgatattctagacatggtgtccttgcaaagTAGGAGGAAACGTAGTTACAAAAAGGCTATAAGTAAGCCCGATGAGGATCAGCTGGAAGATGAAGACCGTAAGCCATGTCAGAATAAAACACTTTCAGCCCCA---CCCAACAAGTCAgtcctggtatgcgtctgctcatcttttatgccctaattttgcattctgtccaagcc #### Kat5_ID1109_13 --> 1 - 0 Original Alignment t------------------------GAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtatggtctacacagatgtaaactgaacatgtctttacttacttcagtAAACCAAAGTTGAATTGGATCGAAGAGATTAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGgtaagtgggcacaattaacttgatgacaaaacttgcttatacttaaacgt Alignment from CESAR t------------------------GAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtatggtctacacagatgtaaactgaacatgtctttacttacttcagtAAACCAAAGTTGAATTGGATCGAAGAGATTAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGgtaagtgggcacaattaacttgatgacaaaacttgcttatacttaaacgt Alignment from Spaln_aa2Genome T------------------------GAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAA gtggtatggtctacacagatgtaaactgaacatgtctttacttacttcagTAAACCAAAGTTGAATTGGATCGAAGAGATTAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGgtaagtgggcacaattaacttgatgacaaaacttgcttatacttaaacgt Alignment from Spaln_nt2Genome GAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtatggtctacacagatgtaaactgaacatgtctttacttacttcagtaaaccaaagttgaattggatcgaagAGATTAGTGA-AATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGgtaagtgggcacaattaacttgatgacaaaacttgcttatacttaaacgt Alignment from Pairagon T------------------------GAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtatggtctacacagatgtaaactgaacatgtctttacttacttcagTAAACCAAAGTTGAATTGGATCGAAGAGATTAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGgtaagtgggcacaattaacttgatgacaaaacttgcttatacttaaacgt Alignment from Exonerate_protein2genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtatggtctacacagatgtaaactgaacatgtctttacttacttcagtaaaccaaagttgaattggatcgaAGAGATTAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGgtaagtgggcacaattaacttgatgacaaaacttgcttatacttaaacgt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ----------------------AATGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtatggtctacacagatgtaaactgaacatgtctttacttacttcagTAAACCAAAGTTGAATTGGATCGAAGAGATTAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGgtaagtgggcacaattaacttgatgacaaaacttgcttatacttaaacgt #### Kat5_ID1111_11 --> 0 - 1 Original Alignment GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTC---a agagttgcaattaccctccaacctgttccctgagtgtctgtgtcttctagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCCTACCAACGGCGTGGCTATGGTAGATTGCTTATTGAGTTCACAagtaggtctatactacctgcttatggtctgtagctaaatagatgagcttga Alignment from CESAR GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTC---a agagttgcaattaccctccaacctgttccctgagtgtctgtgtcttctagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCCTACCAACGGCGTGGCTATGGTAGATTGCTTATTGAGTTCACAagtaggtctatactacctgcttatggtctgtagctaaatagatgagcttga Alignment from Spaln_aa2Genome GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTC---A agagttgcaattaccctccaacctgttccctgagtgtctgtgtcttctagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCCTACCAACGGCGTGGCTATGGTAGATTGCTTATTGAGTTCACAAgtaggtctatactacctgcttatggtctgtagctaaatagatgagcttga Alignment from Spaln_nt2Genome GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA--- agagttgcaattaccctccaacctgttccctgagtgtctgtgtcttctagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCCTACCAACGGCGTGGCTATGGTAGATTGCTTATTGAGTTCACAAgtaggtctatactacctgcttatggtctgtagctaaatagatgagcttga Alignment from Pairagon GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA--- agagttgcaattaccctccaacctgttccctgagtgtctgtgtcttctagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCCTACCAACGGCGTGGCTATGGTAGATTGCTTATTGAGTTCACAAgtaggtctatactacctgcttatggtctgtagctaaatagatgagcttga Alignment from Exonerate_protein2genome GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTC---A agagttgcaattaccctccaacctgttccctgagtgtctgtgtcttctagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCCTACCAACGGCGTGGCTATGGTAGATTGCTTATTGAGTTCACAAgtaggtctatactacctgcttatggtctgtagctaaatagatgagcttga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCAGC- agagttgcaattaccctccaacctgttccctgagtgtctgtgtcttctagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCCTACCAACGGCGTGGCTATGGTAGATTGCTTATTGAGTTCACAAgtaggtctatactacctgcttatggtctgtagctaaatagatgagcttga #### Kat5_ID1114_8 --> 0 - 0 Original Alignment GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG--- gctcaccccagtactcacctgctaacaccagacctgcctttcatttccagGATCCTCAGGACAGCTCAGATGGGATACCAACAGCTCCACAAATGACAGGTAGTCTAGTATCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCTTAAGCCATGGTATTTCTCCCCATAT---CAAGTGCTCACTACCCTACCTATCCTCTACCTGTGTGAATCTTGCCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTTTAgtggggggtgacttaggcatcagcgtggtttagcactggttattggtgga Alignment from CESAR GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCAC---TTG gctcaccccagtactcacctgctaacaccagacctgcctttcatttccagGATCCTCAGGACAGCTCAGATGGGATACCAACAGCTCCACAAATGACAGGTAGTCTAGTATCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCTTAAGCCATGGTATTTCTCCCCATAT---CAAGTGCTCACTACCCTACCTATCCTCTACCTGTGTGAATCTTGCCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTTTAgtggggggtgacttaggcatcagcgtggtttagcactggttattggtgga Alignment from Spaln_aa2Genome GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG--- gctcaccccagtactcacctgctaacaccagacctgcctttcatttccagGATCCTCAGGACAGCTCAGATGGGATACCAACAGCTCCACAAATGACAGGTAGTCTAGTATCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCTTAAGCCATGGTATTTCTCCCCATAT---CAAGTGCTCACTACCCTACCTATCCTCTACCTGTGTGAATCTTGCCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTTTAgtggggggtgacttaggcatcagcgtggtttagcactggttattggtgga Alignment from Spaln_nt2Genome GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCAC---TTG gctcaccccagtactcacctgctaacaccagacctgcctttcatttccagGATCCTCAGGACAGCTCAGATGGGATACCAACAGCTCCACAAATGACAGGTAGTCTAGTATCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCTTAAGCCATGGTATTTCTCCCCATA---TCAAGTGCTCACTACCCTACCTATCCTCTACCTGTGTGAATCTTGCCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTTTAgtggggggtgacttaggcatcagcgtggtttagcactggttattggtgga Alignment from Pairagon GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTT------------------------------------------------------ gctcaccccagtactcacctgctaacaccagacctgcctttcatttccagGATCCTCAGGACAGCTCAGATGGGATACCAACAGCTCCACAAATGACAGGTAGTCTAGTATCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCTTAAGCCATGGTATTTCTCCCCATAT---CAAGTGCTCACTACCCTACCTATCCTCTACCTGTGTGAATCTTGCCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTTTAGTGGGGGGTGACTTAGGCATCAGCGTGGTTTAGCACTGGTTATTGGTGGA Alignment from Exonerate_protein2genome GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gctcaccccagtactcacctgctaacaccagacctgcctttcatttccagGATCCTCAGGACAGCTCAGATGGGATACCAACAGCTCCACAAATGACAGGTAGTCTAGTATCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCTTAAGCCATGGTATTTCTCCCCATAT---CAAGTGCTCACTACCCTACCTATCCTCTACCTGTGTGAATCTTGCCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTttagtggggggtgacttaggcatcagcgtggtttagcactggttattggtgga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTGACC gctcaccccagtactcacctgctaacaccagacctgcctttcatttccagGATCCTCAGGACAGCTCAGATGGGATACCAACAGCTCCACAAATGACAGGTAGTCTAGTATCTGACCAGGGGCATGATGACATTGTCACCCAAATGAAGAATATTGAGTGCATTGAACTTGGCAGGCATCACCTTAAGCCATGGTATTTCTCCCCATAT---CAAGTGCTCACTACCCTACCTATCCTCTACCTGTGTGAATCTTGCCTGAAGTATGGCCATAGTCTCAAGTGCCTTAAGCGCCACCTTTTAgtggggggtgacttaggcatcagcgtggtttagcactggttattggtgga #### Kat5_ID1115_7 --> 0 - 0 Original Alignment AATGGGTCAGCCCGTAGG---GCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG--- atctcatgcatgctgtaggaccttctcaatagtttattctgtctttccagAATGGGTCAACTTGTAGAGCTGCTGTAGCAGCTCAGGCTGGGTGGAAATGTAAATCTAACTGCTTAGGCACTGACGAGGATgtacctccaggcacccaagcagggctggacttaaatttaatttctgattg Alignment from CESAR AATGGGTCAGCCCGTAGG---GCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG--- atctcatgcatgctgtaggaccttctcaatagtttattctgtctttccagAATGGGTCAACTTGTAGAGCTGCTGTAGCAGCTCAGGCTGGGTGGAAATGTAAATCTAACTGCTTAGGCACTGACGAGGATgtacctccaggcacccaagcagggctggacttaaatttaatttctgattg Alignment from Spaln_aa2Genome AATGGGTCAGCCCGTAGG---GCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG--- atctcatgcatgctgtaggaccttctcaatagtttattctgtctttccagAATGGGTCAACTTGTAGAGCTGCTGTAGCAGCTCAGGCTGGGTGGAAATGTAAATCTAACTGCTTAGGCACTGACGAGGATgtacctccaggcacccaagcagggctggacttaaatttaatttctgattg Alignment from Spaln_nt2Genome AATGGGTCAGCCCGTAGGGCAG---TGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAGGAT atctcatgcatgctgtaggaccttctcaatagtttattctgtctttccagAATGGGTCAACTTGTAGAGCTGCTGTAGCAGCTCAGGCTGGGTGGAAATGTAAATCTAACTGCTTAGGCACTGACGAGGATgtacctccaggcacccaagcagggctggacttaaatttaatttctgattg Alignment from Pairagon AATGGGTCAGCCCGTAGG---GCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG--- atctcatgcatgctgtaggaccttctcaatagtttattctgtctttccagAATGGGTCAACTTGTAGAGCTGCTGTAGCAGCTCAGGCTGGGTGGAAATGTAAATCTAACTGCTTAGGCACTGACGAGGATgtacctccaggcacccaagcagggctggacttaaatttaatttctgattg Alignment from Exonerate_protein2genome AATGGGTCA---GCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG atctcatgcatgctgtaggaccttctcaatagtttattctgtctttccagAATGGGTCAACTTGTAGAGCTGCTGTAGCAGCTCAGGCTGGGTGGAAATGTAAATCTAACTGCTTAGGCACTGACGAGgatgtacctccaggcacccaagcagggctggacttaaatttaatttctgattg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AATGGGTCAGCC---CGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAGGAT atctcatgcatgctgtaggaccttctcaatagtttattctgtctttccagAATGGGTCAACTTGTAGAGCTGCTGTAGCAGCTCAGGCTGGGTGGAAATGTAAATCTAACTGCTTAGGCACTGACGAGGATgtacctccaggcacccaagcagggctggacttaaatttaatttctgattg #### Kat5_ID1116_6 --> 0 - 0 Original Alignment AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG ataccagctcctgtgtcttctagcctctatgtccctgctttggcactcag---CGGAAAATTGAGGTAGTTTCGCCAACCAGTTTGGTGCCTAGTGAGACAGCTGCAGTCTCTGTCTTCCCTCAGgtgagtctccaactgcttccttagagttaggtcagtttggtctttacttt Alignment from CESAR AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG ctcataccagctcctgtgtcttctatctatgtccctgctttggcactcag---CGGAAAATTGAGGTAGTTTCGCCAACCAGTTTGGTGCCTAGTGAGACAGCTGCAGTCTCTGTCTTCCCTCAGgtgagtctccaactgcttccttagagttaggtcagtttggtctttacttt Alignment from Spaln_aa2Genome AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG ataccagctcctgtgtcttctagcctctatgtccctgctttggcactcag---CGGAAAATTGAGGTAGTTTCGCCAACCAGTTTGGTGCCTAGTGAGACAGCTGCAGTCTCTGTCTTCCCTCAGgtgagtctccaactgcttccttagagttaggtcagtttggtctttacttt Alignment from Spaln_nt2Genome AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG ataccagctcctgtgtcttctagcctctatgtccctgctttggcactcag---CGGAAAATTGAGGTAGTTTCGCCAACCAGTTTGGTGCCTAGTGAGACAGCTGCAGTCTCTGTCTTCCCTCAGgtgagtctccaactgcttccttagagttaggtcagtttggtctttacttt Alignment from Pairagon AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG ataccagctcctgtgtcttctagcctctatgtccctgctttggcactcag---CGGAAAATTGAGGTAGTTTCGCCAACCAGTTTGGTGCCTAGTGAGACAGCTGCAGTCTCTGTCTTCCCTCAGgtgagtctccaactgcttccttagagttaggtcagtttggtctttacttt Alignment from Exonerate_protein2genome CGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG ataccagctcctgtgtcttctagcctctatgtccctgctttggcactcagCGGAAAATTGAGGTAGTTTCGCCAACCAGTTTGGTGCCTAGTGAGACAGCTGCAGTCTCTGTCTTCCCTCAGgtgagtctccaactgcttccttagagttaggtcagtttggtctttacttt Alignment from Exonerate_coding2genome AACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAGAATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAGG ATACCAGCTCCTGTGTCTTCTAGCCTCTATGTCCCTGCTTTGGCACTCAGCGGAAAATTGAGGTAGTTTCGCCAACCAGTTTGGTGCCTAGTGAGACAGCTGCAGTCTCTGTCTTCCCTCAGgtgagtctccaactgcttccttagagttaggtcagtttggtctttacttt Alignment from GeneWise AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG ataccagctcctgtgtcttctagcctctatgtccctgctttggcactcagCGG---AAAATTGAGGTAGTTTCGCCAACCAGTTTGGTGCCTAGTGAGACAGCTGCAGTCTCTGTCTTCCCTCAGgtgagtctccaactgcttccttagagttaggtcagtttggtctttacttt #### Kazald1_ID9301_3 --> 0 - 1 Original Alignment TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAg ttattgcccacagagttatgggtcctttttttcttaaaaattaattttag------GGTGGACCACAAGAATTTAAAGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACTTACCGCTGTCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCAGCAACTCTGATAGTACTTACACCAggtgagtattaattgtgggtagcagcatgtggcaggagtcatattttaaga Alignment from CESAR TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAg acagggttattgcccacagagttattttttttcttaaaaattaattttag------GGTGGACCACAAGAATTTAAAGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACTTACCGCTGTCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCAGCAACTCTGATAGTACTTACACCAggtgagtattaattgtgggtagcagcatgtggcaggagtcatattttaaga Alignment from Spaln_aa2Genome GGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG ttattgcccacagagttatgggtcctttttttcttaaaaattaattttagGGTGGACCACAAGAATTTAAAGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACTTACCGCTGTCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCAGCAACTCTGATAGTACTTACACCAGgtgagtattaattgtgggtagcagcatgtggcaggagtcatattttaaga Alignment from Spaln_nt2Genome GGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG ttattgcccacagagttatgggtcctttttttcttaaaaattaattttagGGTGGACCACAAGAATTTAAAGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACTTACCGCTGTCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCAGCAACTCTGATAGTACTTACACCAGgtgagtattaattgtgggtagcagcatgtggcaggagtcatattttaaga Alignment from Pairagon --------------------------------------------TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG TTATTGCCCACAGAGTTATGGGTCCTTTTTTTCTTAAAAATTAATTTTAGGGTGGACCACAAGAATTTAAAGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACTTACCGCTGTCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCAGCAACTCTGATAGTACTTACACCAGgtgagtattaattgtgggtagcagcatgtggcaggagtcatattttaaga Alignment from Exonerate_protein2genome GGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG ttattgcccacagagttatgggtcctttttttcttaaaaattaattttagGGTGGACCACAAGAATTTAAAGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACTTACCGCTGTCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCAGCAACTCTGATAGTACTTACACCAGgtgagtattaattgtgggtagcagcatgtggcaggagtcatattttaaga Alignment from Exonerate_coding2genome GGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG ttattgcccacagagttatgggtcctttttttcttaaaaattaattttagGGTGGACCACAAGAATTTAAAGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACTTACCGCTGTCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCAGCAACTCTGATAGTACTTACACCAGgtgagtattaattgtgggtagcagcatgtggcaggagtcatattttaaga Alignment from GeneWise GGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG ttattgcccacagagttatgggtcctttttttcttaaaaattaattttagGGTGGACCACAAGAATTTAAAGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACTTACCGCTGTCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCAGCAACTCTGATAGTACTTACACCAGgtgagtattaattgtgggtagcagcatgtggcaggagtcatattttaaga #### Kcnip2_ID9607_5 --> 0 - 1 Original Alignment GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCCAAGGA------g aagtgccaatttcatgattggttatattatgttcaaactaatgtccccagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTTTATTCTCAGTTCTTTCCACAAGAAAATATGggtgagacacaggtgtagcgggaagatataagtacagtagagccaagggaa Alignment from CESAR GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCCAAGGA------g aagtgccaatttcatgattggttatattatgttcaaactaatgtccccagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTTTATTCTCAGTTCTTTCCACAAGAAAATATGggtgagacacaggtgtagcgggaagatataagtacagtagagccaagggaa Alignment from Spaln_aa2Genome GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCCAAGGA------G aagtgccaatttcatgattggttatattatgttcaaactaatgtccccagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTTTATTCTCAGTTCTTTCCACAAGAAAATATGGgtgagacacaggtgtagcgggaagatataagtacagtagagccaagggaa Alignment from Spaln_nt2Genome GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCCAAGGA------G aagtgccaatttcatgattggttatattatgttcaaactaatgtccccagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTTTATTCTCAGTTCTTTCCACAAGAAAATATGGgtgagacacaggtgtagcgggaagatataagtacagtagagccaagggaa Alignment from Pairagon GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCCAAGG---------------------------------------------------------- aagtgccaatttcatgattggttatattatgttcaaactaatgtccccagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTTTATTCTCAGTTCTTTCCACAAGAAAATATGGGTGAGACACAGGTGTAGCGGGAAGATATAAGTACAGTAGAGCCAAGGGAA Alignment from Exonerate_protein2genome GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCCAAGGAG aagtgccaatttcatgattggttatattatgttcaaactaatgtccccagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTTTATTCTCAGTTCTTTCCACAAGAAAatatgggtgagacacaggtgtagcgggaagatataagtacagtagagccaagggaa Alignment from Exonerate_coding2genome GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCCAAGGAG aagtgccaatttcatgattggttatattatgttcaaactaatgtccccagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTTTATTCTCAGTTCTTTCCACAAGAAAatatgggtgagacacaggtgtagcgggaagatataagtacagtagagccaagggaa Alignment from GeneWise GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCCAAGGAGACTCC- aagtgccaatttcatgattggttatattatgttcaaactaatgtccccagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTTTATTCTCAGTTCTTTCCACAAGAAAATATGGgtgagacacaggtgtagcgggaagatataagtacagtagagccaagggaa #### Kdm2a_ID518_3 --> 2 - 2 Original Alignment atTTTAATGTAGAGTATATCCAGCGGGGTGGCTTGAGAGACCCTCTCATTTTCAAGAATTCTGATGGACTTGGAATAaa atgatcaccgatctcacagaagtgtgttgtttctgtttttggttttcaagatTTTAATGATGAATATCTACAACAGGGTGGGCTGAGACACCACCTTATCTTTAAGAATGCAGATGGA---------aggtctgtccccagtggacactgggccataatcctatgataagtgggatgta Alignment from CESAR atTTTAATGTAGAGTATATCCAGCGGGGTGGCTTGAGAGACCCTCTCATTTTCAAGAATTCTGATGGACTTGGAATAaa atgatcaccgatctcacagaagtgtgttgtttctgtttttggttttcaagatTTTAATGATGAATATCTACAACAGGGTGGGCTGAGACACCACCTTATCTTTAAGAATGCAGATGGA---------aggtctgtccccagtggacactgggccataatcctatgataagtgggatgta Alignment from Spaln_aa2Genome ATTTTAATGTAGAGTATATCCAGCGGGGTGGCTTGAGAGACCCTCTCATTTTCAAGAATTCTGATGGACT atgatcaccgatctcacagaagtgtgttgtttctgtttttggttttcaagATTTTAATGATGAATATCTACAACAGGGTGGGCTGAGACACCACCTTATCTTTAAGAATGCAGATGGAAGgtctgtccccagtggacactgggccataatcctatgataagtgggatgta Alignment from Spaln_nt2Genome ATTTTAATGTAGAGTATATCCAGCGGGGTGGCTTGAGAGACCCTCTCATTTTCAAGAATTCTGATGGACT atgatcaccgatctcacagaagtgtgttgtttctgtttttggttttcaagATTTTAATGATGAATATCTACAACAGGGTGGGCTGAGACACCACCTTATCTTTAAGAATGCAGATGGAAGgtctgtccccagtggacactgggccataatcctatgataagtgggatgta Alignment from Pairagon ATTTTAATGTAGAGTATATCCAGCGGGGTGGCTTGAGAGACCCTCTCATTTTCAAGAATTCTGATGGACTTGGAATAAA atgatcaccgatctcacagaagtgtgttgtttctgtttttggttttcaagATTTTAATGATGAATATCTACAACAGGGTGGGCTGAGACACCACCTTATCTTTAAGAATGCAGATGG---------AAGgtctgtccccagtggacactgggccataatcctatgataagtgggatgta Alignment from Exonerate_protein2genome ATTTTAATGTAGAGTATATCCAGCGGGGTGGCTTGAGAGACCCTCTCATTTTCAAGAATTCTGATGGACTTGGAATAAA atgatcaccgatctcacagaagtgtgttgtttctgtttttggttttcaagATTTTAATGATGAATATCTACAACAGGGTGGGCTGAGACACCACCTTATCTTTAAGAATGCAGATGGAAGGTCTGTCCCcagtggacactgggccataatcctatgataagtgggatgta Alignment from Exonerate_coding2genome ATTTTAATGTAGAGTATATCCAGCGGGGTGGCTTGAGAGACCCTCTCATTTTCAAGAATTCTGATGGACTTGGAATAAA atgatcaccgatctcacagaagtgtgttgtttctgtttttggttttcaagATTTTAATGATGAATATCTACAACAGGGTGGGCTGAGACACCACCTTATCTTTAAGAATGCAGATGGAAGGTCTGTCCCcagtggacactgggccataatcctatgataagtgggatgta Alignment from GeneWise ATTTTAATGTAGAGTATATCCAGCGGGGTGGCTTGAGAGACCCTCTCATTTTCAAGAATTCTGATGGACT atgatcaccgatctcacagaagtgtgttgtttctgtttttggttttcaagATTTTAATGATGAATATCTACAACAGGGTGGGCTGAGACACCACCTTATCTTTAAGAATGCAGATGGAAGgtctgtccccagtggacactgggccataatcctatgataagtgggatgta #### Kif11_ID7318_8 --> 0 - 0 Original Alignment GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG--------- ttgaactgtggaagctgcagctagaccaaatgtgaccactgcttttccagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAACCTCCAGATgtatgtcaagtagtagccatgacacttcggtggcctcttcagccattgtg Alignment from CESAR GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG--------- ttgaactgtggaagctgcagctagaccaaatgtgaccactgcttttccagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAACCTCCAGATgtatgtcaagtagtagccatgacacttcggtggcctcttcagccattgtg Alignment from Spaln_aa2Genome GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG--------- ttgaactgtggaagctgcagctagaccaaatgtgaccactgcttttccagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAACCTCCAGATgtatgtcaagtagtagccatgacacttcggtggcctcttcagccattgtg Alignment from Spaln_nt2Genome GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG--------- ttgaactgtggaagctgcagctagaccaaatgtgaccactgcttttccagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAACCTCCAGATgtatgtcaagtagtagccatgacacttcggtggcctcttcagccattgtg Alignment from Pairagon GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG--------- ttgaactgtggaagctgcagctagaccaaatgtgaccactgcttttccagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAACCTCCAGATgtatgtcaagtagtagccatgacacttcggtggcctcttcagccattgtg Alignment from Exonerate_protein2genome GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAGG ttgaactgtggaagctgcagctagaccaaatgtgaccactgcttttccagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAACctccagatgtatgtcaagtagtagccatgacacttcggtggcctcttcagccattgtg Alignment from Exonerate_coding2genome GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAGG ttgaactgtggaagctgcagctagaccaaatgtgaccactgcttttccagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAACctccagatgtatgtcaagtagtagccatgacacttcggtggcctcttcagccattgtg Alignment from GeneWise GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG--------- ttgaactgtggaagctgcagctagaccaaatgtgaccactgcttttccagGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTCAAGAGAGCACGCAAAGCTGGAAATATCAACCAATCTCTCTTAACTCTGGGAAGAGTAATTACTGCACTCTTGGAGAGAACACCCCATATTCCCTACCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCGTCTTTCAATCTTGAACCTCCAGATgtatgtcaagtagtagccatgacacttcggtggcctcttcagccattgtg #### Kif20b_ID6998_3 --> 0 - 0 Original Alignment GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTA---AGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG ctgactataaacacagtctctcactagagtccatgttcctctctgttcag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTA---CAGGAATTTAGCTTT------gtaagtgcccgggtaagtatggtggattgaccacattgaagcctctatca Alignment from CESAR GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTA---AGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG ctgactataaacacagtctctcactagagtccatgttcctctctgttcag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTA---CAGGAATTTAGCTTT------gtaagtgcccgggtaagtatggtggattgaccacattgaagcct Alignment from Spaln_aa2Genome GTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCAC---TTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG ctgactataaacacagtctctcactagagtccatgttcctctctgttcagGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTA---CAGGAATTTAGCTTTGTAAGTgcccgggtaagtatggtggattgaccacattgaagcctctatca Alignment from Spaln_nt2Genome GTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTA---AGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTT ctgactataaacacagtctctcactagagtccatgttcctctctgttcagGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGT---ACAGGAATTTAGCTTTgtaagtgcccgggtaagtatggtggattgaccacattgaagcctctatca Alignment from Pairagon GTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCAC---TTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTT ctgactataaacacagtctctcactagagtccatgttcctctctgttcagGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGT---ACAGGAATTTAGCTTTgtaagtgcccgggtaagtatggtggattgaccacattgaagcctctatca Alignment from Exonerate_protein2genome GTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCAC---TTAAGTGAGAAGAGCTCTGGACAGGTGGCACAG---AAATTCAGTTTTTCTAAG ctgactataaacacagtctctcactagagtccatgttcctctctgttcagGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACAGGAATTTAGCTTTGTAAGTGCCCGGgtaagtatggtggattgaccacattgaagcctctatca Alignment from Exonerate_coding2genome GTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCAC---TTAAGTGAGAAGAGCTCTGGACAGGTGGCACAG---AAATTCAGTTTTTCTAAG ctgactataaacacagtctctcactagagtccatgttcctctctgttcagGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACAGGAATTTAGCTTTGTAAGTGCCCGGgtaagtatggtggattgaccacattgaagcctctatca Alignment from GeneWise ---CAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCAC---TTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTT------TCTAAG ctgactataaacacagtctctcactagagtccatgttcctctctgttcagGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCGCAGAGTATGCTTGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTA---CAGGAATTTAGCTTTGTAAGTGCCCGGgtaagtatggtggattgaccacattgaagcctctatca #### Kif20b_ID7004_9 --> 1 - 2 Original Alignment tCACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCTGAAATACCTCGTGTAACACGAGTTAGT------ga ttatagttgcatggaaatcttatatttgttctgtcctcttggtcctgcagtCATAGCATATTCACTATTAGGCTATTGCAAATAGAAGATTCTGAGATACCTCGTGTTACACGAGTTAGTATTTGTgagtgagtgggttaattctgaaagctgcgggtctttttggaacaacagtctt Alignment from CESAR tCACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCTGAAATACCTCGTGTAACACGAGTTAGT------ga ttatagttgcatggaaatcttatatttgttctgtcctcttggtcctgcagtCATAGCATATTCACTATTAGGCTATTGCAAATAGAAGATTCTGAGATACCTCGTGTTACACGAGTTAGTATTTGTgagtgagtgggttaattctgaaagctgcgggtctttttggaacaacagtctt Alignment from Spaln_aa2Genome TCACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCTGAAATACCTCGTGTAACACGAGTTAGTGAA----- ttatagttgcatggaaatcttatatttgttctgtcctcttggtcctgcagTCATAGCATATTCACTATTAGGCTATTGCAAATAGAAGATTCTGAGATACCTCGTGTTACACGAGTTAGTATTTGTGAgtgagtgggttaattctgaaagctgcgggtctttttggaacaacagtctt Alignment from Spaln_nt2Genome TCACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCTGAAATACCTCGTGTAACACGAGTTAGT------GA ttatagttgcatggaaatcttatatttgttctgtcctcttggtcctgcagTCATAGCATATTCACTATTAGGCTATTGCAAATAGAAGATTCTGAGATACCTCGTGTTACACGAGTTAGTATTTGTGAgtgagtgggttaattctgaaagctgcgggtctttttggaacaacagtctt Alignment from Pairagon TCACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCTGAAATACCTCGTGTAACACGAGTTA------GTGA ttatagttgcatggaaatcttatatttgttctgtcctcttggtcctgcagTCATAGCATATTCACTATTAGGCTATTGCAAATAGAAGATTCTGAGATACCTCGTGTTACACGAGTTAGTATTTGTGAgtgagtgggttaattctgaaagctgcgggtctttttggaacaacagtctt Alignment from Exonerate_protein2genome TCACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCTGAAATACCTCGTGTAACACGAGTTA ttatagttgcatggaaatcttatatttgttctgtcctcttggtcctgcagTCATAGCATATTCACTATTAGGCTATTGCAAATAGAAGATTCTGAGATACCTCGTGTTACACGAGTTAgtatttgtgagtgagtgggttaattctgaaagctgcgggtctttttggaacaacagtctt Alignment from Exonerate_coding2genome TCACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCTGAAATACCTCGTGTAACACGAGTTA ttatagttgcatggaaatcttatatttgttctgtcctcttggtcctgcagTCATAGCATATTCACTATTAGGCTATTGCAAATAGAAGATTCTGAGATACCTCGTGTTACACGAGTTAgtatttgtgagtgagtgggttaattctgaaagctgcgggtctttttggaacaacagtctt Alignment from GeneWise TCACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCTGAAATACCTCGTGTAACACGAGTTAGT------GA ttatagttgcatggaaatcttatatttgttctgtcctcttggtcctgcagTCATAGCATATTCACTATTAGGCTATTGCAAATAGAAGATTCTGAGATACCTCGTGTTACACGAGTTAGTATTTGTGAgtgagtgggttaattctgaaagctgcgggtctttttggaacaacagtctt #### Kif20b_ID7008_13 --> 0 - 2 Original Alignment ------GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTaa ataaaatgtaatcacagatacaacttggtccagttaagtttacttctcagCCCGGAGAACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTGTCGTTAGAACTTAAGATCCGAGAAGACGTTACACAAAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGATTTTaagtgagttatgtctaaatcattgtcatgatagcacaaacatcggcgtgcaa Alignment from CESAR ------GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTaa ataaaatgtaatcacagatacaacttggtccagttaagtttacttctcagCCCGGAGAACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTGTCGTTAGAACTTAAGATCCGAGAAGACGTTACACAAAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGATTTTaagtgagttatgtctaaatcattgtcatgatagcacaaacatcggcgtgcaa Alignment from Spaln_aa2Genome GAACTGTTGGAT------TTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA ataaaatgtaatcacagatacaacttggtccagttaagtttacttctcagCCCGGAGAACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTGTCGTTAGAACTTAAGATCCGAGAAGACGTTACACAAAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGATTTTAAgtgagttatgtctaaatcattgtcatgatagcacaaacatcggcgtgcaa Alignment from Spaln_nt2Genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA ataaaatgtaatcacagatacaacttggtccagttaagtttacttctcagcccggag-AACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTGTCGTTAGAACTTAAGATCCGAGAAGACGTTACACAAAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGATTTTAAgtgagttatgtctaaatcattgtcatgatagcacaaacatcggcgtgcaa Alignment from Pairagon ------GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA ataaaatgtaatcacagatacaacttggtccagttaagtttacttctcagCCCGGAGAACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTGTCGTTAGAACTTAAGATCCGAGAAGACGTTACACAAAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGATTTTAAgtgagttatgtctaaatcattgtcatgatagcacaaacatcggcgtgcaa Alignment from Exonerate_protein2genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA ataaaatgtaatcacagatacaacttggtccagttaagtttacttctcagcccggaGAACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTGTCGTTAGAACTTAAGATCCGAGAAGACGTTACACAAAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGATTTTAAgtgagttatgtctaaatcattgtcatgatagcacaaacatcggcgtgcaa Alignment from Exonerate_coding2genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA ataaaatgtaatcacagatacaacttggtccagttaagtttacttctcagcccggaGAACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTGTCGTTAGAACTTAAGATCCGAGAAGACGTTACACAAAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGATTTTAAgtgagttatgtctaaatcattgtcatgatagcacaaacatcggcgtgcaa Alignment from GeneWise ------GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA ataaaatgtaatcacagatacaacttggtccagttaagtttacttctcagCCCGGAGAACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTGTCGTTAGAACTTAAGATCCGAGAAGACGTTACACAAAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGATTTTAAgtgagttatgtctaaatcattgtcatgatagcacaaacatcggcgtgcaa #### Klc2_ID853_13 --> 0 - 2 Original Alignment GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTag tgtccaatctattttgagcctgtttttcatgaattgatctgtctttttag------AGTGGTTCCCTACAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCAGCAGTGAAATGCTTGTAAGGAAATTGCAGGGGGGTGGGCCACAGGAGCCCTCTAATTCTaggtaattcctcacctctctcatccatatcattaatgatgagtagcagggca Alignment from CESAR GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTag agagcgtaaccaatctattttgagcttcatgaattgatctgtctttttag------AGTGGTTCCCTACAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCAGCAGTGAAATGCTTGTAAGGAAATTGCAGGGGGGTGGGCCACAGGAGCCCTCTAATTCTaggtaattcctcacctctctcatccatatcattaatgatgagtagcagggca Alignment from Spaln_aa2Genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG tgtccaatctattttgagcctgtttttcatgaattgatctgtctttttag------AGTGGTTCCCTACAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCAGCAGTGAAATGCTTGTAAGGAAATTGCAGGGGGGTGGGCCACAGGAGCCCTCTAATTCTAGgtaattcctcacctctctcatccatatcattaatgatgagtagcagggca Alignment from Spaln_nt2Genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG tgtccaatctattttgagcctgtttttcatgaattgatctgtctttttag------AGTGGTTCCCTACAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCAGCAGTGAAATGCTTGTAAGGAAATTGCAGGGGGGTGGGCCACAGGAGCCCTCTAATTCTAGgtaattcctcacctctctcatccatatcattaatgatgagtagcagggca Alignment from Pairagon --------------------------------------------------AGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG TGTCCAATCTATTTTGAGCCTGTTTTTCATGAATTGATCTGTCTTTTTAGAGTGGTTCCCTACAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCAGCAGTGAAATGCTTGTAAGGAAATTGCAGGGGGGTGGGCCACAGGAGCCCTCTAATTCTAGgtaattcctcacctctctcatccatatcattaatgatgagtagcagggca Alignment from Exonerate_protein2genome AGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG tgtccaatctattttgagcctgtttttcatgaattgatctgtctttttagAGTGGTTCCCTACAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCAGCAGTGAAATGCTTGTAAGGAAATTGCAGGGGGGTGGGCCACAGGAGCCCTCTAATTCTAGgtaattcctcacctctctcatccatatcattaatgatgagtagcagggca Alignment from Exonerate_coding2genome tgtccaatctattttgagcctgtttttcatgaattgatctgtctttttagagtggttccctacagtgcagtggttcttttgggaaactccgagatgctctaagacgcagcagtgaaatgcttgtaaggaaattgcaggggggtgggccacaggagccctctaattctaggtaattcctcacctctctcatccatatcattaatgatgagtagcagggca Alignment from GeneWise AGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG tgtccaatctattttgagcctgtttttcatgaattgatctgtctttttagAGTGGTTCCCTACAGTGCAGTGGTTCTTTTGGGAAACTCCGAGATGCTCTAAGACGCAGCAGTGAAATGCTTGTAAGGAAATTGCAGGGGGGTGGGCCACAGGAGCCCTCTAATTCTAGgtaattcctcacctctctcatccatatcattaatgatgagtagcagggca #### Klc2_ID855_11 --> 1 - 0 Original Alignment t---CCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCA---CACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG cttggaggggaagccgggaattttcaatattctaactttcttttgaaaagtAATCCTACGGTCAATACCAGATTGCGAAGCTGGGGTACCCTGTACTGGCATGAAGGCAAACTGGATGCTACACAACACACACTGAAAGATTGTTCAAGCCACAGTTGCAAACAGgtgagtctttcatcactggggacagataatagggccacattcttgtgtat Alignment from CESAR t---CCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCA---CACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG cttggaggggaagccgggaattttcaatattctaactttcttttgaaaagtAATCCTACGGTCAATACCAGATTGCGAAGCTGGGGTACCCTGTACTGGCATGAAGGCAAACTGGATGCTACACAACACACACTGAAAGATTGTTCAAGCCACAGTTGCAAACAGgtgagtctttcatcactggggacagataatagggccacattcttgtgtat Alignment from Spaln_aa2Genome T---CCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCA---CACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACA cttggaggggaagccgggaattttcaatattctaactttcttttgaaaagTAATCCTACGGTCAATACCAGATTGCGAAGCTGGGGTACCCTGTACTGGCATGAAGGCAAACTGGATGCTACACAACACACACTGAAAGATTGTTCAAGCCACAGTTGCAAACAGgtgagtctttcatcactggggacagataatagggccacattcttgtgtat Alignment from Spaln_nt2Genome T---CCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCACA---CACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG cttggaggggaagccgggaattttcaatattctaactttcttttgaaaagTAATCCTACGGTCAATACCAGATTGCGAAGCTGGGGTACCCTGTACTGGCATGAAGGCAAACTGGATGCTACACAACACACACTGAAAGATTGTTCAAGCCACAGTTGCAAACAGgtgagtctttcatcactggggacagataatagggccacattcttgtgtat Alignment from Pairagon -----------------------------------------------------TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGC---ACACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG CTTGGAGGGGAAGCCGGGAATTTTCAATATTCTAACTTTCTTTTGAAAAGTAATCCTACGGTCAATACCAGATTGCGAAGCTGGGGTACCCTGTACTGGCATGAAGGCAAACTGGATGCTACACAACACACACTGAAAGATTGTTCAAGCCACAGTTGCAAACAGgtgagtctttcatcactggggacagataatagggccacattcttgtgtat Alignment from Exonerate_protein2genome TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCA---CACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG cttggaggggaagccgggaattttcaatattctaactttcttttgaaaagtaaTCCTACGGTCAATACCAGATTGCGAAGCTGGGGTACCCTGTACTGGCATGAAGGCAAACTGGATGCTACACAACACACACTGAAAGATTGTTCAAGCCACAGTTGCAAACAGgtgagtctttcatcactggggacagataatagggccacattcttgtgtat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise -AGTCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCA---CACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG cttggaggggaagccgggaattttcaatattctaactttcttttgaaaagTAATCCTACGGTCAATACCAGATTGCGAAGCTGGGGTACCCTGTACTGGCATGAAGGCAAACTGGATGCTACACAACACACACTGAAAGATTGTTCAAGCCACAGTTGCAAACAGgtgagtctttcatcactggggacagataatagggccacattcttgtgtat #### Klc2_ID863_3 --> 0 - 1 Original Alignment ---------GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAg ctttatgagcattcaatgctagaaggtgctttgttgcttctcttcttcagATGAAGGCAAAAGAGAAG------GTCCCCAAAGACTCCCTTGATGATCTGTTTCCCAATGAAGATGAACAGAGATCAggtaagcacggtaaattaatcatggtgagtacagcttgttaggagtttgca Alignment from CESAR ---GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAg ctttatgagcattcaatgctagaaggtgctttgttgcttctcttcttcagATGAAGGCAAAAGAGAAGGTCCCCAAAGACTCCCTTGATGATCTGTTTCCCAATGAAGATGAACAGAGATCAggtaagcacggtaaattaatcatggtgagtacagcttgttaggagtttgca Alignment from Spaln_aa2Genome ---GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCA ctttatgagcattcaatgctagaaggtgctttgttgcttctcttcttcagATGAAGGCAAAAGAGAAGGTCCCCAAAGACTCCCTTGATGATCTGTTTCCCAATGAAGATGAACAGAGATCAGgtaagcacggtaaattaatcatggtgagtacagcttgttaggagtttgca Alignment from Spaln_nt2Genome GAGGAG---AAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG ctttatgagcattcaatgctagaaggtgctttgttgcttctcttcttcagATGAAGGCAAAAGAGAAGGTCCCCAAAGACTCCCTTGATGATCTGTTTCCCAATGAAGATGAACAGAGATCAGgtaagcacggtaaattaatcatggtgagtacagcttgttaggagtttgca Alignment from Pairagon ------------------------------------------------------------AGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG CTTTATGAGCATTCAATGCTAGAAGGTGCTTTGTTGCTTCTCTTCTTCAGATGAAGGCAAAAGAGAAG------GTCCCCAAAGACTCCCTTGATGATCTGTTTCCCAATGAAGATGAACAGAGATCAGgtaagcacggtaaattaatcatggtgagtacagcttgttaggagtttgca Alignment from Exonerate_protein2genome ---GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG ctttatgagcattcaatgctagaaggtgctttgttgcttctcttcttcagATGAAGGCAAAAGAGAAGGTCCCCAAAGACTCCCTTGATGATCTGTTTCCCAATGAAGATGAACAGAGATCAGgtaagcacggtaaattaatcatggtgagtacagcttgttaggagtttgca Alignment from Exonerate_coding2genome ---GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG ctttatgagcattcaatgctagaaggtgctttgttgcttctcttcttcagATGAAGGCAAAAGAGAAGGTCCCCAAAGACTCCCTTGATGATCTGTTTCCCAATGAAGATGAACAGAGATCAGgtaagcacggtaaattaatcatggtgagtacagcttgttaggagtttgca Alignment from GeneWise ---GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG ctttatgagcattcaatgctagaaggtgctttgttgcttctcttcttcagATGAAGGCAAAAGAGAAGGTCCCCAAAGACTCCCTTGATGATCTGTTTCCCAATGAAGATGAACAGAGATCAGgtaagcacggtaaattaatcatggtgagtacagcttgttaggagtttgca #### Ldb1_ID9692_8 --> 0 - 0 Original Alignment GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tttggagtccatatcttaatcaggtgaatgttttcatttgtgttttcaagGCTCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACTCGATGTGGATTTTCAAATACAGCTATTAAGTAC------gtgagtgggtgtgctggagggccacactataaattagcttttctttccat Alignment from CESAR GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tttggagtccatatcttaatcaggtgaatgttttcatttgtgttttcaagGCTCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACTCGATGTGGATTTTCAAATACAGCTATTAAGTAC------gtgagtgggtgtgctggagggccacactataaattagcttttct Alignment from Spaln_aa2Genome GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTAC tttggagtccatatcttaatcaggtgaatgttttcatttgtgttttcaagGCTCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACTCGATGTGGATTTTCAAATACAGCTATTAAGTACgtgagtgggtgtgctggagggccacactataaattagcttttctttccat Alignment from Spaln_nt2Genome GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tttggagtccatatcttaatcaggtgaatgttttcatttgtgttttcaagGCTCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACTCGATGTGGATTTTCAAATACAGCTATTAAGTACGT--GAgtgggtgtgctggagggccacactataaattagcttttctttcc Alignment from Pairagon GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTAC tttggagtccatatcttaatcaggtgaatgttttcatttgtgttttcaagGCTCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACTCGATGTGGATTTTCAAATACAGCTATTAAGTACgtgagtgggtgtgctggagggccacactataaattagcttttctttccat Alignment from Exonerate_protein2genome GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tttggagtccatatcttaatcaggtgaatgttttcatttgtgttttcaagGCTCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACTCGATGTGGATTTTCAAATACAGCTATTAAGTACGTGAGTgggtgtgctggagggccacactataaattagcttttctttccat Alignment from Exonerate_coding2genome GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tttggagtccatatcttaatcaggtgaatgttttcatttgtgttttcaagGCTCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACTCGATGTGGATTTTCAAATACAGCTATTAAGTACGTGAGTgggtgtgctggagggccacactataaattagcttttctttccat Alignment from GeneWise GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTAC tttggagtccatatcttaatcaggtgaatgttttcatttgtgttttcaagGCTCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACTCGATGTGGATTTTCAAATACAGCTATTAAGTACgtgagtgggtgtgctggagggccacactataaattagcttttctttccat #### Ldb1_ID9697_3 --> 1 - 2 Original Alignment cCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATC------gg acagtacaacagaaacaagtgcgaaactcacttcacaatgtctcttacagcCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATTGTGCGGgggtactgggactccactgcttaatactgttaagtcgtgcccctgcattatt Alignment from CESAR cCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCgg acagtacaacagaaacaagtgcgaaactcacttcacaatgtctcttacagcCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATTgtgcgggggtactgggactccactgcttaatactgttaagtcgtgcccctgcattatt Alignment from Spaln_aa2Genome CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGG acagtacaacagaaacaagtgcgaaactcacttcacaatgtctcttacagCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATTGTgcgggggtactgggactccactgcttaatactgttaagtcgtgcccctgcattatt Alignment from Spaln_nt2Genome CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATC acagtacaacagaaacaagtgcgaaactcacttcacaatgtctcttacagCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATTgtgcgggggtactgggactccactgcttaatactgttaagtcgtgcccctgcattatt Alignment from Pairagon CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGG acagtacaacagaaacaagtgcgaaactcacttcacaatgtctcttacagCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATTGTgcgggggtactgggactccactgcttaatactgttaagtcgtgcccctgcattatt Alignment from Exonerate_protein2genome CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGG acagtacaacagaaacaagtgcgaaactcacttcacaatgtctcttacagCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATTGTgcgggggtactgggactccactgcttaatactgttaagtcgtgcccctgcattatt Alignment from Exonerate_coding2genome CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGG acagtacaacagaaacaagtgcgaaactcacttcacaatgtctcttacagCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATTGTgcgggggtactgggactccactgcttaatactgttaagtcgtgcccctgcattatt Alignment from GeneWise CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGGGAGG-- acagtacaacagaaacaagtgcgaaactcacttcacaatgtctcttacagCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATTGTGCGGGGgtactgggactccactgcttaatactgttaagtcgtgcccctgcattatt #### Lipa_ID6938_5 --> 2 - 0 Original Alignment gtTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgatagaaatgtgctcaagctcaggtcgtctctttttattgaaattcaggtTTCATAGCTTTTTCGCAAATGCCTGAGTTAGCCAAGAAGATCAAAATGTTTTTAGCACTGTCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTC---gtcaggagcggcttgacattttgtacatttaatactcgattgtaagtgtc Alignment from CESAR gtTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgatagaaatgtgctcaagctcaggtcgtctctttttattgaaattcaggtTTCATAGCTTTTTCGCAAATGCCTGAGTTAGCCAAGAAGATCAAAATGTTTTTAGCACTGTCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTC---gtcaggagcggcttgacattttgtacatttaatactcgattgtaagt Alignment from Spaln_aa2Genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTC ttgatagaaatgtgctcaagctcaggtcgtctctttttattgaaattcagGTTTCATAGCTTTTTCGCAAATGCCTGAGTTAGCCAAGAAGATCAAAATGTTTTTAGCACTGTCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTCgtcaggagcggcttgacattttgtacatttaatactcgattgtaagtgtc Alignment from Spaln_nt2Genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAA-------G ttgatagaaatgtgctcaagctcaggtcgtctctttttattgaaattcagGTTTCATAGCTTTTTCGCAAATGCCTGAGTTAGCCAAGAAGATCAAAATGTTTTTAGCACTGTCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTCGTCAGGAGCGgcttgacattttgtacatttaatactcgattgtaagtgtc Alignment from Pairagon GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTC ttgatagaaatgtgctcaagctcaggtcgtctctttttattgaaattcagGTTTCATAGCTTTTTCGCAAATGCCTGAGTTAGCCAAGAAGATCAAAATGTTTTTAGCACTGTCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTCgtcaggagcggcttgacattttgtacatttaatactcgattgtaagtgtc Alignment from Exonerate_protein2genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgatagaaatgtgctcaagctcaggtcgtctctttttattgaaattcagGTTTCATAGCTTTTTCGCAAATGCCTGAGTTAGCCAAGAAGATCAAAATGTTTTTAGCACTGTCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTCGTCaggagcggcttgacattttgtacatttaatactcgattgtaagtgtc Alignment from Exonerate_coding2genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgatagaaatgtgctcaagctcaggtcgtctctttttattgaaattcagGTTTCATAGCTTTTTCGCAAATGCCTGAGTTAGCCAAGAAGATCAAAATGTTTTTAGCACTGTCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTGCTCGTCaggagcggcttgacattttgtacatttaatactcgattgtaagtgtc Alignment from GeneWise GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgatagaaatgtgctcaagctcaggtcgtctctttttattgaaattcagGTTTCATAGCTTTTTCGCAAATGCCTGAGTTAGCCAAGAAGATCAAAATGTTTTTAGCACTGTCCCCAGTATTGTCTCTCAATTTTGCTTCCAGCCCACTATTGCAATTAGGACACTTGCCTGATCCACTG---CTCgtcaggagcggcttgacattttgtacatttaatactcgattgtaagtgtc #### Lipf_ID6846_2 --> 0 - 1 Original Alignment AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATC---------g gtccactccctcgcactactatttttcttttactatattacttttggaagAGTCAAATTGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGTGTCTGAAGATGGATACATTCTGGGGATCTATAGAATTCCATATAGCAAAAGGAACTCTGAAAACATAAATCGATCCggtaaatatatcctgtgaatgggaagaaaaatcttgagcaagtcaatccac Alignment from CESAR AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATC---------g gtccactccctcgcactactatttttcttttactatattacttttggaagAGTCAAATTGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGTGTCTGAAGATGGATACATTCTGGGGATCTATAGAATTCCATATAGCAAAAGGAACTCTGAAAACATAAATCGATCCggtaaatatatcctgtgaatgggaagaaaaatcttgagcaagtcaatccac Alignment from Spaln_aa2Genome AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATC---------G gtccactccctcgcactactatttttcttttactatattacttttggaagAGTCAAATTGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGTGTCTGAAGATGGATACATTCTGGGGATCTATAGAATTCCATATAGCAAAAGGAACTCTGAAAACATAAATCGATCCGgtaaatatatcctgtgaatgggaagaaaaatcttgagcaagtcaatccac Alignment from Spaln_nt2Genome AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTT-----------------------------------------------------ATGGGAAGAAAAATTCTGAGAAT gtccactccctcgcactactatttttcttttactatattacttttggaagAGTCAAATTGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGTGTCTGAAGATGGATACATTCTGGGGATCTATAGAATTCCATATAGCAAAAGGAACTCTGAAAACATAAATCGATCCGGTAAATATATCCTGTGAATGGGAAGAAAAATCTTGAGCAAgtcaatccac Alignment from Pairagon AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTT-----------------------------------------------------ATGGGAAGAAAAATTCTGA gtccactccctcgcactactatttttcttttactatattacttttggaagAGTCAAATTGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGTGTCTGAAGATGGATACATTCTGGGGATCTATAGAATTCCATATAGCAAAAGGAACTCTGAAAACATAAATCGATCCGGTAAATATATCCTGTGAATGGGAAGAAAAATCTTGAgcaagtcaatccac Alignment from Exonerate_protein2genome AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATCG gtccactccctcgcactactatttttcttttactatattacttttggaagAGTCAAATTGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGTGTCTGAAGATGGATACATTCTGGGGATCTATAGAATTCCATATAGCAAAAGGAACTCTGAAAACATAAatcgatccggtaaatatatcctgtgaatgggaagaaaaatcttgagcaagtcaatccac Alignment from Exonerate_coding2genome AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATCG gtccactccctcgcactactatttttcttttactatattacttttggaagAGTCAAATTGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGTGTCTGAAGATGGATACATTCTGGGGATCTATAGAATTCCATATAGCAAAAGGAACTCTGAAAACATAAatcgatccggtaaatatatcctgtgaatgggaagaaaaatcttgagcaagtcaatccac Alignment from GeneWise AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATC---------G gtccactccctcgcactactatttttcttttactatattacttttggaagAGTCAAATTGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGTGTCTGAAGATGGATACATTCTGGGGATCTATAGAATTCCATATAGCAAAAGGAACTCTGAAAACATAAATCGATCCGgtaaatatatcctgtgaatgggaagaaaaatcttgagcaagtcaatccac #### Lipo1_ID6825_8 --> 0 - 0 Original Alignment ---GTAGGAAGAAGTGGTATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagtcctaagtatgacctgtcagcctggaaatgcaaataattacttttagTTTGTAGGTAGAAGTGGTATTCTTCAAGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagttcttcaaatctctttttcacacttaatgatatgatagggttcaa Alignment from CESAR ---GTAGGAAGAAGTGGTATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagtcctaagtatgacctgtcagcctggaaatgcaaataattacttttagTTTGTAGGTAGAAGTGGTATTCTTCAAGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagttcttcaaatctctttttcacacttaatgatatgatagggttcaa Alignment from Spaln_aa2Genome GAAGAAGTGGTATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagtcctaagtatgacctgtcagcctggaaatgcaaataattacttttagtttgtagGTAGAAGTGGTATTCTTCAAGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagttcttcaaatctctttttcacacttaatgatatgatagggttcaa Alignment from Spaln_nt2Genome GTAGGAAGAAGTG---GTATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagtcctaagtatgacctgtcagcctggaaatgcaaataattacttttagTTTGTAGGTAGAAGTGGTATTCTTCAAGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagttcttcaaatctctttttcacacttaatgatatgatagggttcaa Alignment from Pairagon GAAGAAGTGGTATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagtcctaagtatgacctgtcagcctggaaatgcaaataattacttttagtttgtagGTAGAAGTGGTATTCTTCAAGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagttcttcaaatctctttttcacacttaatgatatgatagggttcaa Alignment from Exonerate_protein2genome GAAGAAGTGGTATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagtcctaagtatgacctgtcagcctggaaatgcaaataattacttttagtttgtagGTAGAAGTGGTATTCTTCAAGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagttcttcaaatctctttttcacacttaatgatatgatagggttcaa Alignment from Exonerate_coding2genome GAAGAAGTGGTATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagtcctaagtatgacctgtcagcctggaaatgcaaataattacttttagtttgtagGTAGAAGTGGTATTCTTCAAGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagttcttcaaatctctttttcacacttaatgatatgatagggttcaa Alignment from GeneWise GAAGAAGTGGTATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG aagtcctaagtatgacctgtcagcctggaaatgcaaataattacttttagtttgtagGTAGAAGTGGTATTCTTCAAGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagttcttcaaatctctttttcacacttaatgatatgatagggttcaa #### Loxl4_ID8561_12 --> 2 - 0 Original Alignment ga---------GTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcccaggcatttctgcctctgctactgagcctcattcttctacagggATCGAGGAAGTACAACGTCGCTATGCATATGCTAATTTCGGAGAGCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAG---GTTCCAGGGGACTACATCTTCCAGgtactgatcaggccaggacatacactccaggttttactgtacgttgattc Alignment from CESAR ga---------GTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcccaggcatttctgcctctgctactgagcctcattcttctacagggATCGAGGAAGTACAACGTCGCTATGCATATGCTAATTTCGGAGAGCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAGGTT---CCAGGGGACTACATCTTCCAGgtactgatcaggccaggacatacactccaggttttactgtacgttgattc Alignment from Spaln_aa2Genome GAGTGCAGCGGCGC---------TATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcccaggcatttctgcctctgctactgagcctcattcttctacagGGATCGAGGAAGTACAACGTCGCTATGCATATGCTAATTTCGGAGAGCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAGGTT---CCAGGGGACTACATCTTCCAGgtactgatcaggccaggacatacactccaggttttactgtacgttgattc Alignment from Spaln_nt2Genome G---------AGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcccaggcatttctgcctctgctactgagcctcattcttctacagGGATCGAGGAAGTACAACGTCGCTATGCATATGCTAATTTCGGAGAGCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGA---GGTTCCAGGGGACTACATCTTCCAGgtactgatcaggccaggacatacactccaggttttactgtacgttgattc Alignment from Pairagon G---------AGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcccaggcatttctgcctctgctactgagcctcattcttctacagGGATCGAGGAAGTACAACGTCGCTATGCATATGCTAATTTCGGAGAGCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAGGT---TCCAGGGGACTACATCTTCCAGgtactgatcaggccaggacatacactccaggttttactgtacgttgattc Alignment from Exonerate_protein2genome GA---------GTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcccaggcatttctgcctctgctactgagcctcattcttctacagGGATCGAGGAAGTACAACGTCGCTATGCATATGCTAATTTCGGAGAGCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAGGTT---CCAGGGGACTACATCTTCCAGgtactgatcaggccaggacatacactccaggttttactgtacgttgattc Alignment from Exonerate_coding2genome aaaatgcccaggcatttctgcctctgctactgagcctcattcttctacagggatcgaggaagtacaacgtcgctatgcatatgctaatttcggagagcaaggggttgcagtaggttgctgggacacctatcagcatgacagtgattgtcagtgggtggatatcaaagaggttccaggggactacatcttccaggtactgatcaggccaggacatacactccaggttttactgtacgttgattc Alignment from GeneWise ---------CGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcccaggcatttctgcctctgctactgagcctcattcttctacagggatcgagGAAGTACAACGTCGCTATGCATATGCTAATTTCGGAGAGCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAGGTT---CCAGGGGACTACATCTTCCAGgtactgatcaggccaggacatacactccaggttttactgtacgttgattc #### Ltbp3_ID1253_5 --> 2 - 1 Original Alignment at---------ACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGg tactgtgctcactctcttttttcactgttactggtgttttgtttctgtagatCAACAAATCACAGGAGTGCAAAAGCCTGGACCTGTACGAGGG---GTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTAATAGCACCCATTCTCAGggtaggaatcaccaaagattccattaattgatatgtgaggtaggggaaaag Alignment from CESAR at---------ACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGg tactgtgctcactctcttttttcactgttactggtgttttgtttctgtagatCAACAAATCACAGGAGTGCAAAAGCCTGGACCTGTACGAGGG---GTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTAATAGCACCCATTCTCAGggtaggaatcaccaaagattccattaattgatatgtgaggtaggggaaaag Alignment from Spaln_aa2Genome GGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG tactgtgctcactctcttttttcactgttactggtgttttgtttctgtagatcaacaaatcacagGAGTGCAAAAGCCTGGACCTGTACGAGGG---GTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTAATAGCACCCATTCTCAGGgtaggaatcaccaaagattccattaattgatatgtgaggtaggggaaaag Alignment from Spaln_nt2Genome AT---------ACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG tactgtgctcactctcttttttcactgttactggtgttttgtttctgtagATCAACAAATCACAGGAGTGCAAAAGCCTGGACCTGTACGAGG---GGTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTAATAGCACCCATTCTCAGGgtaggaatcaccaaagattccattaattgatatgtgaggtaggggaaaag Alignment from Pairagon AT---------ACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG tactgtgctcactctcttttttcactgttactggtgttttgtttctgtagATCAACAAATCACAGGAGTGCAAAAGCCTGGACCTGTACGAGG---GGTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTAATAGCACCCATTCTCAGGgtaggaatcaccaaagattccattaattgatatgtgaggtaggggaaaag Alignment from Exonerate_protein2genome AT---------ACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG tactgtgctcactctcttttttcactgttactggtgttttgtttctgtagATCAACAAATCACAGGAGTGCAAAAGCCTGGACCTGTACGAGGG---GTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTAATAGCACCCATTCTCAGGgtaggaatcaccaaagattccattaattgatatgtgaggtaggggaaaag Alignment from Exonerate_coding2genome AT---------ACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG tactgtgctcactctcttttttcactgttactggtgttttgtttctgtagATCAACAAATCACAGGAGTGCAAAAGCCTGGACCTGTACGAGGG---GTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTAATAGCACCCATTCTCAGGgtaggaatcaccaaagattccattaattgatatgtgaggtaggggaaaag Alignment from GeneWise --------TATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG tactgtgctcactctcttttttcactgttactggtgttttgtttctgtagATCAACAAATCACAGGAGTGCAAAAGCCTGGACCTGTACGAGGG---GTGGGCACTGACTGCCCCAAAGGCTATAAAAGACTTAATAGCACCCATTCTCAGGgtaggaatcaccaaagattccattaattgatatgtgaggtaggggaaaag #### Ltbp3_ID1255_7 --> 2 - 1 Original Alignment ccGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAg agcacagtaagattgcctctccacactgtgacaccattctctccctacagccGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCAGTGCCAGCACCCTTTAACTACACGTTTGACCCATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGTCCAGCA---------ggtaggtttgatggccgcatagagtctcgggattgcggtttttctttatga Alignment from CESAR ccGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAg agcacagtaagattgcctctccacactgtgacaccattctctccctacagccGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCAGTGCCAGCACCCTTTAACTACACGTTTGACCCATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGTCCAGCA---------ggtaggtttgatggccgcatagagtctcgggatgtacctgcttccttcctc Alignment from Spaln_aa2Genome CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCA- agcacagtaagattgcctctccacactgtgacaccattctctccctacagCCGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCAGTGCCAGCACCCTTTAACTACACGTTTGACCCATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGTCCAGCAGgtaggtttgatggccgcatagagtctcgggattgcggtttttctttatga Alignment from Spaln_nt2Genome CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG agcacagtaagattgcctctccacactgtgacaccattctctccctacagCCGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCAGTGCCAGCACCCTTTAACTACACGTTTGACCCATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGTCCAGCAGGT-----AGgtttgatggccgcatagagtctcgggattgcggtttttctt Alignment from Pairagon CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATG----------------------------------------------- agcacagtaagattgcctctccacactgtgacaccattctctccctacagCCGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCAGTGCCAGCACCCTTTAACTACACGTTTGACCCATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGTCCAGCAGGTAGGTTTGATGGCCGCATAGAGTCTCGGGATTGCGGTTTTTCTTTATGA Alignment from Exonerate_protein2genome CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAG AT agcacagtaagattgcctctccacactgtgacaccattctctccctacagCCGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCAGTGCCAGCACCCTTTAACTACACGTTTGACCCATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGTCCAGCAGgtaggtttgatggccgcatagagtctcgggattgcggtttttctttatGA Alignment from Exonerate_coding2genome CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAG AT agcacagtaagattgcctctccacactgtgacaccattctctccctacagCCGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCAGTGCCAGCACCCTTTAACTACACGTTTGACCCATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGTCCAGCAGgtaggtttgatggccgcatagagtctcgggattgcggtttttctttatGA Alignment from GeneWise CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAG agcacagtaagattgcctctccacactgtgacaccattctctccctacagCCGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCAGTGCCAGCACCCTTTAACTACACGTTTGACCCATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGTCCAGCAGgtaggtttgatggccgcatagagtctcgggattgcggtttttctttatga #### Ltbp3_ID1262_14 --> 2 - 1 Original Alignment acCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAg gaccccagaccctccccttcctaagatgtgattaaaatttttcttcctagat------GAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAACTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAggtaagttgtcatcctacttctcctccctggccttaggttggatgagtgca Alignment from CESAR acCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAg atttctgaccccagaccctccccttatgtgattaaaatttttcttcctagat------GAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAACTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAggtaagttgtcatcctacttctcctccctggccttaggttggatgagtgca Alignment from Spaln_aa2Genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG gaccccagaccctccccttcctaagatgtgattaaaatttttcttcctagAT------GAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAACTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAGgtaagttgtcatcctacttctcctccctggccttaggttggatgagtgca Alignment from Spaln_nt2Genome ACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG gaccccagaccctccccttcctaagatgtgattaaaatttttcttcctagATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAACTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAGgtaagttgtcatcctacttctcctccctggccttaggttggatgagtgca Alignment from Pairagon ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG gaccccagaccctccccttcctaagatgtgattaaaatttttcttcctag------ATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAACTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAGgtaagttgtcatcctacttctcctccctggccttaggttggatgagtgca Alignment from Exonerate_protein2genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG gaccccagaccctccccttcctaagatgtgattaaaatttttcttcctagAT------GAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAACTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAGgtaagttgtcatcctacttctcctccctggccttaggttggatgagtgca Alignment from Exonerate_coding2genome gaccccagaccctccccttcctaagatgtgattaaaatttttcttcctagatgagtgcacaaagccccatctgtgtggtgatggtggcttctgcatcaacttcccaggccactacacatgcaactgttatcctggttacaggctcaaggcctccagaccaccaatctgggaaggtaagttgtcatcctacttctcctccctggccttaggttggatgagtgca Alignment from GeneWise ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG gaccccagaccctccccttcctaagatgtgattaaaatttttcttcctagAT------GAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAACTTCCCAGGCCACTACACATGCAACTGTTATCCTGGTTACAGGCTCAAGGCCTCCAGACCACCAATCTGGGAAGgtaagttgtcatcctacttctcctccctggccttaggttggatgagtgca #### Ltbp3_ID1263_15 --> 2 - 1 Original Alignment ac---------ATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTg tggcaccatacttgtatcagaccatcctatacgttttatttctttgacagatCCCCTGCAAATTGATGAATGTCATGACCCTAGCACCTGCCCAGATGGGAAGTGTGAAAATAAACTTGGTAGCTTCAGGTGCATTGCTTGCCAGCCTGGTTACCGAAGCCAGGGAGGTGGGACATGCCATggtgagtcaaatccagcctctcccatagggtttgtagggcccccagatgga Alignment from CESAR ac---------ATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTg tggcaccatacttgtatcagaccatcctatacgttttatttctttgacagatCCCCTGCAAATTGATGAATGTCATGACCCTAGCACCTGCCCAGATGGGAAGTGTGAAAATAAACTTGGTAGCTTCAGGTGCATTGCTTGCCAGCCTGGTTACCGAAGCCAGGGAGGTGGGACATGCCATggtgagtcaaatccagcctctcccatagggtttgtagggcccccagatgga Alignment from Spaln_aa2Genome AC---------ATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTG tggcaccatacttgtatcagaccatcctatacgttttatttctttgacagATCCCCTGCAAATTGATGAATGTCATGACCCTAGCACCTGCCCAGATGGGAAGTGTGAAAATAAACTTGGTAGCTTCAGGTGCATTGCTTGCCAGCCTGGTTACCGAAGCCAGGGAGGTGGGACATGCCATGgtgagtcaaatccagcctctcccatagggtttgtagggcccccagatgga Alignment from Spaln_nt2Genome AC---------ATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTG tggcaccatacttgtatcagaccatcctatacgttttatttctttgacagATCCCCTGCAAATTGATGAATGTCATGACCCTAGCACCTGCCCAGATGGGAAGTGTGAAAATAAACTTGGTAGCTTCAGGTGCATTGCTTGCCAGCCTGGTTACCGAAGCCAGGGAGGTGGGACATGCCATGgtgagtcaaatccagcctctcccatagggtttgtagggcccccagatgga Alignment from Pairagon AC---------------------------------------ATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTG tggcaccatacttgtatcagACCATCCTATACGTTTTATTTCTTTGACAGATCCCCTGCAAATTGATGAATGTCATGACCCTAGCACCTGCCCAGATGGGAAGTGTGAAAATAAACTTGGTAGCTTCAGGTGCATTGCTTGCCAGCCTGGTTACCGAAGCCAGGGAGGTGGGACATGCCATGgtgagtcaaatccagcctctcccatagggtttgtagggcccccagatgga Alignment from Exonerate_protein2genome ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTG tggcaccatacttgtatcagaccatcctatacgttttatttctttgacagatcccctgcAAATTGATGAATGTCATGACCCTAGCACCTGCCCAGATGGGAAGTGTGAAAATAAACTTGGTAGCTTCAGGTGCATTGCTTGCCAGCCTGGTTACCGAAGCCAGGGAGGTGGGACATGCCATGgtgagtcaaatccagcctctcccatagggtttgtagggcccccagatgga Alignment from Exonerate_coding2genome tggcaccatacttgtatcagaccatcctatacgttttatttctttgacagatcccctgcaaattgatgaatgtcatgaccctagcacctgcccagatgggaagtgtgaaaataaacttggtagcttcaggtgcattgcttgccagcctggttaccgaagccagggaggtgggacatgccatggtgagtcaaatccagcctctcccatagggtttgtagggcccccagatgga Alignment from GeneWise --------GACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTGATGT tggcaccatacttgtatcagaccatcctatacgttttatttctttgacagATCCCCTGCAAATTGATGAATGTCATGACCCTAGCACCTGCCCAGATGGGAAGTGTGAAAATAAACTTGGTAGCTTCAGGTGCATTGCTTGCCAGCCTGGTTACCGAAGCCAGGGAGGTGGGACATGCCATGGTGAgtcaaatccagcctctcccatagggtttgtagggcccccagatgga #### Ltbp3_ID1268_20 --> 2 - 1 Original Alignment agGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAg gtcatagcttagtaaatattaattggaaggtggtgttatctcctttgcagagGTGGAGCAGCCTCACCATAAGAAGGAATGCTACCTTAACTTTGATGACACGGTGTTCTGTGACAGCATACTAGCTACTAATGTTACTCAACAGGAATGCTGCTGCTCTCTGGGAGCAGGATGGGGAGACCACTGT------------------------------ggtaagtcaatggactgaatcatggtcctatcaaccgtggggattgtgctt Alignment from CESAR agGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAg gtcatagcttagtaaatattaattggaaggtggtgttatctcctttgcagagGTGGAGCAGCCTCACCATAAGAAGGAATGCTACCTTAACTTTGATGACACGGTGTTCTGTGACAGCATACTAGCTACTAATGTTACTCAACAGGAATGCTGCTGCTCTCTGGGAGCAGGATGGGGAGACCACTGT------------------------------ggtaagtcaatggactgaatcatggtcctatcaaccgtggggattgtgctt Alignment from Spaln_aa2Genome AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCG gtcatagcttagtaaatattaattggaaggtggtgttatctcctttgcagAGGTGGAGCAGCCTCACCATAAGAAGGAATGCTACCTTAACTTTGATGACACGGTGTTCTGTGACAGCATACTAGCTACTAATGTTACTCAACAGGAATGCTGCTGCTCTCTGGGAGCAGGATGGGGAGACCACTGTGgtaagtcaatggactgaatcatggtcctatcaaccgtggggattgtgctt Alignment from Spaln_nt2Genome AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCG gtcatagcttagtaaatattaattggaaggtggtgttatctcctttgcagAGGTGGAGCAGCCTCACCATAAGAAGGAATGCTACCTTAACTTTGATGACACGGTGTTCTGTGACAGCATACTAGCTACTAATGTTACTCAACAGGAATGCTGCTGCTCTCTGGGAGCAGGATGGGGAGACCACTGTGgtaagtcaatggactgaatcatggtcctatcaaccgtggggattgtgctt Alignment from Pairagon AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCG gtcatagcttagtaaatattaattggaaggtggtgttatctcctttgcagAGGTGGAGCAGCCTCACCATAAGAAGGAATGCTACCTTAACTTTGATGACACGGTGTTCTGTGACAGCATACTAGCTACTAATGTTACTCAACAGGAATGCTGCTGCTCTCTGGGAGCAGGATGGGGAGACCACTGTGgtaagtcaatggactgaatcatggtcctatcaaccgtggggattgtgctt Alignment from Exonerate_protein2genome AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCG gtcatagcttagtaaatattaattggaaggtggtgttatctcctttgcagAGGTGGAGCAGCCTCACCATAAGAAGGAATGCTACCTTAACTTTGATGACACGGTGTTCTGTGACAGCATACTAGCTACTAATGTTACTCAACAGGAATGCTGCTGCTCTCTGGGAGCAGGATGGGGAGACCACTGTGgtaagtcaatggactgaatcatggtcctatcaaccgtggggattgtgctt Alignment from Exonerate_coding2genome gtcatagcttagtaaatattaattggaaggtggtgttatctcctttgcagaggtggagcagcctcaccataagaaggaatgctaccttaactttgatgacacggtgttctgtgacagcatactagctactaatgttactcaacaggaatgctgctgctctctgggagcaggatggggagaccactgtggtaagtcaatggactgaatcatggtcctatcaaccgtggggattgtgctt Alignment from GeneWise AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCG gtcatagcttagtaaatattaattggaaggtggtgttatctcctttgcagAGGTGGAGCAGCCTCACCATAAGAAGGAATGCTACCTTAACTTTGATGACACGGTGTTCTGTGACAGCATACTAGCTACTAATGTTACTCAACAGGAATGCTGCTGCTCTCTGGGAGCAGGATGGGGAGACCACTGTGgtaagtcaatggactgaatcatggtcctatcaaccgtggggattgtgctt #### Ltbp3_ID1269_21 --> 2 - 1 Original Alignment cc---------GAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTg tgtgacatggggatataagtgatcacacataacctttgtctcttccacagcaGGGAGGGTGGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATACACAAGACAATAACATTGTGAATTATGGCATCCCTACCCACCGGggtatgaatgccaatttagtttttaggtttcctgatgagacatgactagca Alignment from CESAR cc---------GAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTg tgtgacatggggatataagtgatcacacataacctttgtctcttccacagcaGGGAGGGTGGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATACACAAGACAATAACATTGTGAATTATGGCATCCCTACCCACCGGggtatgaatgccaatttagtttttaggtttcctgatgagacatgactagca Alignment from Spaln_aa2Genome GCTCAGCCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTG tgtgacatggggatataagtgatcacacataacctttgtctcttccacagcagGGAGGGTGGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATACACAAGACAATAACATTGTGAATTATGGCATCCCTACCCACCGGGgtatgaatgccaatttagtttttaggtttcctgatgagacatgactagca Alignment from Spaln_nt2Genome CCG---------AATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTG tgtgacatggggatataagtgatcacacataacctttgtctcttccacagCAGGGAGGGTGGAATTTCATAG---GTGTCCTGATGGTAAAGGCTATACACAAGACAATAACATTGTGAATTATGGCATCCCTACCCACCGGGgtatgaatgccaatttagtttttaggtttcctgatgagacatgactagca Alignment from Pairagon CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTG tgtgacatggggatataagtgatcacacataacctttgtctcttccacagcagggagggtggaatttcatag----------------GTGTCCTGATGGTAAAGGCTATACACAAGACAATAACATTGTGAATTATGGCATCCCTACCCACCGGGgtatgaatgccaatttagtttttaggtttcctgatgagacatgactagca Alignment from Exonerate_protein2genome CCGAATTTCAC---AGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTG tgtgacatggggatataagtgatcacacataacctttgtctcttccacagcagGGAGGGTGGAATTTCATAGGTGTCCTGATGGTAAAGGCTATACACAAGACAATAACATTGTGAATTATGGCATCCCTACCCACCGGGgtatgaatgccaatttagtttttaggtttcctgatgagacatgactagca Alignment from Exonerate_coding2genome tgtgacatggggatataagtgatcacacataacctttgtctcttccacagcagggagggtggaatttcataggtgtcctgatggtaaaggctatacacaagacaataacattgtgaattatggcatccctacccaccggggtatgaatgccaatttagtttttaggtttcctgatgagacatgactagca Alignment from GeneWise -----GCCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTG tgtgacatggggatataagtgatcacacataacctttgtctcttccacagcagGGAGGGTGGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATACACAAGACAATAACATTGTGAATTATGGCATCCCTACCCACCGGGgtatgaatgccaatttagtttttaggtttcctgatgagacatgactagca #### Ltbp3_ID1270_22 --> 2 - 1 Original Alignment acATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGg taataggccactgggatctagacttttaacagtcctcccttctgtttcagat---------TGCATATTGTTCGGGGCAGAGATCTGTAAGGAGGGTAAATTTGTGAACATGCAGCCTGGCTATGAGTGCTATTGCAAGCAGGGCTTCTATTTCGATGGTAATCTTCTAGAGTGTGTAggtaagttagactatctttccactcaaggaaaagagctgagtttaacttaa Alignment from CESAR acATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGg acatctgagtaataggccactgggattaacagtcctcccttctgtttcagat---------TGCATATTGTTCGGGGCAGAGATCTGTAAGGAGGGTAAATTTGTGAACATGCAGCCTGGCTATGAGTGCTATTGCAAGCAGGGCTTCTATTTCGATGGTAATCTTCTAGAGTGTGTAggtaagttagactatctttccactcaaggaaaagagctgagtttaataata Alignment from Spaln_aa2Genome ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGG taataggccactgggatctagacttttaacagtcctcccttctgtttcagAT---------TGCATATTGTTCGGGGCAGAGATCTGTAAGGAGGGTAAATTTGTGAACATGCAGCCTGGCTATGAGTGCTATTGCAAGCAGGGCTTCTATTTCGATGGTAATCTTCTAGAGTGTGTAGgtaagttagactatctttccactcaaggaaaagagctgagtttaacttaa Alignment from Spaln_nt2Genome ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGG taataggccactgggatctagacttttaacagtcctcccttctgtttcag---------ATTGCATATTGTTCGGGGCAGAGATCTGTAAGGAGGGTAAATTTGTGAACATGCAGCCTGGCTATGAGTGCTATTGCAAGCAGGGCTTCTATTTCGATGGTAATCTTCTAGAGTGTGTAGgtaagttagactatctttccactcaaggaaaagagctgagtttaacttaa Alignment from Pairagon ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGG taataggccactgggatctagacttttaacagtcctcccttctgtttcag---------ATTGCATATTGTTCGGGGCAGAGATCTGTAAGGAGGGTAAATTTGTGAACATGCAGCCTGGCTATGAGTGCTATTGCAAGCAGGGCTTCTATTTCGATGGTAATCTTCTAGAGTGTGTAGgtaagttagactatctttccactcaaggaaaagagctgagtttaacttaa Alignment from Exonerate_protein2genome ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGG taataggccactgggatctagacttttaacagtcctcccttCTGTTTCAGATTGCATATTGTTCGGGGCAGAGATCTGTAAGGAGGGTAAATTTGTGAACATGCAGCCTGGCTATGAGTGCTATTGCAAGCAGGGCTTCTATTTCGATGGTAATCTTCTAGAGTGTGTAGgtaagttagactatctttccactcaaggaaaagagctgagtttaacttaa Alignment from Exonerate_coding2genome taataggccactgggatctagacttttaacagtcctcccttctgtttcagattgcatattgttcggggcagagatctgtaaggagggtaaatttgtgaacatgcagcctggctatgagtgctattgcaagcagggcttctatttcgatggtaatcttctagagtgtgtaggtaagttagactatctttccactcaaggaaaagagctgagtttaacttaa Alignment from GeneWise --------GACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGG taataggccactgggatctagacttttaacagTCCTCCCTTCTGTTTCAGATTGCATATTGTTCGGGGCAGAGATCTGTAAGGAGGGTAAATTTGTGAACATGCAGCCTGGCTATGAGTGCTATTGCAAGCAGGGCTTCTATTTCGATGGTAATCTTCTAGAGTGTGTAGgtaagttagactatctttccactcaaggaaaagagctgagtttaacttaa #### Ltbp3_ID1272_24 --> 2 - 1 Original Alignment ag---CACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCg ggTCCCAGTGC ttagtagcatattcctctggtttctcgaagtcccgtgtgttttcccgcagagTCGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCCTAGTGGGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGCCGTGGCTGGGGG---CAGTGCAGACCATGCCCCCCACGTGGTACTggtgaggatttttgaaggaaatagacttctgtttttgcagggTCCCAGTGC Alignment from CESAR ag---CACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCg ggTCCCAGTGC ttagtagcatattcctctggtttctcgaagtcccgtgtgttttcccgcagagTCGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCCTAGTGGGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGCCGTGGCTGGGGG---CAGTGCAGACCATGCCCCCCACGTGGTACTggtgaggatttttgaaggattttaattctgttccctccagggTCCCAGTGC Alignment from Spaln_aa2Genome AG---CACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCCAGTGC ttagtagcatattcctctggtttctcgaagtcccgtgtgttttcccgcagAGTCGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCCTAGTGGGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGCCGTGGCTGGGGG---CAGTGCAGACCATGCCCCCCACGTGGTACTGgtgaggatttttgaaggaaatagacttctgtttttgcagGGTCCCAGTGC Alignment from Spaln_nt2Genome AG---CACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCCAGTGC ttagtagcatattcctctggtttctcgaagtcccgtgtgttttcccgcagAGTCGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCCTAGTGGGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGCCGTGGCTGGGG---GCAGTGCAGACCATGCCCCCCACGTGGTACTGgtgaggatttttgaaggaaatagacttctgtttttgcagGGTCCCAGTGC Alignment from Pairagon A---GCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCCAGTGC ttagtagcatattcctctggtttctcgaagtcccgtgtgttttcccgcagAGTCGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCCTAGTGGGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGCCGTGGCTGGGG---GCAGTGCAGACCATGCCCCCCACGTGGTACTGgtgaggatttttgaaggaaatagacttctgtttttgcagGGTCCCAGTGC Alignment from Exonerate_protein2genome AG---CACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCCAGTGC ttagtagcatattcctctggtttctcgaagtcccgtgtgttttcccgcagAGTCGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCCTAGTGGGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGCCGTGGCTGGGGG---CAGTGCAGACCATGCCCCCCACGTGGTACTGgtgaggatttttgaaggaaatagacttctgtttttgcagGGTCCCAGTGC Alignment from Exonerate_coding2genome ttagtagcatattcctctggtttctcgaagtcccgtgtgttttcccgcagagtcgcatgccccagaaagatgtgaagtatgctggggacagcaaggagaagatggtatgtgtatggggcccctagtgggacccgccctcacttttgatgactgttgttgccgtcaaggccgtggctgggggcagtgcagaccatgccccccacgtggtactggtgaggatttttgaaggaaatagacttctgtttttgcagggtcccagtgc Alignment from GeneWise --GAGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCCAGTGC ttagtagcatattcctctggtttctcgaagtcccgtgtgttttcccgcagAGTCGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCCTAGTGGGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGCCGTGGCTGGGGG---CAGTGCAGACCATGCCCCCCACGTGGTACTGgtgaggatttttgaaggaaatagacttctgtttttgcagGGTCCCAGTGC #### Ltbp3_ID1273_25 --> 2 - 1 Original Alignment ACGTGGCACCg ggTCCCAGTGCCCGACTTCACAGAGTGAGAGC---AATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAg ACGTGGTACTggtaagtatttttgaaggattttaattctgttccctccagggTCCCAGTGCTCCACTTTACAGGGTGAGATGCTTAACTCATTTTGGGATACT------------------------------ggttgtgcaaagctggtgattgtatgcaaagggcggaatatcatagcacct Alignment from CESAR ACGTGGCACCg ggTCCCAGTGCCCGACTTCACAGAGTGAGAGC---AATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAg ACGTGGTACTggtgaggatttttgaaggattttaattctgttccctccagggTCCCAGTGCTCCACTTTACAGGGTGAGATGCTTAACTCATTTTGGGATACTGGT---------------------------tgtgcaaagctggtgattgta Alignment from Spaln_aa2Genome ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGC---AATTCATTCTGGGACACAAGCCCC CTGCT ACGTGGTACTGgtaagtatttttgaaggattttaattctgttccctccagGGTCCCAGTGCTCCACTTTACAGGGTGAGATGCTTAACTCATTTTGGGATACTGGTTGTgcaaagctggtgattgtatgcaaagggcggaatatcatagCACCT Alignment from Spaln_nt2Genome ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGA-GC--AATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG ACGTGGTACTGgtaagtatttttgaaggattttaattctgttccctccagGGTCCCAGTGCTCCACTTTACAGGGTGAGATGCTTAACTCATTTTGGGATA--------CTGGT--TGTGCAAAGCTGGTGATTgtatgcaaagggcggaatatcatagcac Alignment from Pairagon ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGA-------------------------------------------------------------------------- ACGTGGTACTGgtaagtatttttgaaggattttaattctgttccctccagGGTCCCAGTGCTCCACTTTACAGGGTGAGATGCTTAACTCATTTTGGGATACTGGTTGTGCAAAGCTGGTGATTGTATGCAAAGGGCGGAATATCATAGCACCT Alignment from Exonerate_protein2genome ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGC---AATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG ACGTGGTACTGgtaagtatttttgaaggattttaattctgttccctccagGGTCCCAGTGCTCCACTTTACAGGGTGAGATGCTTAACTCATTTTGGGATACTGGTTGTGCAAAGCTGGTGATTGTATGCAAAGggcggaatatcatagcacct Alignment from Exonerate_coding2genome acgtggtactggtaagtatttttgaaggattttaattctgttccctccagggtcccagtgctccactttacagggtgagatgcttaactcattttgggatactggttgtgcaaagctggtgattgtatgcaaagggcggaatatcatagcacct Alignment from GeneWise ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGC---AATTCATTCTGGGACACAAGC---------------------------------CCCCTGCTACTG-GG ACGTGGTACTGgtaagtatttttgaaggattttaattctgttccctccagGGTCCCAGTGCTCCACTTTACAGGGTGAGATGCTTAACTCATTTTGGGATACTGGTTGTGCAAAGCTGGTGATTGTATGCAAAGGGCGGAATATCATAGCACCT #### Ltbp3_ID1274_26 --> 2 - 1 Original Alignment ac---------------------------------------GAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGg gtgattgtatgcaaagtctactataggtgaccagctctgtctctcctcagatGAGGATGCTGTGGAAATAGCGGAGGTACCTTCCCTACCTGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGCCCCGGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCCATTGGATGCCTCCCGTGCCCGACGTGTAggtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta Alignment from CESAR tgtcctaccttgttgctctctggttcattggtcccttatttgcctgcctat Alignment from Spaln_aa2Genome CT---------CCGCGAGACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG gtgattgtatgcaaagtctactataggtgaccagctctgtctctcctcagatgaggatgctgtggaaatagCGGAGGTACCTTCCCTACCTGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGCCCCGGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCCATTGGATGCCTCCCGTGCCCGACGTGTAGgtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta Alignment from Spaln_nt2Genome --GAAGT--CTCCGCGAGACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG gtgattgtatgcaaagtctactataggtgaccagctctgtctctcctcagatgaggatgctgtggaaatagCGGAGGTACCTTCCCTACCTGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGCCCCGGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCCATTGGATGCCTCCCGTGCCCGACGTGTAGgtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta Alignment from Pairagon ------AAGTCTCCGCGAGAC----------------------------------------------------------------------GAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG TATGCAAAGTCT-------ACTATAGGTGACCAGCTCTGTCTCTCCTCAGATGAGGATGCTGTGGAAATAGCGGAGGTACCTTCCCTACCTGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGCCCCGGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCCATTGGATGCCTCCCGTGCCCGACGTGTAGgtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta Alignment from Exonerate_protein2genome GACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG gtgattgtatgcaaagtctactataggtgaccagctctgtctctcctcagatgaggatgctgtggaaatagcggaggtaccttccctacctgaaGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGCCCCGGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCCATTGGATGCCTCCCGTGCCCGACGTGTAGgtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta Alignment from Exonerate_coding2genome gtgattgtatgcaaagtctactataggtgaccagctctgtctctcctcagatgaggatgctgtggaaatagcggaggtaccttccctacctgaagacagctcagaggaagattcagatgagtgccgttgtgtcattgggcactgtgcaccacgccccggtggggctgtatgtgagtgtcctggcggctttccattggatgcctcccgtgcccgacgtgtaggtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta Alignment from GeneWise --------TCTCCGCGAGACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG gtgattgtatgcaaagtctactataggtgaccagctctgtctctcctcagatgaggatgctgtggaaatagCGGAGGTACCTTCCCTACCTGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGCCCCGGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCCATTGGATGCCTCCCGTGCCCGACGTGTAGgtaagtatgacatcagggggcggatgggggtggaagacatcgtgaactta #### Macrod1_ID2051_6 --> 2 - 0 Original Alignment atGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGC---CTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG------ ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagatGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTCCACAGCTGTTATCTGAGCAGTCCTTTAGACCTACTGCTAGAACACAGATTATGTCCAGTTTTTATGgtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa Alignment from CESAR atGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGC---CTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG------ ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagatGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTCCACAGCTGTTATCTGAGCAGTCCTTTAGACCTACTGCTAGAACACAGATTATGTCCAGTTTTTATGgtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa Alignment from Spaln_aa2Genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGC---CTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG------ ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagATGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTCCACAGCTGTTATCTGAGCAGTCCTTTAGACCTACTGCTAGAACACAGATTATGTCCAGTTTTTATGgtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa Alignment from Spaln_nt2Genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGCC---TGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGT------G ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagATGTCAT------TGTGGGGCTCATTGCAGTAGG------------GAGTGAGGCGGCTGAATTCCACAGCTGTTATCTGAGCAGTCCTTTAGACCTACTGCTAGAACACAGATTATGTCCAGTTTTTATGgtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa Alignment from Pairagon ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGCC---TGGACCTGCTGCTGGAGC----------------------- ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagATGTCATT------GTGGGGCTCATTGCAGTAGG------------GAGTGAGGCGGCTGAATTCCACAGCTGTTATCTGAGCAGTCCTTTAGACCTACTGCTAGAACACAGATTATGTCCAGTTTTTATGgtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa Alignment from Exonerate_protein2genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGC---CTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG------ ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagATGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTCCACAGCTGTTATCTGAGCAGTCCTTTAGACCTACTGCTAGAACACAGATTATGTCCAGTTTTTATGgtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa Alignment from Exonerate_coding2genome ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagatgtcattgtggggctcattgcagtagggagtgaggcggctgaattccacagctgttatctgagcagtcctttagacctactgctagaacacagattatgtccagtttttatggtgagttggttgaatcaatggcaaaagctggcatttaaacactagcagaa Alignment from GeneWise ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGC---CTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTGGCTTTCCCGT ggaagacatcattggcactcccctctttcgcccgtgtctcttcttgaaagATGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTCCACAGCTGTTATCTGAGCAGTCCTTTAGACCTACTGCTAGAACACAGATTATGTCCAGTTTTTATGGTGAgttggttgaatcaatggcaaaagctggcatttaaacactagcagaa #### Macrod1_ID2052_7 --> 0 - 1 Original Alignment GCTTTCCCGTGCATCTCCACAGGCGTGTTT------g aaataaagaaaaaccatatgcgtgtctgagcctcctctgttttcctctagACCTTTCCATGCATCTCCACAGGGGTGATTCACCCTagtaacctgaggggaacttggaacatggaataaaggaaaactgagtagaat Alignment from CESAR GCTTTCCCGTGCATCTCCACAGGCGTGTTT------g aaataaagaaaaaccatatgcgtgtctgagcctcctctgttttcctctagACCTTTCCATGCATCTCCACAGGGGTGATTCACCCTagtaacctgaggggaacttggaacatggaataaaggaaaactgagtagaat Alignment from Spaln_aa2Genome GCTTTCCCGTGCATCTCCACAGGCGTGTTT------G aaataaagaaaaaccatatgcgtgtctgagcctcctctgttttcctctagACCTTTCCATGCATCTCCACAGGGGTGATTCACCCTAgtaacctgaggggaacttggaacatggaataaaggaaaactgagtagaat Alignment from Spaln_nt2Genome GCTTTCCCGTGCATCTCCACAGGCGTGTTTG------ aaataaagaaaaaccatatgcgtgtctgagcctcctctgttttcctctagACCTTTCCATGCATCTCCACAGGGGTGATTCACCCTAgtaacctgaggggaacttggaacatggaataaaggaaaactgagtagaat Alignment from Pairagon GCTTTCCCGTGCATCTCCACAGGCGTGTTT--------------------------------------------------------- aaataaagaaaaaccatatgcgtgtctgagcctcctctgttttcctctagACCTTTCCATGCATCTCCACAGGGGTGATTCACCCTAGTAACCTGAGGGGAACTTGGAACATGGAATAAAGGAAAACTGAGTAGAAT Alignment from Exonerate_protein2genome GCTTTCCCGTGCATCTCCACAG aaataaagaaaaaccatatgcgtgtctgagcctcctctgttttcctctagACCTTTCCATGCATCTCCACAGgggtgattcaccctagtaacctgaggggaacttggaacatggaataaaggaaaactgagtagaat Alignment from Exonerate_coding2genome aaataaagaaaaaccatatgcgtgtctgagcctcctctgttttcctctagacctttccatgcatctccacaggggtgattcaccctagtaacctgaggggaacttggaacatggaataaaggaaaactgagtagaat Alignment from GeneWise --- aaataaagaaaaaccatatgcgtgtctgagcctcctctgttttcctctagacctttccatgcatctccacaggggtgattcaccctagtaacctgaggggaacttggaacatggaataaaggaaaactgagtagAAT #### Macrod1_ID2053_8 --> 2 - 0 Original Alignment gcTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--- aatggggtggggcccaatatgcatttacaatgtttttctttcccccctaggcTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGGTTGGAGCAACACAAGGACAAGGGCgtgagtccaaattcacattacatgacgggagcttggttggatgaagtggt Alignment from CESAR gcTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--- aatggggtggggcccaatatgcatttacaatgtttttctttcccccctaggcTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGGTTGGAGCAACACAAGGACAAGGGCgtgagtccaaattcacattacatgacgggagcttggttggatgaagtggt Alignment from Spaln_aa2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--- aatggggtggggcccaatatgcatttacaatgtttttctttcccccctagGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGGTTGGAGCAACACAAGGACAAGGGCgtgagtccaaattcacattacatgacgggagcttggttggatgaagtggt Alignment from Spaln_nt2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--- aatggggtggggcccaatatgcatttacaatgtttttctttcccccctagGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGGTTGGAGCAACACAAGGACAAGGGCgtgagtccaaattcacattacatgacgggagcttggttggatgaagtggt Alignment from Pairagon GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--- aatggggtggggcccaatatgcatttacaatgtttttctttcccccctagGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGGTTGGAGCAACACAAGGACAAGGGCgtgagtccaaattcacattacatgacgggagcttggttggatgaagtggt Alignment from Exonerate_protein2genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAA aatggggtggggcccaatatgcatttacaatgtttttctttcccccctagGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGGTTGGAGCAACACAAGGACAAgggcgtgagtccaaattcacattacatgacgggagcttggttggatgaagtggt Alignment from Exonerate_coding2genome aatggggtggggcccaatatgcatttacaatgtttttctttcccccctaggctaccccaatgaggaggctgcagaggtagtgctggtttcattgcaggaatggttggagcaacacaaggacaagggcgtgagtccaaattcacattacatgacgggagcttggttggatgaagtggt Alignment from GeneWise -------------CCGTGCATCTCCACAGGCGTGTTT------------GGCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAGGTG AATGGGGTGGGGCCCAATATGCATTTACAATGTTTTTCTTTCCCCCCTAGGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGGTTGGAGCAACACAAGGACAAGGGCgtgagtccaaattcacattacatgacgggagcttggttggatgaagtggt #### Macrod1_ID2054_9 --> 0 - 1 Original Alignment GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAg ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcagGTGGATCGGCTCATTATCTGTGTGTGCTTGGAGAAAGAAGAGGGCATTTACAGGGAACATCTTCCCCATTAT---------ggtaggtacatcccttcttagtggctcctatgcttgtcctgctggctttcc Alignment from CESAR GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAg ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcagGTGGATCGGCTCATTATCTGTGTGTGCTTGGAGAAAGAAGAGGGCATTTACAGGGAACATCTTCCCCATTAT---------ggtaggtacatcccttcttagtggctcctatgccccctgttcactcctcct Alignment from Spaln_aa2Genome GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTAT------TTCCCAGTAGCC ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcagGTGGATCGGCTCATTATCTGTGTGTGCTTGGAGAAAGAAGAGGGCATTTACAGGGAACATCTTCCCCATTATGGTAGGTACATCCCTTCTtagtggctcctatgcttgtcctgctggctttcc Alignment from Spaln_nt2Genome GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATT ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcagGTGGATCGGCTCATTATCTGTGTGTGCTTGGAGAAAGAAGAGGGCATTTACAGGGAACATCTTCCCCATTATGgtaggtacatcccttcttagtggctcctatgcttgtcctgctggctttcc Alignment from Pairagon GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTAT--------------TTCCCAGTAGCC ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcagGTGGATCGGCTCATTATCTGTGTGTGCTTGGAGAAAGAAGAGGGCATTTACAGGGAACATCTTCCCCATTATGGTAGGTACATCCCTTCTTAGTGGCTcctatgcttgtcctgctggctttcc Alignment from Exonerate_protein2genome GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTAT ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcagGTGGATCGGCTCATTATCTGTGTGTGCTTGGAGAAAGAAGAGGGCATTTACAGGGAACATCTTCCCCATTATggtaggtacatcccttcttagtggctcctatgcttgtcctgctggctttcc Alignment from Exonerate_coding2genome ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcaggtggatcggctcattatctgtgtgtgcttggagaaagaagagggcatttacagggaacatcttccccattatggtaggtacatcccttcttagtggctcctatgcttgtcctgctggctttcc Alignment from GeneWise GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAGCC ttcacctgttatgttccaagtttaagtattcatctttgttttgttttcagGTGGATCGGCTCATTATCTGTGTGTGCTTGGAGAAAGAAGAGGGCATTTACAGGGAACATCTTCCCCATTATGGTAGGTACATCccttcttagtggctcctatgcttgtcctgctggctttcc #### Map3k11_ID1202_3 --> 1 - 1 Original Alignment c---------TTTGGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTg taagggcagataattccacctggatcaactttaatatctctgctccacagtGCAGATACCTTTGGAGTGTTATTGTGGGAGCTGCTGACTGGCAAAGTGCCATACCGAGGCATTGACTGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCTATTCCATCTACTTGTCCTGAGCCCTTCGCACAACTAATGGCTggtgagtcagataagttcacatggagcagaagtgcaggccctttggtgcga Alignment from CESAR c---------TTTGGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTg taagggcagataattccacctggatcaactttaatatctctgctccacagtGCAGATACCTTTGGAGTGTTATTGTGGGAGCTGCTGACTGGCAAAGTGCCATACCGAGGCATTGACTGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCTATTCCATCTACTTGTCCTGAGCCCTTCGCACAACTAATGGCTggtgagtcagataagttcacatggagcagaagtgcaggccctttggtgcga Alignment from Spaln_aa2Genome CTTTGGAGTGCTG---------CTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG taagggcagataattccacctggatcaactttaatatctctgctccacagTGCAGATACCTTTGGAGTGTTATTGTGGGAGCTGCTGACTGGCAAAGTGCCATACCGAGGCATTGACTGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCTATTCCATCTACTTGTCCTGAGCCCTTCGCACAACTAATGGCTGgtgagtcagataagttcacatggagcagaagtgcaggccctttggtgcga Alignment from Spaln_nt2Genome ----CTTTGGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG taagggcagataattccacctggatcaactttaatatctctgctccacagtgcagATACCTTTGGAGTGTTATTGTGGGAGCTGCTGACTGGCAAAGTGCCATACCGAGGCATTGACTGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCTATTCCATCTACTTGTCCTGAGCCCTTCGCACAACTAATGGCTGgtgagtcagataagttcacatggagcagaagtgcaggccctttggtgcga Alignment from Pairagon ---------CTTTGGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG taagggcagataattccacctggatcaactttaatatctctgctccacagTGCAGATACCTTTGGAGTGTTATTGTGGGAGCTGCTGACTGGCAAAGTGCCATACCGAGGCATTGACTGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCTATTCCATCTACTTGTCCTGAGCCCTTCGCACAACTAATGGCTGgtgagtcagataagttcacatggagcagaagtgcaggccctttggtgcga Alignment from Exonerate_protein2genome CTTTGGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG taagggcagataattccacctggatcaactttaatatctctgctccacagtgcagatacCTTTGGAGTGTTATTGTGGGAGCTGCTGACTGGCAAAGTGCCATACCGAGGCATTGACTGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCTATTCCATCTACTTGTCCTGAGCCCTTCGCACAACTAATGGCTGgtgagtcagataagttcacatggagcagaagtgcaggccctttggtgcga Alignment from Exonerate_coding2genome CTTTGGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG taagggcagataattccacctggatcaactttaatatctctgctccacagtgcagatacCTTTGGAGTGTTATTGTGGGAGCTGCTGACTGGCAAAGTGCCATACCGAGGCATTGACTGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCTATTCCATCTACTTGTCCTGAGCCCTTCGCACAACTAATGGCTGgtgagtcagataagttcacatggagcagaagtgcaggccctttggtgcga Alignment from GeneWise -------AGCTTTGGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG taagggcagataattccacctggatcaactttaatatctctgctccacagTGCAGATACCTTTGGAGTGTTATTGTGGGAGCTGCTGACTGGCAAAGTGCCATACCGAGGCATTGACTGTCTCGCAGTGGTTTATGGTGTGGCTGTAAATAAATTAACATTACCTATTCCATCTACTTGTCCTGAGCCCTTCGCACAACTAATGGCTGgtgagtcagataagttcacatggagcagaagtgcaggccctttggtgcga #### Map3k11_ID1203_4 --> 2 - 0 Original Alignment acTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG ggccctttggtgcgaatgtctcaaggctttatgagtcgcatccattgtagat---TGGGCACAGGATCCACACCGCAGGCCCCATTTTGCTTCTTTATTGCAGCAGTTGGAAGCCCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaagatgcatctgcctatgggacatagcaagtgatacataacatggtgg Alignment from CESAR acTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG gcaggccctttggtgcgaatgtctcgctttatgagtcgcatccattgtagat---TGGGCACAGGATCCACACCGCAGGCCCCATTTTGCTTCTTTATTGCAGCAGTTGGAAGCCCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaagatgcatctgcctatgggacatagcaagtgatacataacatggtgg Alignment from Spaln_aa2Genome GCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG ggccctttggtgcgaatgtctcaaggctttatgagtcgcatccattgtagATTGGGCACAGGATCCACACCGCAGGCCCCATTTTGCTTCTTTATTGCAGCAGTTGGAAGCCCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaagatgcatctgcctatgggacatagcaagtgatacataacatggtgg Alignment from Spaln_nt2Genome ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG ggccctttggtgcgaatgtctcaaggctttatgagtcgcatccattgtagA---TTGGGCACAGGATCCACACCGCAGGCCCCATTTTGCTTCTTTATTGCAGCAGTTGGAAGCCCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaagatgcatctgcctatgggacatagcaagtgatacataacatggtgg Alignment from Pairagon ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG ggccctttggtgcgaatgtctcaaggctttatgagtcgcatccattgtagA---TTGGGCACAGGATCCACACCGCAGGCCCCATTTTGCTTCTTTATTGCAGCAGTTGGAAGCCCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaagatgcatctgcctatgggacatagcaagtgatacataacatggtgg Alignment from Exonerate_protein2genome ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG ggccctttggtgcgaatgtctcaaggctttatgagtcgcatccattgtagAT---TGGGCACAGGATCCACACCGCAGGCCCCATTTTGCTTCTTTATTGCAGCAGTTGGAAGCCCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaagatgcatctgcctatgggacatagcaagtgatacataacatggtgg Alignment from Exonerate_coding2genome ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG ggccctttggtgcgaatgtctcaaggctttatgagtcgcatccattgtagAT---TGGGCACAGGATCCACACCGCAGGCCCCATTTTGCTTCTTTATTGCAGCAGTTGGAAGCCCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaagatgcatctgcctatgggacatagcaagtgatacataacatggtgg Alignment from GeneWise GCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG ggccctttggtgcgaatgtctcaaggctttatgagtcgcatccattgtagATTGGGCACAGGATCCACACCGCAGGCCCCATTTTGCTTCTTTATTGCAGCAGTTGGAAGCCCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaagatgcatctgcctatgggacatagcaagtgatacataacatggtgg #### Map3k11_ID1204_5 --> 0 - 1 Original Alignment ---GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGA------CGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGg ttctacattgtgagtcgatagccatattctttgcgtgttttctcttgtagTACGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGAGACGACATGAGCATTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGGCACCTCCAAATTGAGTAAACTCCGAGCAAGAGATAGTGAAGAACGGGTCAGCATGCCCTTGggtgagagctgggactccaactatgtctgcagtggcatgaatgattactgc Alignment from CESAR ---GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAG------CAGCTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGg ttctacattgtgagtcgatagccatattctttgcgtgttttctcttgtagTACGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGAGACGACATGAGCATTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGGCACCTCCAAATTGAGTAAACTCCGAGCAAGAGATAGTGAAGAACGGGTCAGCATGCCCTTGggtgagagctgggactccaactatgtctgcagtggcatgaatgattactgc Alignment from Spaln_aa2Genome ---GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAG------CAGCTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTG ttctacattgtgagtcgatagccatattctttgcgtgttttctcttgtagTACGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGAGACGACATGAGCATTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGGCACCTCCAAATTGAGTAAACTCCGAGCAAGAGATAGTGAAGAACGGGTCAGCATGCCCTTGGgtgagagctgggactccaactatgtctgcagtggcatgaatgattactgc Alignment from Spaln_nt2Genome ---GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGC------GACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGA------GCGCGAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ttctacattgtgagtcgatagccatattctttgcgtgttttctcttgtagTACGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGAGACGACATGAGCATTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGGCACCTCCAAATTGAGTAAACTCCGAGCAAGAGATAGTGAAGAACGGGTCAGCATGCCCTTGGgtgagagctgggactccaactatgtctgcagtggcatgaatgattactgc Alignment from Pairagon ---GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGC------GACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGA------GCGCGAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ttctacattgtgagtcgatagccatattctttgcgtgttttctcttgtagTACGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGAGACGACATGAGCATTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGGCACCTCCAAATTGAGTAAACTCCGAGCAAGAGATAGTGAAGAACGGGTCAGCATGCCCTTGGgtgagagctgggactccaactatgtctgcagtggcatgaatgattactgc Alignment from Exonerate_protein2genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAG------CAGCTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ttctacattgtgagtcgatagccatattctttgcgtgttttctcttgtagtacGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGAGACGACATGAGCATTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGGCACCTCCAAATTGAGTAAACTCCGAGCAAGAGATAGTGAAGAACGGGTCAGCATGCCCTTGGgtgagagctgggactccaactatgtctgcagtggcatgaatgattactgc Alignment from Exonerate_coding2genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAG------CAGCTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ttctacattgtgagtcgatagccatattctttgcgtgttttctcttgtagtacGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGAGACGACATGAGCATTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGGCACCTCCAAATTGAGTAAACTCCGAGCAAGAGATAGTGAAGAACGGGTCAGCATGCCCTTGGgtgagagctgggactccaactatgtctgcagtggcatgaatgattactgc Alignment from GeneWise ---GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTG------CGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ttctacattgtgagtcgatagccatattctttgcgtgttttctcttgtagTACGAACTCCTTAGTCAAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAACAGCTCCAGCTGAGACGACATGAGCATTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGGCACCTCCAAATTGAGTAAACTCCGAGCAAGAGATAGTGAAGAACGGGTCAGCATGCCCTTGGgtgagagctgggactccaactatgtctgcagtggcatgaatgattactgc #### Map4k2_ID1622_2 --> 0 - 1 Original Alignment GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCCAg cctagattctaatcaagtgatgtcaccttgaggtttgcctctcctttcagGCTCGTGACACCGTCACATCTGAGCTGGCTGCAGTGAAGATTGTCAAGCTAGAC---ggtacttcttggataggcacagagtccttcatccagctgagtgacagggaa Alignment from CESAR GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCCAg cctagattctaatcaagtgatgtcaccttgaggtttgcctctcctttcagGCTCGTGACACCGTCACATCTGAGCTGGCTGCAGTGAAGATTGTCAAGCTAGAC---ggtacttcttggataggcacagagtccttcatccagctgagtgacagggaa Alignment from Spaln_aa2Genome GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGAC- cctagattctaatcaagtgatgtcaccttgaggtttgcctctcctttcagGCTCGTGACACCGTCACATCTGAGCTGGCTGCAGTGAAGATTGTCAAGCTAGACGgtacttcttggataggcacagagtccttcatccagctgagtgacagggaa Alignment from Spaln_nt2Genome GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCC------------AG cctagattctaatcaagtgatgtcaccttgaggtttgcctctcctttcagGCTCGTGACACCGTCACATCTGAGCTGGCTGCAGTGAAGATTGTCAAGCTAGACGGTACTTCTTGGATAGgcacagagtccttcatccagctgagtgacagggaa Alignment from Pairagon GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGAC--------------------------------------------------- cctagattctaatcaagtgatgtcaccttgaggtttgcctctcctttcagGCTCGTGACACCGTCACATCTGAGCTGGCTGCAGTGAAGATTGTCAAGCTAGACGGTACTTCTTGGATAGGCACAGAGTCCTTCATCCAGCTGAGTGACAGGGAA Alignment from Exonerate_protein2genome cctagattctaatcaagtgatgtcaccttgaggtttgcctctcctttcaggctcgtgacaccgtcacatctgagctggctgcagtgaagattgtcaagctagacggtacttcttggataggcacagagtccttcatccagctgagtgacagggaa Alignment from Exonerate_coding2genome cctagattctaatcaagtgatgtcaccttgaggtttgcctctcctttcaggctcgtgacaccgtcacatctgagctggctgcagtgaagattgtcaagctagacggtacttcttggataggcacagagtccttcatccagctgagtgacagggaa Alignment from GeneWise GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACC cctagattctaatcaagtgatgtcaccttgaggtttgcctctcctttcagGCTCGTGACACCGTCACATCTGAGCTGGCTGCAGTGAAGATTGTCAAGCTAGACGgtacttcttggataggcacagagtccttcatccagctgagtgacagggaa #### Map4k2_ID1637_16 --> 1 - 2 Original Alignment gAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAag atgcgtgaaccctgtttatgcttgggactatttgctttccatctctccaggAGCCTGTTGCAGTCAGTGCAG---------------aagtgcgtctttatcccgttaagcaaaaaccattgaccaaaggctgggaagt Alignment from CESAR gAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAag atgcgtgaaccctgtttatgcttgggactatttgctttccatctctccaggAGCCTGTTGCAGTCAGTGCAG---------------aagtgcgtctttatcccgttaagcaaaaaccattgaccaaaggctgggaagt Alignment from Spaln_aa2Genome GAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAAG atgcgtgaaccctgtttatgcttgggactatttgctttccatctctccagGAGCCTGTTGCAGTCAGTGCAGAAGTGCGTCTTTATCCCgttaagcaaaaaccattgaccaaaggctgggaagt Alignment from Spaln_nt2Genome GAGCCTGCTGCAGTCAGTCCAGGA atgcgtgaaccctgtttatgcttgggactatttgctttccatctctccagGAGCCTGTTGCAGTCAGTGCAGAAgtgcgtctttatcccgttaagcaaaaaccattgaccaaaggctgggaagt Alignment from Pairagon GAGCCTGCTGCAGTCAGTCCAGGA atgcgtgaaccctgtttatgcttgggactatttgctttccatctctccagGAGCCTGTTGCAGTCAGTGCAGAAgtgcgtctttatcccgttaagcaaaaaccattgaccaaaggctgggaagt Alignment from Exonerate_protein2genome GAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAAG atgcgtgaaccctgtttatgcttgggactatttgctttccatctctccagGAGCCTGTTGCAGTCAGTGCAGAAGTGCGTCTTTATCCCgttaagcaaaaaccattgaccaaaggctgggaagt Alignment from Exonerate_coding2genome atgcgtgaaccctgtttatgcttgggactatttgctttccatctctccaggagcctgttgcagtcagtgcagaagtgcgtctttatcccgttaagcaaaaaccattgaccaaaggctgggaagt Alignment from GeneWise atgcgtgaaccctgtttatgcttgggactatttgctttccatctctccaggagcctgttgcagtcagtgcagaagtgcgtctttatcccgttaagcaaaaaccattgaccaaaggctgggaagt #### Map4k2_ID1638_17 --> 1 - 0 Original Alignment gAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG--- actatcccccttgcaaatagtaataccacagctgtgcatggtctccacaggAGCCTGGCTATCCGGCCAGCCTTAGAACTGCAGGATgtgagacgtgatagtattatactaggagtggactcatagactagtggggg Alignment from CESAR gAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG--- actatcccccttgcaaatagtaataccacagctgtgcatggtctccacaggAGCCTGGCTATCCGGCCAGCCTTAGAACTGCAGGATgtgagacgtgatagtattatactaggagtggactcatagactagtggggg Alignment from Spaln_aa2Genome GAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG--- actatcccccttgcaaatagtaataccacagctgtgcatggtctccacagGAGCCTGGCTATCCGGCCAGCCTTAGAACTGCAGGATgtgagacgtgatagtattatactaggagtggactcatagactagtggggg Alignment from Spaln_nt2Genome GAGCCTGACTATCCGGCCAGCCTTAGAACTCCAGGAG actatcccccttgcaaatagtaataccacagctgtgcatggtctccacagGAGCCTGGCTATCCGGCCAGCCTTAGAACTGCAGGATgtgagacgtgatagtattatactaggagtggactcatagactagtggggg Alignment from Pairagon GAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG--- actatcccccttgcaaatagtaataccacagctgtgcatggtctccacagGAGCCTGGCTATCCGGCCAGCCTTAGAACTGCAGGATgtgagacgtgatagtattatactaggagtggactcatagactagtggggg Alignment from Exonerate_protein2genome GAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG actatcccccttgcaaatagtaataccacagctgtgcatggtctccacagGAGCCTGGCTATCCGGCCAGCCTTAGAACTGCAGgatgtgagacgtgatagtattatactaggagtggactcatagactagtggggg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise actatcccccttgcaaatagtaataccacagctgtgcatggtctccacaggagcctggctatccggccagccttagaactgcaggatgtgagacgtgatagtattatactaggagtggactcatagactagtggggg #### Map4k2_ID1639_18 --> 0 - 1 Original Alignment GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCA------------------------------g ctacagaacaacgttttatggggccagtagcctggcttctctgtactcagGAACTTGATTCCCCAGATGATGCCATTGGAACTATCAAGCAAGCACCATTCCTGGGCCTCCCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGT---CCAGACAACTTTGGGTTGGAACTGGCAGCAGTGggtagggtcagggaatggtaagccacatggtatgttgtggacatgccaggg Alignment from CESAR GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGC---------------------------TCCCCAg ctacagaacaacgttttatggggccagtagcctggcttctctgtactcagGAACTTGATTCCCCAGATGATGCCATTGGAACTATCAAGCAAGCACCATTCCTGGGCCTCCCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGTCCAGACAACTTTGGGTTGGAACTGGCAGCAGTGggtagggtcagggaatggtaagccacatggtatgttgtggacatgccaggg Alignment from Spaln_aa2Genome GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCT ctacagaacaacgttttatggggccagtagcctggcttctctgtactcagGAACTTGATTCCCCAGATGATGCCATTGGAACTATCAAGCAAGCACCATTCCTGGGCCTCCCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTgtccagacaactttgggttggaactggcagcagtgggtagggtcagggaatggtaagccacatggtatgttgtggacatgccaggg Alignment from Spaln_nt2Genome GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCA--------G ctacagaacaacgttttatggggccagtagcctggcttctctgtactcagGAACTTGATTCCCCAGATGATGCCATTGGAACTATCAAGCAAGCACCATTCCTGGGCCTCCCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTG-TCCAGACAACTTTGGgttggaactggcagcagtgggtagggtcagggaatggtaagccacatggtatgttgtggacatgccaggg Alignment from Pairagon GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTG------------------------------------------------------------------------------------- ctacagaacaacgttttatggggccagtagcctggcttctctgtactcagGAACTTGATTCCCCAGATGATGCCATTGGAACTATCAAGCAAGCACCATTCCTGGGCCTCCCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGTCCAGACAACTTTGGGTTGGAACTGGCAGCAGTGGGTAGGGTCAGGGAATGGTAAGCCACATGGTATGTTGTGGACATGCCAGGG Alignment from Exonerate_protein2genome GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCC ctacagaacaacgttttatggggccagtagcctggcttctctgtactcagGAACTTGATTCCCCAGATGATGCCATTGGAACTATCAAGCAAGCACCATTCCTGGGCCTCCCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGTCCAGacaactttgggttggaactggcagcagtgggtagggtcagggaatggtaagccacatggtatgttgtggacatgccaggg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TGGAGGAAAGGAGCCTGACT------ATCCGGCCAGCCTTAGAACTCCAGGAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCC- CTACAGAACAACGTTTTATGGGGCCAGTAGCCTGGCTTCTCTGTACTCAGGAACTTGATTCCCCAGATGATGCCATTGGAACTATCAAGCAAGCACCATTCCTGGGCCTCCCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTgtccagacaactttgggttggaactggcagcagtgggtagggtcagggaatggtaagccacatggtatgttgtggacatgccaggg #### Map4k2_ID1647_26 --> 2 - 0 Original Alignment ttCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG tgaagctggccccaccccctgagcaacacaagcactctgcttcctcttagtc------------ACTAGCAGCACATTCCTGCTGGCTGCTCTGCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc Alignment from CESAR ttCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gcgggagtgccatgaagctggccccacacaagcactctgcttcctcttagtc------------ACTAGCAGCACATTCCTGCTGGCTGCTCTGCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc Alignment from Spaln_aa2Genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG tgaagctggccccaccccctgagcaacacaagcactctgcttcctcttagTC------------ACTAGCAGCACATTCCTGCTGGCTGCTCTGCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc Alignment from Spaln_nt2Genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG tgaagctggccccaccccctgagcaacacaagcactctgcttcctcttagT-------CACTA-----GCAGCACATTCCTGCTGGCTGCTCTGCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc Alignment from Pairagon TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG tgaagctggccccaccccctgagcaacacaagcactctgcttcctcttagtcactag-------------------CAGCACATTCCTGCTGGCTGCTCTGCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc Alignment from Exonerate_protein2genome C CTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG TgaagctggccccaccccctgagcaacacaagcactctgcttcctcttAGTCACTAGCAGCACATTCCTGCTGGCTGCTCTGCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc Alignment from Exonerate_coding2genome C CTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG TgaagctggccccaccccctgagcaacacaagcactctgcttcctcttAGTCACTAGCAGCACATTCCTGCTGGCTGCTCTGCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc Alignment from GeneWise GTGTGGTTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG tgaagctggccccaccccctgagcaacacaagCACTCTGCTTCCTCTTAGTCACTAGCAGCACATTCCTGCTGGCTGCTCTGCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtgagtgacttttggactggttgtcacacaatggactggagatcagagtc #### Map4k2_ID1649_28 --> 2 - 1 Original Alignment agGGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAA---c aatgctagctcaataaccagttagaggtttgcttgctaatttcattgcagagGGGATTCCAGGGCCTGCACAACAAGTGATACAGGTAGATCGAGACAAAGTCTTGGTTAGCTTTGAAGAAcgtgagtaactgaatgtcaaaaggaggttgcaaacagggtgggagcaaagc Alignment from CESAR agGGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAA---c aatgctagctcaataaccagttagaggtttgcttgctaatttcattgcagagGGGATTCCAGGGCCTGCACAACAAGTGATACAGGTAGATCGAGACAAAGTCTTGGTTAGCTTTGAAGAAcgtgagtaactgaatgtcaaaaggaggttgcaaacagggtgggagcaaagc Alignment from Spaln_aa2Genome AGGGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTT---GAAC aatgctagctcaataaccagttagaggtttgcttgctaatttcattgcagAGGGGATTCCAGGGCCTGCACAACAAGTGATACAGGTAGATCGAGACAAAGTCTTGGTTAGCTTTGAAGAACgtgagtaactgaatgtcaaaaggaggttgcaaacagggtgggagcaaagc Alignment from Spaln_nt2Genome AGGGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAA---C aatgctagctcaataaccagttagaggtttgcttgctaatttcattgcagAGGGGATTCCAGGGCCTGCACAACAAGTGATACAGGTAGATCGAGACAAAGTCTTGGTTAGCTTTGAAGAACgtgagtaactgaatgtcaaaaggaggttgcaaacagggtgggagcaaagc Alignment from Pairagon AGGGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTT---GAAC aatgctagctcaataaccagttagaggtttgcttgctaatttcattgcagAGGGGATTCCAGGGCCTGCACAACAAGTGATACAGGTAGATCGAGACAAAGTCTTGGTTAGCTTTGAAGAACgtgagtaactgaatgtcaaaaggaggttgcaaacagggtgggagcaaagc Alignment from Exonerate_protein2genome AGGGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTT---GAAC aatgctagctcaataaccagttagaggtttgcttgctaatttcattgcagAGGGGATTCCAGGGCCTGCACAACAAGTGATACAGGTAGATCGAGACAAAGTCTTGGTTAGCTTTGAAGAACgtgagtaactgaatgtcaaaaggaggttgcaaacagggtgggagcaaagc Alignment from Exonerate_coding2genome aatgctagctcaataaccagttagaggtttgcttgctaatttcattgcagaggggattccagggcctgcacaacaagtgatacaggtagatcgagacaaagtcttggttagctttgaagaacgtgagtaactgaatgtcaaaaggaggttgcaaacagggtgggagcaaagc Alignment from GeneWise AGGGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAACGC- aatgctagctcaataaccagttagaggtttgcttgctaatttcattgcagAGGGGATTCCAGGGCCTGCACAACAAGTGATACAGGTAGATCGAGACAAAGTCTTGGTTAGCTTTGAAGAACgtgagtaactgaatgtcaaaaggaggttgcaaacagggtgggagcaaagc #### Mark2_ID2108_13 --> 2 - 0 Original Alignment ccGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG--------- gtgacatacagtatgatggcttggaggttgtgtgtgtctgtgtcttgtagctGTACCCGGCATTCCCACCTCCAATTCCTATTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGGCGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAGACTACC---GCACCGTCTACATTATTTGAAgtgagtcctacagttactctccaagagactaagtgcactactttagaggc Alignment from CESAR ccGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG--------- gtgacatacagtatgatggcttggaggttgtgtgtgtctgtgtcttgtagctGTACCCGGCATTCCCACCTCCAATTCCTATTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGGCGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAGACTACC---GCACCGTCTACATTATTTGAAgtgagtcctacagttactctccaagagactaagtgcactactttagaggc Alignment from Spaln_aa2Genome CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG------ gtgacatacagtatgatggcttggaggttgtgtgtgtctgtgtcttgtagCTGTACCCGGCATTCCCACCTCCAATTCCTATTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGGCGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAGACTACCGCACCGTCTACATTATTTGAAgtgagtcctacagttactctccaagagactaagtgcactactttagaggc Alignment from Spaln_nt2Genome CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACGA------ gtgacatacagtatgatggcttggaggttgtgtgtgtctgtgtcttgtagCTGTACCCGGCATTCCCACCTCCAATTCCTATTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGGCGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAGACTAC-CGCACCGTCTACATTATTTGAAgtgagtcctacagttactctccaagagactaagtgcactactttagaggc Alignment from Pairagon CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCAC------------------------------------------------------------ gtgacatacagtatgatggcttggaggttgtgtgtgtctgtgtcttgtagCTGTACCCGGCATTCCCACCTCCAATTCCTATTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGGCGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAGACTA---CCGCACCGTCTACATTATTTGAAGTGAGTCCTACAGTTACTCTCCAAGAGACTAAGTGCACTACTTTAGAGGC Alignment from Exonerate_protein2genome CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG gtgacatacagtatgatggcttggaggttgtgtgtgtctgtgtcttgtagCTGTACCCGGCATTCCCACCTCCAATTCCTATTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGGCGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAGACTACC---GCACCGTCTACAttatttgaagtgagtcctacagttactctccaagagactaagtgcactactttagaggc Alignment from Exonerate_coding2genome CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG gtgacatacagtatgatggcttggaggttgtgtgtgtctgtgtcttgtagCTGTACCCGGCATTCCCACCTCCAATTCCTATTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGGCGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAGACTACC---GCACCGTCTACAttatttgaagtgagtcctacagttactctccaagagactaagtgcactactttagaggc Alignment from GeneWise CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG--------- gtgacatacagtatgatggcttggaggttgtgtgtgtctgtgtcttgtagCTGTACCCGGCATTCCCACCTCCAATTCCTATTCTAAAAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAGGAAACAGGGCGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAGACTACC---GCACCGTCTACATTATTTGAAgtgagtcctacagttactctccaagagactaagtgcactactttagaggc #### Mark2_ID2111_10 --> 0 - 1 Original Alignment CAAATTATG---------------AAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAg agttacattttgttccctgaaccctatcagaaaaccttctccccatacag---------GAGGATCAGTGGATGAAAGATCAGTGGATGAATGTGGGACATGAGGATGTTGAACTAAAGCTTTATGTGGAACCCTTTCCTGACTATAGGGAACCACGGCAAACAggtaagcctgtggtgctgcatgtctgagataaggccacattgagtcaatgc Alignment from CESAR ------CAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAg ctctgaaatagttacattttgttccatcagaaaaccttctccccatacagGAGGATCAGTGGATGAAAGATCAGTGGATGAATGTGGGACATGAGGATGTTGAACTAAAGCTTTATGTGGAACCCTTTCCTGACTATAGGGAACCACGGCAAACAggtaagcctgtggtgctgcatgtctgagataaggccacattgagtcaatgc Alignment from Spaln_aa2Genome ---GAGCAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG agttacattttgttccctgaaccctatcagaaaaccttctccccatacagGAGGATCAGTGGATGAAAGATCAGTGGATGAATGTGGGACATGAGGATGTTGAACTAAAGCTTTATGTGGAACCCTTTCCTGACTATAGGGAACCACGGCAAACAGgtaagcctgtggtgctgcatgtctgagataaggccacattgagtcaatgc Alignment from Spaln_nt2Genome CAAATT------ATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG agttacattttgttccctgaaccctatcagaaaaccttctccccatacagGAGGATCAGTGGATGAAAGATCAGTGGATGAATGTGGGACATGAGGATGTTGAACTAAAGCTTTATGTGGAACCCTTTCCTGACTATAGGGAACCACGGCAAACAGgtaagcctgtggtgctgcatgtctgagataaggccacattgagtcaatgc Alignment from Pairagon --------------------------------------------------------------ATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG AGTTACATTTTGTTCCCTGAACCCTATCAGAAAACCTTCTCCCCATACAGGAGGATCAGTGGATGAAAGATCAGTGGATGAATGTGGGACATGAGGATGTTGAACTAAAGCTTTATGTGGAACCCTTTCCTGACTATAGGGAACCACGGCAAACAGgtaagcctgtggtgctgcatgtctgagataaggccacattgagtcaatgc Alignment from Exonerate_protein2genome TTAGAGCAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG agttacattttgttccctgaaccctatcagaaaaccttctccccatacagGAGGATCAGTGGATGAAAGATCAGTGGATGAATGTGGGACATGAGGATGTTGAACTAAAGCTTTATGTGGAACCCTTTCCTGACTATAGGGAACCACGGCAAACAGgtaagcctgtggtgctgcatgtctgagataaggccacattgagtcaatgc Alignment from Exonerate_coding2genome TTAGAGCAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG agttacattttgttccctgaaccctatcagaaaaccttctccccatacagGAGGATCAGTGGATGAAAGATCAGTGGATGAATGTGGGACATGAGGATGTTGAACTAAAGCTTTATGTGGAACCCTTTCCTGACTATAGGGAACCACGGCAAACAGgtaagcctgtggtgctgcatgtctgagataaggccacattgagtcaatgc Alignment from GeneWise ------CAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG agttacattttgttccctgaaccctatcagaaaaccttctccccatacagGAGGATCAGTGGATGAAAGATCAGTGGATGAATGTGGGACATGAGGATGTTGAACTAAAGCTTTATGTGGAACCCTTTCCTGACTATAGGGAACCACGGCAAACAGgtaagcctgtggtgctgcatgtctgagataaggccacattgagtcaatgc #### Mark2_ID2112_9 --> 0 - 0 Original Alignment GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG--------------------- ccttcttgcaataacttatatgtcagatgctgactcttgctttcttacagGAGCTACGGGAACGGGTGTTGAGGGGGAAATACCGTATTCCGTTCTACATATCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATTCTCTCCTTTACCGACCTGAAgtaagtaacctgagatagcagtcaggaaaggaatataccaattagctctg Alignment from CESAR GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTA---------------------GAG ccttcttgcaataacttatatgtcagatgctgactcttgctttcttacagGAGCTACGGGAACGGGTGTTGAGGGGGAAATACCGTATTCCGTTCTACATATCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATTCTCTCCTTTACCGACCTGAAgtaagtaacctgagatagcagtcaggaaaggaatataccaattagctctg Alignment from Spaln_aa2Genome GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAGCAAATT--------------- ccttcttgcaataacttatatgtcagatgctgactcttgctttcttacagGAGCTACGGGAACGGGTGTTGAGGGGGAAATACCGTATTCCGTTCTACATATCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATTCTCTCCTTTACCGACCTGAAgtaagtaacctgagatagcagtcaggaaaggaatataccaattagctctg Alignment from Spaln_nt2Genome GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAG ccttcttgcaataacttatatgtcagatgctgactcttgctttcttacagGAGCTACGGGAACGGGTGTTGAGGGGGAAATACCGTATTCCGTTCTACATATCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGgcactctagattctctcctttaccgacctgaagtaagtaacctgagatagcagtcaggaaaggaatataccaattagctctg Alignment from Pairagon GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAG------------------------------------------------------------------------- ccttcttgcaataacttatatgtcagatgctgactcttgctttcttacagGAGCTACGGGAACGGGTGTTGAGGGGGAAATACCGTATTCCGTTCTACATATCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATTCTCTCCTTTACCGACCTGAAGTAAGTAACCTGAGATAGCAGTCAGGAAAGGAATATACCAATTAGCTCTG Alignment from Exonerate_protein2genome GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAG ccttcttgcaataacttatatgtcagatgctgactcttgctttcttacagGAGCTACGGGAACGGGTGTTGAGGGGGAAATACCGTATTCCGTTCTACATATCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAagaggcactctagattctctcctttaccgacctgaagtaagtaacctgagatagcagtcaggaaaggaatataccaattagctctg Alignment from Exonerate_coding2genome GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAG ccttcttgcaataacttatatgtcagatgctgactcttgctttcttacagGAGCTACGGGAACGGGTGTTGAGGGGGAAATACCGTATTCCGTTCTACATATCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAagaggcactctagattctctcctttaccgacctgaagtaagtaacctgagatagcagtcaggaaaggaatataccaattagctctg Alignment from GeneWise GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTA---------------------GAG ccttcttgcaataacttatatgtcagatgctgactcttgctttcttacagGAGCTACGGGAACGGGTGTTGAGGGGGAAATACCGTATTCCGTTCTACATATCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATTCTCTCCTTTACCGACCTGAAgtaagtaacctgagatagcagtcaggaaaggaatataccaattagctctg #### Men1_ID1614_5 --> 0 - 2 Original Alignment AAGCTGCTCTGGCTGCTGTATGACCTCGGACATCTGGAA------ag gagggttgactacaagctctccaccccttacttataataaaatgtttttgcatcagAAGTTGCTTTGGCTGCTGTATGACCTTGGGCATCTGGAATCCACCaggtatggagaccaggggaatcaataagtattgaaatcaggatata Alignment from CESAR AAGCTGCTCTGGCTGCTGTATGACCTCGGACATCTGGAA------ag gagggttgactacaagctctccaccccttacttataataaaatgtttttgcatcagAAGTTGCTTTGGCTGCTGTATGACCTTGGGCATCTGGAATCCACCaggtatggagaccaggggaatcaataagtattgaaatcaggatata Alignment from Spaln_aa2Genome AAGCTGCTCTGGCTGCTGTATGACCTCGGACATCTGGAAAGA----- gagggttgactacaagctctccaccccttacttataataaaatgtttttgcatcagAAGTTGCTTTGGCTGCTGTATGACCTTGGGCATCTGGAATCCACCAGgtatggagaccaggggaatcaataagtattgaaatcaggatata Alignment from Spaln_nt2Genome AAGCTGCTCTGGCTGCTGTATGACCTCGGACATCTGGAA------AG gagggttgactacaagctctccaccccttacttataataaaatgtttttgcatcagAAGTTGCTTTGGCTGCTGTATGACCTTGGGCATCTGGAATCCACCAGgtatggagaccaggggaatcaataagtattgaaatcaggatata Alignment from Pairagon AAGCTGCTCTGGCTGCTGTATGACCTCGGACATCTGGAA------AG gagggttgactacaagctctccaccccttacttataataaaatgtttttgcatcagAAGTTGCTTTGGCTGCTGTATGACCTTGGGCATCTGGAATCCACCAGgtatggagaccaggggaatcaataagtattgaaatcaggatata Alignment from Exonerate_protein2genome AAGCTGCTCTGGCTGCTGTATGACCTCGGACATCTGGAA------AG gagggttgactacaagctctccaccccttacttataataaaatgtttttgcatcagAAGTTGCTTTGGCTGCTGTATGACCTTGGGCATCTGGAATCCACCAGgtatggagaccaggggaatcaataagtattgaaatcaggatata Alignment from Exonerate_coding2genome AAGCTGCTCTGGCTGCTGTATGACCTCGGACATCTGGAA------AG gagggttgactacaagctctccaccccttacttataataaaatgtttttgcatcagAAGTTGCTTTGGCTGCTGTATGACCTTGGGCATCTGGAATCCACCAGgtatggagaccaggggaatcaataagtattgaaatcaggatata Alignment from GeneWise AAGCTGCTCTGGCTGCTGTATGACCTCGGACATCTGGAA------AG gagggttgactacaagctctccaccccttacttataataaaatgtttttgcatcagAAGTTGCTTTGGCTGCTGTATGACCTTGGGCATCTGGAATCCACCAGgtatggagaccaggggaatcaataagtattgaaatcaggatata #### Ms4a2_ID3243_2 --> 1 - 0 Original Alignment t------------------------GCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attaagatctgttaagaacactagtagtcatacttctctcccctctccagtCCCTTGACGATTGAAGGTCCACAGGCACCTGACATTGAGCTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtaccattgtaggctttgttttcaatgacgaaagcattgccttctcctac Alignment from CESAR t------------------------GCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attaagatctgttaagaacactagtagtcatacttctctcccctctccagtCCCTTGACGATTGAAGGTCCACAGGCACCTGACATTGAGCTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtaccattgtaggctttgttttcaatgacgaaagcattgccttctcctac Alignment from Spaln_aa2Genome GCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attaagatctgttaagaacactagtagtcatacttctctcccctctccagtcccttgacgattgaaggtccacagGCACCTGACATTGAGCTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtaccattgtaggctttgttttcaatgacgaaagcattgccttctcctac Alignment from Spaln_nt2Genome TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attaagatctgttaagaacactagtagtcatacttctctcccctctccagtcccttgacgattgaaggtccacagGCACCTGAC-ATTGAGCTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtaccattgtaggctttgttttcaatgacgaaagcattgccttctcctac Alignment from Pairagon TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attaagatctgttaagaacactagtagtcatacttctctcccctctccagtcccttgacgattgaaggtccacag-GCACCTGACATTGAGCTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtaccattgtaggctttgttttcaatgacgaaagcattgccttctcctac Alignment from Exonerate_protein2genome GCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attaagatctgttaagaacactagtagtcatacttctctcccctctccagtcccttgacgattgaaggtccacagGCACCTGACATTGAGCTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtaccattgtaggctttgttttcaatgacgaaagcattgccttctcctac Alignment from Exonerate_coding2genome GCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attaagatctgttaagaacactagtagtcatacttctctcccctctccagtcccttgacgattgaaggtccacagGCACCTGACATTGAGCTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtaccattgtaggctttgttttcaatgacgaaagcattgccttctcctac Alignment from GeneWise ---CCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attaagatctgttaagaacactagtagtcatacttctctcccctctccagtcccttgacgattgaaggtccacagGCACCTGACATTGAGCTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACCTTTCTGAAAAAAGAACTAGAGTTCCTGGGTgtaccattgtaggctttgttttcaatgacgaaagcattgccttctcctac #### Mta2_ID2533_6 --> 0 - 1 Original Alignment GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGg aaaccacattgtgttccggcaactctctgacacagcctctctgtccacag------------------TTGGTGTTTGAGCCTGTGCAGAAAACACTTCTAGCAGATCAAGGGGAGAGCAGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGggtaagtaaaaatctggtttgaacacaattttttctctcaacaatatgatt Alignment from CESAR GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGg cggcataatatctgcataaaaccactctgacacagcctctctgtccacag------------------TTGGTGTTTGAGCCTGTGCAGAAAACACTTCTAGCAGATCAAGGGGAGAGCAGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGggtaagtaaaaatctggtttgaacacaattttttctctcaacaatatgatt Alignment from Spaln_aa2Genome GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG ccacattgtgttccggcaactctctgacacag---CCTCTCTGTCCACAGTTGGTGTTTGAGCCTGTGCAGAAAACACTTCTAGCAGATCAAGGGGAGAGCAGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGGgtaagtaaaaatctggtttgaacacaattttttctctcaacaatatgatt Alignment from Spaln_nt2Genome CTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG aaaccacattgtgttccggcaactctctgacacagcctctctgtccacagTTGGTGTTTGAGCCTGTGCAGAAAACACTTCTAGCAGATCAAGGGGAGAGCAGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGGgtaagtaaaaatctggtttgaacacaattttttctctcaacaatatgatt Alignment from Pairagon GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG aaaccacattgtgttccggcaactctctgacacagcctctctgtccacag------------------TTGGTGTTTGAGCCTGTGCAGAAAACACTTCTAGCAGATCAAGGGGAGAGCAGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGGgtaagtaaaaatctggtttgaacacaattttttctctcaacaatatgatt Alignment from Exonerate_protein2genome GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG ccacattgtgttccggcaactctctgacacagCCT---CTCTGTCCACAGTTGGTGTTTGAGCCTGTGCAGAAAACACTTCTAGCAGATCAAGGGGAGAGCAGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGGgtaagtaaaaatctggtttgaacacaattttttctctcaacaatatgatt Alignment from Exonerate_coding2genome GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG ccacattgtgttccggcaactctctgacacagCCT---CTCTGTCCACAGTTGGTGTTTGAGCCTGTGCAGAAAACACTTCTAGCAGATCAAGGGGAGAGCAGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGGgtaagtaaaaatctggtttgaacacaattttttctctcaacaatatgatt Alignment from GeneWise GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG ccacattgtgttccggcaactctctgacacagCCT---CTCTGTCCACAGTTGGTGTTTGAGCCTGTGCAGAAAACACTTCTAGCAGATCAAGGGGAGAGCAGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGGgtaagtaaaaatctggtttgaacacaattttttctctcaacaatatgatt #### Mta2_ID2535_8 --> 1 - 0 Original Alignment aGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATT------CGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGAT---ATCACTCTG gcatccaatatgaagaatcgacttttttcattcaagtccttgatcaccagt---------ACTTTTGTACGAGCTCTAGATTGCAATTGCTCCATTTCTATTCAAAAGTCCAGCTTGCATATGAGTGCA------GCTACCACAGGTATTATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from CESAR aGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGC------TCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gctaatgtggcatccaatatgaagatttcattcaagtccttgatcaccagt---------ACTTTTGTACGAGCTCTAGATTGCAATTGCTCCATTTCTATTCAAAAGTCCAGCTTGCATATGAGTGCAGCTACCACAGGT---ATTATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from Spaln_aa2Genome GCCCGAGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGC------TCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gcatccaatatgaagaatcgacttttttcattcaagTCCTTGATCACCAGTACTTTTGTACGAGCTCTAGATTGCAATTGCTCCATTTCTATTCAAAAGTCCAGCTTGCATATGAGTGCAGCTACCACAGGTATT---ATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from Spaln_nt2Genome AACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATT------CGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gcatccaatatgaagaatcgacttttttcattcaagtccttgatcaccagTACTTTTGTACGAGCTCTAGATTGCAATTGCTCCATTTCTATTCAAAAGTCCAGCTTGCATATGAGTGCA---GCTACCACAGGTATTATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from Pairagon AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGA----------TATCACTCTG gcatccaatatgaagaatcgacttttttcattcaagtccttgatcaccagtacttttgtacgagctctagattgcaattgctccatttctattcaaaagtccag---------------------------------------------------------CTTGCATATGAGTGCAGCT-------------ACCACAGGTATTATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from Exonerate_protein2genome GGGAACCTTCGCGAGAGCCCTAGAC------TGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gcatccaatatgaagaatcgacttttttcattcaagtccttgatcacCAGTACTTTTGTACGAGCTCTAGATTGCAATTGCTCCATTTCTATTCAAAAGTCCAGCTTGCATATGAGTGCAGCTACCACAGGT---ATTATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from Exonerate_coding2genome GGGAACCTTCGCGAGAGCCCTAGAC------TGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gcatccaatatgaagaatcgacttttttcattcaagtccttgatcacCAGTACTTTTGTACGAGCTCTAGATTGCAATTGCTCCATTTCTATTCAAAAGTCCAGCTTGCATATGAGTGCAGCTACCACAGGT---ATTATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta Alignment from GeneWise AGCTGTGGGAACCTTCGCGAGAGCCCTAGAC------TGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gcatccaatatgaagaatcgacttttttcattcaagtccttgatcaccagT---------ACTTTTGTACGAGCTCTAGATTGCAATTGCTCCATTTCTATTCAAAAGTCCAGCTTGCATATGAGTGCAGCTACCACAGGTATT---ATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagagtggagta #### Mta2_ID2539_12 --> 1 - 1 Original Alignment t---ACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACa atcatggtaggagaaagtcaagtggtctactctggtttctatcattttagtAACACGAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCGAAGCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATagtgtcatactcatctggcatacccttactattagatattcatggtttgtt Alignment from CESAR t---ACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACa atcatggtaggagaaagtcaagtggtctactctggtttctatcattttagtAACACGAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCGAAGCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATagtgtcatactcatctggcatacccttactattagatattcatggtttgtt Alignment from Spaln_aa2Genome T----ACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA atcatggtaggagaaagtcaagtggtctactctggtttctatcattttagTAACACGAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCGAAGCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATAgtgtcatactcatctggcatacccttactattagatattcatggtttgtt Alignment from Spaln_nt2Genome TACCA---AGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA atcatggtaggagaaagtcaagtggtctactctggtttctatcattttagTAACACGAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCGAAGCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATAgtgtcatactcatctggcatacccttactattagatattcatggtttgtt Alignment from Pairagon T---ACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA atcatggtaggagaaagtcaagtggtctactctggtttctatcattttagTAACACGAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCGAAGCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATAgtgtcatactcatctggcatacccttactattagatattcatggtttgtt Alignment from Exonerate_protein2genome TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA atcatggtaggagaaagtcaagtggtctactctggtttctatcattttagtaaCACGAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCGAAGCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATAgtgtcatactcatctggcatacccttactattagatattcatggtttgtt Alignment from Exonerate_coding2genome TTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTATACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA ATCATGGTAGGAGAAAGTCAAGTGGTCTACTCTGGTTTCTATCATTTTAGTAACACGAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCGAAGCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATAgtgtcatactcatctggcatacccttactattagatattcatggtttgtt Alignment from GeneWise -TATACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA atcatggtaggagaaagtcaagtggtctactctggtttctatcattttagTAACACGAAGCCAAATCCAAACCAGATTATCTCTGTGGGTTCGAAGCCTGGCATGAATGGGGCTGGATTCCAGAAAGGACTGACTTGTGAGAGCTGTCATAgtgtcatactcatctggcatacccttactattagatattcatggtttgtt #### Mta2_ID2542_15 --> 2 - 1 Original Alignment gcTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGg tgctggtaaccctggagatccttctctcataccctgccttctccccacaggcTCAATCCGACTTCCTAAGTCTGCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAA------ggtaaggatgatcaggatgacattttcaagccattgaccctgcctctacct Alignment from CESAR gcTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGg tgctggtaaccctggagatccttctctcataccctgccttctccccacaggcTCAATCCGACTTCCTAAGTCTGCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAA------ggtaaggatgatcaggatgacattttcaagcagagcccctttctttgtttg Alignment from Spaln_aa2Genome GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAG tgctggtaaccctggagatccttctctcataccctgccttctccccacagGCTCAATCCGACTTCCTAAGTCTGCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAAGgtaaggatgatcaggatgacattttcaagccattgaccctgcctctacct Alignment from Spaln_nt2Genome GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAG tgctggtaaccctggagatccttctctcataccctgccttctccccacagGCTCAATCCGACTTCCTAAGTCTGCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAAGgtaaggatgatcaggatgacattttcaagccattgaccctgcctctacct Alignment from Pairagon GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAG tgctggtaaccctggagatccttctctcataccctgccttctccccacagGCTCAATCCGACTTCCTAAGTCTGCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAAGgtaaggatgatcaggatgacattttcaagccattgaccctgcctctacct Alignment from Exonerate_protein2genome GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAG AT tgctggtaaccctggagatccttctctcataccctgccttctccccacagGCTCAATCCGACTTCCTAAGTCTGCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAAGgtaaggatgatcaggatgacattttcaagccattgaccctgcctctacCT Alignment from Exonerate_coding2genome GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAG AT tgctggtaaccctggagatccttctctcataccctgccttctccccacagGCTCAATCCGACTTCCTAAGTCTGCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAAGgtaaggatgatcaggatgacattttcaagccattgaccctgcctctacCT Alignment from GeneWise GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAA------------------GATCTGGTG------------------------ tgctggtaaccctggagatccttctctcataccctgccttctccccacagGCTCAATCCGACTTCCTAAGTCTGCCAAGACTCCATTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAAGGTAAGGATGATCAGGATGACATTTTCAAGCCATTGACCCTGCCTCTACCT #### Mta2_ID2543_16 --> 2 - 0 Original Alignment tgGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gtatgacattttcaagccaggtcagagctgaccagtcttctctattccaggt---CAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat Alignment from CESAR tgGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gaaggatgacattttcaagccaggtagctgaccagtcttctctattccaggt---CAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat Alignment from Spaln_aa2Genome GTGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT tgacattttcaagccaggtcagagctgaccagtcttctctattcca gGTCAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat Alignment from Spaln_nt2Genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gtatgacattttcaagccaggtcagagctgaccagtcttctctattccag---GTCAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat Alignment from Pairagon TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gtatgacattttcaagccaggtcagagctgaccagtcttctctattccag---GTCAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat Alignment from Exonerate_protein2genome CTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gtatgacattttcaagccaggtcagagctgaccagtcttctctattccagGTCAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat Alignment from Exonerate_coding2genome CTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gtatgacattttcaagccaggtcagagctgaccagtcttctctattccagGTCAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat Alignment from GeneWise TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gtatgacattttcaagccaggtcagagctgaccagtcttctctattccagGT---CAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACAgtgagctgaccagaataaaagcatactagtaattaccttacttttttaat #### Mta2_ID2544_17 --> 0 - 2 Original Alignment ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACC---------ag taaattaccgaccacatccagggatggctgttctggtttgactttgtcagATGGCAGGTGCGGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTTCAGGGATTCGTTCAAGTTCCCAGCCAGCAGCCAAGCGTCAGAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGACGCCTTTGTCATTaggtaaggaatgagcgaaccaagagaggctggtaacctcactgtatgtagaa Alignment from CESAR ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACC---------ag taaattaccgaccacatccagggatggctgttctggtttgactttgtcagATGGCAGGTGCGGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTTCAGGGATTCGTTCAAGTTCCCAGCCAGCAGCCAAGCGTCAGAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGACGCCTTTGTCATTaggtaaggaatgagcgaaccaagagaggctggtaacctcactgtatgtagaa Alignment from Spaln_aa2Genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAGGGCTTTAAG taaattaccgaccacatccagggatggctgttctggtttgactttgtcagATGGCAGGTGCGGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTTCAGGGATTCGTTCAAGTTCCCAGCCAGCAGCCAAGCGTCAGAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGACGCCTTTGTCATTAGgtaaggaatgagcgaaccaagagaggctggtaacctcactgtatgtagaa Alignment from Spaln_nt2Genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACC---------AG taaattaccgaccacatccagggatggctgttctggtttgactttgtcagATGGCAGGTGCGGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTTCAGGGATTCGTTCAAGTTCCCAGCCAGCAGCCAAGCGTCAGAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGACGCCTTTGTCATTAGgtaaggaatgagcgaaccaagagaggctggtaacctcactgtatgtagaa Alignment from Pairagon ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACC---------AG taaattaccgaccacatccagggatggctgttctggtttgactttgtcagATGGCAGGTGCGGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTTCAGGGATTCGTTCAAGTTCCCAGCCAGCAGCCAAGCGTCAGAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGACGCCTTTGTCATTAGgtaaggaatgagcgaaccaagagaggctggtaacctcactgtatgtagaa Alignment from Exonerate_protein2genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAGGGCTTTAAG taaattaccgaccacatccagggatggctgttctggtttgactttgtcagATGGCAGGTGCGGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTTCAGGGATTCGTTCAAGTTCCCAGCCAGCAGCCAAGCGTCAGAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGACGCCTTTGTCATTAGgtaaggaatgagcgaaccaagagaggctggtaacctcactgtatgtagaa Alignment from Exonerate_coding2genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAGGGCTTTAAG taaattaccgaccacatccagggatggctgttctggtttgactttgtcagATGGCAGGTGCGGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTTCAGGGATTCGTTCAAGTTCCCAGCCAGCAGCCAAGCGTCAGAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGACGCCTTTGTCATTAGgtaaggaatgagcgaaccaagagaggctggtaacctcactgtatgtagaa Alignment from GeneWise ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACC---------AG taaattaccgaccacatccagggatggctgttctggtttgactttgtcagATGGCAGGTGCGGGGGTCCCCTTCTCTGTGAATGGGAGGCCCCTGGCTTCAGGGATTCGTTCAAGTTCCCAGCCAGCAGCCAAGCGTCAGAAATTAAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGACGCCTTTGTCATTAGgtaaggaatgagcgaaccaagagaggctggtaacctcactgtatgtagaa #### Mus81_ID1041_15 --> 1 - 2 Original Alignment t------------------------------CTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAGCACCATCAAGTGTGGGCGTCTGCAGag gcctcccaggaattcagcaggccacttcagtaactgtattctttcattagcTCTACTCGCATACATCCCGACTGTATGCAGCTCCTGGCAGCTTACCATGCTTGTGCCACTGCAAGAGAGCAGAAGATTCTTTTGATCACCATCAAGTGTGGGTGTCTACAAaggtaagtgaggctgccaccattaaaggtgatgaagtactggatttctctag Alignment from CESAR ctgagtgttgcccacaaggagaccagatctctccaagtgagcactatcttt Alignment from Spaln_aa2Genome GCCAGTCTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAGCACCATCAAGTGTGGGCGTCTGCAGAG gcctcccaggaattcagcaggccacttcagtaactgtattctttcattagctctactcgcatacatcccgactgtatgcag------CTCCTGGCAGCTTACCATGCTTGTGCCACTGCAAGAGAGCAGAAGATTCTTTTGATCACCATCAAGTGTGGGTGTCTACAAAGgtaagtgaggctgccaccattaaaggtgatgaagtactggatttctctag Alignment from Spaln_nt2Genome TCTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAGCACCATCAAGTGTGGGCGTCTGCAGAG gcctcccaggaattcagcaggccacttcagtaactgtattctttcattagctctactcgcatacatcccgactgtatgcag-CTCCTGGCAGCTTACCATGCTTGTGCCACTGCAAGAGAGCAGAAGATTCTTTTGATCACCATCAAGTGTGGGTGTCTACAAAGgtaagtgaggctgccaccattaaaggtgatgaagtactggatttctctag Alignment from Pairagon TCTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAGCACCATCAAGTGTGGGCGTCTGCAGAG gcctcccaggaattcagcaggccacttcagtaactgtattctttcattagctctactcgcatacatcccgactgtatgcag-CTCCTGGCAGCTTACCATGCTTGTGCCACTGCAAGAGAGCAGAAGATTCTTTTGATCACCATCAAGTGTGGGTGTCTACAAAGgtaagtgaggctgccaccattaaaggtgatgaagtactggatttctctag Alignment from Exonerate_protein2genome TCTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAGCACCATCAAGTGTGGGCGTCTGCAGAG gcctcccaggaattcagcaggccacttcagtaactgtattctttcattagctctactcgcatacatcccgactgtatgcaGCTCCTGGCAGCTTACCATGCTTGTGCCACTGCAAGAGAGCAGAAGATTCTTTTGATCACCATCAAGTGTGGGTGTCTACAAAGgtaagtgaggctgccaccattaaaggtgatgaagtactggatttctctag Alignment from Exonerate_coding2genome TCTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAGCACCATCAAGTGTGGGCGTCTGCAGAG gcctcccaggaattcagcaggccacttcagtaactgtattctttcattagctctactcgcatacatcccgactgtatgcaGCTCCTGGCAGCTTACCATGCTTGTGCCACTGCAAGAGAGCAGAAGATTCTTTTGATCACCATCAAGTGTGGGTGTCTACAAAGgtaagtgaggctgccaccattaaaggtgatgaagtactggatttctctag Alignment from GeneWise ----------------------------AGTCTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAGCACCATCAAGTGTGGGCGTCTGCAGAG gcctcccaggaattcagcaggccacttcagtaactgtattctttcattagCTCTACTCGCATACATCCCGACTGTATGCAGCTCCTGGCAGCTTACCATGCTTGTGCCACTGCAAGAGAGCAGAAGATTCTTTTGATCACCATCAAGTGTGGGTGTCTACAAAGgtaagtgaggctgccaccattaaaggtgatgaagtactggatttctctag #### Mus81_ID1043_13 --> 0 - 0 Original Alignment GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAACAAG--- gagtgcttggcctttaagggcctgccctgtctccctctttatcccaccagGGTCATACCCTTCACAGCCGCCCTTGGGGGGCCCCAGGGGCTGCCGAATCTGAAGCAAAACCATCAAGAAACCCTTTGTGCTCACTC---ACCTTCAGTGACTTTAATTCAGAAGCTGTAAAGAACAAAAAAgtagtgacctcacttcgttcctttactgatttataccaatgaatggaaaa Alignment from CESAR GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAAC---AAG gagtgcttggcctttaagggcctgccctgtctccctctttatcccaccagGGTCATACCCTTCACAGCCGCCCTTGGGGGGCCCCAGGGGCTGCCGAATCTGAAGCAAAACCATCAAGAAACCCTTTGTGCTCA---CTCACCTTCAGTGACTTTAATTCAGAAGCTGTAAAGAACAAAAAAgtagtgacctcacttcgttcctttactgatttataccaatgaatggaaaa Alignment from Spaln_aa2Genome GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAACAAG--- gagtgcttggcctttaagggcctgccctgtctccctctttatcccaccagGGTCATACCCTTCACAGCCGCCCTTGGGGGGCCCCAGGGGCTGCCGAATCTGAAGCAAAACCATCAAGAAACCCTTTGTGCTCACTC---ACCTTCAGTGACTTTAATTCAGAAGCTGTAAAGAACAAAAAAgtagtgacctcacttcgttcctttactgatttataccaatgaatggaaaa Alignment from Spaln_nt2Genome GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAACAAG--- gagtgcttggcctttaagggcctgccctgtctccctctttatcccaccagGGTCATACCCTTCACAGCCGCCCTTGGGGGGCCCCAGGGGCTGCCGAATCTGAAGCAAAACCATCAAGAAACCCTTTGTGCTCA---CTCACCTTCAGTGACTTTAATTCAGAAGCTGTAAAGAACAAAAAAgtagtgacctcacttcgttcctttactgatttataccaatgaatggaaaa Alignment from Pairagon GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAACA------------------------------------------------------- gagtgcttggcctttaagggcctgccctgtctccctctttatcccaccagGGTCATACCCTTCACAGCCGCCCTTGGGGGGCCCCAGGGGCTGCCGAATCTGAAGCAAAACCATCAAGAAACCCTTTGTGCTCA---CTCACCTTCAGTGACTTTAATTCAGAAGCTGTAAAGAACAAAAAAGTAGTGACCTCACTTCGTTCCTTTACTGATTTATACCAATGAATGGAAAA Alignment from Exonerate_protein2genome GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAAC---AAG gagtgcttggcctttaagggcctgccctgtctccctctttatcccaccagGGTCATACCCTTCACAGCCGCCCTTGGGGGGCCCCAGGGGCTGCCGAATCTGAAGCAAAACCATCAAGAAACCCTTTGTGCTCA---CTCACCTTCAGTGACTTTAATTCAGAAGCTGTAAAGAACAAAAAAgtagtgacctcacttcgttcctttactgatttataccaatgaatggaaaa Alignment from Exonerate_coding2genome GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAAC---AAG gagtgcttggcctttaagggcctgccctgtctccctctttatcccaccagGGTCATACCCTTCACAGCCGCCCTTGGGGGGCCCCAGGGGCTGCCGAATCTGAAGCAAAACCATCAAGAAACCCTTTGTGCTCA---CTCACCTTCAGTGACTTTAATTCAGAAGCTGTAAAGAACAAAAAAgtagtgacctcacttcgttcctttactgatttataccaatgaatggaaaa Alignment from GeneWise GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAACAAGGCC gagtgcttggcctttaagggcctgccctgtctccctctttatcccaccagGGTCATACCCTTCACAGCCGCCCTTGGGGGGCCCCAGGGGCTGCCGAATCTGAAGCAAAACCATCAAGAAACCCTTTGTGCTCACTC---ACCTTCAGTGACTTTAATTCAGAAGCTGTAAAGAACAAAAAAgtagtgacctcacttcgttcctttactgatttataccaatgaatggaaaa #### Mus81_ID1045_11 --> 0 - 0 Original Alignment TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG tgggtgtttgggccaatagctgtaacctctaatgactgctactattccag---------AAGCACTGTGTCCTGGGGCACCGAGTATACCTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTACCAGAAAGTACCTTGTTGCAGGCTGTCACAAACACCCAGgtaaaacatatgggcagcaagcagatactacagataagagaacaagctag Alignment from CESAR TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG tgtacaacctgggtgtttgggccaacctctaatgactgctactattccag---------AAGCACTGTGTCCTGGGGCACCGAGTATACCTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTACCAGAAAGTACCTTGTTGCAGGCTGTCACAAACACCCAGgtaaaacatatgggcagcaagcagatactacagataagagaacaagctag Alignment from Spaln_aa2Genome TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG tgggtgtttgggccaatagctgtaacctctaatgactgctactattccag---------AAGCACTGTGTCCTGGGGCACCGAGTATACCTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTACCAGAAAGTACCTTGTTGCAGGCTGTCACAAACACCCAGgtaaaacatatgggcagcaagcagatactacagataagagaacaagctag Alignment from Spaln_nt2Genome AAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG tgggtgtttgggccaatagctgtaacctctaatgactgctactattccagAAGCACTGTGTCCTGGGGCACCGAGTATACCTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTACCAGAAAGTACCTTGTTGCAGGCTGTCACAAACACCCAGgtaaaacatatgggcagcaagcagatactacagataagagaacaagctag Alignment from Pairagon TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG tgggtgtttgggccaatagctgtaacctctaatgactgctactattccag---------AAGCACTGTGTCCTGGGGCACCGAGTATACCTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTACCAGAAAGTACCTTGTTGCAGGCTGTCACAAACACCCAGgtaaaacatatgggcagcaagcagatactacagataagagaacaagctag Alignment from Exonerate_protein2genome TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG tgggtgtttgggccaatagctgtaacctctaatgactgctaCTATTCCAGAAGCACTGTGTCCTGGGGCACCGAGTATACCTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTACCAGAAAGTACCTTGTTGCAGGCTGTCACAAACACCCAGgtaaaacatatgggcagcaagcagatactacagataagagaacaagctag Alignment from Exonerate_coding2genome TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG tgggtgtttgggccaatagctgtaacctctaatgactgctaCTATTCCAGAAGCACTGTGTCCTGGGGCACCGAGTATACCTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTACCAGAAAGTACCTTGTTGCAGGCTGTCACAAACACCCAGgtaaaacatatgggcagcaagcagatactacagataagagaacaagctag Alignment from GeneWise ---CGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG tgggtgtttgggccaatagctgtaacctctaatgactgctactattccagAAGCACTGTGTCCTGGGGCACCGAGTATACCTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTACCAGAAAGTACCTTGTTGCAGGCTGTCACAAACACCCAGgtaaaacatatgggcagcaagcagatactacagataagagaacaagctag #### Mus81_ID1046_10 --> 2 - 0 Original Alignment aa---AGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGC---TTTCGGGAGCAGAAG agtattagaagtggcgtgaaatccaaaatttatgcattatatttttatagagATGAGACCTGGGGAGTTAGTCCTAGATCACATTGTAGAACATAAGAGGATTGACGACCTCTGCAGCAGCATTATTGGTGGCCGCTTCTTCCGGGAGCAGAAAgtacgtatatgacatagttaggatttgctccttccattctctagggtaga Alignment from CESAR aa---AGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGC---TTTCGGGAGCAGAAG agtattagaagtggcgtgaaatccaaaatttatgcattatatttttatagagATGAGACCTGGGGAGTTAGTCCTAGATCACATTGTAGAACATAAGAGGATTGACGACCTCTGCAGCAGCATTATTGGTGGCCGCTTCTTCCGGGAGCAGAAAgtacgtatatgacatagttaggatttgctccttccattctctagggtaga Alignment from Spaln_aa2Genome AAAGACCTGGGGAGCTG---GTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGC---TTTCGGGAGCAGAAG agtattagaagtggcgtgaaatccaaaatttatgcattatatttttatagAGATGAGACCTGGGGAGTTAGTCCTAGATCACATTGTAGAACATAAGAGGATTGACGACCTCTGCAGCAGCATTATTGGTGGCCGCTTCTTCCGGGAGCAGAAAgtacgtatatgacatagttaggatttgctccttccattctctagggtaga Alignment from Spaln_nt2Genome AAA---GACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTT---CGGGAGCAGAAG agtattagaagtggcgtgaaatccaaaatttatgcattatatttttatagAGATGAGACCTGGGGAGTTAGTCCTAGATCACATTGTAGAACATAAGAGGATTGACGACCTCTGCAGCAGCATTATTGGTGGCCGCTTCTTCCGGGAGCAGAAAgtacgtatatgacatagttaggatttgctccttccattctctagggtaga Alignment from Pairagon ------------------------------------------------------AAGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCG---CTTTCGGGAGCAGAAG AGTATTAGAAGTGGCGTGAAATCCAAAATTTATGCATTATATTTTTATAGAGATGAGACCTGGGGAGTTAGTCCTAGATCACATTGTAGAACATAAGAGGATTGACGACCTCTGCAGCAGCATTATTGGTGGCCGCTTCTTCCGGGAGCAGAAAgtacgtatatgacatagttaggatttgctccttccattctctagggtaga Alignment from Exonerate_protein2genome AA---AGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGC---TTTCGGGAGCAGAAG agtattagaagtggcgtgaaatccaaaatttatgcattatatttttatagAGATGAGACCTGGGGAGTTAGTCCTAGATCACATTGTAGAACATAAGAGGATTGACGACCTCTGCAGCAGCATTATTGGTGGCCGCTTCTTCCGGGAGCAGAAAgtacgtatatgacatagttaggatttgctccttccattctctagggtaga Alignment from Exonerate_coding2genome AA---AGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGC---TTTCGGGAGCAGAAG agtattagaagtggcgtgaaatccaaaatttatgcattatatttttatagAGATGAGACCTGGGGAGTTAGTCCTAGATCACATTGTAGAACATAAGAGGATTGACGACCTCTGCAGCAGCATTATTGGTGGCCGCTTCTTCCGGGAGCAGAAAgtacgtatatgacatagttaggatttgctccttccattctctagggtaga Alignment from GeneWise --GAAAGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTT---CGGGAGCAGAAG agtattagaagtggcgtgaaatccaaaatttatgcattatatttttatagAGATGAGACCTGGGGAGTTAGTCCTAGATCACATTGTAGAACATAAGAGGATTGACGACCTCTGCAGCAGCATTATTGGTGGCCGCTTCTTCCGGGAGCAGAAAgtacgtatatgacatagttaggatttgctccttccattctctagggtaga #### Mus81_ID1047_9 --> 1 - 1 Original Alignment gGCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAg gttgactagttttcttacctcatgttcttttttataaatgtttttcctagt------CACCGTCCAGAAATGCTCCGTGAGTTGCAAAGGCTCCATGTGCCCCACACTGTACGTAAGCTACATGTTGGAGACTTTGTATGGGTTGCACAGGAGACACGTCCTAGAGACCCAggtgagcttattcaggaatcatctgctgaggaggtgagtattagaagtggc Alignment from CESAR gGCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAg agccctgttgactagttttcttacctcttttttataaatgtttttcctagt------CACCGTCCAGAAATGCTCCGTGAGTTGCAAAGGCTCCATGTGCCCCACACTGTACGTAAGCTACATGTTGGAGACTTTGTATGGGTTGCACAGGAGACACGTCCTAGAGACCCAggtgagcttattcaggaatcatctgctgaggaggtgagtattagaagtggc Alignment from Spaln_aa2Genome GGCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAG gttgactagttttcttacctcatgttcttttttataaatgtttttcctagT------CACCGTCCAGAAATGCTCCGTGAGTTGCAAAGGCTCCATGTGCCCCACACTGTACGTAAGCTACATGTTGGAGACTTTGTATGGGTTGCACAGGAGACACGTCCTAGAGACCCAGgtgagcttattcaggaatcatctgctgaggaggtgagtattagaagtggc Alignment from Spaln_nt2Genome GGCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAG gttgactagttttcttacctcatgttcttttttataaatgtttttcctag------TCACCGTCCAGAAATGCTCCGTGAGTTGCAAAGGCTCCATGTGCCCCACACTGTACGTAAGCTACATGTTGGAGACTTTGTATGGGTTGCACAGGAGACACGTCCTAGAGACCCAGgtgagcttattcaggaatcatctgctgaggaggtgagtattagaagtggc Alignment from Pairagon GGCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAG gttgactagttttcttacctcatgttcttttttataaatgtttttcctag------TCACCGTCCAGAAATGCTCCGTGAGTTGCAAAGGCTCCATGTGCCCCACACTGTACGTAAGCTACATGTTGGAGACTTTGTATGGGTTGCACAGGAGACACGTCCTAGAGACCCAGgtgagcttattcaggaatcatctgctgaggaggtgagtattagaagtggc Alignment from Exonerate_protein2genome ACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAG gttgactagttttcttacctcatgttcttttttataaatgtttttcctagTCACCGTCCAGAAATGCTCCGTGAGTTGCAAAGGCTCCATGTGCCCCACACTGTACGTAAGCTACATGTTGGAGACTTTGTATGGGTTGCACAGGAGACACGTCCTAGAGACCCAGgtgagcttattcaggaatcatctgctgaggaggtgagtattagaagtggc Alignment from Exonerate_coding2genome ACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAG gttgactagttttcttacctcatgttcttttttataaatgtttttcctagTCACCGTCCAGAAATGCTCCGTGAGTTGCAAAGGCTCCATGTGCCCCACACTGTACGTAAGCTACATGTTGGAGACTTTGTATGGGTTGCACAGGAGACACGTCCTAGAGACCCAGgtgagcttattcaggaatcatctgctgaggaggtgagtattagaagtggc Alignment from GeneWise GGCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAG gttgactagttttcttacctcatgttcttttttataaatgtttttcctagT------CACCGTCCAGAAATGCTCCGTGAGTTGCAAAGGCTCCATGTGCCCCACACTGTACGTAAGCTACATGTTGGAGACTTTGTATGGGTTGCACAGGAGACACGTCCTAGAGACCCAGgtgagcttattcaggaatcatctgctgaggaggtgagtattagaagtggc #### Mus81_ID1053_3 --> 2 - 0 Original Alignment gtGACCATGCCCCCAGCTCACCATCTGGAAAGAAGGGAGCCAGCAAAGGGCCACCTGAGCAAGTCCAGGACTCTTCCATGCCA tcgcaacttggagttccgcactttctgatctcctccttttcctcctccagga---CATGCCCCC---ACACCATCTGGGAAAAAGGGTGCCAGCAAAGGGCCACCTGAGCAGGTACAAGAATCTTCTATGCCAgtatctagatcaagaaaagctagataacttaaagggaaacctatgactta Alignment from CESAR CCACACGCGTTTCGTGTTTCAAA gtGACCATGCCCCCAGCTCACCATCTGGAAAGAAGGGAGCCAGCAAAGGGCCACCTGAGCAAGTCCAGGACTCTTCCATGCCA CCACACACGATTTGTATTCCAGAagtgatctcctccttttcctcctccagga---CATGCCCCC---ACACCATCTGGGAAAAAGGGTGCCAGCAAAGGGCCACCTGAGCAGGTACAAGAATCTTCTATGCCAgtatctagatcaagaaaagctagataacttaaagggaaacctatgactta Alignment from Spaln_aa2Genome GTGACCATGCCCCCAGCTCACCATCTGGAAAGAAGGGAGCCAGCAAAGGGCCACCTGAGCAAGTCCAGGACTCTTCCATGCCA tcgcaacttggagttccgcactttctgatctcctccttttcctcctccagGA---CATGCCCCC---ACACCATCTGGGAAAAAGGGTGCCAGCAAAGGGCCACCTGAGCAGGTACAAGAATCTTCTATGCCAgtatctagatcaagaaaagctagataacttaaagggaaacctatgactta Alignment from Spaln_nt2Genome ACCATGCCCCCAGCTCACCATCTGGAAAGAAGGGAGCCAGCAAAGGGCCACCTGAGCAAGTCCAGGACTCTTCCATGCCA tcgcaacttggagttccgcactttctgatctcctccttttcctcctccagGACATGCCCCCA---CACCATCTGGGAAAAAGGGTGCCAGCAAAGGGCCACCTGAGCAGGTACAAGAATCTTCTATGCCAgtatctagatcaagaaaagctagataacttaaagggaaacctatgactta Alignment from Pairagon GTGACCATGCCCCCAGCTCACCATCTGGAAAGAAGGGAGCCAGCAAAGGGCCACCTGAGCAAGTCCAGGACTCTTCCATGCCA tcgcaacttggagttccgcactttctgatctcctccttttcctcctccagG---ACATGCCCCCA---CACCATCTGGGAAAAAGGGTGCCAGCAAAGGGCCACCTGAGCAGGTACAAGAATCTTCTATGCCAgtatctagatcaagaaaagctagataacttaaagggaaacctatgactta Alignment from Exonerate_protein2genome GTGACCATGCCCCCAGCTCACCATCTGGAAAGAAGGGAGCCAGCAAAGGGCCACCTGAGCAAGTCCAGGACTCTTCCATGCCA tcgcaacttggagttccgcactttctgatctcctccttttcctcctccagGA---CATGCCCCC---ACACCATCTGGGAAAAAGGGTGCCAGCAAAGGGCCACCTGAGCAGGTACAAGAATCTTCTATGCCAgtatctagatcaagaaaagctagataacttaaagggaaacctatgactta Alignment from Exonerate_coding2genome GTGACCATGCCCCCAGCTCACCATCTGGAAAGAAGGGAGCCAGCAAAGGGCCACCTGAGCAAGTCCAGGACTCTTCCATGCCA tcgcaacttggagttccgcactttctgatctcctccttttcctcctccagGA---CATGCCCCC---ACACCATCTGGGAAAAAGGGTGCCAGCAAAGGGCCACCTGAGCAGGTACAAGAATCTTCTATGCCAgtatctagatcaagaaaagctagataacttaaagggaaacctatgactta Alignment from GeneWise ACCATGCCCCCAGCTCACCATCTGGAAAGAAGGGAGCCAGCAAAGGGCCACCTGAGCAAGTCCAGGACTCTTCCATGCCA tcgcaacttggagttccgcactttctgatctcctccttttcctcctccagGACATGCCCCCACA---CCATCTGGGAAAAAGGGTGCCAGCAAAGGGCCACCTGAGCAGGTACAAGAATCTTCTATGCCAgtatctagatcaagaaaagctagataacttaaagggaaacctatgactta #### Myrf_ID2714_23 --> 1 - 2 Original Alignment gCTTGGCAACTTCACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGaa tggggacgtgaggtgggaagagtggctgtcaatattctttttaaaaacagaCTTGGCAACTTCACATACCATATCCCTGTAAGTAGCAGCACACCACTACACCTCAGCCTCACC---------aagtcagtgaactacaactaagtcaattacctcacctatgaatgtaaagttg Alignment from CESAR gCTTGGCAACTTCACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGaa tggggacgtgaggtgggaagagtggctgtcaatattctttttaaaaacagaCTTGGCAACTTCACATACCATATCCCTGTAAGTAGCAGCACACCACTACACCTCAGCCTCACC---------aagtcagtgaactacaactaagtcaattacctcacctatgaatgtaaagttg Alignment from Spaln_aa2Genome GCTTGGCAACTTCACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCT tggggacgtgaggtgggaagagtggctgtcaatattctttttaaaaacagACTTGGCAACTTCACATACCATATCCCTGTAAGTAGCAGCACACCACTACACCTCAGCCTCACCAAgtcagtgaactacaactaagtcaattacctcacctatgaatgtaaagttg Alignment from Spaln_nt2Genome GCTTGGCAACTTCACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGAA tggggacgtgaggtgggaagagtggctgtcaatattctttttaaaaacagACTTGGCAACTTCACATACCATATCCCTGTAAGTAGCAGCACACCACTACACCTCAGCCTCACC---------AAgtcagtgaactacaactaagtcaattacctcacctatgaatgtaaagttg Alignment from Pairagon GCTTGGCAACTTCACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGAA tggggacgtgaggtgggaagagtggctgtcaatattctttttaaaaacagACTTGGCAACTTCACATACCATATCCCTGTAAGTAGCAGCACACCACTACACCTCAGCCTCACC---------AAgtcagtgaactacaactaagtcaattacctcacctatgaatgtaaagttg Alignment from Exonerate_protein2genome GCTTGGCAACTTCACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGAA tggggacgtgaggtgggaagagtggctgtcaatattctttttaaaaacagACTTGGCAACTTCACATACCATATCCCTGTAAGTAGCAGCACACCACTACACCTCAGCCTCACCAAGTCAGTGAActacaactaagtcaattacctcacctatgaatgtaaagttg Alignment from Exonerate_coding2genome tggggacgtgaggtgggaagagtggctgtcaatattctttttaaaaacagacttggcaacttcacataccatatccctgtaagtagcagcacaccactacacctcagcctcaccaagtcagtgaactacaactaagtcaattacctcacctatgaatgtaaagttg Alignment from GeneWise GCTTGGCAACTTCACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCT tggggacgtgaggtgggaagagtggctgtcaatattctttttaaaaacagACTTGGCAACTTCACATACCATATCCCTGTAAGTAGCAGCACACCACTACACCTCAGCCTCACCAAgtcagtgaactacaactaagtcaattacctcacctatgaatgtaaagttg #### Myrf_ID2720_17 --> 0 - 2 Original Alignment TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCag atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagTCATCATCTGCAGTCCCAGACCAAGCCTGCATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTCTTGTAGTAGTGATG------aggtgacgacgatacgctttaccaagctgagtccctaaaagtgccatacaat Alignment from CESAR TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCag atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagTCATCATCTGCAGTCCCAGACCAAGCCTGCATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTCTTGTAGTAGTGATG------aggtgacgacgatacgctttaccaagctgagtccctaaaagtgccatacaat Alignment from Spaln_aa2Genome TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGC atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagTCATCATCTGCAGTCCCAGACCAAGCCTGCATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTCTTGTAGTAGTGATGAGgtgacgacgatacgctttaccaagctgagtccctaaaagtgccatacaat Alignment from Spaln_nt2Genome TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagTCATCATCTGCAGTCCCAGACCAAGCCTGCATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTCTTGTAGTAGTGATG------AGgtgacgacgatacgctttaccaagctgagtccctaaaagtgccatacaat Alignment from Pairagon TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAG atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagTCATCATCTGCAGTCCCAGACCAAGCCTGCATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTCTTGTAGTAGTGATG------AGgtgacgacgatacgctttaccaagctgagtccctaaaagtgccatacaat Alignment from Exonerate_protein2genome TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGC atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagTCATCATCTGCAGTCCCAGACCAAGCCTGCATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTCTTGTAGTAGTGATGAGgtgacgacgatacgctttaccaagctgagtccctaaaagtgccatacaat Alignment from Exonerate_coding2genome TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATG atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagTCATCATCTGCAGTCCCAGACCAAGCCTGCATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTCTTGTAGTAGTGATGaggtgacgacgatacgctttaccaagctgagtccctaaaagtgccatacaat Alignment from GeneWise TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGC atgggcatcttgagtctatatagtgcaatgtaaatactgtctaattctagTCATCATCTGCAGTCCCAGACCAAGCCTGCATCAGTCAGCATTTTCTACAGGGGACAATCATAGCTCTTGTAGTAGTGATGAGgtgacgacgatacgctttaccaagctgagtccctaaaagtgccatacaat #### Myrf_ID2723_14 --> 2 - 0 Original Alignment gtGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG------------------------ gcttggcaaggtagagtcctggttccaaagtgttgcccttacttccgcaggtATCATTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTTTTCACAAATGGAAAAAGTATAAAGAACTTCCTAGTAGTGAACAAAGGCACCTCTCATCAGTGGCCAATAgtaaggttataggatctgcaacttgggcatggaatctggaatctagctgt Alignment from CESAR gtGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG------------------------ gcttggcaaggtagagtcctggttccaaagtgttgcccttacttccgcaggtATCATTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTTTTCACAAATGGAAAAAGTATAAAGAACTTCCTAGTAGTGAACAAAGGCACCTCTCATCAGTGGCCAATAgtaaggttataggatctgcaacttgggcatggaatctggaatctagctgt Alignment from Spaln_aa2Genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTA gcttggcaaggtagagtcctggttccaaagtgttgcccttacttccgcagGTATCATTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTTTTCACAAATGGAAAAAGTATAAAGAACTTCCTAGTAgtgaacaaaggcacctctcatcagtggccaatagtaaggttataggatctgcaacttgggcatggaatctggaatctagctgt Alignment from Spaln_nt2Genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAA-G gcttggcaaggtagagtcctggttccaaagtgttgcccttacttccgcagGTATCATTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTTTTCACAAATGGAAAAAGTATAAAGAACTTCCTAGTAGTGAACAAAGgcacctctcatcagtggccaatagtaaggttataggatctgcaacttgggcatggaatctggaatctagctgt Alignment from Pairagon GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG------------------------ gcttggcaaggtagagtcctggttccaaagtgttgcccttacttccgcagGTATCATTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTTTTCACAAATGGAAAAAGTATAAAGAACTTCCTAGTAGTGAACAAAGGCACCTCTCATCAGTGGCCAATAgtaaggttataggatctgcaacttgggcatggaatctggaatctagctgt Alignment from Exonerate_protein2genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaagtgttgcccttacttccgcagGTATCATTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTTTTCACAAATGGAAAAAGTATAAAGAACTTCCTAGTAGTGAACAAAggcacctctcatcagtggccaatagtaaggttataggatctgcaacttgggcatggaatctggaatctagctgt Alignment from Exonerate_coding2genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaagtgttgcccttacttccgcagGTATCATTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTTTTCACAAATGGAAAAAGTATAAAGAACTTCCTAGTAGTGAACAAAggcacctctcatcagtggccaatagtaaggttataggatctgcaacttgggcatggaatctggaatctagctgt Alignment from GeneWise GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG------------------------ gcttggcaaggtagagtcctggttccaaagtgttgcccttacttccgcagGTATCATTGCCCGGGAGGTGAAGGTGATTCTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTTTTCACAAATGGAAAAAGTATAAAGAACTTCCTAGTAGTGAACAAAGGCACCTCTCATCAGTGGCCAATAgtaaggttataggatctgcaacttgggcatggaatctggaatctagctgt #### Myrf_ID2732_6 --> 1 - 1 Original Alignment aCTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCA------g aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagaCTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTGGTACTGGATCTTTGCCCCTCAGTACTGCCCGGGCTCAAACTCCACCTTGGCACCCACCAGGTGCACCCTCTCCTTCAGAGggtcagaagaccaaagtagactggataaccatgcagatttagttgttttac Alignment from CESAR aCTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCA------g aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagaCTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTGGTACTGGATCTTTGCCCCTCAGTACTGCCCGGGCTCAAACTCCACCTTGGCACCCACCAGGTGCACCCTCTCCTTCAGAGggtcagaagaccaaagtagactggataaccatgcagatttagtttcctgtt Alignment from Spaln_aa2Genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCA------G aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTGGTACTGGATCTTTGCCCCTCAGTACTGCCCGGGCTCAAACTCCACCTTGGCACCCACCAGGTGCACCCTCTCCTTCAGAGGgtcagaagaccaaagtagactggataaccatgcagatttagttgttttac Alignment from Spaln_nt2Genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCA------G aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTGGTACTGGATCTTTGCCCCTCAGTACTGCCCGGGCTCAAACTCCACCTTGGCACCCACCAGGTGCACCCTCTCCTTCAGAGGgtcagaagaccaaagtagactggataaccatgcagatttagttgttttac Alignment from Pairagon ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCC----------------------------------------------------------- aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTGGTACTGGATCTTTGCCCCTCAGTACTGCCCGGGCTCAAACTCCACCTTGGCACCCACCAGGTGCACCCTCTCCTTCAGAGGGTCAGAAGACCAAAGTAGACTGGATAACCATGCAGATTTAGTTGTTTTAC Alignment from Exonerate_protein2genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTGGTACTGGATCTTTGCCCCTCAGTACTGCCCGGGCTCAAACTCCACCTTGGCACCCACCAGGTGCACCCTCTCCTTcagagggtcagaagaccaaagtagactggataaccatgcagatttagttgttttac Alignment from Exonerate_coding2genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTGGTACTGGATCTTTGCCCCTCAGTACTGCCCGGGCTCAAACTCCACCTTGGCACCCACCAGGTGCACCCTCTCCTTcagagggtcagaagaccaaagtagactggataaccatgcagatttagttgttttac Alignment from GeneWise ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCA------G aatgaaggaccaatgtttcctgcaatccctccctacttttgttcttttagACTACCACCACACCCTTCCAAGAAGAGGAAGCACTCTGAAACACCCCCCAACACCCTCAATGCCCAAATGTTGAATGGGATGATTAAGCAGGAGCCTGGAACTGTTACAACCTTACCACTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACCTAAAGGCCCACTTTCACCTGGTACTGGATCTTTGCCCCTCAGTACTGCCCGGGCTCAAACTCCACCTTGGCACCCACCAGGTGCACCCTCTCCTTCAGAGGgtcagaagaccaaagtagactggataaccatgcagatttagttgttttac #### Naa40_ID2074_6 --> 1 - 2 Original Alignment cTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAAC---ag ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagcTACGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAATCGCaggtgagcagcatcttggaagaattgacttgctggaggttggacctgagaat Alignment from CESAR cTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAAC---ag ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagcTACGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAATCGCaggtgagcagcatcttggaagaattgacttgctggaggttggacctgagaat Alignment from Spaln_aa2Genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAGC-- ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagCTACGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAATCGCAGgtgagcagcatcttggaagaattgacttgctggaggttggacctgagaat Alignment from Spaln_nt2Genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAA---CAG ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagCTACGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAATCGCAGgtgagcagcatcttggaagaattgacttgctggaggttggacctgagaat Alignment from Pairagon CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAA---CAG ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagCTACGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAATCGCAGgtgagcagcatcttggaagaattgacttgctggaggttggacctgagaat Alignment from Exonerate_protein2genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAGCAC ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagCTACGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAATCGCAGgtgagcagcatcttggaagaattgacttgctggaggttggacctgagaat Alignment from Exonerate_coding2genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAGCAC ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagCTACGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAATCGCAGgtgagcagcatcttggaagaattgacttgctggaggttggacctgagaat Alignment from GeneWise CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAGC-- ttacatctctccatggtgtccaggtacttcccttgtgctcactgactcagCTACGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAATCGCAGgtgagcagcatcttggaagaattgacttgctggaggttggacctgagaat #### Naaladl1_ID1443_2 --> 1 - 1 Original Alignment aGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCg acactgttaaagtttctattctcctgcatttgctttttgtttttacttagaGAGCTTGCAAAAGAACCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCGTTCCCTAATGCA---GAGGCTAACAGTGTG------ggtaagccagtaggtcagaagtctccaggcagttgaatacacacctctttc Alignment from CESAR aGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCg acactgttaaagtttctattctcctgcatttgctttttgtttttacttagaGAGCTTGCAAAAGAACCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCGTTCCCTAATGCAGAG---GCTAACAGTGTG------ggtaagccagtaggtcagaagtctccagtgccttctacgttctgtccattg Alignment from Spaln_aa2Genome AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCGTGG acactgttaaagtttctattctcctgcatttgctttttgtttttacttagAGAGCTTGCAAAAGAACCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCGTTCCCTAATGCAGAGGCTAACAGTGTGGGTAAGCCAGTAGgtcagaagtctccaggcagttgaatacacacctctttc Alignment from Spaln_nt2Genome AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGG--AAGTCG acactgttaaagtttctattctcctgcatttgctttttgtttttacttagAGAGCTTGCAAAAGAACCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCGTTCCCTAATGCAG---AGGCTAACAGTGTGGGTAAGCCAgtaggtcagaagtctccaggcagttgaatacacacctctttc Alignment from Pairagon AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGG acactgttaaagtttctattctcctgcatttgctttttgtttttacttagAGAGCTTGCAAAAGAACCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCGTTCCCTAATGCAG---AGGCTAACAGTGTGGgtaagccagtaggtcagaagtctccaggcagttgaatacacacctctttc Alignment from Exonerate_protein2genome AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCGTGG acactgttaaagtttctattctcctgcatttgctttttgtttttacttagAGAGCTTGCAAAAGAACCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCGTTCCCTAATGCAGAGGCTAACAGTGTGGGTAAGCCAGTAGgtcagaagtctccaggcagttgaatacacacctctttc Alignment from Exonerate_coding2genome acactgttaaagtttctattctcctgcatttgctttttgtttttacttagagagcttgcaaaagaaccacatgttgccaccagtactcgagatgatgccctggttcagctgctgttggcacgctggaaggatacagcaccaggattggactcagccaagacctatgaatatcgggtgttgcttgcgttccctaatgcagaggctaacagtgtgggtaagccagtaggtcagaagtctccaggcagttgaatacacacctctttc Alignment from GeneWise CTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAAC AGCGTGGAAGTC----------- acactgttaaagtttctattctcctgcatttgctttttgtttttacttagagagCTTGCAAAAGAACCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCGTTCCCTAATGCAGAGGCTAACAGTgtgggtaagccagtaggtcagaagtctccagGCAGTTGAATACACACCTCTTTC #### Naaladl1_ID1456_15 --> 2 - 1 Original Alignment gtTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGg gg gtgaaacttggatgtggcctctcctcactaataaatgtgtttgccaacaggt------AGCCAACAAGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGggtatgacccaacatcttgaggcagtgctcatctgccatctctccacagga Alignment from CESAR gtTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGg gg atgaaggtgaaacttggatgtggcccactaataaatgtgtttgccaacaggt------AGCCAACAAGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGggtatgacccaacatcttgaggcagtgaaactttcctcatctttttcagga Alignment from Spaln_aa2Genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG gtgaaacttggatgtggcctctcctcactaataaatgtgtttgccaacagGT------AGCCAACAAGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtatgacccaacatcttgaggcagtgctcatctgccatctctccacagGA Alignment from Spaln_nt2Genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG gtgaaacttggatgtggcctctcctcactaataaatgtgtttgccaacagGT------AGCCAACAAGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtatgacccaacatcttgaggcagtgctcatctgccatctctccacagGA Alignment from Pairagon GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG gtgaaacttggatgtggcctctcctcactaataaatgtgtttgccaacagGT------AGCCAACAAGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtatgacccaacatcttgaggcagtgctcatctgccatctctccacagGA Alignment from Exonerate_protein2genome GCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG gtgaaacttggatgtggcctctcctcactaataaatgtgtttgccaacagGTAGCCAACAAGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGgtatgacccaacatcttgaggcagtgctcatctgccatctctccacagGA Alignment from Exonerate_coding2genome gtgaaacttggatgtggcctctcctcactaataaatgtgtttgccaacaggtagccaacaagctgttgcccggactgctgggagtgtgcttctccagctcagtgatagcctcttcctgcccctaaatgttagtgactatagtgagaccttacaaagtttccttcaggcagctcaagaagccctaggtacccaattagaaaagcagaatgtaagcttgggtatgacccaacatcttgaggcagtgctcatctgccatctctccacagga Alignment from GeneWise ----CAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTG------------------------------------------------GGG gtgaaacttggatgtggcctctcctcactaataaatgtgtttgccaacaggtagCCAACAAGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAAGTTTCCTTCAGGCAGCTCAAGAAGCCCTAGGTACCCAATTAGAAAAGCAGAATGTAAGCTTGGGTATGACCCAACATCTTGAGGCAGTGCTCATCTGCCATCTCTCCACAGGA #### Naaladl1_ID1457_16 --> 2 - 2 Original Alignment Gg ggCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTga Gggtaactatcttgaggcagtgaaactttttctccttaattgtccttaagga------GTAACGGCTGTAGCAAACTTTAAGGCTTCTGCTGCCTCACTGGGAGAAGACATCCTGACCCTAGGCGAGAGCAGCCCTgagtaagggccagcagaggacatgtctcaccaggtatacacgggggaggtac Alignment from CESAR Gg ggCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTga Gggtatgacccaacatcttgaggcactttttctccttaattgtccttaagga------GTAACGGCTGTAGCAAACTTTAAGGCTTCTGCTGCCTCACTGGGAGAAGACATCCTGACCCTAGGCGAGAGCAGCCCTgagtaagggccagcagaggacatgtctcaccaggtatacacgggggaggtac Alignment from Spaln_aa2Genome GG GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA GGgtaactatcttgaggcagtgaaactttttctccttaattgtccttaagGA------GTAACGGCTGTAGCAAACTTTAAGGCTTCTGCTGCCTCACTGGGAGAAGACATCCTGACCCTAGGCGAGAGCAGCCCTGAgtaagggccagcagaggacatgtctcaccaggtatacacgggggaggtac Alignment from Spaln_nt2Genome GG GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA GGgtaactatcttgaggcagtgaaactttttctccttaattgtccttaagG------AGTAACGGCTGTAGCAAACTTTAAGGCTTCTGCTGCCTCACTGGGAGAAGACATCCTGACCCTAGGCGAGAGCAGCCCTGAgtaagggccagcagaggacatgtctcaccaggtatacacgggggaggtac Alignment from Pairagon GG GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA GGgtaactatcttgaggcagtgaaactttttctccttaattgtccttaaggagtaacggctgtag---------------------CAAACTTTAAGGCTTCTGCTGCCTCACTGGGAGAAGACATCCTGACCCTAGGCGAGAGCAGCCCTGAgtaagggccagcagaggacatgtctcaccaggtatacacgggggaggtac Alignment from Exonerate_protein2genome GGGGCCTTTGG TGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA GGGTAACTATCttgaggcagtgaaactttttctccttaattgtccttaaggagTAACGGCTGTAGCAAACTTTAAGGCTTCTGCTGCCTCACTGGGAGAAGACATCCTGACCCTAGGCGAGAGCAGCCCTGAgtaagggccagcagaggacatgtctcaccaggtatacacgggggaggtac Alignment from Exonerate_coding2genome GGGGCCTTTGG TGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA GGGTAACTATCttgaggcagtgaaactttttctccttaattgtccttaaggagTAACGGCTGTAGCAAACTTTAAGGCTTCTGCTGCCTCACTGGGAGAAGACATCCTGACCCTAGGCGAGAGCAGCCCTGAgtaagggccagcagaggacatgtctcaccaggtatacacgggggaggtac Alignment from GeneWise GG GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA GGgtaactatcttgaggcagtgaaactttttctccttaattgtccttaagGA------GTAACGGCTGTAGCAAACTTTAAGGCTTCTGCTGCCTCACTGGGAGAAGACATCCTGACCCTAGGCGAGAGCAGCCCTGAgtaagggccagcagaggacatgtctcaccaggtatacacgggggaggtac #### Ndufs8_ID194_2 --> 2 - 1 Original Alignment gaCATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACa aacagatctcccatcattctgtgttctagactactctgctgtccccaaagga---------------AGCCTACACAGCAGTGCTGTGGCATCAACATACagtaggtagctgaaattaagatctggctcacacaaccgttaggatcctgga Alignment from CESAR gaCAT---------CTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACa tctcgatctcccatcattctgtgttctagacTACTCTGCTGTCCCCAAAGGA---AGCCTACACAGCAGTGCTGTGGCATCAACATACagtaggtagctgaaattaagatctggctcacacaaccgttaggatcctgga Alignment from Spaln_aa2Genome GACATCTTAATGGACAA------AGCCTTCATAGCAGCGCAGTGGCGGCAACGTACA aacagatctcccatcattctgtgttctagACTACTCTGCTGTCCCCAAAGGAAGCCTACACAGCAGTGCTGTGGCATCAACATACAgtaggtagctgaaattaagatctggctcacacaaccgttaggatcctgga Alignment from Spaln_nt2Genome GACATCTTAATGGACA------AAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACA aacagatctcccatcattctgtgttctagACTACTCTGCTGTCCCCAAAGGAAGCCTACACAGCAGTGCTGTGGCATCAACATACAgtaggtagctgaaattaagatctggctcacacaaccgttaggatcctgga Alignment from Pairagon GACATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACA aacagatctcccatcattctgtgttctagactactctgctgtccccaaagG---------------AAGCCTACACAGCAGTGCTGTGGCATCAACATACAgtaggtagctgaaattaagatctggctcacacaaccgttaggatcctgga Alignment from Exonerate_protein2genome ACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACA aacagatctcccatcattctgtgttctagactactctgctgtccccaaAGGAAGCCTACACAGCAGTGCTGTGGCATCAACATACAgtaggtagctgaaattaagatctggctcacacaaccgttaggatcctgga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise -----GGACATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACA aacagatctcccatcattctgtgttctagACTACTCTGCTGTCCCCAAAGGAAGCCTACACAGCAGTGCTGTGGCATCAACATACAgtaggtagctgaaattaagatctggctcacacaaccgttaggatcctgga #### Nfkb2_ID9824_2 --> 0 - 1 Original Alignment GGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAg caatttatcccttaataccactaccctgaattgtgtgctgtgttccttag---CTAGACGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACAATAGGAGAACCTAATGATCCAGCCCCTGAAACAggtatgggaatataaggagaaactattgtgctgtggcttttcagttgaaga Alignment from CESAR GGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAg caccaatttatcccttaataccactctgaattgtgtgctgtgttccttag---CTAGACGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACAATAGGAGAACCTAATGATCCAGCCCCTGAAACAggtatgggaatataaggagaaactattgtgctgtggcttttcagttgaaga Alignment from Spaln_aa2Genome GGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG caatttatcccttaataccactaccctgaattgtgtgctgtgttccttag---CTAGACGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACAATAGGAGAACCTAATGATCCAGCCCCTGAAACAGgtatgggaatataaggagaaactattgtgctgtggcttttcagttgaaga Alignment from Spaln_nt2Genome GGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG caatttatcccttaataccactaccctgaattgtgtgctgtgttccttag---CTAGACGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACAATAGGAGAACCTAATGATCCAGCCCCTGAAACAGgtatgggaatataaggagaaactattgtgctgtggcttttcagttgaaga Alignment from Pairagon GGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG caatttatcccttaataccactaccctgaattgtgtgctgtgttccttag---CTAGACGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACAATAGGAGAACCTAATGATCCAGCCCCTGAAACAGgtatgggaatataaggagaaactattgtgctgtggcttttcagttgaaga Alignment from Exonerate_protein2genome TGCTACGATCCAGGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG caatttatcccttaataccactaccctgaattgtgTGCTGTGTTCCTTAGCTAGACGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACAATAGGAGAACCTAATGATCCAGCCCCTGAAACAGgtatgggaatataaggagaaactattgtgctgtggcttttcagttgaaga Alignment from Exonerate_coding2genome TGCTACGATCCAGGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG caatttatcccttaataccactaccctgaattgtgTGCTGTGTTCCTTAGCTAGACGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACAATAGGAGAACCTAATGATCCAGCCCCTGAAACAGgtatgggaatataaggagaaactattgtgctgtggcttttcagttgaaga Alignment from GeneWise GACAATTGCTACGATCCAGGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG caatttatcccttaataccactaccctgaattgtgtgctgtgttccttag---------------------CTAGACGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACAATAGGAGAACCTAATGATCCAGCCCCTGAAACAGgtatgggaatataaggagaaactattgtgctgtggcttttcagttgaaga #### Nfkb2_ID9826_4 --> 0 - 0 Original Alignment CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG------ ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCAGGTGCTTCCAGTGAGAAGGGCCGGAAGACCTATCCCACTGTAAAAACCGATgtatatacaggtgccacagctgcttcatgcgtagacctggggcacacaac Alignment from CESAR CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG------ ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCAGGTGCTTCCAGTGAGAAGGGCCGGAAGACCTATCCCACTGTAAAAACCGATgtatatacaggtgccacagctgcttcatgcgtagacctggggcacacaac Alignment from Spaln_aa2Genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG------ ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCAGGTGCTTCCAGTGAGAAGGGCCGGAAGACCTATCCCACTGTAAAAACCGATgtatatacaggtgccacagctgcttcatgcgtagacctggggcacacaac Alignment from Spaln_nt2Genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAGATC--- ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCAGGTGCTTCCAGTGAGAAGGGCCGGAAGACCTATCCCACTGTAAAAACCGATgtatatacaggtgccacagctgcttcatgcgtagacctggggcacacaac Alignment from Pairagon CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCA---------------------------------------------------------- ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCAGGTGCTTCCAGTGAGAAGGGCCGGAAGACCTATCCCACTGTAAAAACCGATGTATATACAGGTGCCACAGCTGCTTCATGCGTAGACCTGGGGCACACAAC Alignment from Exonerate_protein2genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACT ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCAGGTGCTTCCAGTGAGAAGGGCCGGAAGACCTATCCCACTgtaaaaaccgatgtatatacaggtgccacagctgcttcatgcgtagacctggggcacacaac Alignment from Exonerate_coding2genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACT ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCAGGTGCTTCCAGTGAGAAGGGCCGGAAGACCTATCCCACTgtaaaaaccgatgtatatacaggtgccacagctgcttcatgcgtagacctggggcacacaac Alignment from GeneWise CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG------ ggtagtttgcttctccttctcattgctggcctgtttcctccttccaccagAGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCAGGTGCTTCCAGTGAGAAGGGCCGGAAGACCTATCCCACTGTAAAAACCGATgtatatacaggtgccacagctgcttcatgcgtagacctggggcacacaac #### Nfkb2_ID9828_6 --> 1 - 1 Original Alignment aTTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAg gtgccccagcataaatcatccagaagtttttcatttttatgttctctcaga---AATAATTTGGGC------CATGTAACAAAGAAGAACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTggtaaaaaactggaaggtgtcttgggtggtgctcataaataggctgtgaaa Alignment from CESAR aTTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAg ggggtgccccagcataaatcatccagtttttcatttttatgttctctcaga---AATAATTTGGGC------CATGTAACAAAGAAGAACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTggtaaaaaactggaaggtgtcttgggtggtgctcataaataggctgtgaaa Alignment from Spaln_aa2Genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG gtgccccagcataaatcatccagaagtttttcatttttatgttctctcagA---AATAATTTGGGC------CATGTAACAAAGAAGAACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTGgtaaaaaactggaaggtgtcttgggtggtgctcataaataggctgtgaaa Alignment from Spaln_nt2Genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG gtgccccagcataaatcatccagaagtttttcatttttatgttctctcagA---AATAATTTGGG------CCATGTAACAAAGAAGAACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTGgtaaaaaactggaaggtgtcttgggtggtgctcataaataggctgtgaaa Alignment from Pairagon ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCT------------------------------------------------------- gtgccccagcataaatcatccagaagtttttcatttttatgttctctcagA---AATAATTTGGGC------CATGTAACAAAGAAGAACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTGGTAAAAAACTGGAAGGTGTCTTGGGTGGTGCTCATAAATAGGCTGTGAAA Alignment from Exonerate_protein2genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG gtgccccagcataaatcatccagaagtttttcatttttatgttctctcagA---AATAATTTGGGC------CATGTAACAAAGAAGAACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTGgtaaaaaactggaaggtgtcttgggtggtgctcataaataggctgtgaaa Alignment from Exonerate_coding2genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG gtgccccagcataaatcatccagaagtttttcatttttatgttctctcagA---AATAATTTGGGC------CATGTAACAAAGAAGAACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTGgtaaaaaactggaaggtgtcttgggtggtgctcataaataggctgtgaaa Alignment from GeneWise ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG gtgccccagcataaatcatccagaagtttttcatttttatgttctctcagA---AATAATTTGGGC------CATGTAACAAAGAAGAACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTAGCTGgtaaaaaactggaaggtgtcttgggtggtgctcataaataggctgtgaaa #### Nfkb2_ID9830_8 --> 2 - 1 Original Alignment ag------TCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAg atattgtcacctgtaagtcaatcgagttagtgaggtatgtgctggctcagaaCAGGACTCTTCAGGGGCCTTGAATTTGAAGATCTCTGAGATGGATAAGGCAGCTGGTTCAGTGCATGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAGAGGggtgcctgcctgtctgggcaggctctattttggcaggctgtaatggtgaaa Alignment from CESAR ag------TCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAg atattgtcacctgtaagtcaatcgagttagtgaggtatgtgctggctcagaaCAGGACTCTTCAGGGGCCTTGAATTTGAAGATCTCTGAGATGGATAAGGCAGCTGGTTCAGTGCATGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAGAGGggtgcctgcctgtctgggcaggctctattttggcaggctgtaatggtgaaa Alignment from Spaln_aa2Genome AG------TCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG atattgtcacctgtaagtcaatcgagttagtgaggtatgtgctggctcagAACAGGACTCTTCAGGGGCCTTGAATTTGAAGATCTCTGAGATGGATAAGGCAGCTGGTTCAGTGCATGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAGAGGGgtgcctgcctgtctgggcaggctctattttggcaggctgtaatggtgaaa Alignment from Spaln_nt2Genome -AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG atattgtcacctgtaagtcaatcgagttagtgaggtatgtgctggctcagaacagGACTCTTCAGGGGCCTTGAATTTGAAGATCTCTGAGATGGATAAGGCAGCTGGTTCAGTGCATGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAGAGGGgtgcctgcctgtctgggcaggctctattttggcaggctgtaatggtgaaa Alignment from Pairagon ------AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG atattgtcacctgtaagtcaatcgagttagtgaggtatgtgctggctcagAACAGGACTCTTCAGGGGCCTTGAATTTGAAGATCTCTGAGATGGATAAGGCAGCTGGTTCAGTGCATGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAGAGGGgtgcctgcctgtctgggcaggctctattttggcaggctgtaatggtgaaa Alignment from Exonerate_protein2genome AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG atattgtcacctgtaagtcaatcgagttagtgaggtatgtgctggctcagaacaggACTCTTCAGGGGCCTTGAATTTGAAGATCTCTGAGATGGATAAGGCAGCTGGTTCAGTGCATGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAGAGGGgtgcctgcctgtctgggcaggctctattttggcaggctgtaatggtgaaa Alignment from Exonerate_coding2genome AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG atattgtcacctgtaagtcaatcgagttagtgaggtatgtgctggctcagaacaggACTCTTCAGGGGCCTTGAATTTGAAGATCTCTGAGATGGATAAGGCAGCTGGTTCAGTGCATGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAGAGGGgtgcctgcctgtctgggcaggctctattttggcaggctgtaatggtgaaa Alignment from GeneWise -----AAGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG atattgtcacctgtaagtcaatcgagttagtgaggtatgtgctggctcagAACAGGACTCTTCAGGGGCCTTGAATTTGAAGATCTCTGAGATGGATAAGGCAGCTGGTTCAGTGCATGGGGGAGATGAGGTTTATTTGCTCTGTGAGAGGGTGCAGAGGGgtgcctgcctgtctgggcaggctctattttggcaggctgtaatggtgaaa #### Nfkb2_ID9833_11 --> 2 - 1 Original Alignment acAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGA---------------g gcatgtgcttgtatttattaagtctcaatgtgtgttccttctcttaacagacAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTGCCTACTTTCTCCCAGCCCTTTGGGGGTGGAACCCATATGGGTGGACACTCTGGTGGGTCTGCAGGGGGTTATGGAGATGCTGGGGGATATGGAAGAAGAGGAggtgagcaagctaaatgaaaggagaaaggaaggagattggttgatgatatt Alignment from CESAR acAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGA---------------GGAg gcatgtgcttgtatttattaagtctcaatgtgtgttccttctcttaacagacAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTGCCTACTTTCTCCCAGCCCTTTGGGGGTGGAACCCATATGGGTGGACACTCTGGTGGGTCTGCAGGGGGTTATGGAGATGCTGGGGGATATGGAAGAAGAGGAggtgagcaagctaaatgaaaggagaaaggaaggagattggttgatgatatt Alignment from Spaln_aa2Genome ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGA---------------G gcatgtgcttgtatttattaagtctcaatgtgtgttccttctcttaacagACAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTGCCTACTTTCTCCCAGCCCTTTGGGGGTGGAACCCATATGGGTGGACACTCTGGTGGGTCTGCAGGGGGTTATGGAGATGCTGGGGGATATGGAAGAAGAGGAGgtgagcaagctaaatgaaaggagaaaggaaggagattggttgatgatatt Alignment from Spaln_nt2Genome ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGG---------------AGGAG gcatgtgcttgtatttattaagtctcaatgtgtgttccttctcttaacagACAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTGCCTACTTTCTCCCAGCCCTTTGGGGGTGGAACCCATATGGGTGGACACTCTGGTGGGTCTGCAGGGGGTTATGGAGATGCTGGGGGATATGGAAGAAGAGGAGgtgagcaagctaaatgaaaggagaaaggaaggagattggttgatgatatt Alignment from Pairagon ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTG---------------GAGGAG gcatgtgcttgtatttattaagtctcaatgtgtgttccttctcttaacagACAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTGCCTACTTTCTCCCAGCCCTTTGGGGGTGGAACCCATATGGGTGGACACTCTGGTGGGTCTGCAGGGGGTTATGGAGATGCTGGGGGATATGGAAGAAGAGGAGgtgagcaagctaaatgaaaggagaaaggaaggagattggttgatgatatt Alignment from Exonerate_protein2genome ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG gcatgtgcttgtatttattaagtctcaatgtgtgttccttctcttaacagACAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTGCCTACTTTCTCCCAGCCCTTTGGGGGTGGAACCCATATGGGTGGACACTCTGGTGGGTCTGCAGGGGGTTATGGAGATGCTGGGGGATatggaagaagaggaggtgagcaagctaaatgaaaggagaaaggaaggagattggttgatgatatt Alignment from Exonerate_coding2genome ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG gcatgtgcttgtatttattaagtctcaatgtgtgttccttctcttaacagACAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTGCCTACTTTCTCCCAGCCCTTTGGGGGTGGAACCCATATGGGTGGACACTCTGGTGGGTCTGCAGGGGGTTATGGAGATGCTGGGGGATatggaagaagaggaggtgagcaagctaaatgaaaggagaaaggaaggagattggttgatgatatt Alignment from GeneWise ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGA------------GGT- gcatgtgcttgtatttattaagtctcaatgtgtgttccttctcttaacagACAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTGCCTACTTTCTCCCAGCCCTTTGGGGGTGGAACCCATATGGGTGGACACTCTGGTGGGTCTGCAGGGGGTTATGGAGATGCTGGGGGATATGGAAGAAGAGGAGgtgagcaagctaaatgaaaggagaaaggaaggagattggttgatgatatt #### Nfkb2_ID9837_15 --> 0 - 1 Original Alignment ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCT------------------------------------------CTCCGGGCAGGT---GCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGg cagcactggggatactactagctaacccctcggttttcatcttggagcag------------------------------CAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGTGGACCCCACACTTCTGGAGAGGCACGAA---TCTGCACTCCACCTGGCTCACACCTGTGAAAATTTCTTGCCATCTTGGACCTCTCAGGAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCCGAGTTTGAGggtaggcactcttgtccagagccaaaagccaaggcacaagaactaagggct Alignment from CESAR ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCT------------------------------------------CTCCGGGCAGGTGCTGCA---GCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGg ttgtaagcaaagagtggaaggctaacccctcggttttcatcttggagcag------------------------------CAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGTGGACCCCACACTTCTGGAGAGGCAC---GAATCTGCACTCCACCTGGCTCACACCTGTGAAAATTTCTTGCCATCTTGGACCTCTCAGGAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCCGAGTTTGAGggtaggcactcttgtccagagccaaaagccaaggcacaagaactaagggct Alignment from Spaln_aa2Genome CGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTG GCTCTCCGGGCAGGT---GCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG cagcactggggatactactagCTAACCCCTCGGTTTTCATCTTGGAGCAGCAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGTGGACCCCACACTTCTGGAGAGGCAC---GAATCTGCACTCCACCTGgctcacacctgtgaaaatttcttgccatcttggacctctcagGAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCCGAGTTTGAGGgtaggcactcttgtccagagccaaaagccaaggcacaagaactaagggct Alignment from Spaln_nt2Genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAG---ACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTG GCTCTCCGGGCAGGTGCTGCAGC---CCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG actggggatactactag----CTAACCCCTCGGTTTTCATCTTGGAGCAGCAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGTGGACCCCACACTTCTGGAGAGGCAC---GAATCTGCACTCCACCTGgctcacacctgtgaaaatttcttgccatcttggacctctcagGAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCCGAGTTTGAGGgtaggcactcttgtccagagccaaaagccaaggcacaagaactaagggct Alignment from Pairagon ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCT------------------------------------------CTCCGGGCAGGTGCTGCA---GCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG cagcactggggatactactagctaacccctcggttttcatcttggagcag------------------------------CAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGTGGACCCCACACTTCTGGAGAGGCACGAA---TCTGCACTCCACCTGGCTCACACCTGTGAAAATTTCTTGCCATCTTGGACCTCTCAGGAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCCGAGTTTGAGGgtaggcactcttgtccagagccaaaagccaaggcacaagaactaagggct Alignment from Exonerate_protein2genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTG GCTCTCCGGGCAGGT---GCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG cagcactggggatactactaGCTAACCCCTCGGTTTTCATCTTGGAGCAGCAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGTGGACCCCACACTTCTGGAGAGGCAC---GAATCTGCACTCCACCTGgctcacacctgtgaaaatttcttgccatcttggacctctcagGAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCCGAGTTTGAGGgtaggcactcttgtccagagccaaaagccaaggcacaagaactaagggct Alignment from Exonerate_coding2genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTG GCTCTCCGGGCAGGT---GCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG cagcactggggatactactaGCTAACCCCTCGGTTTTCATCTTGGAGCAGCAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGTGGACCCCACACTTCTGGAGAGGCAC---GAATCTGCACTCCACCTGgctcacacctgtgaaaatttcttgccatcttggacctctcagGAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCCGAGTTTGAGGgtaggcactcttgtccagagccaaaagccaaggcacaagaactaagggct Alignment from GeneWise --------------------------------CTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCT------------------------------------------CTCCGGGCAGGTGCTGCAGCC---CCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG CAGCACTGGGGATACTACTAGCTAACCCCTCGGTTTTCATCTTGGAGCAGCAGACAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTGTGGACCCCACACTTCTGGAGAGGCAC---GAATCTGCACTCCACCTGGCTCACACCTGTGAAAATTTCTTGCCATCTTGGACCTCTCAGGAGCTCAGAGCAGGAGCAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTACGCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCCGAGTTTGAGGgtaggcactcttgtccagagccaaaagccaaggcacaagaactaagggct #### Nfkb2_ID9839_17 --> 0 - 1 Original Alignment CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTg ttgcttgattgtggccagactttgtaaccacatccgcccgtttcctacag---CATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTggtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa Alignment from CESAR CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTg gatttgcttgattgtggccagacttaaccacatccgcccgtttcctacag---CATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTggtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa Alignment from Spaln_aa2Genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG ttgcttgattgtggccagactttgtaaccacatccgcccgtttcctacag---CATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa Alignment from Spaln_nt2Genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG ttgcttgattgtggccagactttgtaaccacatccgcccgtttcctacag---CATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa Alignment from Pairagon CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG ttgcttgattgtggccagactttgtaaccacatccgcccgtttcctacag---CATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa Alignment from Exonerate_protein2genome CATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG ttgcttgattgtggccagactttgtaaccacatccgcccgtttcctacagCATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa Alignment from Exonerate_coding2genome CATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG ttgcttgattgtggccagactttgtaaccacatccgcccgtttcctacagCATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa Alignment from GeneWise CATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG ttgcttgattgtggccagactttgtaaccacatccgcccgtttcctacagCATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACACCACTCCACCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaaggcctgcattaacttgtgactacaaaactgaaagcttggggaggaa #### Nfkb2_ID9840_18 --> 2 - 0 Original Alignment gt------GCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtagtctttcaagtgaccacttctttctctgcaggcAACCTCGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgctactgttcagaaaggattcaagtggttgta Alignment from CESAR gt------GCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtagtctttcaagtgaccacttctttctctgcaggcAACCTCGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgctactgttcagaaaggattcaagtggttgta Alignment from Spaln_aa2Genome GT------GCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtagtctttcaagtgaccacttctttctctgcagGCAACCTCGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgctactgttcagaaaggattcaagtggttgta Alignment from Spaln_nt2Genome GT------GCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtagtctttcaagtgaccacttctttctctgcagGCAACCTCGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgctactgttcagaaaggattcaagtggttgta Alignment from Pairagon G------TGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtagtctttcaagtgaccacttctttctctgcagGCAACCTCGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgctactgttcagaaaggattcaagtggttgta Alignment from Exonerate_protein2genome GT------GCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtagtctttcaagtgaccacttctttctctgcagGCAACCTCGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgctactgttcagaaaggattcaagtggttgta Alignment from Exonerate_coding2genome GT------GCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtagtctttcaagtgaccacttctttctctgcagGCAACCTCGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgctactgttcagaaaggattcaagtggttgta Alignment from GeneWise -----GGTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagttagagactataagtagtctttcaagtgaccacttctttctctgcagGCAACCTCGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGACCTCACTCGCAGTACAAAGgtaaggtacacggagtctgctactgttcagaaaggattcaagtggttgta #### Nfkb2_ID9842_20 --> 2 - 0 Original Alignment ggCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG------ ggtttatgcttctgcacctacactggactttttgttccattaattgtcagagCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCAGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGTGGAAGgtagggcagttagactgctgaggcctgaactactcttagtcttcagcact Alignment from CESAR ggCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG------ ggtttatgcttctgcacctacactggactttttgttccattaattgtcagagCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCAGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGTGGAAGgtagggcagttagactgctgaggcctgaactactcttagtcttcagcact Alignment from Spaln_aa2Genome GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTAC------AAG ggtttatgcttctgcacctacactggactttttgttccattaattgtcagAGCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCAGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGTGGAAGgtagggcagttagactgctgaggcctgaactactcttagtcttcagcact Alignment from Spaln_nt2Genome GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAGCTG--- ggtttatgcttctgcacctacactggactttttgttccattaattgtcagAGCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCAGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGTGGAAGgtagggcagttagactgctgaggcctgaactactcttagtcttcagcact Alignment from Pairagon GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAGCTG----------------------------------------------------- ggtttatgcttctgcacctacactggactttttgttccattaattgtcagAGCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCAGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGTGGAAGGTAGGGCAGTTAGACTGCTGAGGCCTGAACTACTCTTAGTCTTCAGCACT Alignment from Exonerate_protein2genome GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG ggtttatgcttctgcacctacactggactttttgttccattaattgtcagAGCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCAGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGtggaaggtagggcagttagactgctgaggcctgaactactcttagtcttcagcact Alignment from Exonerate_coding2genome GCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAGGGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG GGTTTATGCTTCTGCACCTACACTGGACTTTTTGTTCCATTAATTGTCAGAGCCAGGC------CTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCAGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGtggaaggtagggcagttagactgctgaggcctgaactactcttagtcttcagcact Alignment from GeneWise GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAGCTGGCT ggtttatgcttctgcacctacactggactttttgttccattaattgtcagAGCCAGGCCTGTCCCTGGGAGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCACAAGGTAGCTGGGCAAAGCTGGCAGAGCGTCTGGGATTGAGGAGCCTGGTGGACACATACAGGAAAACTCCATCTTCCAGTGGTAGTCTCCTGCGTAGCTACAAGTGGAAGgtagggcagttagactgctgaggcctgaactactcttagtcttcagcact #### Nfkb2_ID9843_21 --> 0 - 1 Original Alignment CTGGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCATGAGGGAGTCAGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCCAGCACAg agcactgctgaggcctcaactatacatgcaacatatgttttcttcttcag------GGTGGGGACCTGGTCGGGCTATTGGAGGCCTTATCTGACATGGGACTTCATGAGGGATTCAGGCTTCTGAAAGGTCCAGAGACCCGTGACAAGCTACCCAGTAAAggtaaacaaaggacaggcaccttagagctcatgactgattagaggagacag Alignment from CESAR CTGGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCATGAGGGAGTCAGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCCAGCACAg gtcttcagcactgctgaggcctcaaatgcaacatatgttttcttcttcag------GGTGGGGACCTGGTCGGGCTATTGGAGGCCTTATCTGACATGGGACTTCATGAGGGATTCAGGCTTCTGAAAGGTCCAGAGACCCGTGACAAGCTACCCAGTAAAggtaaacaaaggacaggcaccttagagctcatgactgattagaggagacag Alignment from Spaln_aa2Genome CTGGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCATGAGGGAGTCAGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCCAGCACAG agcactgctgaggcctcaactatacatgcaacatatgttttcttcttcag------GGTGGGGACCTGGTCGGGCTATTGGAGGCCTTATCTGACATGGGACTTCATGAGGGATTCAGGCTTCTGAAAGGTCCAGAGACCCGTGACAAGCTACCCAGTAAAGgtaaacaaaggacaggcaccttagagctcatgactgattagaggagacag Alignment from Spaln_nt2Genome CTGGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCATGAGGGAGTCAGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCCAGCACAG agcactgctgaggcctcaactatacatgcaacatatgttttcttcttcag------GGTGGGGACCTGGTCGGGCTATTGGAGGCCTTATCTGACATGGGACTTCATGAGGGATTCAGGCTTCTGAAAGGTCCAGAGACCCGTGACAAGCTACCCAGTAAAGgtaaacaaaggacaggcaccttagagctcatgactgattagaggagacag Alignment from Pairagon CTGGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCATGAGGGAGTCAGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCCAGCACAG agcactgctgaggcctcaactatacatgcaacatatgttttcttcttcag------GGTGGGGACCTGGTCGGGCTATTGGAGGCCTTATCTGACATGGGACTTCATGAGGGATTCAGGCTTCTGAAAGGTCCAGAGACCCGTGACAAGCTACCCAGTAAAGgtaaacaaaggacaggcaccttagagctcatgactgattagaggagacag Alignment from Exonerate_protein2genome GGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCATGAGGGAGTCAGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCCAGCACAG agcactgctgaggcctcaactatacatgcaacatatgttttcttcttcagGGTGGGGACCTGGTCGGGCTATTGGAGGCCTTATCTGACATGGGACTTCATGAGGGATTCAGGCTTCTGAAAGGTCCAGAGACCCGTGACAAGCTACCCAGTAAAGgtaaacaaaggacaggcaccttagagctcatgactgattagaggagacag Alignment from Exonerate_coding2genome GGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCATGAGGGAGTCAGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCCAGCACAG agcactgctgaggcctcaactatacatgcaacatatgttttcttcttcagGGTGGGGACCTGGTCGGGCTATTGGAGGCCTTATCTGACATGGGACTTCATGAGGGATTCAGGCTTCTGAAAGGTCCAGAGACCCGTGACAAGCTACCCAGTAAAGgtaaacaaaggacaggcaccttagagctcatgactgattagaggagacag Alignment from GeneWise GGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCATGAGGGAGTCAGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCCAGCACAG agcactgctgaggcctcaactatacatgcaacatatgttttcttcttcagGGTGGGGACCTGGTCGGGCTATTGGAGGCCTTATCTGACATGGGACTTCATGAGGGATTCAGGCTTCTGAAAGGTCCAGAGACCCGTGACAAGCTACCCAGTAAAGgtaaacaaaggacaggcaccttagagctcatgactgattagaggagacag #### Nmrk1_ID4439_5 --> 1 - 2 Original Alignment gCCTCTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGG---ag gggaaaggggagcaacactagtttgtaatttgatgtatttattcttacagaCTTTTGGATACAATATGGAATAGGAGTTACTGCCTAAGTGTTCAATATGACCAATGCAAGAGAGGAAGGAAGaggtaagattggagactgactgtggattgtaagcaggattatttccctcaag Alignment from CESAR gCCTCTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGG---AGAAGGag gggaaaggggagcaacactagtttgtaatttgatgtatttattcttacagaCTTTTGGATACAATATGGAATAGGAGTTACTGCCTAAGTGTTCAATATGACCAATGCAAGAGAGGAAGGAAGaggtaagattggagactgactgtggattgtaagcaggattatttccctcaag Alignment from Spaln_aa2Genome GCCTCTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGG---AGAAGGAG gggaaaggggagcaacactagtttgtaatttgatgtatttattcttacagACTTTTGGATACAATATGGAATAGGAGTTACTGCCTAAGTGTTCAATATGACCAATGCAAGAGAGGAAGGAAGAGgtaagattggagactgactgtggattgtaagcaggattatttccctcaag Alignment from Spaln_nt2Genome GCCTCTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGA---G gggaaaggggagcaacactagtttgtaatttgatgtatttattcttacagACTTTTGGATACAATATGGAATAGGAGTTACTGCCTAAGTGTTCAATATGACCAATGCAAGAGAGGAAGGAAGAGgtaagattggagactgactgtggattgtaagcaggattatttccctcaag Alignment from Pairagon GCCTCTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAG---GAG gggaaaggggagcaacactagtttgtaatttgatgtatttattcttacagACTTTTGGATACAATATGGAATAGGAGTTACTGCCTAAGTGTTCAATATGACCAATGCAAGAGAGGAAGGAAGAGgtaagattggagactgactgtggattgtaagcaggattatttccctcaag Alignment from Exonerate_protein2genome GCCTCTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGG---AGAAGGAG gggaaaggggagcaacactagtttgtaatttgatgtatttattcttacagACTTTTGGATACAATATGGAATAGGAGTTACTGCCTAAGTGTTCAATATGACCAATGCAAGAGAGGAAGGAAGAGgtaagattggagactgactgtggattgtaagcaggattatttccctcaag Alignment from Exonerate_coding2genome gggaaaggggagcaacactagtttgtaatttgatgtatttattcttacagacttttggatacaatatggaataggagttactgcctaagtgttcaatatgaccaatgcaagagaggaaggaagaggtaagattggagactgactgtggattgtaagcaggattatttccctcaag Alignment from GeneWise GCCTCTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGAGT-- gggaaaggggagcaacactagtttgtaatttgatgtatttattcttacagACTTTTGGATACAATATGGAATAGGAGTTACTGCCTAAGTGTTCAATATGACCAATGCAAGAGAGGAAGGAAGAGgtaagattggagactgactgtggattgtaagcaggattatttccctcaag #### Npas4_ID775_6 --> 2 - 2 Original Alignment tgGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCag gtggacggcctgatagcacttgagatgtcaagtgccatttcctatttcagttGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCAATAATTAT------aggtgagtcacaattgggggccaccagatgatgacaactgctgtatttggtt Alignment from CESAR tgGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCag gtggacggcctgatagcacttgagatgtcaagtgccatttcctatttcagttGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCAATAATTAT------aggtgagtcacaattgggggccaccagatgatgacaactgctgtatttggtt Alignment from Spaln_aa2Genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCC gtggacggcctgatagcacttgagatgtcaagtgccatttcctatttcagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCAATAATTATAGgtgagtcacaattgggggccaccagatgatgacaactgctgtatttggtt Alignment from Spaln_nt2Genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtggacggcctgatagcacttgagatgtcaagtgccatttcctatttcagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCAATAATTA------TAGgtgagtcacaattgggggccaccagatgatgacaactgctgtatttggtt Alignment from Pairagon TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTA----------------------------------------------------- gtggacggcctgatagcacttgagatgtcaagtgccatttcctatttcagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCAATAATTATAGGTGAGTCACAATTGGGGGCCACCAGATGATGACAACTGCTGTATTTGGTT Alignment from Exonerate_protein2genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtggacggcctgatagcacttgagatgtcaagtgccatttcctatttcagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCAATAATTAT------AGgtgagtcacaattgggggccaccagatgatgacaactgctgtatttggtt Alignment from Exonerate_coding2genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtggacggcctgatagcacttgagatgtcaagtgccatttcctatttcagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCAATAATTAT------AGgtgagtcacaattgggggccaccagatgatgacaactgctgtatttggtt Alignment from GeneWise TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCC gtggacggcctgatagcacttgagatgtcaagtgccatttcctatttcagTTGCTGAAAGTGGGGATATCCAGGCTGAGATGCTAGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCAATAATTATAGgtgagtcacaattgggggccaccagatgatgacaactgctgtatttggtt #### Npm3_ID9577_3 --> 0 - 0 Original Alignment CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcagccaatatcatcaaagacactgctcactttctgtctcttttcttcag------CTTACTGAGGCTGCCACAGATGAGTGTAATGTGATAGAAGTTGTCGCCAGGGACTATGGCAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGCCAACCAATGgtaactttgaaacactcatttctgtggggccctaacattcaataactgtt Alignment from CESAR CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG ttttcttcagccaatatcatcaaagctcactttctgtctcttttcttcag------CTTACTGAGGCTGCCACAGATGAGTGTAATGTGATAGAAGTTGTCGCCAGGGACTATGGCAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGCCAACCAATGgtaactttgaaacactcatttctgtggggccctaacattcaataactgtt Alignment from Spaln_aa2Genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcagccaatatcatcaaagacactgctcactttctgtctcttttcttcag------CTTACTGAGGCTGCCACAGATGAGTGTAATGTGATAGAAGTTGTCGCCAGGGACTATGGCAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGCCAACCAATGgtaactttgaaacactcatttctgtggggccctaacattcaataactgtt Alignment from Spaln_nt2Genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcagccaatatcatcaaagacactgctcactttctgtctcttttcttcag------CTTACTGAGGCTGCCACAGATGAGTGTAATGTGATAGAAGTTGTCGCCAGGGACTATGGCAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGCCAACCAATGgtaactttgaaacactcatttctgtggggccctaacattcaataactgtt Alignment from Pairagon CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcagccaatatcatcaaagacactgctcactttctgtctcttttcttcag------CTTACTGAGGCTGCCACAGATGAGTGTAATGTGATAGAAGTTGTCGCCAGGGACTATGGCAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGCCAACCAATGgtaactttgaaacactcatttctgtggggccctaacattcaataactgtt Alignment from Exonerate_protein2genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcagccaatatcatcaaagacactgctcactttctgtctcttttCTTCAGCTTACTGAGGCTGCCACAGATGAGTGTAATGTGATAGAAGTTGTCGCCAGGGACTATGGCAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGCCAACCAATGgtaactttgaaacactcatttctgtggggccctaacattcaataactgtt Alignment from Exonerate_coding2genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATGCTCAGTGTG tcagccaatatcatcaaagacactgctcactttctgtctcttttCTTCAGCTTACTGAGGCTGCCACAGATGAGTGTAATGTGATAGAAGTTGTCGCCAGGGACTATGGCAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGCCAACCAATGGTAACTTTGaaacactcatttctgtggggccctaacattcaataactgtt Alignment from GeneWise CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcagccaatatcatcaaagacactgctcactttctgtctcttttcttcagCTT------ACTGAGGCTGCCACAGATGAGTGTAATGTGATAGAAGTTGTCGCCAGGGACTATGGCAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGCCAACCAATGgtaactttgaaacactcatttctgtggggccctaacattcaataactgtt #### Npm3_ID9578_2 --> 2 - 0 Original Alignment gtTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG------------ ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttaggtTGTGAGCTCTCTGATCACACACGTTCGTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTTGCATTGAACATGCTTAGTCTTATAgtaagtggtacataaagagtcagttcagcacacccctggtcttatctttc Alignment from CESAR gtTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG------------ ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttaggtTGTGAGCTCTCTGATCACACACGTTCGTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTTGCATTGAACATGCTTAGTCTTATAgtaagtggtacataaagagtcagttcagcacacccctggtcttatctttc Alignment from Spaln_aa2Genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG------------ ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttagGTTGTGAGCTCTCTGATCACACACGTTCGTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTTGCATTGAACATGCTTAGTCTTATAgtaagtggtacataaagagtcagttcagcacacccctggtcttatctttc Alignment from Spaln_nt2Genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACAT ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttagGTTGTGAGCTCTCTGATCACACACGTTCGTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTTGCATTGAACATgcttagtcttatagtaagtggtacataaagagtcagttcagcacacccctggtcttatctttc Alignment from Pairagon GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG------------ ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttagGTTGTGAGCTCTCTGATCACACACGTTCGTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTTGCATTGAACATGCTTAGTCTTATAgtaagtggtacataaagagtcagttcagcacacccctggtcttatctttc Alignment from Exonerate_protein2genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttagGTTGTGAGCTCTCTGATCACACACGTTCGTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTTGCATTGAACATGcttagtcttatagtaagtggtacataaagagtcagttcagcacacccctggtcttatctttc Alignment from Exonerate_coding2genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttagGTTGTGAGCTCTCTGATCACACACGTTCGTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTTGCATTGAACATGcttagtcttatagtaagtggtacataaagagtcagttcagcacacccctggtcttatctttc Alignment from GeneWise GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATGCTG--------- ggtttggttcaggatgtacctaggaggtgggattttcccctttgttttagGTTGTGAGCTCTCTGATCACACACGTTCGTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTTGCATTGAACATGCTTAGTCTTATAgtaagtggtacataaagagtcagttcagcacacccctggtcttatctttc #### Nt5c2_ID10036_17 --> 0 - 0 Original Alignment ---------AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gtattgccaaaggactagatataggcgcgaagtctgtcctgtcttgacagAGCGGTCCCGAAGTAACTCATGACATGGATATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTACTGTACTACCCATTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtacggactgatccttatggctgacagttgatgcaacaccacagtcacta Alignment from CESAR ---------AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gtattgccaaaggactagatataggcgcgaagtctgtcctgtcttgacagAGCGGTCCCGAAGTAACTCATGACATGGATATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTACTGTACTACCCATTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtacggactgatccttatggctgacagttgatgcaacaccacagtcacta Alignment from Spaln_aa2Genome ---------AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCT gtattgccaaaggactagatataggcgcgaagtctgtcctgtcttgacagAGCGGTCCCGAAGTAACTCATGACATGGATATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTACTGTACTACCCATTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtacggactgatccttatggctgacagttgatgcaacaccacagtcacta Alignment from Spaln_nt2Genome A---------AAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gtattgccaaaggactagatataggcgcgaagtctgtcctgtcttgacagAGCGGTCCCGAAGTAACTCATGACATGGATATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTACTGTACTACCCATTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtacggactgatccttatggctgacagttgatgcaacaccacagtcacta Alignment from Pairagon A---------AAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gtattgccaaaggactagatataggcgcgaagtctgtcctgtcttgacagAGCGGTCCCGAAGTAACTCATGACATGGATATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTACTGTACTACCCATTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtacggactgatccttatggctgacagttgatgcaacaccacagtcacta Alignment from Exonerate_protein2genome AGACGGATTAAGAAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gtattgccaaaggactagatataggcgcgaagtctgtcctgtcttgacagAGCGGT---CCCGAAGTAACTCATGACATGGATATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTACTGTACTACCCATTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtacggactgatccttatggctgacagttgatgcaacaccacagtcacta Alignment from Exonerate_coding2genome gtattgccaaaggactagatataggcgcgaagtctgtcctgtcttgacagagcggtcccgaagtaactcatgacatggatatgtgctatggcatgatgggaagtctgttccggagtagctcccagcagacactctttgccagcctagttatgcgttatgcagacctctacacatcctcattcattaacctactgtactacccattcagttacctcttcagagctgcccatgtcctggtacggactgatccttatggctgacagttgatgcaacaccacagtcacta Alignment from GeneWise GATTAAGAAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gtattgccaaaggactagatataggcgcgaagtctgtcctgtcttgacagagCGGTCCCGAAGTAACTCATGACATGGATATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTACTGTACTACCCATTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtacggactgatccttatggctgacagttgatgcaacaccacagtcacta #### Nudt8_ID268_3 --> 0 - 0 Original Alignment GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG gacatctggacctgattgcgattcatcaatccatctgggtctgcccacag---------AGCTTAGTCCCTGTTCTTGCGAATGTGGGCCCTTTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAgtaactggtgcactttttggaccggggaacttaggagtggatgcatgtcc Alignment from CESAR GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG ttggcaacagacatctggacctgattcaatccatctgggtctgcccacag---------AGCTTAGTCCCTGTTCTTGCGAATGTGGGCCCTTTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAgtaactggtgcactttttggaccggggaacttaggagtggatgcatgtcc Alignment from Spaln_aa2Genome GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG gacatctggacctgattgcgattcatcaatccatctgggtctgcccacag---------AGCTTAGTCCCTGTTCTTGCGAATGTGGGCCCTTTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAgtaactggtgcactttttggaccggggaacttaggagtggatgcatgtcc Alignment from Spaln_nt2Genome ACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG gacatctggacctgattgcgattcatcaatccatctgggtctgcccacagAGCTTAGTCCCTGTTCTTGCGAATGTGGGCCCTTTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAgtaactggtgcactttttggaccggggaacttaggagtggatgcatgtcc Alignment from Pairagon GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG gacatctggacctgattgcgattcatcaatccatctgggtctgcccacag---------AGCTTAGTCCCTGTTCTTGCGAATGTGGGCCCTTTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAgtaactggtgcactttttggaccggggaacttaggagtggatgcatgtcc Alignment from Exonerate_protein2genome ACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG gacatctggacctgattgcgattcatcaatccatctgggtctgcccacagAGCTTAGTCCCTGTTCTTGCGAATGTGGGCCCTTTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAgtaactggtgcactttttggaccggggaacttaggagtggatgcatgtcc Alignment from Exonerate_coding2genome ACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG gacatctggacctgattgcgattcatcaatccatctgggtctgcccacagAGCTTAGTCCCTGTTCTTGCGAATGTGGGCCCTTTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAgtaactggtgcactttttggaccggggaacttaggagtggatgcatgtcc Alignment from GeneWise CATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG gacatctggacctgattgcgattcatcaatccatctgggtctgcccacagagCTTAGTCCCTGTTCTTGCGAATGTGGGCCCTTTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAgtaactggtgcactttttggaccggggaacttaggagtggatgcatgtcc #### Nxf1_ID2345_5 --> 0 - 0 Original Alignment TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATC---CAGGATCGAGAAAACAGAAGG--------- tgagtagcttatgttcggtgaggggtatgtctgctaactcttgaatgcagTTTCACTATGAAAATACACGCACTCATTTCTTTGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTGAACCATAAGATCATCCAGGATCGAGAGAACAGACGGCCAGAAACTgtgagtagacagccgacattaatagaatggactggttgtaacaacttttc Alignment from CESAR TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG--------- tgagtagcttatgttcggtgaggggtatgtctgctaactcttgaatgcagTTTCACTATGAAAATACACGCACTCATTTCTTTGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTGAACCATAAGATCATCCAGGATCGAGAGAACAGACGGCCAGAAACTgtgagtagacagccgacattaatagaatggactggttgtaacaacttttc Alignment from Spaln_aa2Genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG--------- tgagtagcttatgttcggtgaggggtatgtctgctaactcttgaatgcagTTTCACTATGAAAATACACGCACTCATTTCTTTGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTGAACCATAAGATCATCCAGGATCGAGAGAACAGACGGCCAGAAACTgtgagtagacagccgacattaatagaatggactggttgtaacaacttttc Alignment from Spaln_nt2Genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAG tgagtagcttatgttcggtgaggggtatgtctgctaactcttgaatgcagTTTCACTATGAAAATACACGCACTCATTTCTTTGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTGAACCATAAGATCATCCAGGATCGAGAGAACAGACGgccagaaactgtgagtagacagccgacattaatagaatggactggttgtaacaacttttc Alignment from Pairagon TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG--------- tgagtagcttatgttcggtgaggggtatgtctgctaactcttgaatgcagTTTCACTATGAAAATACACGCACTCATTTCTTTGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTGAACCATAAGATCATCCAGGATCGAGAGAACAGACGGCCAGAAACTgtgagtagacagccgacattaatagaatggactggttgtaacaacttttc Alignment from Exonerate_protein2genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG tgagtagcttatgttcggtgaggggtatgtctgctaactcttgaatgcagTTTCACTATGAAAATACACGCACTCATTTCTTTGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTGAACCATAAGATCATCCAGGATCGAGAGAACAGACGGccagaaactgtgagtagacagccgacattaatagaatggactggttgtaacaacttttc Alignment from Exonerate_coding2genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG tgagtagcttatgttcggtgaggggtatgtctgctaactcttgaatgcagTTTCACTATGAAAATACACGCACTCATTTCTTTGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTGAACCATAAGATCATCCAGGATCGAGAGAACAGACGGccagaaactgtgagtagacagccgacattaatagaatggactggttgtaacaacttttc Alignment from GeneWise TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG--------- tgagtagcttatgttcggtgaggggtatgtctgctaactcttgaatgcagTTTCACTATGAAAATACACGCACTCATTTCTTTGTAGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTGAACCATAAGATCATCCAGGATCGAGAGAACAGACGGCCAGAAACTgtgagtagacagccgacattaatagaatggactggttgtaacaacttttc #### Nxf1_ID2347_7 --> 0 - 1 Original Alignment CTGATCATGAGCAAACGATATGATGGCAACCAACAAGCACTTGACCTCAAGGGGCTCCGCTCAGACCCA------g ccctgagctcatgtcaaaatcatctaaagttctgacctttcctcccacagATTGTCATGAGCAAACAGTATGACAGTAATCAACAAGCACTGGACCTTAAGGAGCTTCGCTCAGACCCTAATGCCggtgagtcatgcccagtgatcagattattgaggtgggaagtcagggtcttt Alignment from CESAR CTGATCATGAGCAAACGATATGATGGCAACCAACAAGCACTTGACCTCAAGGGGCTCCGCTCAGACCCA------g ccctgagctcatgtcaaaatcatctaaagttctgacctttcctcccacagATTGTCATGAGCAAACAGTATGACAGTAATCAACAAGCACTGGACCTTAAGGAGCTTCGCTCAGACCCTAATGCCggtgagtcatgcccagtgatcagattattgaggtgggaagtcagggtcttt Alignment from Spaln_aa2Genome CTGATCATGAGCAAACGATATGATGGCAACCAACAAGCACTTGACCTCAAGGGGCTCCGCTCAGACCCA------G ccctgagctcatgtcaaaatcatctaaagttctgacctttcctcccacagATTGTCATGAGCAAACAGTATGACAGTAATCAACAAGCACTGGACCTTAAGGAGCTTCGCTCAGACCCTAATGCCGgtgagtcatgcccagtgatcagattattgaggtgggaagtcagggtcttt Alignment from Spaln_nt2Genome CTGATCATGAGCAAACGATATGATGGCAACCAACAAGCACTTGACCTCAAGGGGCTCCGCTCAGACCCA------G ccctgagctcatgtcaaaatcatctaaagttctgacctttcctcccacagATTGTCATGAGCAAACAGTATGACAGTAATCAACAAGCACTGGACCTTAAGGAGCTTCGCTCAGACCCTAATGCCGgtgagtcatgcccagtgatcagattattgaggtgggaagtcagggtcttt Alignment from Pairagon CTGATCATGAGCAAACGATATGATGGCAACCAACAAGCACTTGACCTCAAGGGGCTCCGCTCAGACC----------------------------------------------------------- ccctgagctcatgtcaaaatcatctaaagttctgacctttcctcccacagATTGTCATGAGCAAACAGTATGACAGTAATCAACAAGCACTGGACCTTAAGGAGCTTCGCTCAGACCCTAATGCCGGTGAGTCATGCCCAGTGATCAGATTATTGAGGTGGGAAGTCAGGGTCTTT Alignment from Exonerate_protein2genome CTGATCATGAGCAAACGATATGATGGCAACCAACAAGCACTTGACCTCAAGGGGCTCCGCTCAGACCCAG ccctgagctcatgtcaaaatcatctaaagttctgacctttcctcccacagATTGTCATGAGCAAACAGTATGACAGTAATCAACAAGCACTGGACCTTAAGGAGCTTCGCTCAGACCCTAatgccggtgagtcatgcccagtgatcagattattgaggtgggaagtcagggtcttt Alignment from Exonerate_coding2genome CTGATCATGAGCAAACGATATGATGGCAACCAACAAGCACTTGACCTCAAGGGGCTCCGCTCAGACCCAG ccctgagctcatgtcaaaatcatctaaagttctgacctttcctcccacagATTGTCATGAGCAAACAGTATGACAGTAATCAACAAGCACTGGACCTTAAGGAGCTTCGCTCAGACCCTAatgccggtgagtcatgcccagtgatcagattattgaggtgggaagtcagggtcttt Alignment from GeneWise CTGATCATGAGCAAACGATATGATGGCAACCAACAAGCACTTGACCTCAAGGGGCTCCGCTCAGACCCAGATTTG- ccctgagctcatgtcaaaatcatctaaagttctgacctttcctcccacagATTGTCATGAGCAAACAGTATGACAGTAATCAACAAGCACTGGACCTTAAGGAGCTTCGCTCAGACCCTAATGCCGgtgagtcatgcccagtgatcagattattgaggtgggaagtcagggtcttt #### Nxf1_ID2349_9 --> 0 - 0 Original Alignment CTATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA tgtaataaataggttaatattttgcacccttttgtcatcttaattcctag---------TTGAACTTGAGCAGCAACCGGCTATTCAAGCTGGACGACATGTCAGGTATTGTGCAAACAGCTCCAAATATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa Alignment from CESAR CTATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA ggaggcatgtgtaataaataggttaacccttttgtcatcttaattcctag---------TTGAACTTGAGCAGCAACCGGCTATTCAAGCTGGACGACATGTCAGGTATTGTGCAAACAGCTCCAAATATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa Alignment from Spaln_aa2Genome CTATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA tgtaataaataggttaatattttgcacccttttgtcatcttaattcctag---------TTGAACTTGAGCAGCAACCGGCTATTCAAGCTGGACGACATGTCAGGTATTGTGCAAACAGCTCCAAATATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa Alignment from Spaln_nt2Genome TTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA tgtaataaataggttaatattttgcacccttttgtcatcttaattcctagTTGAACTTGAGCAGCAACCGGCTATTCAAGCTGGACGACATGTCAGGTATTGTGCAAACAGCTCCAAATATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa Alignment from Pairagon CTATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA tgtaataaataggttaatattttgcacccttttgtcatcttaattcctag---------TTGAACTTGAGCAGCAACCGGCTATTCAAGCTGGACGACATGTCAGGTATTGTGCAAACAGCTCCAAATATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa Alignment from Exonerate_protein2genome CTATTGTCT---TTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA tgtaataaataggttaatattttgcacccttttgtcatCTTAATTCCTAGTTGAACTTGAGCAGCAACCGGCTATTCAAGCTGGACGACATGTCAGGTATTGTGCAAACAGCTCCAAATATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa Alignment from Exonerate_coding2genome CTATTGTCT---TTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA tgtaataaataggttaatattttgcacccttttgtcatCTTAATTCCTAGTTGAACTTGAGCAGCAACCGGCTATTCAAGCTGGACGACATGTCAGGTATTGTGCAAACAGCTCCAAATATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa Alignment from GeneWise CTATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA tgtaataaataggttaatattttgcacccttttgtcatcttaattcctagTTG---------AACTTGAGCAGCAACCGGCTATTCAAGCTGGACGACATGTCAGGTATTGTGCAAACAGCTCCAAATATAAAAACTTTAAATCTTCCTGGAAAGGAGgtaagatggcatttaggataatcaatgatttttaattagtagtagttgaa #### Nxf1_ID2352_12 --> 0 - 0 Original Alignment ------GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG cccaagatgcccaggtcatcacaagttcattataactgtgactaacttagTGTCTGGATGGTCATCAGCTACCCCCCCCGATTTCTTTTGATGTTGAAGCTCCTACAATGTTACCACCCTGTAAGgtaagggttgggtgcactttagaaattcaagagaagagatcgcaggtcat Alignment from CESAR ------GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG cccaagatgcccaggtcatcacaagttcattataactgtgactaacttagTGTCTGGATGGTCATCAGCTACCCCCCCCGATTTCTTTTGATGTTGAAGCTCCTACAATGTTACCACCCTGTAAGgtaagggttgggtgcactttagaaattcaagagaagagatcgcaggtcat Alignment from Spaln_aa2Genome ---CTGGATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG cccaagatgcccaggtcatcacaagttcattataactgtgactaacttagTGTCTGGATGGTCATCAGCTACCCCCCCCGATTTCTTTTGATGTTGAAGCTCCTACAATGTTACCACCCTGTAAGgtaagggttgggtgcactttagaaattcaagagaagagatcgcaggtcat Alignment from Spaln_nt2Genome ------GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG cccaagatgcccaggtcatcacaagttcattataactgtgactaacttagTGTCTGGATGGTCATCAGCTACCCCCCCCGATTTCTTTTGATGTTGAAGCTCCTACAATGTTACCACCCTGTAAGgtaagggttgggtgcactttagaaattcaagagaagagatcgcaggtcat Alignment from Pairagon ------GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG cccaagatgcccaggtcatcacaagttcattataactgtgactaacttagTGTCTGGATGGTCATCAGCTACCCCCCCCGATTTCTTTTGATGTTGAAGCTCCTACAATGTTACCACCCTGTAAGgtaagggttgggtgcactttagaaattcaagagaagagatcgcaggtcat Alignment from Exonerate_protein2genome GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG cccaagatgcccaggtcatcacaagttcattataactgtgactaacttagtgtctgGATGGTCATCAGCTACCCCCCCCGATTTCTTTTGATGTTGAAGCTCCTACAATGTTACCACCCTGTAAGgtaagggttgggtgcactttagaaattcaagagaagagatcgcaggtcat Alignment from Exonerate_coding2genome CGCCATTCGCGAACGATTTCCCAAGTTATTACGCCTGGATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG cccaagatgcccaggtcatCACAAGTTCATTATAACTGTGACTAACTTAGTGTCTGGATGGTCATCAGCTACCCCCCCCGATTTCTTTTGATGTTGAAGCTCCTACAATGTTACCACCCTGTAAGgtaagggttgggtgcactttagaaattcaagagaagagatcgcaggtcat Alignment from GeneWise ------GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG cccaagatgcccaggtcatcacaagttcattataactgtgactaacttagTGTCTGGATGGTCATCAGCTACCCCCCCCGATTTCTTTTGATGTTGAAGCTCCTACAATGTTACCACCCTGTAAGgtaagggttgggtgcactttagaaattcaagagaagagatcgcaggtcat #### Nxf1_ID2355_15 --> 1 - 1 Original Alignment a---------AAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCa tgtaccatgtaccataaaattctctgaggaaattcctttccctcctacagaCTGCTGGACAAAAACCTAGCAGAATATGCTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCagtaagtgggctctataggactccctggctagagaaatttggagaagaaag Alignment from CESAR a---------AAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCa tgtaccatgtaccataaaattctctgaggaaattcctttccctcctacagaCTGCTGGACAAAAACCTAGCAGAATATGCTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCagtaagtgggctctataggactccctggctagagaaatttggagaagaaag Alignment from Spaln_aa2Genome AAAAAACTTAGCT---------GAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCA tgtaccatgtaccataaaattctctgaggaaattcctttccctcctacagACTGCTGGACAAAAACCTAGCAGAATATGCTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCAgtaagtgggctctataggactccctggctagagaaatttggagaagaaag Alignment from Spaln_nt2Genome A---------AAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCA tgtaccatgtaccataaaattctctgaggaaattcctttccctcctacagACTGCTGGACAAAAACCTAGCAGAATATGCTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCAgtaagtgggctctataggactccctggctagagaaatttggagaagaaag Alignment from Pairagon A---------AAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCA tgtaccatgtaccataaaattctctgaggaaattcctttccctcctacagACTGCTGGACAAAAACCTAGCAGAATATGCTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCAgtaagtgggctctataggactccctggctagagaaatttggagaagaaag Alignment from Exonerate_protein2genome A---------AAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCA tgtaccatgtaccataaaattctctgaggaaattcctttccctcctacagACTGCTGGACAAAAACCTAGCAGAATATGCTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCAgtaagtgggctctataggactccctggctagagaaatttggagaagaaag Alignment from Exonerate_coding2genome A---------AAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCA tgtaccatgtaccataaaattctctgaggaaattcctttccctcctacagACTGCTGGACAAAAACCTAGCAGAATATGCTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCAgtaagtgggctctataggactccctggctagagaaatttggagaagaaag Alignment from GeneWise -------CGAAAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCA tgtaccatgtaccataaaattctctgaggaaattcctttccctcctacagACTGCTGGACAAAAACCTAGCAGAATATGCTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCAgtaagtgggctctataggactccctggctagagaaatttggagaagaaag #### Nxf1_ID2356_16 --> 2 - 0 Original Alignment ccCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA------ gagatttaattctaaagcttacaaatgcgacatgtctcctctctgtgcagccCAGCGATTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACTCAACATGACGTCAATGCATTTGTAGTAGACATAAGTGCACAAACAAAGCGGgtgagtatctgtttgatgaaaccaaaaagtggggtgatcattatgctcat Alignment from CESAR ccCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA------ gagatttaattctaaagcttacaaatgcgacatgtctcctctctgtgcagccCAGCGATTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACTCAACATGACGTCAATGCATTTGTAGTAGACATAAGTGCACAAACAAAGCGGgtgagtatctgtttgatgaaaccaaaaagtggggtgatcattatgctcat Alignment from Spaln_aa2Genome CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACAAG gagatttaattctaaagcttacaaatgcgacatgtctcctctctgtgcagCCCAGCGATTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACTCAACATGACGTCAATGCATTTGTAGTAGACATAAGTGCACAAACAAAgcgggtgagtatctgtttgatgaaaccaaaaagtggggtgatcattatgctcat Alignment from Spaln_nt2Genome CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA------ gagatttaattctaaagcttacaaatgcgacatgtctcctctctgtgcagCCCAGCGATTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACTCAACATGACGTCAATGCATTTGTAGTAGACATAAGTGCACAAACAAAGCGGgtgagtatctgtttgatgaaaccaaaaagtggggtgatcattatgctcat Alignment from Pairagon CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA------ gagatttaattctaaagcttacaaatgcgacatgtctcctctctgtgcagCCCAGCGATTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACTCAACATGACGTCAATGCATTTGTAGTAGACATAAGTGCACAAACAAAGCGGgtgagtatctgtttgatgaaaccaaaaagtggggtgatcattatgctcat Alignment from Exonerate_protein2genome CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACAAGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAG gagatttaattctaaagcttacaaatgcgacatgtctcctctctgtgcagCCCAGCGATTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACTCAACATGACGTCAATGCATTTGTAGTAGACATAAGTGCACAAACAAAGCGGGTGAGTATCTGTTTGATGAAACCAAAAAGTGGGgtgatcattatgctcat Alignment from Exonerate_coding2genome CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACAAGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAG gagatttaattctaaagcttacaaatgcgacatgtctcctctctgtgcagCCCAGCGATTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACTCAACATGACGTCAATGCATTTGTAGTAGACATAAGTGCACAAACAAAGCGGGTGAGTATCTGTTTGATGAAACCAAAAAGTGGGgtgatcattatgctcat Alignment from GeneWise CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA---------AGCACATTACTGTGTTTTTCTGTCAATGGA gagatttaattctaaagcttacaaatgcgacatgtctcctctctgtgcagCCCAGCGATTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACTCAACATGACGTCAATGCATTTGTAGTAGACATAAGTGCACAAACAAAGCGGGTGAGTATCTGTTTGATGAAACCAAAAAGTGGGgtgatcattatgctcat #### Nxf1_ID2357_17 --> 0 - 1 Original Alignment AGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAAg actatgagcctctttggttatgctattttatttctgtttccacccaacag---------TTGAGTCTATCCTTAAACGGAGTCCTCAAGGAAggtaggaatttttgcgtattctgccgcatctcccttcttatctcttttcca Alignment from CESAR AGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAAg acaaaagtaactatgagcctctttgttttatttctgtttccacccaacag---------TTGAGTCTATCCTTAAACGGAGTCCTCAAGGAAggtaggaatttttgcgtattctgccgcatctcccttcttatctcttttcca Alignment from Spaln_aa2Genome AGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAAG actatgagcctctttggttatgctattttatttctgtttccacccaacag---------TTGAGTCTATCCTTAAACGGAGTCCTCAAGGAAGgtaggaatttttgcgtattctgccgcatctcccttcttatctcttttcca Alignment from Spaln_nt2Genome CTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAAG actatgagcctctttggttatgctattttatttctgtttccacccaacagTTGAGTCTATCCTTAAACGGAGTCCTCAAGGAAGgtaggaatttttgcgtattctgccgcatctcccttcttatctcttttcca Alignment from Pairagon AGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAAG actatgagcctctttggttatgctattttatttctgtttccacccaacag---------TTGAGTCTATCCTTAAACGGAGTCCTCAAGGAAGgtaggaatttttgcgtattctgccgcatctcccttcttatctcttttcca Alignment from Exonerate_protein2genome actatgagcctctttggttatgctattttatttctgtttccacccaacagttgagtctatccttaaacggagtcctcaaggaaggtaggaatttttgcgtattctgccgcatctcccttcttatctcttttcca Alignment from Exonerate_coding2genome actatgagcctctttggttatgctattttatttctgtttccacccaacagttgagtctatccttaaacggagtcctcaaggaaggtaggaatttttgcgtattctgccgcatctcccttcttatctcttttcca Alignment from GeneWise actatgagcctctttggttatgctattttatttctgtttccacccaacagttgagtctatccttaaacggagtcctcaaggaaggtaggaatttttgcgtattctgccgcatctcccttcttatctcttttcca #### Nxf1_ID2358_18 --> 2 - 2 Original Alignment tgGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAgg ctgtaactcttttgcacctcagggcactctgaatgtggttttcctggcagtaGATGGGAAGTCTCGAGATTCTCTACATGCCTACGCAAGGACATTCATTGCAGTTCCTGCAAGT------gggtgagtaggtccagatctgattgattaacaatgagaggagtggaggacac Alignment from CESAR tgGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAgg ctgtaactcttttgcacctcagggcactctgaatgtggttttcctggcagtaGATGGGAAGTCTCGAGATTCTCTACATGCCTACGCAAGGACATTCATTGCAGTTCCTGCAAGT------gggtgagtaggtccagatctgattgattaacaatgagaggagtggaggacac Alignment from Spaln_aa2Genome TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG ctgtaactcttttgcacctcagggcactctgaatgtggttttcctggcagTAGATGGGAAGTCTCGAGATTCTCTACATGCCTACGCAAGGACATTCATTGCAGTTCCTGCA------AGTGGgtgagtaggtccagatctgattgattaacaatgagaggagtggaggacac Alignment from Spaln_nt2Genome TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAA ctgtaactcttttgcacctcagggcactctgaatgtggttttcctggcagTAGATGGGAAGTCTCGAGATTCTCTACATGCCTACGCAAGGACATTCATTGCAGTTCCTGCAAGTGGgtgagtaggtccagatctgattgattaacaatgagaggagtggaggacac Alignment from Pairagon TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG ctgtaactcttttgcacctcagggcactctgaatgtggttttcctggcagTAGATGGGAAGTCTCGAGATTCTCTACATGCCTACGCAAGGACATTCATTGCAGTTCCTGCAAGT------GGgtgagtaggtccagatctgattgattaacaatgagaggagtggaggacac Alignment from Exonerate_protein2genome TTTTCTGTCAATGGAGTCTTCAAGGAAGTGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAA ctgtaactcttttgcacctcagGGCACTCTGAATGTGGTTTTCCTGGCAGTAGATGGGAAGTCTCGAGATTCTCTACATGCCTACGCAAGGACATTCATTGCAGTTCCTGCAAGTGGgtgagtaggtccagatctgattgattaacaatgagaggagtggaggacac Alignment from Exonerate_coding2genome TTTTCTGTCAATGGAGTCTTCAAGGAAGTGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAA ctgtaactcttttgcacctcagGGCACTCTGAATGTGGTTTTCCTGGCAGTAGATGGGAAGTCTCGAGATTCTCTACATGCCTACGCAAGGACATTCATTGCAGTTCCTGCAAGTGGgtgagtaggtccagatctgattgattaacaatgagaggagtggaggacac Alignment from GeneWise AGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAAGTGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG acctcagGGCACTCTG---------------AATGTGGTTTTCCTGGCAGTAGATGGGAAGTCTCGAGATTCTCTACATGCCTACGCAAGGACATTCATTGCAGTTCCTGCA------AGTGGgtgagtaggtccagatctgattgattaacaatgagaggagtggaggacac #### Otub1_ID2060_6 --> 0 - 0 Original Alignment TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAGTTCTGCCAGCAG aaccatcttcatactttgtcataccatgttcccctcctcttcccttgcagTTCATGGACTTTATTGAGCGTGTGGAGAAGAAGACCTCTGTCACTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTTGTGGTCTACCTGCAGCTGTTAACCTCAGGCTATGTACAACGAAAAAGCAAGTTCTTTGAACACTTCATTGAGGGTGGCCAA---------------AGTCAG---gtgaccctccctcccccaccacctgcactgaggccccccttttttttctt Alignment from CESAR TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAGTTCTGCCAGCAG aaccatcttcatactttgtcataccatgttcccctcctcttcccttgcagTTCATGGACTTTATTGAGCGTGTGGAGAAGAAGACCTCTGTCACTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTTGTGGTCTACCTGCAGCTGTTAACCTCAGGCTATGTACAACGAAAAAGCAAGTTCTTTGAACACTTCATTGAGGGTGGCCAAAGT------------------CAGgtgaccctccctcccccaccacctgcactgaggccccccttttttttctt Alignment from Spaln_aa2Genome TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGA aaccatcttcatactttgtcataccatgttcccctcctcttcccttgcagTTCATGGACTTTATTGAGCGTGTGGAGAAGAAGACCTCTGTCACTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTTGTGGTCTACCTGCAGCTGTTAACCTCAGGCTATGTACAACGAAAAAGCAAGTTCTTTGAACACTTCATTGAGGGTGGCCAAAgtcaggtgaccctccctcccccaccacctgcactgaggccccccttttttttctt Alignment from Spaln_nt2Genome TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAA aaccatcttcatactttgtcataccatgttcccctcctcttcccttgcagTTCATGGACTTTATTGAGCGTGTGGAGAAGAAGACCTCTGTCACTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTTGTGGTCTACCTGCAGCTGTTAACCTCAGGCTATGTACAACGAAAAAGCAAGTTCTTTGAACACTTCATTGAGGGTGGCC--AAAGTCAGgtgaccctccctcccccaccacctgcactgaggccccccttttttttctt Alignment from Pairagon TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCC---------------------------------------------------------- aaccatcttcatactttgtcataccatgttcccctcctcttcccttgcagTTCATGGACTTTATTGAGCGTGTGGAGAAGAAGACCTCTGTCACTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTTGTGGTCTACCTGCAGCTGTTAACCTCAGGCTATGTACAACGAAAAAGCAAGTTCTTTGAACACTTCATTGAGGGTGGCCAAAGTCAGGTGACCCTCCCTCCCCCACCACCTGCACTGAGGCCCCCCTTTTTTTTCTT Alignment from Exonerate_protein2genome TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGA aaccatcttcatactttgtcataccatgttcccctcctcttcccttgcagTTCATGGACTTTATTGAGCGTGTGGAGAAGAAGACCTCTGTCACTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTTGTGGTCTACCTGCAGCTGTTAACCTCAGGCTATGTACAACGAAAAAGCAAGTTCTTTGAACACTTCATTGAGGGTGGCCAAAgtcaggtgaccctccctcccccaccacctgcactgaggccccccttttttttctt Alignment from Exonerate_coding2genome TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGA aaccatcttcatactttgtcataccatgttcccctcctcttcccttgcagTTCATGGACTTTATTGAGCGTGTGGAGAAGAAGACCTCTGTCACTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTTGTGGTCTACCTGCAGCTGTTAACCTCAGGCTATGTACAACGAAAAAGCAAGTTCTTTGAACACTTCATTGAGGGTGGCCAAAgtcaggtgaccctccctcccccaccacctgcactgaggccccccttttttttctt Alignment from GeneWise TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGA aaccatcttcatactttgtcataccatgttcccctcctcttcccttgcagTTCATGGACTTTATTGAGCGTGTGGAGAAGAAGACCTCTGTCACTGACCTGCTAGCTTCCTTCAATGACCAAAGTACATCAGACTACCTTGTGGTCTACCTGCAGCTGTTAACCTCAGGCTATGTACAACGAAAAAGCAAGTTCTTTGAACACTTCATTGAGGGTGGCCAAAgtcaggtgaccctccctcccccaccacctgcactgaggccccccttttttttctt #### Otub1_ID2061_5 --> 1 - 0 Original Alignment gTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG tctggcatccagtaagattctgctggcactgttgcactctgtctctgtaggTTTAGAGCAGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCAGGGCATCACTGAGTTCACGATTGAAGACTTC---------gtcagtaaggtcatggttctcaccaatgcttaacctaagtttactaatac Alignment from CESAR gTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG tctggcatccagtaagattctgctggcactgttgcactctgtctctgtaggTTTAGAGCAGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCAGGGCATCACTGAGTTCACGATTGAAGACTTCGTCAGTAAGgtcatggttctcaccaatgcttaacctaagtttactaatac Alignment from Spaln_aa2Genome GTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG tctggcatccagtaagattctgctggcactgttgcactctgtctctgtagGTTTAGAGCAGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCAGGGCATCACTGAGTTCACGATTGAAGACTTCGTCAGTAAGgtcatggttctcaccaatgcttaacctaagtttactaatac Alignment from Spaln_nt2Genome GTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG tctggcatccagtaagattctgctggcactgttgcactctgtctctgtagGTTTAGAGCAGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCAGGGCATCACTGAGTTCACGATTGAAGACTTCGTCAGTAAGgtcatggttctcaccaatgcttaacctaagtttactaatac Alignment from Pairagon GTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTC tctggcatccagtaagattctgctggcactgttgcactctgtctctgtagGTTTAGAGCAGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCAGGGCATCACTGAGTTCACGATTGAAGACTTCgtcagtaaggtcatggttctcaccaatgcttaacctaagtttactaatac Alignment from Exonerate_protein2genome GTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG tctggcatccagtaagattctgctggcactgttgcactctgtctctgtagGTTTAGAGCAGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCAGGGCATCACTGAGTTCACGATTGAAGACTTCGTCAGTAAGgtcatggttctcaccaatgcttaacctaagtttactaatac Alignment from Exonerate_coding2genome GTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG tctggcatccagtaagattctgctggcactgttgcactctgtctctgtagGTTTAGAGCAGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCAGGGCATCACTGAGTTCACGATTGAAGACTTCGTCAGTAAGgtcatggttctcaccaatgcttaacctaagtttactaatac Alignment from GeneWise GTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG tctggcatccagtaagattctgctggcactgttgcactctgtctctgtagGTTTAGAGCAGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCAGGGCATCACTGAGTTCACGATTGAAGACTTCGTCAGTAAGgtcatggttctcaccaatgcttaacctaagtttactaatac #### Pacs1_ID877_17 --> 2 - 1 Original Alignment gtTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAg tgttcggaatgagtacttcgtctttctcgctttgcttttctctccttcaggc---CATCCAGTAGCCAAGTACTTAGGCTCTGTAGACAGCAGGTATAGCAGTACATTTCTAGATCCTGCATCAAAAGATCTATTCAGCCAGTCAGAGCCCCTAGTGTCAggtgagacccaccagtagcagtttgctacctttggtactatctcccatgac Alignment from CESAR gtTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAg gtgtgttcggaatgagtacttcgtcctcgctttgcttttctctccttcaggc---CATCCAGTAGCCAAGTACTTAGGCTCTGTAGACAGCAGGTATAGCAGTACATTTCTAGATCCTGCATCAAAAGATCTATTCAGCCAGTCAGAGCCCCTAGTGTCAggtgagacccaccagtagcagtttgctacctttggtactatctcccatgac Alignment from Spaln_aa2Genome GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG tgttcggaatgagtacttcgtctttctcgctttgcttttctctccttcagGC---CATCCAGTAGCCAAGTACTTAGGCTCTGTAGACAGCAGGTATAGCAGTACATTTCTAGATCCTGCATCAAAAGATCTATTCAGCCAGTCAGAGCCCCTAGTGTCAGgtgagacccaccagtagcagtttgctacctttggtactatctcccatgac Alignment from Spaln_nt2Genome GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG tgttcggaatgagtacttcgtctttctcgctttgcttttctctccttcagG---CCATCCAGTAGCCAAGTACTTAGGCTCTGTAGACAGCAGGTATAGCAGTACATTTCTAGATCCTGCATCAAAAGATCTATTCAGCCAGTCAGAGCCCCTAGTGTCAGgtgagacccaccagtagcagtttgctacctttggtactatctcccatgac Alignment from Pairagon GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG tgttcggaatgagtacttcgtctttctcgctttgcttttctctccttcagG---CCATCCAGTAGCCAAGTACTTAGGCTCTGTAGACAGCAGGTATAGCAGTACATTTCTAGATCCTGCATCAAAAGATCTATTCAGCCAGTCAGAGCCCCTAGTGTCAGgtgagacccaccagtagcagtttgctacctttggtactatctcccatgac Alignment from Exonerate_protein2genome GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG tgttcggaatgagtacttcgtctttctcgctttgcttttctctccttcagGC---CATCCAGTAGCCAAGTACTTAGGCTCTGTAGACAGCAGGTATAGCAGTACATTTCTAGATCCTGCATCAAAAGATCTATTCAGCCAGTCAGAGCCCCTAGTGTCAGgtgagacccaccagtagcagtttgctacctttggtactatctcccatgac Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG tgttcggaatgagtacttcgtctttctcgctttgcttttctctccttcagGC---CATCCAGTAGCCAAGTACTTAGGCTCTGTAGACAGCAGGTATAGCAGTACATTTCTAGATCCTGCATCAAAAGATCTATTCAGCCAGTCAGAGCCCCTAGTGTCAGgtgagacccaccagtagcagtttgctacctttggtactatctcccatgac #### Pacs1_ID879_15 --> 0 - 2 Original Alignment TACGTGGCTGAATTGCTTCAAGACCAGAGGAAGCCTGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCGC------ta gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTCAGGATCAACGGAAGCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTGTTGTCTCAGCTCTTCTCACAAGGATTCAGCGAGGGGCTtagtaagtggctgtgtccacataggtaatgtgcactccagcaccctgtgact Alignment from CESAR TACGTGGCTGAATTGCTTCAAGACCAGAGGAAGCCTGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCGC------ta gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTCAGGATCAACGGAAGCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTGTTGTCTCAGCTCTTCTCACAAGGATTCAGCGAGGGGCTtagtaagtggctgtgtccacataggtaatgtgcactccagcaccctgtgact Alignment from Spaln_aa2Genome TACGTGGCTGAATTGCTTCAAGACCAGAGGAAGCCTGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCGCTAC----- gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTCAGGATCAACGGAAGCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTGTTGTCTCAGCTCTTCTCACAAGGATTCAGCGAGGGGCTTAgtaagtggctgtgtccacataggtaatgtgcactccagcaccctgtgact Alignment from Spaln_nt2Genome TACGTGGCTGAATTGCTTCAAGACCAGAGGAAGCCTGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCGC------TA gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTCAGGATCAACGGAAGCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTGTTGTCTCAGCTCTTCTCACAAGGATTCAGCGAGGGGCTTAgtaagtggctgtgtccacataggtaatgtgcactccagcaccctgtgact Alignment from Pairagon TACGTGGCTGAATTGCTTCAAGACCAGAGGAAGCCTGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCG------CTA gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTCAGGATCAACGGAAGCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTGTTGTCTCAGCTCTTCTCACAAGGATTCAGCGAGGGGCTTAgtaagtggctgtgtccacataggtaatgtgcactccagcaccctgtgact Alignment from Exonerate_protein2genome TACGTGGCTGAATTGCTTCAAGACCAGAGGAAGCCTGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCGCTA gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTCAGGATCAACGGAAGCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTGTTGTCTCAGCTCTTCTCACAAGGATTCAGCGAGGggcttagtaagtggctgtgtccacataggtaatgtgcactccagcaccctgtgact Alignment from Exonerate_coding2genome TACGTGGCTGAATTGCTTCAAGACCAGAGGAAGCCTGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCGCTA gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTCAGGATCAACGGAAGCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTGTTGTCTCAGCTCTTCTCACAAGGATTCAGCGAGGggcttagtaagtggctgtgtccacataggtaatgtgcactccagcaccctgtgact Alignment from GeneWise TACGTGGCTGAATTGCTTCAAGACCAGAGGAAGCCTGTGGTATGCACCTGCTCAACAGTGGAGGTCCAGGCAGTGCTGTCCGCCCTTCTCACTAGGATTCAGCGC------TA gtctggattttagctagctattcaagatactcttcttgcttctccggcagTATGTGGCCAAACTGCTTCAGGATCAACGGAAGCCTGTGGTGTGTGCATGCTCGCCAGTAGAGGTCCAGGCTGTTGTCTCAGCTCTTCTCACAAGGATTCAGCGAGGGGCTTAgtaagtggctgtgtccacataggtaatgtgcactccagcaccctgtgact #### Pacs1_ID881_13 --> 1 - 0 Original Alignment c------AAGGTGGAAGGGACACACACACCTCGGCAGAAGAGGAGCACTCCCCTGAAGGAGCGACAGCTCTCCAAGCCCCTGAGTGAGAGAACCAACAGCTCTGACAGTGAGCGATCTCCTGATCTGGGCCACAGCACACAG tgcaaggttgagatttgtggttagcctcgtaaaaaaatctttccccgtagtTCCAATAAGGTGGAAGGGACACACACACCTCCACAGAAAAGAAGCACACCTCTTAAGGAGCGACAACTTCTAAAACCCCTGAGTGAGCGAACCAATAGTGCTGACAGTGAGAAGTCACCTGATCTGGGCCACAGCATACAGgtaagtctgtctcaactgtgtggtaaggaccaggggaggggttgctgcta Alignment from CESAR c------AAGGTGGAAGGGACACACACACCTCGGCAGAAGAGGAGCACTCCCCTGAAGGAGCGACAGCTCTCCAAGCCCCTGAGTGAGAGAACCAACAGCTCTGACAGTGAGCGATCTCCTGATCTGGGCCACAGCACACAG tgcaaggttgagatttgtggttagcctcgtaaaaaaatctttccccgtagtTCCAATAAGGTGGAAGGGACACACACACCTCCACAGAAAAGAAGCACACCTCTTAAGGAGCGACAACTTCTAAAACCCCTGAGTGAGCGAACCAATAGTGCTGACAGTGAGAAGTCACCTGATCTGGGCCACAGCATACAGgtaagtctgtctcaactgtgtggtaaggaccaggggaggggttgctgcta Alignment from Spaln_aa2Genome C-------AAGGTGGAAGGGACACACACACCTCGGCAGAAGAGGAGCACTCCCCTGAAGGAGCGACAGCTCTCCAAGCCCCTGAGTGAGAGAACCAACAGCTCTGACAGTGAGCGATCTCCTGATCTGGGCCACAGCACACAG tgcaaggttgagatttgtggttagcctcgtaaaaaaatctttccccgtagTTCCAATAAGGTGGAAGGGACACACACACCTCCACAGAAAAGAAGCACACCTCTTAAGGAGCGACAACTTCTAAAACCCCTGAGTGAGCGAACCAATAGTGCTGACAGTGAGAAGTCACCTGATCTGGGCCACAGCATACAGgtaagtctgtctcaactgtgtggtaaggaccaggggaggggttgctgcta Alignment from Spaln_nt2Genome CAAGGTGGAAG------GGACACACACACCTCGGCAGAAGAGGAGCACTCCCCTGAAGGAGCGACAGCTCTCCAAGCCCCTGAGTGAGAGAACCAACAGCTCTGACAGTGAGCGATCTCCTGATCTGGGCCACAGCACACAG tgcaaggttgagatttgtggttagcctcgtaaaaaaatctttccccgtagTTCCAATAAGGTGGAAGGGACACACACACCTCCACAGAAAAGAAGCACACCTCTTAAGGAGCGACAACTTCTAAAACCCCTGAGTGAGCGAACCAATAGTGCTGACAGTGAGAAGTCACCTGATCTGGGCCACAGCATACAGgtaagtctgtctcaactgtgtggtaaggaccaggggaggggttgctgcta Alignment from Pairagon ------CAAGGTGGAAGGGACACACACACCTCGGCAGAAGAGGAGCACTCCCCTGAAGGAGCGACAGCTCTCCAAGCCCCTGAGTGAGAGAACCAACAGCTCTGACAGTGAGCGATCTCCTGATCTGGGCCACAGCACACAG tgcaaggttgagatttgtggttagcctcgtaaaaaaatctttccccgtagTTCCAATAAGGTGGAAGGGACACACACACCTCCACAGAAAAGAAGCACACCTCTTAAGGAGCGACAACTTCTAAAACCCCTGAGTGAGCGAACCAATAGTGCTGACAGTGAGAAGTCACCTGATCTGGGCCACAGCATACAGgtaagtctgtctcaactgtgtggtaaggaccaggggaggggttgctgcta Alignment from Exonerate_protein2genome CAAGGTGGAAGGGACACACACACCTCGGCAGAAGAGGAGCACTCCCCTGAAGGAGCGACAGCTCTCCAAGCCCCTGAGTGAGAGAACCAACAGCTCTGACAGTGAGCGATCTCCTGATCTGGGCCACAGCACACAG tgcaaggttgagatttgtggttagcctcgtaaaaaaatctttccccgtagttccaaTAAGGTGGAAGGGACACACACACCTCCACAGAAAAGAAGCACACCTCTTAAGGAGCGACAACTTCTAAAACCCCTGAGTGAGCGAACCAATAGTGCTGACAGTGAGAAGTCACCTGATCTGGGCCACAGCATACAGgtaagtctgtctcaactgtgtggtaaggaccaggggaggggttgctgcta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ----AGCAAGGTGGAAGGGACACACACACCTCGGCAGAAGAGGAGCACTCCCCTGAAGGAGCGACAGCTCTCCAAGCCCCTGAGTGAGAGAACCAACAGCTCTGACAGTGAGCGATCTCCTGATCTGGGCCACAGCACACAG tgcaaggttgagatttgtggttagcctcgtaaaaaaatctttccccgtagTTCCAATAAGGTGGAAGGGACACACACACCTCCACAGAAAAGAAGCACACCTCTTAAGGAGCGACAACTTCTAAAACCCCTGAGTGAGCGAACCAATAGTGCTGACAGTGAGAAGTCACCTGATCTGGGCCACAGCATACAGgtaagtctgtctcaactgtgtggtaaggaccaggggaggggttgctgcta #### Pacs1_ID888_6 --> 2 - 0 Original Alignment atCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG aaccgtcctacattggcctccattcagtcatttttctcttttgcttgcagac------------------------------GAGGAGGAAGAAAGCTTCTCCTCAGCGCAGGATGACACTGATGATCCGCTGCATGGACAAgtgagaatttggcagtgtacaagttgaaacagggtgaggcaccacctcac Alignment from CESAR atCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG actggatattgtgaaactctcattcagtcatttttctcttttgcttgcagac------------------------------GAGGAGGAAGAAAGCTTCTCCTCAGCGCAGGATGACACTGATGATCCGCTGCATGGACAAgtgagaatttggcagtgtacaagttgaaacagggtgaggcaccacctcac Alignment from Spaln_aa2Genome CTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG cgtcctacattggcctccattcagTCATTTTTCTCTT---TTGCTTGCAGACGAGGAGGAAGAAAGCTTCTCCTCAGCGCAGGATGACACTGATGATCCGCTGCATGGACAAgtgagaatttggcagtgtacaagttgaaacagggtgaggcaccacctcac Alignment from Spaln_nt2Genome AAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG aaccgtcctacattggcctccattcagtcatttttctcttttgcttgcagACGAGGAGGAAGAAAGCTTCTCCTCAGCGCAGGATGACACTGATGATCCGCTGCATGGACAAgtgagaatttggcagtgtacaagttgaaacagggtgaggcaccacctcac Alignment from Pairagon ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG aaccgtcctacattggcctccattcagtcatttttctcttttgcttgcag------------------------------ACGAGGAGGAAGAAAGCTTCTCCTCAGCGCAGGATGACACTGATGATCCGCTGCATGGACAAgtgagaatttggcagtgtacaagttgaaacagggtgaggcaccacctcac Alignment from Exonerate_protein2genome AAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG aaccgtcctacattggcctccattcagtcatttttctcttttgcttgcagACGAGGAGGAAGAAAGCTTCTCCTCAGCGCAGGATGACACTGATGATCCGCTGCATGGACAAgtgagaatttggcagtgtacaagttgaaacagggtgaggcaccacctcac Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG cgtcctacattggcctccattcagTCATTTTTCTCTT---TTGCTTGCAGACGAGGAGGAAGAAAGCTTCTCCTCAGCGCAGGATGACACTGATGATCCGCTGCATGGACAAgtgagaatttggcagtgtacaagttgaaacagggtgaggcaccacctcac #### Pcgf6_ID10083_4 --> 1 - 1 Original Alignment gTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCAATCTAGAGGAAa aaggagcaaaatagtgcttgccatacatgaaatgtctcgttgccttataggTTGGACCGGCAGTTACAAGACATAGTATACAAGTTAGTGATTGTTCTA------agtaagtgtggagattagttatcccacagctgtgagtccaaaagacttgaa Alignment from CESAR gTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCAATCTAGAGGAAa aaggagcaaaatagtgcttgccatacatgaaatgtctcgttgccttataggTTGGACCGGCAGTTACAAGACATAGTATACAAGTTAGTGATTGTTCTA------agtaagtgtggagattagttatcccacagctgtgagtccaaaagacttgaa Alignment from Spaln_aa2Genome GTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCAATCTAGAGGAAA aaggagcaaaatagtgcttgccatacatgaaatgtctcgttgccttatagGTTGGACCGGCAGTTACAAGACATAGTATACAAGTTAGTGATTGTTCTAAGTAAGTgtggagattagttatcccacagctgtgagtccaaaagacttgaa Alignment from Spaln_nt2Genome GTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCAATCTAGAGGAA aaggagcaaaatagtgcttgccatacatgaaatgtctcgttgccttatagGTTGGACCGGCAGTTACAAGACATAGTATACAAGTTAGTGATTGTTCTA-AGTAAgtgtggagattagttatcccacagctgtgagtccaaaagacttgaa Alignment from Pairagon GTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCAATCTAGAGGAAA aaggagcaaaatagtgcttgccatacatgaaatgtctcgttgccttatagGTTGGACCGGCAGTTACAAGACATAGTATACAAGTTAGTGATTGTTCT------AAgtaagtgtggagattagttatcccacagctgtgagtccaaaagacttgaa Alignment from Exonerate_protein2genome GTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCAATCTAGAGGAAA aaggagcaaaatagtgcttgccatacatgaaatgtctcgttgccttatagGTTGGACCGGCAGTTACAAGACATAGTATACAAGTTAGTGATTGTTCTAAGTAAGTgtggagattagttatcccacagctgtgagtccaaaagacttgaa Alignment from Exonerate_coding2genome GTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCAATCTAGAGGAAA aaggagcaaaatagtgcttgccatacatgaaatgtctcgttgccttatagGTTGGACCGGCAGTTACAAGACATAGTATACAAGTTAGTGATTGTTCTAAGTAAGTgtggagattagttatcccacagctgtgagtccaaaagacttgaa Alignment from GeneWise GTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCAATCTAGAGGAAA aaggagcaaaatagtgcttgccatacatgaaatgtctcgttgccttatagGTTGGACCGGCAGTTACAAGACATAGTATACAAGTTAGTGATTGTTCTAAGTAAGTgtggagattagttatcccacagctgtgagtccaaaagacttgaa #### Pcnxl3_ID1159_34 --> 2 - 0 Original Alignment gcAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG------ aaattataagctgaaatgttgtgctgggaattatttttcttctcttataggcAGCAGTGAGCAGCCCCTCCCACCAGGCCCTAGCTGGGGACCACGACCCTCCCTAATTGGCTCTGGAGATGGGCAGCCCCGTTCTCTTTTACAGTGGCCCCCCCCTCGGCTCCCAGGACCACCCCCAGTTTCACCTGCCCCCACTGATGGACCCCAGCCCTCACGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGGCTGGGAGGATCTGATGGGGAGCCTGCTTCCGGGAGCCCAAAGGGTGGTAGCCCCAAGTCTCAGAACATCgtaagtgactcgtggtaaaggggcctccctggttaccaaggtggttactc Alignment from CESAR gcAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG------ aaattataagctgaaatgttgtgctgggaattatttttcttctcttataggcAGCAGTGAGCAGCCCCTCCCACCAGGCCCTAGCTGGGGACCACGACCCTCCCTAATTGGCTCTGGAGATGGGCAGCCCCGTTCTCTTTTACAGTGGCCCCCCCCTCGGCTCCCAGGACCACCCCCAGTTTCACCTGCCCCCACTGATGGACCCCAGCCCTCACGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGGCTGGGAGGATCTGATGGGGAGCCTGCTTCCGGGAGCCCAAAGGGTGGTAGCCCCAAGTCTCAGAACATCgtaagtgactcgtggtaaaggggcctccctggttaccaaggtggttactc Alignment from Spaln_aa2Genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG------ aaattataagctgaaatgttgtgctgggaattatttttcttctcttatagGCAGCAGTGAGCAGCCCCTCCCACCAGGCCCTAGCTGGGGACCACGACCCTCCCTAATTGGCTCTGGAGATGGGCAGCCCCGTTCTCTTTTACAGTGGCCCCCCCCTCGGCTCCCAGGACCACCCCCAGTTTCACCTGCCCCCACTGATGGACCCCAGCCCTCACGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGGCTGGGAGGATCTGATGGGGAGCCTGCTTCCGGGAGCCCAAAGGGTGGTAGCCCCAAGTCTCAGAACATCgtaagtgactcgtggtaaaggggcctccctggttaccaaggtggttactc Alignment from Spaln_nt2Genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG------ aaattataagctgaaatgttgtgctgggaattatttttcttctcttatagGCAGCAGTGAGCAGCCCCTCCCACCAGGCCCTAGCTGGGGACCACGACCCTCCCTAATTGGCTCTGGAGATGGGCAGCCCCGTTCTCTTTTACAGTGGCCCCCCCCTCGGCTCCCAGGACCACCCCCAGTTTCACCTGCCCCCACTGATGGACCCCAGCCCTCACGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGGCTGGGAGGATCTGATGGGGAGCCTGCTTCCGGGAGCCCAAAGGGTGGTAGCCCCAAGTCTCAGAACATCgtaagtgactcgtggtaaaggggcctccctggttaccaaggtggttactc Alignment from Pairagon GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG------ aaattataagctgaaatgttgtgctgggaattatttttcttctcttatagGCAGCAGTGAGCAGCCCCTCCCACCAGGCCCTAGCTGGGGACCACGACCCTCCCTAATTGGCTCTGGAGATGGGCAGCCCCGTTCTCTTTTACAGTGGCCCCCCCCTCGGCTCCCAGGACCACCCCCAGTTTCACCTGCCCCCACTGATGGACCCCAGCCCTCACGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGGCTGGGAGGATCTGATGGGGAGCCTGCTTCCGGGAGCCCAAAGGGTGGTAGCCCCAAGTCTCAGAACATCgtaagtgactcgtggtaaaggggcctccctggttaccaaggtggttactc Alignment from Exonerate_protein2genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG aaattataagctgaaatgttgtgctgggaattatttttcttctcttatagGCAGCAGTGAGCAGCCCCTCCCACCAGGCCCTAGCTGGGGACCACGACCCTCCCTAATTGGCTCTGGAGATGGGCAGCCCCGTTCTCTTTTACAGTGGCCCCCCCCTCGGCTCCCAGGACCACCCCCAGTTTCACCTGCCCCCACTGATGGACCCCAGCCCTCACGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGGCTGGGAGGATCTGATGGGGAGCCTGCTTCCGGGAGCCCAAAGGGTGGTAGCCCCAAGTCTCAGaacatcgtaagtgactcgtggtaaaggggcctccctggttaccaaggtggttactc Alignment from Exonerate_coding2genome aaattataagctgaaatgttgtgctgggaattatttttcttctcttataggcagcagtgagcagcccctcccaccaggccctagctggggaccacgaccctccctaattggctctggagatgggcagccccgttctcttttacagtggcccccccctcggctcccaggaccacccccagtttcacctgcccccactgatggaccccagccctcacgactttcaggccctgctctccttaattcagagggacccagtgggaagtggagtttggggggtcagaaggggctgggaggatctgatggggagcctgcttccgggagcccaaagggtggtagccccaagtctcagaacatcgtaagtgactcgtggtaaaggggcctccctggttaccaaggtggttactc Alignment from GeneWise CAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG------ aaattataagctgaaatgttgtgctgggaattatttttcttctcttataggcagCAGTGAGCAGCCCCTCCCACCAGGCCCTAGCTGGGGACCACGACCCTCCCTAATTGGCTCTGGAGATGGGCAGCCCCGTTCTCTTTTACAGTGGCCCCCCCCTCGGCTCCCAGGACCACCCCCAGTTTCACCTGCCCCCACTGATGGACCCCAGCCCTCACGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGGCTGGGAGGATCTGATGGGGAGCCTGCTTCCGGGAGCCCAAAGGGTGGTAGCCCCAAGTCTCAGAACATCgtaagtgactcgtggtaaaggggcctccctggttaccaaggtggttactc #### Pcnxl3_ID1161_32 --> 0 - 2 Original Alignment ---------GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGag cctaagatgtattgatgccccccctcatttctttctttttctatccatagGACTCTCACGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGCGATCGACCACTAGGATATCCAACCTTTGTCTCACCTTTGACTACACCTTTGCCTGGGACACATCCCCAATTACAAGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAAcggtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa Alignment from CESAR ---------GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGag cctaagatgtattgatgccccccctcatttctttctttttctatccatagGACTCTCACGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGCGATCGACCACTAGGATATCCAACCTTTGTCTCACCTTTGACTACACCTTTGCCTGGGACACATCCCCAATTACAAGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAAcggtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa Alignment from Spaln_aa2Genome ---------GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAG cctaagatgtattgatgccccccctcatttctttctttttctatccatagGACTCTCACGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGCGATCGACCACTAGGATATCCAACCTTTGTCTCACCTTTGACTACACCTTTGCCTGGGACACATCCCCAATTACAAGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAACGgtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa Alignment from Spaln_nt2Genome GTAAACCGAGAGTGTGTGCGTGG---------GCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAG cctaagatgtattgatgccccccctcatttctttctttttctatccatagGACTCTCACGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGCGATCGACCACTAGGATATCCAACCTTTGTCTCACCTTTGACTACACCTTTGCCTGGGACACATCCCCAATTACAAGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAACGgtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa Alignment from Pairagon ---------GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAG cctaagatgtattgatgccccccctcatttctttctttttctatccatagGACTCTCACGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGCGATCGACCACTAGGATATCCAACCTTTGTCTCACCTTTGACTACACCTTTGCCTGGGACACATCCCCAATTACAAGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAACGgtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa Alignment from Exonerate_protein2genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAG cctaagatgtattgatgccccccctcatttctttctttttctatccataggactctcacGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGCGATCGACCACTAGGATATCCAACCTTTGTCTCACCTTTGACTACACCTTTGCCTGGGACACATCCCCAATTACAAGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAACGgtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa Alignment from Exonerate_coding2genome cctaagatgtattgatgccccccctcatttctttctttttctatccataggactctcacgtaaactgggaatgtgtacgagggttgtgggctgggcagcaacaagagctagtctttctgtgcaatcgcaaccctgagcggggtagtgtccagaatgcccagcaggcaatctgcaacaagattaattcttcctgcgatcgaccactaggatatccaacctttgtctcacctttgactacacctttgcctgggacacatccccaattacaagcactgtggggtggtcctgttagcttgggtgccattgcacgatggcttttacatcgctgggaacggtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa Alignment from GeneWise ---------GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAG cctaagatgtattgatgccccccctcatttctttctttttctatccatagGACTCTCACGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGCGATCGACCACTAGGATATCCAACCTTTGTCTCACCTTTGACTACACCTTTGCCTGGGACACATCCCCAATTACAAGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGCTGGGAACGgtgagttctgatagggatgggttcggttctcatagtccccaaaattgaaa #### Pcnxl3_ID1162_31 --> 0 - 0 Original Alignment ---GACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG gggcaggtgttccctttaccttagaccatgtaaatgtattttcttctaagGGAGGCCATTTCACATCACCTGATGAGTATGAGGAACTAGCAGCCCTATATGACACAATTGCT---AATGAGGAGCGACTAGTAATCTCACATGAGAGAGACCCCGCCTGGAGGAGTGCCATCCTCGGCAACACCCCCTCTCTACTGGTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCATAAAGgtatgtcaaatttgatgatgaatagcagcctaagatgtattgatgccccc Alignment from CESAR ---GACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG gggcaggtgttccctttaccttagaccatgtaaatgtattttcttctaagGGAGGCCATTTCACATCACCTGATGAGTATGAGGAACTAGCAGCCCTATATGACACAATT---GCTAATGAGGAGCGACTAGTAATCTCACATGAGAGAGACCCCGCCTGGAGGAGTGCCATCCTCGGCAACACCCCCTCTCTACTGGTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCATAAAGgtatgtcaaatttgatgatgaatagcagcctaagatgtattgatgccccc Alignment from Spaln_aa2Genome ---GACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAA gggcaggtgttccctttaccttagaccatgtaaatgtattttcttctaagGGAGGCCATTTCACATCACCTGATGAGTATGAGGAACTAGCAGCCCTATATGACACAATT---GCTAATGAGGAGCGACTAGTAATCTCACATGAGAGAGACCCCGCCTGGAGGAGTGCCATCCTCGGCAACACCCCCTCTCTACTGGTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCATAAAGgtatgtcaaatttgatgatgaatagcagcctaagatgtattgatgccccc Alignment from Spaln_nt2Genome GGA--CCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG gggcaggtgttccctttaccttagaccatgtaaatgtattttcttctaagGGAGGCCATTTCACATCACCTGATGAGTATGAGGAACTAGCAGCCCTATATGACACAAT---TGCTAATGAGGAGCGACTAGTAATCTCACATGAGAGAGACCCCGCCTGGAGGAGTGCCATCCTCGGCAACACCCCCTCTCTACTGGTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCATAAAGgtatgtcaaatttgatgatgaatagcagcctaagatgtattgatgccccc Alignment from Pairagon ----------------------------------------------------GGACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG GGGCAGGTGTTCCCTTTACCTTAGACCATGTAAATGTATTTTCTTCTAAGGGAGGCCATTTCACATCACCTGATGAGTATGAGGAACTAGCAGCCCTATATGACACAATT---GCTAATGAGGAGCGACTAGTAATCTCACATGAGAGAGACCCCGCCTGGAGGAGTGCCATCCTCGGCAACACCCCCTCTCTACTGGTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCATAAAGgtatgtcaaatttgatgatgaatagcagcctaagatgtattgatgccccc Alignment from Exonerate_protein2genome ACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG gggcaggtgttccctttaccttagaccatgtaaatgtattttcttctaagggagGCCATTTCACATCACCTGATGAGTATGAGGAACTAGCAGCCCTATATGACACAATT---GCTAATGAGGAGCGACTAGTAATCTCACATGAGAGAGACCCCGCCTGGAGGAGTGCCATCCTCGGCAACACCCCCTCTCTACTGGTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCATAAAGgtatgtcaaatttgatgatgaatagcagcctaagatgtattgatgccccc Alignment from Exonerate_coding2genome gggcaggtgttccctttaccttagaccatgtaaatgtattttcttctaagggaggccatttcacatcacctgatgagtatgaggaactagcagccctatatgacacaattgctaatgaggagcgactagtaatctcacatgagagagaccccgcctggaggagtgccatcctcggcaacaccccctctctactggtactccgccatgacatggatgatgcctctggtgagtacaagatcatcatgctcaacaggcgccacctcagtttccgagtcataaaggtatgtcaaatttgatgatgaatagcagcctaagatgtattgatgccccc Alignment from GeneWise ---GACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG gggcaggtgttccctttaccttagaccatgtaaatgtattttcttctaagGGAGGCCATTTCACATCACCTGATGAGTATGAGGAACTAGCAGCCCTATATGACACAATTGCT---AATGAGGAGCGACTAGTAATCTCACATGAGAGAGACCCCGCCTGGAGGAGTGCCATCCTCGGCAACACCCCCTCTCTACTGGTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCATAAAGgtatgtcaaatttgatgatgaatagcagcctaagatgtattgatgccccc #### Pcnxl3_ID1178_15 --> 2 - 1 Original Alignment GTGGCCACTg tgTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACA---------------g GTGGCAACTggtgaggcacttcaagataatttggtttttctccctggcagtaTTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGGTCAACACCTGCCTCACATACCTCTCGGAACAAATAGATATGCATGGTTTTGGAGGCACATTCCCGTGGTTTGTGggtgagttgtgctcaggaaggtctattccaggaatatcgcatctaccaaat Alignment from CESAR GTGGCCACTg tgTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACA---------------g GTGGCAACTggtaagccacttcaagataatttggtttttctccctggcagtaTTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGGTCAACACCTGCCTCACATACCTCTCGGAACAAATAGATATGCATGGTTTTGGAGGCACATTCCCGTGGTTTGTGggtgagttgtgctcaggaaggtctattccaggaatatcgcatctaccaaat Alignment from Spaln_aa2Genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACA---------------G GTGGCAACTGgtgaggcacttcaagataatttggtttttctccctggcagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGGTCAACACCTGCCTCACATACCTCTCGGAACAAATAGATATGCATGGTTTTGGAGGCACATTCCCGTGGTTTGTGGgtgagttgtgctcaggaaggtctattccaggaatatcgcatctaccaaat Alignment from Spaln_nt2Genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACA-------G GTGGCAACTGgtgaggcacttcaagataatttggtttttctccctggcagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGGTCAACACCTGCCTCACATACCTCTCGGAACAAATAGATATGCATGGTTTTGGAGGCACATTCCCGTGgtttgtgggtgagttgtgctcaggaaggtctattccaggaatatcgcatctaccaaat Alignment from Pairagon GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACA---------------G GTGGCAACTGgtgaggcacttcaagataatttggtttttctccctggcagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGGTCAACACCTGCCTCACATACCTCTCGGAACAAATAGATATGCATGGTTTTGGAGGCACATTCCCGTGGTTTGTGGgtgagttgtgctcaggaaggtctattccaggaatatcgcatctaccaaat Alignment from Exonerate_protein2genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtgaggcacttcaagataatttggtttttctccctggcagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGGTCAACACCTGCCTCACATACCTCTCGGAACAAATAGATATGCATGGTTTTGGAGGCACATtcccgtggtttgtgggtgagttgtgctcaggaaggtctattccaggaatatcgcatctaccaaat Alignment from Exonerate_coding2genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtgaggcacttcaagataatttggtttttctccctggcagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGGTCAACACCTGCCTCACATACCTCTCGGAACAAATAGATATGCATGGTTTTGGAGGCACATtcccgtggtttgtgggtgagttgtgctcaggaaggtctattccaggaatatcgcatctaccaaat Alignment from GeneWise GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACA---------------G GTGGCAACTGgtgaggcacttcaagataatttggtttttctccctggcagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGGTCAACACCTGCCTCACATACCTCTCGGAACAAATAGATATGCATGGTTTTGGAGGCACATTCCCGTGGTTTGTGGgtgagttgtgctcaggaaggtctattccaggaatatcgcatctaccaaat #### Pcnxl3_ID1181_12 --> 1 - 0 Original Alignment gACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ccaatgttctaaaggcattttaggaaacatgcttgttgctgttgttgtaggACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGAGTACCCTACTTGCTATCCTTGGGTACCTGTTGCTCCTAAAGGGATTCATCACAGAGATT---ATCTTTCAGTTTTGCCTGGTTATTGCTTCTTGTCAGTATTTT---------gtaaccgctgcaatagttgggttctcagttttagaacagtaacctgcttc Alignment from CESAR gACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ccaatgttctaaaggcattttaggaaacatgcttgttgctgttgttgtaggACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGAGTACCCTACTTGCTATCCTTGGGTACCTGTTGCTCCTAAAGGGATTCATCACAGAGATT---ATCTTTCAGTTTTGCCTGGTTATTGCTTCTTGTCAGTATTTT---------gtaaccgctgcaatagttgggttctcagttttagaacagta Alignment from Spaln_aa2Genome GACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ccaatgttctaaaggcattttaggaaacatgcttgttgctgttgttgtagGACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGAGTACCCTACTTGCTATCCTTGGGTACCTGTTGCTCCTAAAGGGATTCATCACAGAGATT---ATCTTTCAGTTTTGCCTGGTTATTGCTTCTTGTCAGTATTTTGTAACCGCTgcaatagttgggttctcagttttagaacagtaacctgcttc Alignment from Spaln_nt2Genome GACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCA ccaatgttctaaaggcattttaggaaacatgcttgttgctgttgttgtagGACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGAGTACCCTACTTGCTATCCTTGGGTACCTGTTGCTCCTAAAGGGATTCATCACAGAGAT---TATCTTTCAGTTTTGCCTGGTTATTGCTTCTTGTCAgtattttgtaaccgctgcaatagttgggttctcagttttagaacagtaacctgcttc Alignment from Pairagon GACACGTGG---GGTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCC ccaatgttctaaaggcattttaggaaacatgcttgttgctgttgttgtagGACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGAGTACCCTACTTGCTATCCTTGGGTACCTGTTGCTCCTAAAGGGATTCATCACAGAGATT---ATCTTTCAGTTTTGCCTGGTTATTGCTTCTTGTCAGTATTTTgtaaccgctgcaatagttgggttctcagttttagaacagtaacctgcttc Alignment from Exonerate_protein2genome GACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ccaatgttctaaaggcattttaggaaacatgcttgttgctgttgttgtagGACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGAGTACCCTACTTGCTATCCTTGGGTACCTGTTGCTCCTAAAGGGATTCATCACAGAGATT---ATCTTTCAGTTTTGCCTGGTTATTGCTTCTTGTCAGTATTTTGTAACCGCTgcaatagttgggttctcagttttagaacagtaacctgcttc Alignment from Exonerate_coding2genome GACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ccaatgttctaaaggcattttaggaaacatgcttgttgctgttgttgtagGACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGAGTACCCTACTTGCTATCCTTGGGTACCTGTTGCTCCTAAAGGGATTCATCACAGAGATT---ATCTTTCAGTTTTGCCTGGTTATTGCTTCTTGTCAGTATTTTGTAACCGCTgcaatagttgggttctcagttttagaacagtaacctgcttc Alignment from GeneWise GACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAGAGCGTG ccaatgttctaaaggcattttaggaaacatgcttgttgctgttgttgtagGACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGAGTACCCTACTTGCTATCCTTGGGTACCTGTTGCTCCTAAAGGGATTCATCACAGAGATT---ATCTTTCAGTTTTGCCTGGTTATTGCTTCTTGTCAGTATTTTGTAACCGCTGCAATAgttgggttctcagttttagaacagtaacctgcttc #### Pcnxl3_ID1190_3 --> 1 - 0 Original Alignment gGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG aaacatgatggaaaggataggaacccccagcccctgtgttcttcttctagg---CCTGGTGTGGAAACTACGGTATTTCAGAAAGTTAGTTCCTTGCCTCCTGTACACTGCAGTTTCCAGCGCTCTGAAGTAGAATTTAACCATGTGTCAgtgtgtgggctcctactcttgctgtcatcaatgtctgccacaggtgtaag Alignment from CESAR gGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG aagaaacatgatggaaaggataggacccagcccctgtgttcttcttctagg---CCTGGTGTGGAAACTACGGTATTTCAGAAAGTTAGTTCCTTGCCTCCTGTACACTGCAGTTTCCAGCGCTCTGAAGTAGAATTTAACCATGTGTCAgtgtgtgggctcctactcttgctgtcatcaatgtctgccacaggtgtaag Alignment from Spaln_aa2Genome GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG aaacatgatggaaaggataggaacccccagcccctgtgttcttcttctagG---CCTGGTGTGGAAACTACGGTATTTCAGAAAGTTAGTTCCTTGCCTCCTGTACACTGCAGTTTCCAGCGCTCTGAAGTAGAATTTAACCATGTGTCAgtgtgtgggctcctactcttgctgtcatcaatgtctgccacaggtgtaag Alignment from Spaln_nt2Genome GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG aaacatgatggaaaggataggaacccccagcccctgtgttcttcttctagG---CCTGGTGTGGAAACTACGGTATTTCAGAAAGTTAGTTCCTTGCCTCCTGTACACTGCAGTTTCCAGCGCTCTGAAGTAGAATTTAACCATGTGTCAgtgtgtgggctcctactcttgctgtcatcaatgtctgccacaggtgtaag Alignment from Pairagon GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG aaacatgatggaaaggataggaacccccagcccctgtgttcttcttctagG---CCTGGTGTGGAAACTACGGTATTTCAGAAAGTTAGTTCCTTGCCTCCTGTACACTGCAGTTTCCAGCGCTCTGAAGTAGAATTTAACCATGTGTCAgtgtgtgggctcctactcttgctgtcatcaatgtctgccacaggtgtaag Alignment from Exonerate_protein2genome GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG aaacatgatggaaaggataggaacccccagcccctgtgttcttcttctagG---CCTGGTGTGGAAACTACGGTATTTCAGAAAGTTAGTTCCTTGCCTCCTGTACACTGCAGTTTCCAGCGCTCTGAAGTAGAATTTAACCATGTGTCAgtgtgtgggctcctactcttgctgtcatcaatgtctgccacaggtgtaag Alignment from Exonerate_coding2genome aaacatgatggaaaggataggaacccccagcccctgtgttcttcttctaggcctggtgtggaaactacggtatttcagaaagttagttccttgcctcctgtacactgcagtttccagcgctctgaagtagaatttaaccatgtgtcagtgtgtgggctcctactcttgctgtcatcaatgtctgccacaggtgtaag Alignment from GeneWise GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG aaacatgatggaaaggataggaacccccagcccctgtgttcttcttctagG---CCTGGTGTGGAAACTACGGTATTTCAGAAAGTTAGTTCCTTGCCTCCTGTACACTGCAGTTTCCAGCGCTCTGAAGTAGAATTTAACCATGTGTCAgtgtgtgggctcctactcttgctgtcatcaatgtctgccacaggtgtaag #### Pcx_ID554_4 --> 0 - 1 Original Alignment GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAg taaagaaagtgaagacatgagttgtgttatccctctctttctttacacag------GGTGAAGATGCAGTGCATCCAGGTTATGGGTTTCTCTCAGAGCAGGCTGATTTTGCCCAGGCCTGCCAGGACACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGGTTGTACTTAAAATA---GACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAggtaagttaacaaacaaaacattgaaccaggaagtacaggtattttggtga Alignment from CESAR GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAg gatgattaaagaaagtgaagacatggttatccctctctttctttacacag------GGTGAAGATGCAGTGCATCCAGGTTATGGGTTTCTCTCAGAGCAGGCTGATTTTGCCCAGGCCTGCCAGGACACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGGTTGTACTTAAAATA---GACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAggtaagttaacaaacaaaacattgaaccaggaagtacaggtattttgcatt Alignment from Spaln_aa2Genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG taaagaaagtgaagacatgagttgtgttatccctctctttctttacacag------GGTGAAGATGCAGTGCATCCAGGTTATGGGTTTCTCTCAGAGCAGGCTGATTTTGCCCAGGCCTGCCAGGACACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGGTTGTACTTAAAATA---GACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtaagttaacaaacaaaacattgaaccaggaagtacaggtattttggtga Alignment from Spaln_nt2Genome GGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG taaagaaagtgaagacatgagttgtgttatccctctctttctttacacagGGTGAAGATGCAGTGCATCCAGGTTATGGGTTTCTCTCAGAGCAGGCTGATTTTGCCCAGGCCTGCCAGGACACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGGTTGTACTTAAAAT---AGACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtaagttaacaaacaaaacattgaaccaggaagtacaggtattttggtga Alignment from Pairagon GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG taaagaaagtgaagacatgagttgtgttatccctctctttctttacacag------GGTGAAGATGCAGTGCATCCAGGTTATGGGTTTCTCTCAGAGCAGGCTGATTTTGCCCAGGCCTGCCAGGACACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGGTTGTACTTAAAAT---AGACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtaagttaacaaacaaaacattgaaccaggaagtacaggtattttggtga Alignment from Exonerate_protein2genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG taaagaaagtgaagacatgagttgtgttatccctctctttctttACACAGGGTGAAGATGCAGTGCATCCAGGTTATGGGTTTCTCTCAGAGCAGGCTGATTTTGCCCAGGCCTGCCAGGACACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGGTTGTACTTAAAATA---GACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtaagttaacaaacaaaacattgaaccaggaagtacaggtattttggtga Alignment from Exonerate_coding2genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG taaagaaagtgaagacatgagttgtgttatccctctctttctttACACAGGGTGAAGATGCAGTGCATCCAGGTTATGGGTTTCTCTCAGAGCAGGCTGATTTTGCCCAGGCCTGCCAGGACACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGGTTGTACTTAAAATA---GACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtaagttaacaaacaaaacattgaaccaggaagtacaggtattttggtga Alignment from GeneWise GGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG taaagaaagtgaagacatgagttgtgttatccctctctttctttacacagGGTGAAGATGCAGTGCATCCAGGTTATGGGTTTCTCTCAGAGCAGGCTGATTTTGCCCAGGCCTGCCAGGACACTGGGGTCCGATTTATTGGTCCAAGCCCAGAGGTTGTACTTAAAATA---GACAGGGTAGAAGCCCAGGCTGTTGCCATAGATGCAGgtaagttaacaaacaaaacattgaaccaggaagtacaggtattttggtga #### Pcx_ID563_12 --> 2 - 1 Original Alignment ga---CATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAg ctctttggaatcggggaaaccagtgaggtatactttgacctctgttttaggaAGGCATGTTATGGTCAATGGACCCATCTCGCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAggtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca Alignment from CESAR ga---CATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAg ctctttggaatcggggaaaccagtgaggtatactttgacctctgttttaggaAGGCATGTTATGGTCAATGGACCCATCTCGCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAggtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca Alignment from Spaln_aa2Genome GACATGTCATG---GTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcggggaaaccagtgaggtatactttgacctctgttttagGAAGGCATGTTATGGTCAATGGACCCATCTCGCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca Alignment from Spaln_nt2Genome GA---CATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcggggaaaccagtgaggtatactttgacctctgttttagGAAGGCATGTTATGGTCAATGGACCCATCTCGCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca Alignment from Pairagon GA---CATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcggggaaaccagtgaggtatactttgacctctgttttagGAAGGCATGTTATGGTCAATGGACCCATCTCGCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca Alignment from Exonerate_protein2genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcggggaaaccagtgaggtatactttgacctctgttttaggaaGGCATGTTATGGTCAATGGACCCATCTCGCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca Alignment from Exonerate_coding2genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcggggaaaccagtgaggtatactttgacctctgttttaggaaGGCATGTTATGGTCAATGGACCCATCTCGCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca Alignment from GeneWise --GGACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG ctctttggaatcggggaaaccagtgaggtatactttgacctctgttttagGAAGGCATGTTATGGTCAATGGACCCATCTCGCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATGCTGCAGTTCCAGCAGTCCCTATAGgtaaggtatgatatacctttgtatcttaatgagaaggtgtgtcagatgca #### Pcx_ID566_15 --> 0 - 1 Original Alignment GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACA---g agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAGGTggtatcacaaaagattgactcatagtcgaatgactgatggtgctgcaataa Alignment from CESAR GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAg agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAggtggtatcacaaaagattgactcatagtcgaatgactgatggtgctgcaataa Alignment from Spaln_aa2Genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAGgtggtatcacaaaagattgactcatagtcgaatgactgatggtgctgcaataa Alignment from Spaln_nt2Genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTGG---CAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAGgtggtatcacaaaagattgactcatagtcgaatgactgatggtgctgcaataa Alignment from Pairagon GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAGgtggtatcacaaaagattgactcatagtcgaatgactgatggtgctgcaataa Alignment from Exonerate_protein2genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAGgtggtatcacaaaagattgactcatagtcgaatgactgatggtgctgcaataa Alignment from Exonerate_coding2genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAGgtggtatcacaaaagattgactcatagtcgaatgactgatggtgctgcaataa Alignment from GeneWise GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG agtgtgtctcaatcttttgatcatagcttaattgtaaatatattttgcagGGCATAGCAGGCCTGCTGAAGCCAGCAGCCTGTACAATGTTAGTTAGTTCCCTGTGGGACCGATCACCTGACCTCCCTCTTCACATCCATACCCATGATACTTTAGGAGCAGGTGTTGCAGCCACACTAGCTTGTTCACAGGAAGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCCTTGGTAACCTGCACAAAAGGGACTCCCTCTGAAACAGgtggtatcacaaaagattgactcatagtcgaatgactgatggtgctgcaataa #### Pcx_ID567_16 --> 2 - 0 Original Alignment agGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG--------- cctaactacttttgtacaactaactcctactgtgggccctcacttttcagcgTTGCCCCTGGAACGTGTATTTGACTATAGTGGGTACTGGGAAGGTTCTAGGGGGTTGTAT------TTTGATTGTATTGCCTCTATGAAAGCTGGTAACTTGGATCTATACAAGAATGAGGTACCAGGTGGACAATACACCAATCAGCATTTCCCAGCCCGT------AGACTTGGTTCAAAGTTCAAGGCAGTTAAGAAAGCTTATGTGGAGGCTAATCAAATGCTGGGGGACCTCATTGAATGGGAGCAGgtgagttaaattgccaagtctttggtaactatctatggtgcgcttgctga Alignment from CESAR agGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATC---------AAG cctaactacttttgtacaactaactcctactgtgggccctcacttttcagcgTTGCCCCTGGAACGTGTATTTGACTATAGTGGGTACTGGGAAGGTTCTAGGGGGTTGTAT------TTTGATTGTATTGCCTCTATGAAAGCTGGTAACTTGGATCTATACAAGAATGAGGTACCAGGTGGACAATACACCAATCAGCATTTCCCAGCCCGTAGA------CTTGGTTCAAAGTTCAAGGCAGTTAAGAAAGCTTATGTGGAGGCTAATCAAATGCTGGGGGACCTCATTGAATGGGAGCAGgtgagttaaattgccaagtctttggtaactatctatggtgcgcttgctga Alignment from Spaln_aa2Genome AGGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATC---------AAG cctaactacttttgtacaactaactcctactgtgggccctcacttttcagCGTTGCCCCTGGAACGTGTATTTGACTATAGTGGGTACTGGGAAGGTTCTAGGGGGTTGTAT------TTTGATTGTATTGCCTCTATGAAAGCTGGTAACTTGGATCTATACAAGAATGAGGTACCAGGTGGACAATACACCAATCAGCATTTCCCAGCCCGT------AGACTTGGTTCAAAGTTCAAGGCAGTTAAGAAAGCTTATGTGGAGGCTAATCAAATGCTGGGGGACCTCATTGAATGGGAGCAGgtgagttaaattgccaagtctttggtaactatctatggtgcgcttgctga Alignment from Spaln_nt2Genome AGGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAA---------G cctaactacttttgtacaactaactcctactgtgggccctcacttttcagCGTTGCCCCTGGAACGTGTATTTGACTATAGTGGGTACTGGGAAGGTTCTAGGGGGTTGTA------TTTTGATTGTATTGCCTCTATGAAAGCTGGTAACTTGGATCTATACAAGAATGAGGTACCAGGTGGACAATACACCAATCAGCATTTCCCAGCCCGTA------GACTTGGTTCAAAGTTCAAGGCAGTTAAGAAAGCTTATGTGGAGGCTAATCAAATGCTGGGGGACCTCATTGAATGGGAGCAGgtgagttaaattgccaagtctttggtaactatctatggtgcgcttgctga Alignment from Pairagon AGGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCA------------------------------------------------------------- cctaactacttttgtacaactaactcctactgtgggccctcacttttcagCGTTGCCCCTGGAACGTGTATTTGACTATAGTGGGTACTGGGAAGGTTCTAGGGGGTTGTA------TTTTGATTGTATTGCCTCTATGAAAGCTGGTAACTTGGATCTATACAAGAATGAGGTACCAGGTGGACAATACACCAATCAGCATTTCCCAGCCCGTA------GACTTGGTTCAAAGTTCAAGGCAGTTAAGAAAGCTTATGTGGAGGCTAATCAAATGCTGGGGGACCTCATTGAATGGGAGCAGGTGAGTTAAATTGCCAAGTCTTTGGTAACTATCTATGGTGCGCTTGCTGA Alignment from Exonerate_protein2genome AGGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG---GTGACA cctaactacttttgtacaactaactcctactgtgggccctcacttttcagCGTTGCCCCTGGAACGTGTATTTGACTATAGTGGGTACTGGGAAGGTTCTAGGGGGTTGTAT------TTTGATTGTATTGCCTCTATGAAAGCTGGTAACTTGGATCTATACAAGAATGAGGTACCAGGTGGACAATACACCAATCAGCATTTCCCAGCCCGTAGA------CTTGGTTCAAAGTTCAAGGCAGTTAAGAAAGCTTATGTGGAGGCTAATCAAATGCTGGGGGACCTCATTGAATGGGAGCAGgtgagttaaattgccaagtctttggtaactatctatggtgcgcttgctga Alignment from Exonerate_coding2genome AGGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG---GTGACA cctaactacttttgtacaactaactcctactgtgggccctcacttttcagCGTTGCCCCTGGAACGTGTATTTGACTATAGTGGGTACTGGGAAGGTTCTAGGGGGTTGTAT------TTTGATTGTATTGCCTCTATGAAAGCTGGTAACTTGGATCTATACAAGAATGAGGTACCAGGTGGACAATACACCAATCAGCATTTCCCAGCCCGTAGA------CTTGGTTCAAAGTTCAAGGCAGTTAAGAAAGCTTATGTGGAGGCTAATCAAATGCTGGGGGACCTCATTGAATGGGAGCAGgtgagttaaattgccaagtctttggtaactatctatggtgcgcttgctga Alignment from GeneWise AGGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAGGTGACACCA cctaactacttttgtacaactaactcctactgtgggccctcacttttcagCGTTGCCCCTGGAACGTGTATTTGACTATAGTGGGTACTGGGAAGGTTCTAGGGGGTTGTAT------TTTGATTGTATTGCCTCTATGAAAGCTGGTAACTTGGATCTATACAAGAATGAGGTACCAGGTGGACAATACACCAATCAGCATTTCCCAGCCCGTAGA------CTTGGTTCAAAGTTCAAGGCAGTTAAGAAAGCTTATGTGGAGGCTAATCAAATGCTGGGGGACCTCATTGAATGGGAGCAGgtgagttaaattgccaagtctttggtaactatctatggtgcgcttgctga #### Pdcd11_ID10112_6 --> 2 - 0 Original Alignment gtGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG gtccgcttggcatcaggtgacaccacaccacagacctttccttactgcaggt---AAGTTCAAAGTTGGCCAATACCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGCGGTGTTGTGAGTCTCTCTGTGGATCGCTCTGAGATCTCATTAGTCTTTACAACTGAAGATCAAAGTTGGAACCTGAATAACTTACTACCAGGGTTACTAGTTAAAGCCCAGGTACAGAAGgtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca Alignment from CESAR gtGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG agggtccgcttggcatcaggtgacacaccacagacctttccttactgcaggt---AAGTTCAAAGTTGGCCAATACCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGCGGTGTTGTGAGTCTCTCTGTGGATCGCTCTGAGATCTCATTAGTCTTTACAACTGAAGATCAAAGTTGGAACCTGAATAACTTACTACCAGGGTTACTAGTTAAAGCCCAGGTACAGAAGgtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca Alignment from Spaln_aa2Genome GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG gtccgcttggcatcaggtgacaccacaccacagacctttccttactgcagGT---AAGTTCAAAGTTGGCCAATACCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGCGGTGTTGTGAGTCTCTCTGTGGATCGCTCTGAGATCTCATTAGTCTTTACAACTGAAGATCAAAGTTGGAACCTGAATAACTTACTACCAGGGTTACTAGTTAAAGCCCAGGTACAGAAGgtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca Alignment from Spaln_nt2Genome GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG gtccgcttggcatcaggtgacaccacaccacagacctttccttactgcagG---TAAGTTCAAAGTTGGCCAATACCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGCGGTGTTGTGAGTCTCTCTGTGGATCGCTCTGAGATCTCATTAGTCTTTACAACTGAAGATCAAAGTTGGAACCTGAATAACTTACTACCAGGGTTACTAGTTAAAGCCCAGGTACAGAAGgtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca Alignment from Pairagon CTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG gtccgcttggcatcaggtgacaccacaccacagacctttccttactgcagGTAAGTTCAAAGTTGGCCAATACCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGCGGTGTTGTGAGTCTCTCTGTGGATCGCTCTGAGATCTCATTAGTCTTTACAACTGAAGATCAAAGTTGGAACCTGAATAACTTACTACCAGGGTTACTAGTTAAAGCCCAGGTACAGAAGgtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca Alignment from Exonerate_protein2genome CTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG gtccgcttggcatcaggtgacaccacaccacagacctttccttactgcagGTAAGTTCAAAGTTGGCCAATACCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGCGGTGTTGTGAGTCTCTCTGTGGATCGCTCTGAGATCTCATTAGTCTTTACAACTGAAGATCAAAGTTGGAACCTGAATAACTTACTACCAGGGTTACTAGTTAAAGCCCAGGTACAGAAGgtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca Alignment from Exonerate_coding2genome gtccgcttggcatcaggtgacaccacaccacagacctttccttactgcaggtaagttcaaagttggccaatacctaacttgtgtagtcaaggaggtgaagagtaatggcggtgttgtgagtctctctgtggatcgctctgagatctcattagtctttacaactgaagatcaaagttggaacctgaataacttactaccagggttactagttaaagcccaggtacagaaggtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca Alignment from GeneWise -------------------AAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG gtccgcttggcatcaggtgacaccacaccacagACCTTTCCTTACTGCAGGTAAGTTCAAAGTTGGCCAATACCTAACTTGTGTAGTCAAGGAGGTGAAGAGTAATGGCGGTGTTGTGAGTCTCTCTGTGGATCGCTCTGAGATCTCATTAGTCTTTACAACTGAAGATCAAAGTTGGAACCTGAATAACTTACTACCAGGGTTACTAGTTAAAGCCCAGGTACAGAAGgtgagtttctcactaactaatgggaaatgggagaggagagagtggaggca #### Pdcd11_ID10116_10 --> 1 - 0 Original Alignment aTCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGGACAGTAGTAAAG--- aaggagccctatccagccctctgtagtctgaggagacgtctttgccccagaTCAATTATCGCAGCTCCATTCCTTAGATATCATGACATCAAAATTGGAACAGTAGTAAAGGAAgtgagtactgcatcttcttttgagaaacacattagctgttagcctataag Alignment from CESAR aTCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGGACAGTAGTAAAG--- aaggagccctatccagccctctgtagtctgaggagacgtctttgccccagaTCAATTATCGCAGCTCCATTCCTTAGATATCATGACATCAAAATTGGAACAGTAGTAAAGGAAgtgagtactgcatcttcttttgagaaacacattagctgttagcctataag Alignment from Spaln_aa2Genome ATCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGGACAGTAGTAAAG--- aaggagccctatccagccctctgtagtctgaggagacgtctttgccccagATCAATTATCGCAGCTCCATTCCTTAGATATCATGACATCAAAATTGGAACAGTAGTAAAGGAAgtgagtactgcatcttcttttgagaaacacattagctgttagcctataag Alignment from Spaln_nt2Genome ATCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGGACAGTAGTAAAG--- aaggagccctatccagccctctgtagtctgaggagacgtctttgccccagATCAATTATCGCAGCTCCATTCCTTAGATATCATGACATCAAAATTGGAACAGTAGTAAAGGAAgtgagtactgcatcttcttttgagaaacacattagctgttagcctataag Alignment from Pairagon ATCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGGACAGTAGTAAAG--- aaggagccctatccagccctctgtagtctgaggagacgtctttgccccagATCAATTATCGCAGCTCCATTCCTTAGATATCATGACATCAAAATTGGAACAGTAGTAAAGGAAgtgagtactgcatcttcttttgagaaacacattagctgttagcctataag Alignment from Exonerate_protein2genome ATCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGGACAGTAGTAAAG aaggagccctatccagccctctgtagtctgaggagacgtctttgccccagATCAATTATCGCAGCTCCATTCCTTAGATATCATGACATCAAAATTGGAACAGTAGTAAAGgaagtgagtactgcatcttcttttgagaaacacattagctgttagcctataag Alignment from Exonerate_coding2genome aaggagccctatccagccctctgtagtctgaggagacgtctttgccccagatcaattatcgcagctccattccttagatatcatgacatcaaaattggaacagtagtaaaggaagtgagtactgcatcttcttttgagaaacacattagctgttagcctataag Alignment from GeneWise ATCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGGACAGTAGTAAAGGGC aaggagccctatccagccctctgtagtctgaggagacgtctttgccccagATCAATTATCGCAGCTCCATTCCTTAGATATCATGACATCAAAATTGGAACAGTAGTAAAGGAAgtgagtactgcatcttcttttgagaaacacattagctgttagcctataag #### Pdcd11_ID10135_29 --> 0 - 0 Original Alignment GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGAA------GTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG------ atactctgtgttttaggggagctgccccctttcccccttaccaccagcagGGTTTAGTAAACAAGAGGCCG---AGGTCTGGGGCTGCAGAGGAAGATGATAGTGGGGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTACCACCCAGGATGCTAgtacggtttatgggagttactatctttagagcataccttgcacatgaagt Alignment from CESAR GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGAA------GTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG------ atactctgtgttttaggggagctgccccctttcccccttaccaccagcagGGTTTAGTAAACAAGAGGCCG---AGGTCTGGGGCTGCAGAGGAAGATGATAGTGGGGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTACCACCCAGGATGCTAgtacggtttatgggagttactatctttagagcataccttgcacatgaagt Alignment from Spaln_aa2Genome GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGAA------GTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG------ atactctgtgttttaggggagctgccccctttcccccttaccaccagcagGGTTTAGTAAACAAGAGGCCG---AGGTCTGGGGCTGCAGAGGAAGATGATAGTGGGGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTACCACCCAGGATGCTAgtacggtttatgggagttactatctttagagcataccttgcacatgaagt Alignment from Spaln_nt2Genome GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGAAG------TGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG-- atactctgtgttttaggggagctgccccctttcccccttaccaccagcagGGTTTAGTAAACAAGAGGCC---GAGGTCTGGGGCTGCAGAGGAAGATGATAGTGGGGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTACCACCCAGGATgctagtacggtttatgggagttactatctttagagcataccttgcacatgaagt Alignment from Pairagon GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGA------AGTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG------ atactctgtgttttaggggagctgccccctttcccccttaccaccagcagGGTTTAGTAAACAAGAGGCC---GAGGTCTGGGGCTGCAGAGGAAGATGATAGTGGGGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTACCACCCAGGATGCTAgtacggtttatgggagttactatctttagagcataccttgcacatgaagt Alignment from Exonerate_protein2genome GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGAA------GTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG atactctgtgttttaggggagctgccccctttcccccttaccaccagcagGGTTTAGTAAACAAGAGGCCG---AGGTCTGGGGCTGCAGAGGAAGATGATAGTGGGGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTACCACCCAGGatgctagtacggtttatgggagttactatctttagagcataccttgcacatgaagt Alignment from Exonerate_coding2genome GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGAA------GTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG atactctgtgttttaggggagctgccccctttcccccttaccaccagcagGGTTTAGTAAACAAGAGGCCG---AGGTCTGGGGCTGCAGAGGAAGATGATAGTGGGGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTACCACCCAGGatgctagtacggtttatgggagttactatctttagagcataccttgcacatgaagt Alignment from GeneWise ---GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGAA------GTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG------ atactctgtgttttaggggagctgccccctttcccccttaccaccagCAGGGTTTAGTAAACAAGAGGCCG---AGGTCTGGGGCTGCAGAGGAAGATGATAGTGGGGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTACCACCCAGGATGCTAgtacggtttatgggagttactatctttagagcataccttgcacatgaagt #### Pdcd11_ID10136_30 --> 0 - 0 Original Alignment GGGAAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTTGACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCTAAG gtgggctggtttggccagaaatcatcacccatcctccctcctccctctagGGGAAGAAGACAAAGTCTACAGAAGTGTCTCGTCTGCACCTCTCTTCAGGTTTTCTCTGGGACGTGGGACTTGATTCTCTAACCCCATCCTTGCCACTCCGGGAAGAAAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCT---gtgagtaatcatctctttagccagtatgactactaggactacttagagcc Alignment from CESAR GGGAAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTTGACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCTAAG gtgggctggtttggccagaaatcatcacccatcctccctcctccctctagGGGAAGAAGACAAAGTCTACAGAAGTGTCTCGTCTGCACCTCTCTTCAGGTTTTCTCTGGGACGTGGGACTTGATTCTCTAACCCCATCCTTGCCACTCCGGGAAGAAAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCT---gtgagtaatcatctctttagccagtatgactactaggactacttaga Alignment from Spaln_aa2Genome GGGAAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTTGACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCT gtgggctggtttggccagaaatcatcacccatcctccctcctccctctagGGGAAGAAGACAAAGTCTACAGAAGTGTCTCGTCTGCACCTCTCTTCAGGTTTTCTCTGGGACGTGGGACTTGATTCTCTAACCCCATCCTTGCCACTCCGGGAAGAAAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCTgtgagtaatcatctctttagccagtatgactactaggactacttagagcc Alignment from Spaln_nt2Genome GGGAAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTTGACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCT gtgggctggtttggccagaaatcatcacccatcctccctcctccctctagGGGAAGAAGACAAAGTCTACAGAAGTGTCTCGTCTGCACCTCTCTTCAGGTTTTCTCTGGGACGTGGGACTTGATTCTCTAACCCCATCCTTGCCACTCCGGGAAGAAAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCTgtgagtaatcatctctttagccagtatgactactaggactacttagagcc Alignment from Pairagon GGGAAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTTGACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCT gtgggctggtttggccagaaatcatcacccatcctccctcctccctctagGGGAAGAAGACAAAGTCTACAGAAGTGTCTCGTCTGCACCTCTCTTCAGGTTTTCTCTGGGACGTGGGACTTGATTCTCTAACCCCATCCTTGCCACTCCGGGAAGAAAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCTgtgagtaatcatctctttagccagtatgactactaggactacttagagcc Alignment from Exonerate_protein2genome GGGAAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTTGACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCTAAG gtgggctggtttggccagaaatcatcacccatcctccctcctccctctagGGGAAGAAGACAAAGTCTACAGAAGTGTCTCGTCTGCACCTCTCTTCAGGTTTTCTCTGGGACGTGGGACTTGATTCTCTAACCCCATCCTTGCCACTCCGGGAAGAAAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCT---gtgagtaatcatctctttagccagtatgactactaggactacttaga Alignment from Exonerate_coding2genome GGGAAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTTGACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCTAAG gtgggctggtttggccagaaatcatcacccatcctccctcctccctctagGGGAAGAAGACAAAGTCTACAGAAGTGTCTCGTCTGCACCTCTCTTCAGGTTTTCTCTGGGACGTGGGACTTGATTCTCTAACCCCATCCTTGCCACTCCGGGAAGAAAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCT---gtgagtaatcatctctttagccagtatgactactaggactacttaga Alignment from GeneWise GGGAAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTTGACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCT gtgggctggtttggccagaaatcatcacccatcctccctcctccctctagGGGAAGAAGACAAAGTCTACAGAAGTGTCTCGTCTGCACCTCTCTTCAGGTTTTCTCTGGGACGTGGGACTTGATTCTCTAACCCCATCCTTGCCACTCCGGGAAGAAAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCTgtgagtaatcatctctttagccagtatgactactaggactacttagagcc #### Pdcd11_ID10137_31 --> 0 - 2 Original Alignment AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTC---ag tcttatcttattcaaaggggttggagctttcctcgttctcctgagcacagAAGAAGAAAGGTAAAAAAGAAAGGGAGCTGGAGAAGCAAAAAGTGAAGAAAGAGCTGTCACGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACGACAGAAATTGAACGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCGCATTCTTCcggtaagcggtccgggtcttctgcagttcaaatggatgatcagttttaaacc Alignment from CESAR AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCA---TTCag tcttatcttattcaaaggggttggagctttcctcgttctcctgagcacagAAGAAGAAAGGTAAAAAAGAAAGGGAGCTGGAGAAGCAAAAAGTGAAGAAAGAGCTGTCACGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACGACAGAAATTGAACGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCGCATTCTTCcggtaagcggtccgggtcttctgcagttcaaatggatgatcagttttaaacc Alignment from Spaln_aa2Genome AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCAGA-- tcttatcttattcaaaggggttggagctttcctcgttctcctgagcacagAAGAAGAAAGGTAAAAAAGAAAGGGAGCTGGAGAAGCAAAAAGTGAAGAAAGAGCTGTCACGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACGACAGAAATTGAACGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCGCATTCTTCCGgtaagcggtccgggtcttctgcagttcaaatggatgatcagttttaaacc Alignment from Spaln_nt2Genome AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCA---G tcttatcttattcaaaggggttggagctttcctcgttctcctgagcacagAAGAAGAAAGGTAAAAAAGAAAGGGAGCTGGAGAAGCAAAAAGTGAAGAAAGAGCTGTCACGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACGACAGAAATTGAACGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCGCATTCTTCCGgtaagcggtccgggtcttctgcagttcaaatggatgatcagttttaaacc Alignment from Pairagon AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCA---TTCAG tcttatcttattcaaaggggttggagctttcctcgttctcctgagcacagAAGAAGAAAGGTAAAAAAGAAAGGGAGCTGGAGAAGCAAAAAGTGAAGAAAGAGCTGTCACGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACGACAGAAATTGAACGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCGCATTCTTCCGgtaagcggtccgggtcttctgcagttcaaatggatgatcagttttaaacc Alignment from Exonerate_protein2genome AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCA---TTCAG tcttatcttattcaaaggggttggagctttcctcgttctcctgagcacagAAGAAGAAAGGTAAAAAAGAAAGGGAGCTGGAGAAGCAAAAAGTGAAGAAAGAGCTGTCACGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACGACAGAAATTGAACGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCGCATTCTTCCGgtaagcggtccgggtcttctgcagttcaaatggatgatcagttttaaacc Alignment from Exonerate_coding2genome AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCA---TTCAG tcttatcttattcaaaggggttggagctttcctcgttctcctgagcacagAAGAAGAAAGGTAAAAAAGAAAGGGAGCTGGAGAAGCAAAAAGTGAAGAAAGAGCTGTCACGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACGACAGAAATTGAACGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCGCATTCTTCCGgtaagcggtccgggtcttctgcagttcaaatggatgatcagttttaaacc Alignment from GeneWise AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCAGA-- tcttatcttattcaaaggggttggagctttcctcgttctcctgagcacagAAGAAGAAAGGTAAAAAAGAAAGGGAGCTGGAGAAGCAAAAAGTGAAGAAAGAGCTGTCACGCATTGAAAAGGCACTAATGGACCCTTGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTCCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACGACAGAAATTGAACGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCGCATTCTTCCGgtaagcggtccgggtcttctgcagttcaaatggatgatcagttttaaacc #### Pdcd11_ID10140_34 --> 2 - 2 Original Alignment atGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCag gctctgatcagcctcttttgtgatccccacaatgaccttttcttccctagat---GATGTGATTGTTAAGTTTGCCCAGTTGGAGTTCCAACTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGTCATACAGCAGTCaggtaagtgtaactgacagggataattgcaatggaccaggtgataggaggtg Alignment from CESAR atGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCag actgctctgatcagcctcttttgtgcccacaatgaccttttcttccctagat---GATGTGATTGTTAAGTTTGCCCAGTTGGAGTTCCAACTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGTCATACAGCAGTCaggtaagtgtaactgacagggataattgcaatggaccaggtgataggaggtg Alignment from Spaln_aa2Genome ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG gctctgatcagcctcttttgtgatccccacaatgaccttttcttccctagAT---GATGTGATTGTTAAGTTTGCCCAGTTGGAGTTCCAACTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGTCATACAGCAGTCAGgtaagtgtaactgacagggataattgcaatggaccaggtgataggaggtg Alignment from Spaln_nt2Genome ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG gctctgatcagcctcttttgtgatccccacaatgaccttttcttccctagAT---GATGTGATTGTTAAGTTTGCCCAGTTGGAGTTCCAACTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGTCATACAGCAGTCAGgtaagtgtaactgacagggataattgcaatggaccaggtgataggaggtg Alignment from Pairagon ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG gctctgatcagcctcttttgtgatccccacaatgaccttttcttccctagAT---GATGTGATTGTTAAGTTTGCCCAGTTGGAGTTCCAACTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGTCATACAGCAGTCAGgtaagtgtaactgacagggataattgcaatggaccaggtgataggaggtg Alignment from Exonerate_protein2genome ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG gctctgatcagcctcttttgtgatccccacaatgaccttttcttccctagAT---GATGTGATTGTTAAGTTTGCCCAGTTGGAGTTCCAACTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGTCATACAGCAGTCAGgtaagtgtaactgacagggataattgcaatggaccaggtgataggaggtg Alignment from Exonerate_coding2genome ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG gctctgatcagcctcttttgtgatccccacaatgaccttttcttccctagAT---GATGTGATTGTTAAGTTTGCCCAGTTGGAGTTCCAACTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGTCATACAGCAGTCAGgtaagtgtaactgacagggataattgcaatggaccaggtgataggaggtg Alignment from GeneWise ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG gctctgatcagcctcttttgtgatccccacaatgaccttttcttccctagAT---GATGTGATTGTTAAGTTTGCCCAGTTGGAGTTCCAACTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGTCATACAGCAGTCAGgtaagtgtaactgacagggataattgcaatggaccaggtgataggaggtg #### Pde6c_ID7536_6 --> 0 - 2 Original Alignment GAAATCATCTTCTATAAAATCATCGATTACATTTTACATGGAAAAGAAGAGATCAACGTGATT---------------cc caggatacccttggctatttagtttgtttcatttgtgtttcctctctcagGAGATCATATTCTACAAAATTACTGACTACATTTTGCATGGGAAGGAGGAACTCAATGTGATTCCAATGGCCCCAATTccgtaagtagtcacctggaggcagtctaccttcccatgccacaataacacca Alignment from CESAR GAAATCATCTTCTATAAAATCATCGATTACATTTTACATGGAAAAGAAGAGATCAACGTG---------------ATTcc caggatacccttggctatttagtttgtttcatttgtgtttcctctctcagGAGATCATATTCTACAAAATTACTGACTACATTTTGCATGGGAAGGAGGAACTCAATGTGATTCCAATGGCCCCAATTccgtaagtagtcacctggaggcagtctaccttcccatgccacaataacacca Alignment from Spaln_aa2Genome GAAATCATCTTCTATAAAATCATCGATTACATTTTACATGGAAAAGAAGAGATCAACGTGATTCCG-------------- caggatacccttggctatttagtttgtttcatttgtgtttcctctctcagGAGATCATATTCTACAAAATTACTGACTACATTTTGCATGGGAAGGAGGAACTCAATGTGATTCCAATGGCCCCAATTCCgtaagtagtcacctggaggcagtctaccttcccatgccacaataacacca Alignment from Spaln_nt2Genome GAAATCATCTTCTATAAAATCATCGATTACATTTTACATGGAAAAGAAGAGATCAACGTGATTCC---- caggatacccttggctatttagtttgtttcatttgtgtttcctctctcagGAGATCATATTCTACAAAATTACTGACTACATTTTGCATGGGAAGGAGGAACTCAATGTGATTCCAATGgccccaattccgtaagtagtcacctggaggcagtctaccttcccatgccacaataacacca Alignment from Pairagon GAAATCATCTTCTATAAAATCATCGATTACATTTTACATGGAAAAGAAGAGATCAACGTGATTCC--------------- caggatacccttggctatttagtttgtttcatttgtgtttcctctctcagGAGATCATATTCTACAAAATTACTGACTACATTTTGCATGGGAAGGAGGAACTCAATGTGATTCCAATGGCCCCAATTCCgtaagtagtcacctggaggcagtctaccttcccatgccacaataacacca Alignment from Exonerate_protein2genome GAAATCATCTTCTATAAAATCATCGATTACATTTTACATGGAAAAGAAGAGATCAAC caggatacccttggctatttagtttgtttcatttgtgtttcctctctcagGAGATCATATTCTACAAAATTACTGACTACATTTTGCATGGGAAGGAGGAACTCAATgtgattccaatggccccaattccgtaagtagtcacctggaggcagtctaccttcccatgccacaataacacca Alignment from Exonerate_coding2genome GAAATCATCTTCTATAAAATCATCGATTACATTTTACATGGAAAAGAAGAGATCAAC caggatacccttggctatttagtttgtttcatttgtgtttcctctctcagGAGATCATATTCTACAAAATTACTGACTACATTTTGCATGGGAAGGAGGAACTCAATgtgattccaatggccccaattccgtaagtagtcacctggaggcagtctaccttcccatgccacaataacacca Alignment from GeneWise GAAATCATCTTCTATAAAATCATCGATTACATTTTACATGGAAAAGAAGAGATCAACGTGATTCCG-------------- caggatacccttggctatttagtttgtttcatttgtgtttcctctctcagGAGATCATATTCTACAAAATTACTGACTACATTTTGCATGGGAAGGAGGAACTCAATGTGATTCCAATGGCCCCAATTCCgtaagtagtcacctggaggcagtctaccttcccatgccacaataacacca #### Pde6c_ID7543_13 --> 0 - 0 Original Alignment GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tttaatgttggagtagtgacgccttgtgcctcccacccccccaccaccag---------AAGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCTACATACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTCTGTTAATGgtaaatttagctgtggatagactgaatgctctcttcctactaaatgccag Alignment from CESAR GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG gtcaacctctttaatgttggagtaggtgcctcccacccccccaccaccag---------AAGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCTACATACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTCTGTTAATGgtaaatttagctgtggatagactgaatgctctcttcctactaaatgccag Alignment from Spaln_aa2Genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tttaatgttggagtagtgacgccttgtgcctcccacccccccaccaccag---------AAGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCTACATACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTCTGTTAATGgtaaatttagctgtggatagactgaatgctctcttcctactaaatgccag Alignment from Spaln_nt2Genome AGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tttaatgttggagtagtgacgccttgtgcctcccacccccccaccaccagAAGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCTACATACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTCTGTTAATGgtaaatttagctgtggatagactgaatgctctcttcctactaaatgccag Alignment from Pairagon GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tttaatgttggagtagtgacgccttgtgcctcccacccccccaccaccag---------AAGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCTACATACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTCTGTTAATGgtaaatttagctgtggatagactgaatgctctcttcctactaaatgccag Alignment from Exonerate_protein2genome AGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tttaatgttggagtagtgacgccttgtgcctcccacccccccaccaccagAAGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCTACATACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTCTGTTAATGgtaaatttagctgtggatagactgaatgctctcttcctactaaatgccag Alignment from Exonerate_coding2genome AGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tttaatgttggagtagtgacgccttgtgcctcccacccccccaccaccagAAGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCTACATACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTCTGTTAATGgtaaatttagctgtggatagactgaatgctctcttcctactaaatgccag Alignment from GeneWise GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tttaatgttggagtagtgacgccttgtgcctcccacccccccaccaccagAAG---------TGGATGTACACAGTCCGAAAGGGGTACCGACCTGCTACATACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTCTGTTAATGgtaaatttagctgtggatagactgaatgctctcttcctactaaatgccag #### Peo1_ID9267_4 --> 1 - 0 Original Alignment gATTGCAGCTCAAGACTACATTGTTGGAGCCTTTCGGAAGTTTGCTACAGACAACAGTTGCCACGTGACTCTGGTCATTCACCCTCGGAAAGAAGACGACGACAAGGAACTGCAGACAGCATCCATTTTCGGCTCAGCCAAA--------- agggtatgtggggaccttgtctagtctaaaaacgttttaaatttttgcagaATTGCAGCCCAAGACTACATTGTTGGAGCCTGTTGGAAGTTTGCAATGGACAATAGTTGCCATGTGACGCTGGTCATCCACTCTCAGAAAGAAGACGATGACAAAGAACTGCAGACTGCATCAAACTTTGCATCCACCAAAATCGGTGGCgtgagtcagcattatgtgataacagtaggtcatgtactaaacaagatgaa Alignment from CESAR gATTGCAGCTCAAGACTACATTGTTGGAGCCTTTCGGAAGTTTGCTACAGACAACAGTTGCCACGTGACTCTGGTCATTCACCCTCGGAAAGAAGACGACGACAAGGAACTGCAGACAGCATCCATTTTCGGCTCAGCCAAA--------- agggtatgtggggaccttgtctagtctaaaaacgttttaaatttttgcagaATTGCAGCCCAAGACTACATTGTTGGAGCCTGTTGGAAGTTTGCAATGGACAATAGTTGCCATGTGACGCTGGTCATCCACTCTCAGAAAGAAGACGATGACAAAGAACTGCAGACTGCATCAAACTTTGCATCCACCAAAATCGGTGGCgtgagtcagcattatgtgataacagtaggtcatgtactaaacaagatgaa Alignment from Spaln_aa2Genome GATTGCAGCTCAAGACTACATTGTTGGAGCCTTTCGGAAGTTTGCTACAGACAACAGTTGCCACGTGACTCTGGTCATTCACCCTCGGAAAGAAGACGACGACAAGGAACTGCAGACAGCATCCATTTTCGGCTCAGCCAAA--------- agggtatgtggggaccttgtctagtctaaaaacgttttaaatttttgcagAATTGCAGCCCAAGACTACATTGTTGGAGCCTGTTGGAAGTTTGCAATGGACAATAGTTGCCATGTGACGCTGGTCATCCACTCTCAGAAAGAAGACGATGACAAAGAACTGCAGACTGCATCAAACTTTGCATCCACCAAAATCGGTGGCgtgagtcagcattatgtgataacagtaggtcatgtactaaacaagatgaa Alignment from Spaln_nt2Genome GATTGCAGCTCAAGACTACATTGTTGGAGCCTTTCGGAAGTTTGCTACAGACAACAGTTGCCACGTGACTCTGGTCATTCACCCTCGGAAAGAAGACGACGACAAGGAACTGCAGACAGCATCCATTTTCGGCTCAGCCAAA---- agggtatgtggggaccttgtctagtctaaaaacgttttaaatttttgcagAATTGCAGCCCAAGACTACATTGTTGGAGCCTGTTGGAAGTTTGCAATGGACAATAGTTGCCATGTGACGCTGGTCATCCACTCTCAGAAAGAAGACGATGACAAAGAACTGCAGACTGCATCAAACTTTGCATCCACCAAAATCGgtggcgtgagtcagcattatgtgataacagtaggtcatgtactaaacaagatgaa Alignment from Pairagon GATTGCAGCTCAAGACTACATTGTTGGAGCCTTTCGGAAGTTTGCTACAGACAACAGTTGCCACGTGACTCTGGTCATTCACCCTCGGAAAGAAGACGACGACAAGGAACTGCAGACAGCATCCATTTTCGGCTCAGCCAAA--------- agggtatgtggggaccttgtctagtctaaaaacgttttaaatttttgcagAATTGCAGCCCAAGACTACATTGTTGGAGCCTGTTGGAAGTTTGCAATGGACAATAGTTGCCATGTGACGCTGGTCATCCACTCTCAGAAAGAAGACGATGACAAAGAACTGCAGACTGCATCAAACTTTGCATCCACCAAAATCGGTGGCgtgagtcagcattatgtgataacagtaggtcatgtactaaacaagatgaa Alignment from Exonerate_protein2genome GATTGCAGCTCAAGACTACATTGTTGGAGCCTTTCGGAAGTTTGCTACAGACAACAGTTGCCACGTGACTCTGGTCATTCACCCTCGGAAAGAAGACGACGACAAGGAACTGCAGACAGCATCCATTTTCGGCTCAGCCAAA agggtatgtggggaccttgtctagtctaaaaacgttttaaatttttgcagAATTGCAGCCCAAGACTACATTGTTGGAGCCTGTTGGAAGTTTGCAATGGACAATAGTTGCCATGTGACGCTGGTCATCCACTCTCAGAAAGAAGACGATGACAAAGAACTGCAGACTGCATCAAACTTTGCATCCACCAAAatcggtggcgtgagtcagcattatgtgataacagtaggtcatgtactaaacaagatgaa Alignment from Exonerate_coding2genome GATTGCAGCTCAAGACTACATTGTTGGAGCCTTTCGGAAGTTTGCTACAGACAACAGTTGCCACGTGACTCTGGTCATTCACCCTCGGAAAGAAGACGACGACAAGGAACTGCAGACAGCATCCATTTTCGGCTCAGCCAAA agggtatgtggggaccttgtctagtctaaaaacgttttaaatttttgcagAATTGCAGCCCAAGACTACATTGTTGGAGCCTGTTGGAAGTTTGCAATGGACAATAGTTGCCATGTGACGCTGGTCATCCACTCTCAGAAAGAAGACGATGACAAAGAACTGCAGACTGCATCAAACTTTGCATCCACCAAAatcggtggcgtgagtcagcattatgtgataacagtaggtcatgtactaaacaagatgaa Alignment from GeneWise GATTGCAGCTCAAGACTACATTGTTGGAGCCTTTCGGAAGTTTGCTACAGACAACAGTTGCCACGTGACTCTGGTCATTCACCCTCGGAAAGAAGACGACGACAAGGAACTGCAGACAGCATCCATTTTCGGCTCAGCCAAA--------- agggtatgtggggaccttgtctagtctaaaaacgttttaaatttttgcagAATTGCAGCCCAAGACTACATTGTTGGAGCCTGTTGGAAGTTTGCAATGGACAATAGTTGCCATGTGACGCTGGTCATCCACTCTCAGAAAGAAGACGATGACAAAGAACTGCAGACTGCATCAAACTTTGCATCCACCAAAATCGGTGGCgtgagtcagcattatgtgataacagtaggtcatgtactaaacaagatgaa #### Pitpnm1_ID314_11 --> 0 - 0 Original Alignment ---------GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG tcaatacaggtagaaaaaccagcatatttctgtcctgtctgtccttccagAAAAACCGAGTGGTCTTAATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCTCTGTCGCAGTGCCAGTGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCGTGGGAGCATGgtatccttccaacccagggagtcagcagctgagggagccagggctgcaat Alignment from CESAR ---------GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG tcaatacaggtagaaaaaccagcatatttctgtcctgtctgtccttccagAAAAACCGAGTGGTCTTAATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCTCTGTCGCAGTGCCAGTGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCGTGGGAGCATGgtatccttccaacccagggagtcagcagctgagggagccagggctgcaat Alignment from Spaln_aa2Genome GTGGTGCTGATCGGA---------GATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG tcaatacaggtagaaaaaccagcatatttctgtcctgtctgtccttccagAAAAACCGAGTGGTCTTAATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCTCTGTCGCAGTGCCAGTGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCGTGGGAGCATGgtatccttccaacccagggagtcagcagctgagggagccagggctgcaat Alignment from Spaln_nt2Genome ---------GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG tcaatacaggtagaaaaaccagcatatttctgtcctgtctgtccttccagAAAAACCGAGTGGTCTTAATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCTCTGTCGCAGTGCCAGTGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCGTGGGAGCATGgtatccttccaacccagggagtcagcagctgagggagccagggctgcaat Alignment from Pairagon ---------GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG tcaatacaggtagaaaaaccagcatatttctgtcctgtctgtccttccagAAAAACCGAGTGGTCTTAATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCTCTGTCGCAGTGCCAGTGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCGTGGGAGCATGgtatccttccaacccagggagtcagcagctgagggagccagggctgcaat Alignment from Exonerate_protein2genome ---------GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG tcaatacaggtagaaaaaccagcatatttctgtcctgtctgtccttccagAAAAACCGAGTGGTCTTAATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCTCTGTCGCAGTGCCAGTGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCGTGGGAGCATGgtatccttccaacccagggagtcagcagctgagggagccagggctgcaat Alignment from Exonerate_coding2genome ---------GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG tcaatacaggtagaaaaaccagcatatttctgtcctgtctgtccttccagAAAAACCGAGTGGTCTTAATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCTCTGTCGCAGTGCCAGTGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCGTGGGAGCATGgtatccttccaacccagggagtcagcagctgagggagccagggctgcaat Alignment from GeneWise --GTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG tcaatacaggtagaaaaaccagcatatttctgtcctgtctgtccttccagaaaaaccgagTGGTCTTAATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCTCTGTCGCAGTGCCAGTGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCGTGGGAGCATGgtatccttccaacccagggagtcagcagctgagggagccagggctgcaat #### Pitpnm1_ID319_16 --> 2 - 0 Original Alignment tcCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG--------------- agaacacagttgaagctgcgttgtactccttttctttctctttgcttcagttCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGTCTAAATTCAGCAGTgtaaaaacaccccaggattggctcaacactgagcttagacaacaggaact Alignment from CESAR tcCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG--------------- agaacacagttgaagctgcgttgtactccttttctttctctttgcttcagttCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGTCTAAATTCAGCAGTgtaaaaacaccccaggattggctcaacactgagcttagacaacaggaact Alignment from Spaln_aa2Genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG--------------- agaacacagttgaagctgcgttgtactccttttctttctctttgcttcagTTCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGTCTAAATTCAGCAGTgtaaaaacaccccaggattggctcaacactgagcttagacaacaggaact Alignment from Spaln_nt2Genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCA agaacacagttgaagctgcgttgtactccttttctttctctttgcttcagTTCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAgtctaaattcagcagtgtaaaaacaccccaggattggctcaacactgagcttagacaacaggaact Alignment from Pairagon TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGC-------------------------------------------------------------------- agaacacagttgaagctgcgttgtactccttttctttctctttgcttcagTTCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGTCTAAATTCAGCAGTGTAAAAACACCCCAGGATTGGCTCAACACTGAGCTTAGACAACAGGAACT Alignment from Exonerate_protein2genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agaacacagttgaagctgcgttgtactccttttctttctctttgcttcagTTCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGtctaaattcagcagtgtaaaaacaccccaggattggctcaacactgagcttagacaacaggaact Alignment from Exonerate_coding2genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agaacacagttgaagctgcgttgtactccttttctttctctttgcttcagTTCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGtctaaattcagcagtgtaaaaacaccccaggattggctcaacactgagcttagacaacaggaact Alignment from GeneWise TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG--------------- agaacacagttgaagctgcgttgtactccttttctttctctttgcttcagTTCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGTCTAAATTCAGCAGTgtaaaaacaccccaggattggctcaacactgagcttagacaacaggaact #### Pitpnm1_ID320_17 --> 0 - 0 Original Alignment GTCATTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG tatgggtgtatcttgtatccctgatggttctgcccttcttttcactccag---------AAAGAGTGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGGAAAAATGGCAGTGCAAGCAAACACAGGTCAAGATTCGGgtgagtatcctactgtccagtcctagctaaagtttgtccctcggatgctt Alignment from CESAR GTCATTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG ctattgtagtatgggtgtatcttgtggttctgcccttcttttcactccag---------AAAGAGTGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGGAAAAATGGCAGTGCAAGCAAACACAGGTCAAGATTCGGgtgagtatcctactgtccagtcctagctaaagtttgtccctcggatgctt Alignment from Spaln_aa2Genome TTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG tatgggtgtatcttgtatccctgatggttctgcccttcttttcacTCCAGAAAGAGTGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGGAAAAATGGCAGTGCAAGCAAACACAGGTCAAGATTCGGgtgagtatcctactgtccagtcctagctaaagtttgtccctcggatgctt Alignment from Spaln_nt2Genome AAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG tatgggtgtatcttgtatccctgatggttctgcccttcttttcactccagAAAGAGTGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGGAAAAATGGCAGTGCAAGCAAACACAGGTCAAGATTCGGgtgagtatcctactgtccagtcctagctaaagtttgtccctcggatgctt Alignment from Pairagon ------------------------------------------------AGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG TATGGGTGTATCTTGTATCCCTGATGGTTCTGCCCTTCTTTTCACTCCAGAAAGAGTGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGGAAAAATGGCAGTGCAAGCAAACACAGGTCAAGATTCGGgtgagtatcctactgtccagtcctagctaaagtttgtccctcggatgctt Alignment from Exonerate_protein2genome TTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG tatgggtgtatcttgtatccctgatggttctgcccttcttttcacTCCAGAAAGAGTGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGGAAAAATGGCAGTGCAAGCAAACACAGGTCAAGATTCGGgtgagtatcctactgtccagtcctagctaaagtttgtccctcggatgctt Alignment from Exonerate_coding2genome TTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG tatgggtgtatcttgtatccctgatggttctgcccttcttttcacTCCAGAAAGAGTGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGGAAAAATGGCAGTGCAAGCAAACACAGGTCAAGATTCGGgtgagtatcctactgtccagtcctagctaaagtttgtccctcggatgctt Alignment from GeneWise AAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG tatgggtgtatcttgtatccctgatggttctgcccttcttttcactccagAAAGAGTGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGGAAAAATGGCAGTGCAAGCAAACACAGGTCAAGATTCGGgtgagtatcctactgtccagtcctagctaaagtttgtccctcggatgctt #### Pkd2l1_ID8958_10 --> 0 - 0 Original Alignment AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG gatgaatgaagaacttcagaaactactgctgctcctcccctgccctccagAATATGTTCCTGGCCATTATCAATGATACATACTCTGAAGTCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGCAGCTTTCTGAC------------gtaagggccctatttggcacgctgagatctgtataggtacaccggtacca Alignment from CESAR AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG gatgaatgaagaacttcagaaactactgctgctcctcccctgccctccagAATATGTTCCTGGCCATTATCAATGATACATACTCTGAAGTCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGCAGCTTTCTGAC------------gtaagggccctatttggcacgctgagatctgtataggt Alignment from Spaln_aa2Genome AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG gatgaatgaagaacttcagaaactactgctgctcctcccctgccctccagAATATGTTCCTGGCCATTATCAATGATACATACTCTGAAGTCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGCAGCTTTCTGACGTA------AGGgccctatttggcacgctgagatctgtataggtacaccg Alignment from Spaln_nt2Genome AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGAC TTCCTGAAACAG gatgaatgaagaacttcagaaactactgctgctcctcccctgccctccagAATATGTTCCTGGCCATTATCAATGATACATACTCTGAAGTCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGCAGCTTTCTGACgtaagggccctatttggcacgctgagatctgtatagGT----ACACCGgt Alignment from Pairagon AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGAC gatgaatgaagaacttcagaaactactgctgctcctcccctgccctccagAATATGTTCCTGGCCATTATCAATGATACATACTCTGAAGTCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGCAGCTTTCTGACgtaagggccctatttggcacgctgagatctgtataggtacaccggtacca Alignment from Exonerate_protein2genome AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG gatgaatgaagaacttcagaaactactgctgctcctcccctgccctccagAATATGTTCCTGGCCATTATCAATGATACATACTCTGAAGTCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGCAGCTTTCTGACGTAAGGGCCCTAtttggcacgctgagatctgtataggtacaccggtacca Alignment from Exonerate_coding2genome AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG gatgaatgaagaacttcagaaactactgctgctcctcccctgccctccagAATATGTTCCTGGCCATTATCAATGATACATACTCTGAAGTCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGCAGCTTTCTGACGTAAGGGCCCTAtttggcacgctgagatctgtataggtacaccggtacca Alignment from GeneWise AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTC------------------CTGAAACAG gatgaatgaagaacttcagaaactactgctgctcctcccctgccctccagAATATGTTCCTGGCCATTATCAATGATACATACTCTGAAGTCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGCAGCTTTCTGACGTAAGGGCCCTATTTGGCACGCTGAGATCTgtataggtacaccggtacca #### Pkd2l1_ID8959_9 --> 1 - 0 Original Alignment tTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG atgagagcctcgtatacacagcgtgctctgctttgttaatgttaaaacagtTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTCGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTTGTGCTT---gtaggtagcatgacttaaagaactgtgtgctatatttctgttggggatat Alignment from CESAR tTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG atgagagcctcgtatacacagcgtgctctgctttgttaatgttaaaacagtTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTCGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTTGTGCTT---gtaggtagcatgacttaaagaactgtgtgctatatttctgttgggga Alignment from Spaln_aa2Genome TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTC atgagagcctcgtatacacagcgtgctctgctttgttaatgttaaaacagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTCGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTTGTGCTTgtaggtagcatgacttaaagaactgtgtgctatatttctgttggggatat Alignment from Spaln_nt2Genome TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCT-G atgagagcctcgtatacacagcgtgctctgctttgttaatgttaaaacagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTCGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTTGTGCTTGTAGgtagcatgacttaaagaactgtgtgctatatttctgttggggatat Alignment from Pairagon TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTC atgagagcctcgtatacacagcgtgctctgctttgttaatgttaaaacagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTCGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTTGTGCTTgtaggtagcatgacttaaagaactgtgtgctatatttctgttggggatat Alignment from Exonerate_protein2genome TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG atgagagcctcgtatacacagcgtgctctgctttgttaatgttaaaacagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTCGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTTGTGCTTGTAggtagcatgacttaaagaactgtgtgctatatttctgttggggatat Alignment from Exonerate_coding2genome TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG atgagagcctcgtatacacagcgtgctctgctttgttaatgttaaaacagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTCGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTTGTGCTTGTAggtagcatgacttaaagaactgtgtgctatatttctgttggggatat Alignment from GeneWise TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG atgagagcctcgtatacacagcgtgctctgctttgttaatgttaaaacagTTTCACTCAGTTCCGTATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTCGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTTGTG---CTTgtaggtagcatgacttaaagaactgtgtgctatatttctgttggggatat #### Plcb3_ID1904_27 --> 0 - 2 Original Alignment GACAG ---------GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAag GACAGgtaagagatcagtgggggatggttgacaaacgctttcctctgcagGTGGATGAAGCGCATCAATGGGTCAAGGAGGTTGTACTGGACACACACACAATCCAATTTAAGAGGCTAAGGGAACTGAAAGAAaggtaagtataagtgggaattcggtatgactctttacacgcaatctggatcc Alignment from CESAR GACAG ---------GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAag GACAGgtaggagatcagtgggggatggttgacaaacgctttcctctgcagGTGGATGAAGCGCATCAATGGGTCAAGGAGGTTGTACTGGACACACACACAATCCAATTTAAGAGGCTAAGGGAACTGAAAGAAaggtaagtataagtgggaattcggtatgactctttacacgcaatctgggatt Alignment from Spaln_aa2Genome GACAG ---------GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG GACAGgtaagagatcagtgggggatggttgacaaacgctttcctctgcagGTGGATGAAGCGCATCAATGGGTCAAGGAGGTTGTACTGGACACACACACAATCCAATTTAAGAGGCTAAGGGAACTGAAAGAAAGgtaagtataagtgggaattcggtatgactctttacacgcaatctggatcc Alignment from Spaln_nt2Genome GACAG G---------CTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG GACAGgtaagagatcagtgggggatggttgacaaacgctttcctctgcagGTGGATGAAGCGCATCAATGGGTCAAGGAGGTTGTACTGGACACACACACAATCCAATTTAAGAGGCTAAGGGAACTGAAAGAAAGgtaagtataagtgggaattcggtatgactctttacacgcaatctggatcc Alignment from Pairagon GACAG------------------------------------------------------GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG GACAGGTAAGAGATCAGTGGGGGATGGTTGACAAACGCTTTCCTCTGCAGGTGGATGAAGCGCATCAATGGGTCAAGGAGGTTGTACTGGACACACACACAATCCAATTTAAGAGGCTAAGGGAACTGAAAGAAAGgtaagtataagtgggaattcggtatgactctttacacgcaatctggatcc Alignment from Exonerate_protein2genome CTACGACAGGCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG gacaggtaagagatcagtgggggatggttgacaaacgctttcctctgcagGTGGATGAAGCGCATCAATGGGTCAAGGAGGTTGTACTGGACACACACACAATCCAATTTAAGAGGCTAAGGGAACTGAAAGAAAGgtaagtataagtgggaattcggtatgactctttacacgcaatctggatcc Alignment from Exonerate_coding2genome CTACGACAGGCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG gacaggtaagagatcagtgggggatggttgacaaacgctttcctctgcagGTGGATGAAGCGCATCAATGGGTCAAGGAGGTTGTACTGGACACACACACAATCCAATTTAAGAGGCTAAGGGAACTGAAAGAAAGgtaagtataagtgggaattcggtatgactctttacacgcaatctggatcc Alignment from GeneWise GACAG------------------------------------------------------GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG GACAGGTAAGAGATCAGTGGGGGATGGTTGACAAACGCTTTCCTCTGCAGGTGGATGAAGCGCATCAATGGGTCAAGGAGGTTGTACTGGACACACACACAATCCAATTTAAGAGGCTAAGGGAACTGAAAGAAAGgtaagtataagtgggaattcggtatgactctttacacgcaatctggatcc #### Plcb3_ID1905_26 --> 1 - 0 Original Alignment g---------GGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA agaggtccagttgtatcagtcagagagtcttccttccctccatttgctaggAAGTCTCCCGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGgtaggagatcagtgggggatggttgacggttgttttcttgtgtagGCGCA Alignment from CESAR g---------GGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA agaggtccagttgtatcagtcagagagtcttccttccctccatttgctaggAAGTCTCCCGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGgtaggagatcagtgggggatggtgtcttctcttgtctcttttaagGCGCA Alignment from Spaln_aa2Genome GCCCTGGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA agaggtccagttgtatcagtcagagagtcttccttccctccatttgctaggaagTCTCCCGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGgtaggagatcagtgggggatggttgacggttgttttcttgtgtagGCGCA Alignment from Spaln_nt2Genome G---------GGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA agaggtccagttgtatcagtcagagagtcttccttccctccatttgctagGAAGTCTCCCGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGgtaggagatcagtgggggatggttgacggttgttttcttgtgtagGCGCA Alignment from Pairagon G---------GGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA agaggtccagttgtatcagtcagagagtcttccttccctccatttgctagGAAGTCTCCCGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGgtaggagatcagtgggggatggttgacggttgttttcttgtgtagGCGCA Alignment from Exonerate_protein2genome GCCCTGGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA agaggtccagttgtatcagtcagagagtcttccttccctccatttgctaggaagTCTCCCGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGgtaggagatcagtgggggatggttgacggttgttttcttgtgtagGCGCA Alignment from Exonerate_coding2genome GCCCTGGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA agaggtccagttgtatcagtcagagagtcttccttccctccatttgctaggaagTCTCCCGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGgtaggagatcagtgggggatggttgacggttgttttcttgtgtagGCGCA Alignment from GeneWise GCCCTGGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA agaggtccagttgtatcagtcagagagtcttccttccctccatttgctaggaagTCTCCCGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAATTGAGAGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGgtaggagatcagtgggggatggttgacggttgttttcttgtgtagGCGCA #### Plcb3_ID1910_21 --> 2 - 1 Original Alignment gaTACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGg aacagttacaaaattgtgtccttcccttaacattggctttatctgaacaggc---------GTGTGCTTGCGAAATGAAGCTAACCAATCTTTGTGCTTGCCTGCCCTGCTTATATACACTGAAGCTTCCGACTACATCCCAGATGACCACCAGggtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag Alignment from CESAR gaTACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGg tgacctctaaacagttacaaaattgcttaacattggctttatctgaacaggc---------GTGTGCTTGCGAAATGAAGCTAACCAATCTTTGTGCTTGCCTGCCCTGCTTATATACACTGAAGCTTCCGACTACATCCCAGATGACCACCAGggtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag Alignment from Spaln_aa2Genome GATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG aacagttacaaaattgtgtccttcccttaacattggctttatctgaacagGC---------GTGTGCTTGCGAAATGAAGCTAACCAATCTTTGTGCTTGCCTGCCCTGCTTATATACACTGAAGCTTCCGACTACATCCCAGATGACCACCAGGgtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag Alignment from Spaln_nt2Genome GATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG aacagttacaaaattgtgtccttcccttaacattggctttatctgaacagG---------CGTGTGCTTGCGAAATGAAGCTAACCAATCTTTGTGCTTGCCTGCCCTGCTTATATACACTGAAGCTTCCGACTACATCCCAGATGACCACCAGGgtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag Alignment from Pairagon GATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG aacagttacaaaattgtgtccttcccttaacattggctttatctgaacagG---------CGTGTGCTTGCGAAATGAAGCTAACCAATCTTTGTGCTTGCCTGCCCTGCTTATATACACTGAAGCTTCCGACTACATCCCAGATGACCACCAGGgtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag Alignment from Exonerate_protein2genome CCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG aacagttacaaaattgtgtccttcccttaacattggctttatctgAACAGGCGTGTGCTTGCGAAATGAAGCTAACCAATCTTTGTGCTTGCCTGCCCTGCTTATATACACTGAAGCTTCCGACTACATCCCAGATGACCACCAGGgtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag Alignment from Exonerate_coding2genome CCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG aacagttacaaaattgtgtccttcccttaacattggctttatctgAACAGGCGTGTGCTTGCGAAATGAAGCTAACCAATCTTTGTGCTTGCCTGCCCTGCTTATATACACTGAAGCTTCCGACTACATCCCAGATGACCACCAGGgtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag Alignment from GeneWise GATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG aacagttacaaaattgtgtccttcccttaacattggctttatctgaacagGC---------GTGTGCTTGCGAAATGAAGCTAACCAATCTTTGTGCTTGCCTGCCCTGCTTATATACACTGAAGCTTCCGACTACATCCCAGATGACCACCAGGgtatgagagaagactggcgaaatgaagtgaaagtctcatatggtgatcag #### Plcb3_ID1926_5 --> 0 - 2 Original Alignment ---GTCTGGTCAGAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAgc gggattaaccgcctgctccattccactatgaaatcccttttcttttccagACCGTATGGTCAGAGGAGTTGTTTAGATTAGCCATGAACATATTGGCCCAGAATGCATCCCAAAACACATTCTCGCGTAAAgcgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca Alignment from CESAR ---GTCTGGTCAGAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAgc gggattaaccgcctgctccattccactatgaaatcccttttcttttccagACCGTATGGTCAGAGGAGTTGTTTAGATTAGCCATGAACATATTGGCCCAGAATGCATCCCAAAACACATTCTCGCGTAAAgcgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca Alignment from Spaln_aa2Genome ---GTCTGGTCAGAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC gggattaaccgcctgctccattccactatgaaatcccttttcttttccagACCGTATGGTCAGAGGAGTTGTTTAGATTAGCCATGAACATATTGGCCCAGAATGCATCCCAAAACACATTCTCGCGTAAAGCgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca Alignment from Spaln_nt2Genome ---GTCTGGTCAGAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC gggattaaccgcctgctccattccactatgaaatcccttttcttttccagACCGTATGGTCAGAGGAGTTGTTTAGATTAGCCATGAACATATTGGCCCAGAATGCATCCCAAAACACATTCTCGCGTAAAGCgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca Alignment from Pairagon ---GTCTGGTCAGAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC gggattaaccgcctgctccattccactatgaaatcccttttcttttccagACCGTATGGTCAGAGGAGTTGTTTAGATTAGCCATGAACATATTGGCCCAGAATGCATCCCAAAACACATTCTCGCGTAAAGCgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca Alignment from Exonerate_protein2genome ---GTCTGGTCAGAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC gggattaaccgcctgctccattccactatgaaatcccttttcttttccagACCGTATGGTCAGAGGAGTTGTTTAGATTAGCCATGAACATATTGGCCCAGAATGCATCCCAAAACACATTCTCGCGTAAAGCgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca Alignment from Exonerate_coding2genome gggattaaccgcctgctccattccactatgaaatcccttttcttttccagaccgtatggtcagaggagttgtttagattagccatgaacatattggcccagaatgcatcccaaaacacattctcgcgtaaagcgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca Alignment from GeneWise ---GTCTGGTCAGAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC gggattaaccgcctgctccattccactatgaaatcccttttcttttccagACCGTATGGTCAGAGGAGTTGTTTAGATTAGCCATGAACATATTGGCCCAGAATGCATCCCAAAACACATTCTCGCGTAAAGCgtgaggctacaaccacacaggggggtggtagaatgtctcactgtgcacca #### Plcb3_ID1927_4 --> 0 - 0 Original Alignment GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG cacaccactttataggcacattttgaactttcaattttggttatttgtagGATCCTAAGATTCGGGAAGTC------TTTGGTGGCCCTGACACACGACTGGAGGAGAGATTGATG---------ACTGGGCCGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGATGGT---------gtgtggccacccttgttagcctgatctccatattgaaggcattagtacat Alignment from CESAR GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG cacaccactttataggcacattttgaactttcaattttggttatttgtagGATCCTAAGATTCGGGAAGTC------TTTGGTGGCCCTGACACACGACTGGAGGAGAGATTGATGACT---------GGGCCGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGATGGT---------gtgtggccacccttgttagcctgatctccatattgaaggca Alignment from Spaln_aa2Genome GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGAC cacaccactttataggcacattttgaactttcaattttggttatttgtagGATCCTAAGATTCGGGAAGTC------TTTGGTGGCCCTGACACACGACTGGAGGAGAGATTGATGACT---------GGGCCGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGATGGTgtgtggccacccttgttagcctgatctccatattgaaggcattagtacat Alignment from Spaln_nt2Genome GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATG cacaccactttataggcacattttgaactttcaattttggttatttgtagGATCCTAAGATTCGGGAAGT------CTTTGGTGGCCCTGACACACGACTGGAGGAGAGATTGATGA---------CTGGGCCGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGATGgtgtgtggccacccttgttagcctgatctccatattgaaggcattagtacat Alignment from Pairagon GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATG cacaccactttataggcacattttgaactttcaattttggttatttgtagGATCCTAAGATTCGGGAAGT------CTTTGGTGGCCCTGACACACGACTGGAGGAGAGATTGATGA---------CTGGGCCGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGATGgtgtgtggccacccttgttagcctgatctccatattgaaggcattagtacat Alignment from Exonerate_protein2genome cacaccactttataggcacattttgaactttcaattttggttatttgtaggatcctaagattcgggaagtctttggtggccctgacacacgactggaggagagattgatgactgggccggatttagtaactaccacattcttgaatttcatggctgtgcaggatggtgtgtggccacccttgttagcctgatctccatattgaaggcattagtacat Alignment from Exonerate_coding2genome cacaccactttataggcacattttgaactttcaattttggttatttgtaggatcctaagattcgggaagtctttggtggccctgacacacgactggaggagagattgatgactgggccggatttagtaactaccacattcttgaatttcatggctgtgcaggatggtgtgtggccacccttgttagcctgatctccatattgaaggcattagtacat Alignment from GeneWise GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG cacaccactttataggcacattttgaactttcaattttggttatttgtagGATCCTAAGATTCGGGAAGTC------TTTGGTGGCCCTGACACACGACTGGAGGAGAGATTGATGACT---------GGGCCGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGAT---------GGTgtgtggccacccttgttagcctgatctccatattgaaggcattagtacat #### Plce1_ID7626_12 --> 1 - 1 Original Alignment cATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTA---------g gctgtatattactattcataaaggctatttcatttcataccgcaataaagcATTAGGAGCCGTAAGGACCTGAAGGACATCTTTGATATCTATACAGTG---------AGATCTACATCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGCCACTTGTGggtgggtttgttggcccattcctcccatcaagcaggtttgtaactttgata Alignment from CESAR cATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTA---------g gctgtatattactattcataaaggctatttcatttcataccgcaataaagcATTAGGAGCCGTAAGGACCTGAAGGACATCTTTGATATCTATACAGTG---------AGATCTACATCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGCCACTTGTGggtgggtttgttggcccattcctcccatcaagcaggtttgtaactttgata Alignment from Spaln_aa2Genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTA---------G gctgtatattactattcataaaggctatttcatttcataccgcaataaagCATTAGGAGCCGTAAGGACCTGAAGGACATCTTTGATATCTATACAGTG---------AGATCTACATCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGCCACTTGTGGgtgggtttgttggcccattcctcccatcaagcaggtttgtaactttgata Alignment from Spaln_nt2Genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG----- gctgtatattactattcataaaggctatttcatttcataccgcaataaagCATTAGGAGCCGTAAGGACCTGAAGGACATCTTTGATATCTA-----TACAGTG----AGATCTACATCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGCCACTTgtgggtgggtttgttggcccattcctcccatcaagcaggtttgtaactttgata Alignment from Pairagon CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCT----------ACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACC---------TAG gctgtatattactattcataaaggctatttcatttcataccgcaataaagCATTAGGAGCCGTAAGGACCTGAAGGACATCTTTGATATCTATACAGTGAGA-------------------TCTACATCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGCCACTTGTGGgtgggtttgttggcccattcctcccatcaagcaggtttgtaactttgata Alignment from Exonerate_protein2genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAGATTTG gctgtatattactattcataaaggctatttcatttcataccgcaataaagCATTAGGAGCCGTAAGGACCTGAAGGACATCTTTGATATCTATACAGTG---------AGATCTACATCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGCCACTTgtgggtgggtttgttggcccattcctcccatcaagcaggtttgtaactttgata Alignment from Exonerate_coding2genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAGATTTG gctgtatattactattcataaaggctatttcatttcataccgcaataaagCATTAGGAGCCGTAAGGACCTGAAGGACATCTTTGATATCTATACAGTG---------AGATCTACATCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGCCACTTgtgggtgggtttgttggcccattcctcccatcaagcaggtttgtaactttgata Alignment from GeneWise CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAGATTTGCTG- gctgtatattactattcataaaggctatttcatttcataccgcaataaagCATTAGGAGCCGTAAGGACCTGAAGGACATCTTTGATATCTATACAGTG---------AGATCTACATCAGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGCCACTTGTGGgtgggtttgttggcccattcctcccatcaagcaggtttgtaactttgata #### Plekhs1_ID12098_3 --> 0 - 2 Original Alignment ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACgg cattggctttactgacattaactagtgcccaaaagcttacttctgttcagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGAGCCGGGGATCAGGTCTTGGTCTTTCTTATTACAAAGATCATCAACACAGAGGCTCCATTGGA------aggtgagctgggacatttgggctgatgctcactctaaaagcactagatattg Alignment from CESAR ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACgg cattggctttactgacattaactagtgcccaaaagcttacttctgttcagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGAGCCGGGGATCAGGTCTTGGTCTTTCTTATTACAAAGATCATCAACACAGAGGCTCCATTGGA------aggtgagctgggacatttgggctgatgctcactctaaaagcactagatattg Alignment from Spaln_aa2Genome ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGGCAG cattggctttactgacattaactagtgcccaaaagcttacttctgttcagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGAGCCGGGGATCAGGTCTTGGTCTTTCTTATTACAAAGATCATCAACACAGAGGCTCCATT---------GGAAGgtgagctgggacatttgggctgatgctcactctaaaagcactagatattg Alignment from Spaln_nt2Genome ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTG cattggctttactgacattaactagtgcccaaaagcttacttctgttcagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGAGCCGGGGATCAGGTCTTGGTCTTTCTTATTACAAAGATCATCAACACAGAGGCTCCATTGGAA--Ggtgagctgggacatttgggctgatgctcactctaaaagcactagatattg Alignment from Pairagon ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGG cattggctttactgacattaactagtgcccaaaagcttacttctgttcagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGAGCCGGGGATCAGGTCTTGGTCTTTCTTATTACAAAGATCATCAACACAGAGGCTCCATTGGAA------Ggtgagctgggacatttgggctgatgctcactctaaaagcactagatattg Alignment from Exonerate_protein2genome ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGG cattggctttactgacattaactagtgcccaaaagcttacttctgttcagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGAGCCGGGGATCAGGTCTTGGTCTTTCTTATTACAAAGATCATCAACACAGAGGCTCC------ATTGGAAGgtgagctgggacatttgggctgatgctcactctaaaagcactagatattg Alignment from Exonerate_coding2genome ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGG cattggctttactgacattaactagtgcccaaaagcttacttctgttcagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGAGCCGGGGATCAGGTCTTGGTCTTTCTTATTACAAAGATCATCAACACAGAGGCTCC------ATTGGAAGgtgagctgggacatttgggctgatgctcactctaaaagcactagatattg Alignment from GeneWise ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGAACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGGCAG cattggctttactgacattaactagtgcccaaaagcttacttctgttcagACCTCCTGGAAGAAGCGTTTATTTATACTGTCCCAGAGCCGGGGATCAGGTCTTGGTCTTTCTTATTACAAAGATCATCAACACAGAGGCTCCATT---------GGAAGgtgagctgggacatttgggctgatgctcactctaaaagcactagatattg #### Pnlip_ID12752_11 --> 1 - 2 Original Alignment gGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAgt cagggactaaataaatggctcaagtgaacctctcttccctctcttcacagg------------------------GATGGCAATGAATTTGAGTCCGAA------GTTGGAGATTTGCAGAGGGTCAAATTTATTGGC---AACAATGTAATTAACCCAACACTTCCGAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAgtgtaaggtactcgtgtaccaaaagacagcagggcatagcttaaattcacat Alignment from CESAR gGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAgt ctccagggactaaataaatggctcagaacctctcttccctctcttcacaggGAT------------------------GGCAATGAATTTGAGTCC------GAAGTTGGAGATTTGCAGAGGGTCAAATTTATT---GGCAACAATGTAATTAACCCAACACTTCCGAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAgtgtaaggtactcgtgtaccaaaagacagcagggcatagcttaaattcacat Alignment from Spaln_aa2Genome TCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT cagggactaaataaatggctcaagtgaacctctcttccctctcttcacagGGATGGCAATGAATTTGAGTCC------GAAGTTGGAGATTTGCAGAGGGTCAAATTTATTGGC---AACAATGTAATTAACCCAACACTTCCGAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAGTgtaaggtactcgtgtaccaaaagacagcagggcatagcttaaattcacat Alignment from Spaln_nt2Genome CTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT cagggactaaataaatggctcaagtgaacctctcttccctctcttcacag-GGATGGCAATGAATTTGAGTC------CGAAGTTGGAGATTTGCAGAGGGTCAAATTTATTGG---CAACAATGTAATTAACCCAACACTTCCGAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAGTgtaaggtactcgtgtaccaaaagacagcagggcatagcttaaattcacat Alignment from Pairagon GGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT cagggactaaataaatggctcaagtgaacctctcttccctctcttcacagGG------------------------ATGGCAATGAATTTGAGTCC------GAAGTTGGAGATTTGCAGAGGGTCAAATTTATTGG---CAACAATGTAATTAACCCAACACTTCCGAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAGTgtaaggtactcgtgtaccaaaagacagcagggcatagcttaaattcacat Alignment from Exonerate_protein2genome ATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT cagggactaaataaatggctcaagtgaacctctcttccctctcttcacagggATGGCAATGAATTTGAGTCCGAAGTTGGAGATTTGCAGAGGGTCAAATTTATTGGC---AACAATGTAATTAACCCAACACTTCCGAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAGTgtaaggtactcgtgtaccaaaagacagcagggcatagcttaaattcacat Alignment from Exonerate_coding2genome ATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT cagggactaaataaatggctcaagtgaacctctcttccctctcttcacagggATGGCAATGAATTTGAGTCCGAAGTTGGAGATTTGCAGAGGGTCAAATTTATTGGC---AACAATGTAATTAACCCAACACTTCCGAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAGTgtaaggtactcgtgtaccaaaagacagcagggcatagcttaaattcacat Alignment from GeneWise -AAGGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGTG cagggactaaataaatggctcaagtgaacctctcttccctctcttcacagGGATGGC---------------------------AATGAATTTGAGTCCGAAGTT------GGAGATTTGCAGAGGGTCAAATTTATTGGC---AACAATGTAATTAACCCAACACTTCCGAGAGTGGGGGCATCAGGGATTACTGTAGAAAGAAATGATGGGAGAGTGtaaggtactcgtgtaccaaaagacagcagggcatagcttaaattcacat #### Pola2_ID1323_17 --> 1 - 0 Original Alignment t---TACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggatgggtgactgtatggtcaggagatcgcaccatgtcccccttcctaagtGGATACTATCCACTTTATCCACCCCACGTGGACATGGCCATAGACTATAAGAATTTTTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtgtgttttggattgctttctcttttgtgaacagcctgggacttctgata Alignment from CESAR t---TACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggatgggtgactgtatggtcaggagatcgcaccatgtcccccttcctaagtGGATACTATCCACTTTATCCACCCCACGTGGACATGGCCATAGACTATAAGAATTTTTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtgtgttttggattgctttctcttttgtgaacagcctgggacttctgata Alignment from Spaln_aa2Genome T----TACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggatgggtgactgtatggtcaggagatcgcaccatgtcccccttcctaagTGGATACTATCCACTTTATCCACCCCACGTGGACATGGCCATAGACTATAAGAATTTTTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtgtgttttggattgctttctcttttgtgaacagcctgggacttctgata Alignment from Spaln_nt2Genome T---TACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggatgggtgactgtatggtcaggagatcgcaccatgtcccccttcctaagTGGATACTATCCACTTTATCCACCCCACGTGGACATGGCCATAGACTATAAGAATTTTTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtgtgttttggattgctttctcttttgtgaacagcctgggacttctgata Alignment from Pairagon T---TACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggatgggtgactgtatggtcaggagatcgcaccatgtcccccttcctaagTGGATACTATCCACTTTATCCACCCCACGTGGACATGGCCATAGACTATAAGAATTTTTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtgtgttttggattgctttctcttttgtgaacagcctgggacttctgata Alignment from Exonerate_protein2genome TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggatgggtgactgtatggtcaggagatcgcaccatgtcccccttcctaagtggATACTATCCACTTTATCCACCCCACGTGGACATGGCCATAGACTATAAGAATTTTTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtgtgttttggattgctttctcttttgtgaacagcctgggacttctgata Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise -AGTTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG ggatgggtgactgtatggtcaggagatcgcaccatgtcccccttcctaagTGGATACTATCCACTTTATCCACCCCACGTGGACATGGCCATAGACTATAAGAATTTTTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGgtgtgttttggattgctttctcttttgtgaacagcctgggacttctgata #### Pola2_ID1332_9 --> 0 - 0 Original Alignment GTTGTAATTATGGAAGGATTCAACACCACTGGTAGGAGACTTACTGCCACCAAACTCTATGAG tcacccaatctgtcctggccactccctctgctgtactttcctctccccag------ATTATGGAAGGATTCAACACTACTGGTAGAAGACTTACTGCCACCAAACTCTATGAGgtaagtagtgagccagccttcccctactccaaaatgagtcttaagtcatt Alignment from CESAR GTTGTAATTATGGAAGGATTCAACACCACTGGTAGGAGACTTACTGCCACCAAACTCTATGAG ctcaagtcacccaatctgtcctggcctctgctgtactttcctctccccag------ATTATGGAAGGATTCAACACTACTGGTAGAAGACTTACTGCCACCAAACTCTATGAGgtaagtagtgagccagccttcccctactccaaaatgagtcttaagtcatt Alignment from Spaln_aa2Genome GTTGTAATTATGGAAGGATTCAACACCACTGGTAGGAGACTTACTGCCACCAAACTCTATGAG tcacccaatctgtcctggccactccctctgctgtactttcctctccccag------ATTATGGAAGGATTCAACACTACTGGTAGAAGACTTACTGCCACCAAACTCTATGAGgtaagtagtgagccagccttcccctactccaaaatgagtcttaagtcatt Alignment from Spaln_nt2Genome GTTGTAATTATGGAAGGATTCAACACCACTGGTAGGAGACTTACTGCCACCAAACTCTATGAG tcacccaatctgtcctggccactccctctgctgtactttcctctccccag------ATTATGGAAGGATTCAACACTACTGGTAGAAGACTTACTGCCACCAAACTCTATGAGgtaagtagtgagccagccttcccctactccaaaatgagtcttaagtcatt Alignment from Pairagon GTTGTAATTATGGAAGGATTCAACACCACTGGTAGGAGACTTACTGCCACCAAACTCTATGAG tcacccaatctgtcctggccactccctctgctgtactttcctctccccag------ATTATGGAAGGATTCAACACTACTGGTAGAAGACTTACTGCCACCAAACTCTATGAGgtaagtagtgagccagccttcccctactccaaaatgagtcttaagtcatt Alignment from Exonerate_protein2genome ATTATGGAAGGATTCAACACCACTGGTAGGAGACTTACTGCCACCAAACTCTATGAG tcacccaatctgtcctggccactccctctgctgtactttcctctccccagATTATGGAAGGATTCAACACTACTGGTAGAAGACTTACTGCCACCAAACTCTATGAGgtaagtagtgagccagccttcccctactccaaaatgagtcttaagtcatt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATTATGGAAGGATTCAACACCACTGGTAGGAGACTTACTGCCACCAAACTCTATGAG tcacccaatctgtcctggccactccctctgctgtactttcctctccccagATTATGGAAGGATTCAACACTACTGGTAGAAGACTTACTGCCACCAAACTCTATGAGgtaagtagtgagccagccttcccctactccaaaatgagtcttaagtcatt #### Pold4_ID437_2 --> 2 - 1 Original Alignment ggGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAg acaagaaggtttaggcagatcagggggatttccccctttgatccctgcagggGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTACTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGT---ggtaagtagtaacccctgtaaccacccctcattcaatcttacatgaaggac Alignment from CESAR ggGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAg acaagaaggtttaggcagatcagggggatttccccctttgatccctgcagggGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTACTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGT---ggtaagtagtaacccctgtaaccacccctcattcaatcttacatgaaggac Alignment from Spaln_aa2Genome GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGT- acaagaaggtttaggcagatcagggggatttccccctttgatccctgcagGGGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTACTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGTGgtaagtagtaacccctgtaaccacccctcattcaatcttacatgaaggac Alignment from Spaln_nt2Genome GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG acaagaaggtttaggcagatcagggggatttccccctttgatccctgcagGGGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTACTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGT---Ggtaagtagtaacccctgtaaccacccctcattcaatcttacatgaaggac Alignment from Pairagon GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTA acaagaaggtttaggcagatcagggggatttccccctttgatccctgcagGGGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTACTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGTGgtaagtagtaacccctgtaaccacccctcattcaatcttacatgaaggac Alignment from Exonerate_protein2genome GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTA acaagaaggtttaggcagatcagggggatttccccctttgatccctgcagGGGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTACTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGTGgtaagtagtaacccctgtaaccacccctcattcaatcttacatgaaggac Alignment from Exonerate_coding2genome GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTA acaagaaggtttaggcagatcagggggatttccccctttgatccctgcagGGGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTACTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGTGgtaagtagtaacccctgtaaccacccctcattcaatcttacatgaaggac Alignment from GeneWise GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTA acaagaaggtttaggcagatcagggggatttccccctttgatccctgcagGGGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTACTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGTGgtaagtagtaacccctgtaaccacccctcattcaatcttacatgaaggac #### Polr2g_ID2377_6 --> 0 - 0 Original Alignment GACATTGTGATTCAGCAG---GACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT agagagggcagcaattcaggtcagggccagtgtccttctccctcccatagGGCATATTGATTCAGCTGGATGAG------ATACAGCTAAAGATAATAGGGACACATGTAGATAAAAAT------gtaagaagtctacaagccaggcttttgttctttgtttatatcacatcatg Alignment from CESAR GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT agagagggcagcaattcaggtcagggccagtgtccttctccctcccatagGGCATATTGATTCAGCTG---GATGAGATACAGCTAAAGATAATAGGGACACATGTAGATAAAAAT------gtaagaagtctacaagccaggcttttgttctttgtttatatcac Alignment from Spaln_aa2Genome GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAAT agagagggcagcaattcaggtcagggccagtgtccttctccctcccatagGGCATATTGATTCAGCTG---GATGAGATACAGCTAAAGATAATAGGGACACATGTAGATAAAAATgtaagaagtctacaagccaggcttttgttctttgtttatatcacatcatg Alignment from Spaln_nt2Genome GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAAT agagagggcagcaattcaggtcagggccagtgtccttctccctcccatagGGCATATTGATTCAGCTG---GATGAGATACAGCTAAAGATAATAGGGACACATGTAGATAAAAATgtaagaagtctacaagccaggcttttgttctttgtttatatcacatcatg Alignment from Pairagon GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAAT agagagggcagcaattcaggtcagggccagtgtccttctccctcccatagGGCATATTGATTCAGCTG---GATGAGATACAGCTAAAGATAATAGGGACACATGTAGATAAAAATgtaagaagtctacaagccaggcttttgttctttgtttatatcacatcatg Alignment from Exonerate_protein2genome GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT agagagggcagcaattcaggtcagggccagtgtccttctccctcccatagGGCATATTGATTCAGCTG---GATGAGATACAGCTAAAGATAATAGGGACACATGTAGATAAAAAT------gtaagaagtctacaagccaggcttttgttctttgtttatatcac Alignment from Exonerate_coding2genome agagagggcagcaattcaggtcagggccagtgtccttctccctcccatagggcatattgattcagctggatgagatacagctaaagataatagggacacatgtagataaaaatgtaagaagtctacaagccaggcttttgttctttgtttatatcacatcatg Alignment from GeneWise agagagggcagcaattcaggtcagggccagtgtccttctccctcccatagggcatattgattcagctggatgagatacagctaaagataatagggacacatgtagataaaaatgtaagaagtctacaagccaggcttttgttctttgtttatatcacatcatg #### Ppp1ca_ID409_3 --> 2 - 1 Original Alignment gtGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATC---AACCGCATTTATGGCTTCTATGATGAA------t ggtaaggaatagctttactgaatattctaatttcttctttttccttccaggtGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACTTATAGAATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGGTGTAGAATTAtgtaggtaggattgttcttgtgatgtcttactgggccatttgatattaact Alignment from CESAR gtGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCTATGAT---GAA---t ggtaaggaatagctttactgaatattctaatttcttctttttccttccaggtGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACTTATAGAATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGGTGTAGAATTAtgtaggtaggattgttcttgtgatgtcttactgggccatttgatattaact Alignment from Spaln_aa2Genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCTAT------GATGAAT ggtaaggaatagctttactgaatattctaatttcttctttttccttccagGTGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACTTATAGAATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGGTGTAGAATTATgtaggtaggattgttcttgtgatgtcttactgggccatttgatattaact Alignment from Spaln_nt2Genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCC---AGCATCAACCGCATTTATGGCTTCTATG ggtaaggaatagctttactgaatattctaatttcttctttttccttccagGTGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACTTATAGAATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGgtgtagaattatgtaggtaggattgttcttgtgatgtcttactgggccatttgatattaact Alignment from Pairagon GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCTATGATG------AAT ggtaaggaatagctttactgaatattctaatttcttctttttccttccagGTGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACTTATAGAATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGGTGTAGAATTATgtaggtaggattgttcttgtgatgtcttactgggccatttgatattaact Alignment from Exonerate_protein2genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCTAT------GATGAAT ggtaaggaatagctttactgaatattctaatttcttctttttccttccagGTGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACTTATAGAATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGGTGTAGAATTATgtaggtaggattgttcttgtgatgtcttactgggccatttgatattaact Alignment from Exonerate_coding2genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCTAT------GATGAAT ggtaaggaatagctttactgaatattctaatttcttctttttccttccagGTGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACTTATAGAATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGGTGTAGAATTATgtaggtaggattgttcttgtgatgtcttactgggccatttgatattaact Alignment from GeneWise GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATC---AACCGCATTTATGGCTTCTATG ggtaaggaatagctttactgaatattctaatttcttctttttccttccagGTGATATCCAGGGACAGCACTATGACCTACTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACTTATAGAATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATCATGAGTGTGCAAGCATTATCAACCGCATTTATGGGTTCTATGgtgtagaattatgtaggtaggattgttcttgtgatgtcttactgggccatttgatattaact #### Ppp1ca_ID412_6 --> 0 - 0 Original Alignment GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAG---AGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC------TTCCAG tgaggtctaacttaatgatatatggatgtcttatatctttttactcttag---------GGTGGATATGAGTTCTTTGCAAAAAAGAAAAAACTGGTAACATTC---TCAGCTCCTAATTACTGTGGTGAATTTGAAAACGCTGGTGCCATGACGAGTGTAGACAAGACCCTCATATGCTCCAGGGCTTTCCCTgtactaagaaggaatagccagtagggaataacatatctttggaagctgca Alignment from CESAR GTTGTAGAAGATGGCTATGAGTTCTTTGCC---AAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC------TTCCAG atgatctgaggtctaacttaatgatatgtcttatatctttttactcttag---------GGTGGATATGAGTTCTTTGCAAAAAAGAAAAAACTGGTAACA---TTCTCAGCTCCTAATTACTGTGGTGAATTTGAAAACGCTGGTGCCATGACGAGTGTAGACAAGACCCTCATATGCTCCAGGGCTTTCCCTgtactaagaaggaatagccagtagggaataacatatctttggaagctgca Alignment from Spaln_aa2Genome GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC------TTCCAG tgaggtctaacttaatgatatatggatgtcttatatctttttactcttag---------GGTGGATATGAGTTCTTTGCAAAAAAGAAAAAACTGGTAACATTCTCAGCTCCTAATTACTGTGGTGAATTTGAAAACGCTGGTGCCATGACGAGTGTAGACAAGACCCTCATATGCTCCAGGGCTTTCCCTgtactaagaaggaatagccagtagggaataacatatctttggaagctgca Alignment from Spaln_nt2Genome GTTGTAGAAGATGGCTATGAGTTCTTTGCCAA---GAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC------TTCCAG tgaggtctaacttaatgatatatggatgtcttatatctttttactcttag---------GGTGGATATGAGTTCTTTGCAAAAAAGAAAAAACTGGTAACA---TTCTCAGCTCCTAATTACTGTGGTGAATTTGAAAACGCTGGTGCCATGACGAGTGTAGACAAGACCCTCATATGCTCCAGGGCTTTCCCTgtactaagaaggaatagccagtagggaataacatatctttggaagctgca Alignment from Pairagon GTTGTAGAAGATGGCTATGAGTTCTTTGC---CAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC------TTCC---------------------------------------------------- tgaggtctaacttaatgatatatggatgtcttatatctttttactcttag---------GGTGGATATGAGTTCTTTGCAAAAAAGAAAAAACTGGTAACA---TTCTCAGCTCCTAATTACTGTGGTGAATTTGAAAACGCTGGTGCCATGACGAGTGTAGACAAGACCCTCATATGCTCCAGGGCTTTCCCTGTACTAAGAAGGAATAGCCAGTAGGGAATAACATATCTTTGGAAGCTGCA Alignment from Exonerate_protein2genome ATGGCTATGAGTTCTTTGCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCCTTCCAG tgaggtctaacttaatgatatatggatgtcttatatctttttactcttaggGTGGATATGAGTTCTTTGCAAAAAAGAAAAAACTGGTAACATTCTCAGCTCCTAATTACTGTGGTGAATTTGAAAACGCTGGTGCCATGACGAGTGTAGACAAGACCCTCATATGCTCCAGGGCTttccctgtactaagaaggaatagccagtagggaataacatatctttggaagctgca Alignment from Exonerate_coding2genome ATGGCTATGAGTTCTTTGCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCCTTCCAG tgaggtctaacttaatgatatatggatgtcttatatctttttactcttaggGTGGATATGAGTTCTTTGCAAAAAAGAAAAAACTGGTAACATTCTCAGCTCCTAATTACTGTGGTGAATTTGAAAACGCTGGTGCCATGACGAGTGTAGACAAGACCCTCATATGCTCCAGGGCTttccctgtactaagaaggaatagccagtagggaataacatatctttggaagctgca Alignment from GeneWise GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC------TTCCAG tgaggtctaacttaatgatatatggatgtcttatatctttttactcttagGGT---------GGATATGAGTTCTTTGCAAAAAAGAAAAAACTGGTAACATTCTCAGCTCCTAATTACTGTGGTGAATTTGAAAACGCTGGTGCCATGACGAGTGTAGACAAGACCCTCATATGCTCCAGGGCTTTCCCTgtactaagaaggaatagccagtagggaataacatatctttggaagctgca #### Ppp1r14b_ID1940_3 --> 0 - 0 Original Alignment GAGCTGTTAGTTGACTGTTACAAACCCACTGAG--------- atgagaaaccctgagcccaagaagccatcaacttctaatccttccatcagCAACTATTAGTTGACTGTTATAAACCCACTGAGAAACCAACGgtgagttactgcccctccccacaggcatgaagctgttcctttggttctac Alignment from CESAR GAGCTGTTAGTTGACTGTTACAAACCCACTGAG--------- atgagaaaccctgagcccaagaagccatcaacttctaatccttccatcagCAACTATTAGTTGACTGTTATAAACCCACTGAGAAACCAACGgtgagttactgcccctccccacaggcatgaagctgttcctttggttctga Alignment from Spaln_aa2Genome GAGCTGTTAGTTGACTGTTACAAACCCACTGAG--------- atgagaaaccctgagcccaagaagccatcaacttctaatccttccatcagCAACTATTAGTTGACTGTTATAAACCCACTGAGAAACCAACGgtgagttactgcccctccccacaggcatgaagctgttcctttggttctac Alignment from Spaln_nt2Genome GAGCTGTTAGTTGACTGTTACAAACCCACTGAG--------- atgagaaaccctgagcccaagaagccatcaacttctaatccttccatcagCAACTATTAGTTGACTGTTATAAACCCACTGAGAAACCAACGgtgagttactgcccctccccacaggcatgaagctgttcctttggttctac Alignment from Pairagon GAGCTGTTAGTTGACTGTTACAAACCCACTG------------------------------------------------------------- atgagaaaccctgagcccaagaagccatcaacttctaatccttccatcagCAACTATTAGTTGACTGTTATAAACCCACTGAGAAACCAACGGTGAGTTACTGCCCCTCCCCACAGGCATGAAGCTGTTCCTTTGGTTCTAC Alignment from Exonerate_protein2genome GAGCTGTTAGTTGACTGTTACAAACCCACTGAG atgagaaaccctgagcccaagaagccatcaacttctaatccttccatcagCAACTATTAGTTGACTGTTATAAACCCACTGAGaaaccaacggtgagttactgcccctccccacaggcatgaagctgttcctttggttctac Alignment from Exonerate_coding2genome GAGCTGTTAGTTGACTGTTACAAACCCACTGAG atgagaaaccctgagcccaagaagccatcaacttctaatccttccatcagCAACTATTAGTTGACTGTTATAAACCCACTGAGaaaccaacggtgagttactgcccctccccacaggcatgaagctgttcctttggttctac Alignment from GeneWise GAGCTGTTAGTTGACTGTTACAAACCCACTGAG--------- atgagaaaccctgagcccaagaagccatcaacttctaatccttccatcagCAACTATTAGTTGACTGTTATAAACCCACTGAGAAACCAACGgtgagttactgcccctccccacaggcatgaagctgttcctttggttctac #### Ppp1r32_ID2842_9 --> 0 - 0 Original Alignment ---GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtacctttgggactgtgttttaattatagTTCGTTCCTGCCTCAGCTCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCTCCCCAGCGAATGCAACAGGCTAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac Alignment from CESAR ---GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtacctttgggactgtgttttaattatagTTCGTTCCTGCCTCAGCTCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCTCCCCAGCGAATGCAACAGGCTAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac Alignment from Spaln_aa2Genome ---GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtacctttgggactgtgttttaattatagTTCGTTCCTGCCTCAGCTCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCTCCCCAGCGAATGCAACAGGCTAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac Alignment from Spaln_nt2Genome ---GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtacctttgggactgtgttttaattatagTTCGTTCCTGCCTCAGCTCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCTCCCCAGCGAATGCAACAGGCTAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac Alignment from Pairagon ---GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtacctttgggactgtgttttaattatagTTCGTTCCTGCCTCAGCTCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCTCCCCAGCGAATGCAACAGGCTAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac Alignment from Exonerate_protein2genome CCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtacctttgggactgtgttttaattatagttcgttcctgcctcagCTCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCTCCCCAGCGAATGCAACAGGCTAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac Alignment from Exonerate_coding2genome CCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtacctttgggactgtgttttaattatagttcgttcctgcctcagCTCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCTCCCCAGCGAATGCAACAGGCTAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac Alignment from GeneWise ---GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG atcgggtatctatgtccaattgtacctttgggactgtgttttaattatagTTCGTTCCTGCCTCAGCTCCCCAATCTGCCAGCATGAGTCACAGATTCTACCGTGCTCCCCAGCGAATGCAACAGGCTAATGTTGCCCTGCTCGGAAGGGAGTCTGTGGGGAATAAAgtgagtcctctaacacaaatcctatggtggcatcccgaattatgagatac #### Ppp1r32_ID2846_5 --> 0 - 1 Original Alignment ------GGTCCACGCTTCATGACTTCTGAATACAATTCCAAGTATATCAAGGAGTCTCCAAACCACCCAg atggacatctataagtggataggtgtttttctggcctgttctttctccagGACAGGGGACCATGGTTCATGCCTTCTGAATACAATGCTAAGTATATAAAGGAATCACCAATCCACCCTggtacgtcctcgcattttggtcttgtttgtatgctatgtattctcaagggc Alignment from CESAR ------GGTCCACGCTTCATGACTTCTGAATACAATTCCAAGTATATCAAGGAGTCTCCAAACCACCCAg atggacatctataagtggataggtgtttttctggcctgttctttctccagGACAGGGGACCATGGTTCATGCCTTCTGAATACAATGCTAAGTATATAAAGGAATCACCAATCCACCCTggtacgtcctcgcattttggtcttgtttgtatgctatgtattctcaagggc Alignment from Spaln_aa2Genome ------GGTCCACGCTTCATGACTTCTGAATACAATTCCAAGTATATCAAGGAGTCTCCAAACCACCCA atggacatctataagtggataggtgtttttctggcctgttctttctccagGACAGGGGACCATGGTTCATGCCTTCTGAATACAATGCTAAGTATATAAAGGAATCACCAATCCACCCTGgtacgtcctcgcattttggtcttgtttgtatgctatgtattctcaagggc Alignment from Spaln_nt2Genome GGT-CCACGCTTCATGACTTCTGAATACAATTCCAAGTATATCAAGGAGTCTCCAAACCACCCAG atggacatctataagtggataggtgtttttctggcctgttctttctccaggacagGGGACCATGGTTCATGCCTTCTGAATACAATGCTAAGTATATAAAGGAATCACCAATCCACCCTGgtacgtcctcgcattttggtcttgtttgtatgctatgtattctcaagggc Alignment from Pairagon ------GGTCCACGCTTCATGACTTCTGAATACAATTCCAAGTATATCAAGGAGTCTCCAAACCACCCAG atggacatctataagtggataggtgtttttctggcctgttctttctccagGACAGGGGACCATGGTTCATGCCTTCTGAATACAATGCTAAGTATATAAAGGAATCACCAATCCACCCTGgtacgtcctcgcattttggtcttgtttgtatgctatgtattctcaagggc Alignment from Exonerate_protein2genome ------GGTCCACGCTTCATGACTTCTGAATACAATTCCAAGTATATCAAGGAGTCTCCAAACCACCCAG atggacatctataagtggataggtgtttttctggcctgttctttctccagGACAGGGGACCATGGTTCATGCCTTCTGAATACAATGCTAAGTATATAAAGGAATCACCAATCCACCCTGgtacgtcctcgcattttggtcttgtttgtatgctatgtattctcaagggc Alignment from Exonerate_coding2genome ------GGTCCACGCTTCATGACTTCTGAATACAATTCCAAGTATATCAAGGAGTCTCCAAACCACCCAG atggacatctataagtggataggtgtttttctggcctgttctttctccagGACAGGGGACCATGGTTCATGCCTTCTGAATACAATGCTAAGTATATAAAGGAATCACCAATCCACCCTGgtacgtcctcgcattttggtcttgtttgtatgctatgtattctcaagggc Alignment from GeneWise ------GGTCCACGCTTCATGACTTCTGAATACAATTCCAAGTATATCAAGGAGTCTCCAAACCACCCAG atggacatctataagtggataggtgtttttctggcctgttctttctccagGACAGGGGACCATGGTTCATGCCTTCTGAATACAATGCTAAGTATATAAAGGAATCACCAATCCACCCTGgtacgtcctcgcattttggtcttgtttgtatgctatgtattctcaagggc #### Prpf19_ID3043_2 --> 2 - 1 Original Alignment tcTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAA---g tgctgaacttttctgtgacattcttccttaatcttatctccactgctcagtcTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACATCGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGACATTAAAATGggttaaacccctttcacattagttgcttacctttcacactggaagtcagac Alignment from CESAR tcTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAA---g tgctgaacttttctgtgacattcttccttaatcttatctccactgctcagtcTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACATCGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGACATTAAAATGggttaaacccctttcacattagttgcttacctttcacactggaagtcagac Alignment from Spaln_aa2Genome TCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAA---G tgctgaacttttctgtgacattcttccttaatcttatctccactgctcagTCTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACATCGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGACATTAAAATGGgttaaacccctttcacattagttgcttacctttcacactggaagtcagac Alignment from Spaln_nt2Genome TCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAA---G tgctgaacttttctgtgacattcttccttaatcttatctccactgctcagTCTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACATCGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGACATTAAAATGGgttaaacccctttcacattagttgcttacctttcacactggaagtcagac Alignment from Pairagon TCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAA---G tgctgaacttttctgtgacattcttccttaatcttatctccactgctcagTCTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACATCGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGACATTAAAATGGgttaaacccctttcacattagttgcttacctttcacactggaagtcagac Alignment from Exonerate_protein2genome CTGATCTGCTCGATCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAAG tgctgaacttttctgtgacattcttccttaatcttatCTCCACTGCTCAGTCTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACATCGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGACATTAAAAtgggttaaacccctttcacattagttgcttacctttcacactggaagtcagac Alignment from Exonerate_coding2genome CTGATCTGCTCGATCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAAG tgctgaacttttctgtgacattcttccttaatcttatCTCCACTGCTCAGTCTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACATCGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGACATTAAAAtgggttaaacccctttcacattagttgcttacctttcacactggaagtcagac Alignment from GeneWise TCCCTGATCTGCTCGATCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAAGTT- tgaacttttctgtgacattcttccttaatcttat---CTCCACTGCTCAGTCTCCAATGAAGTGCCAGAACACCCCTGCGTGTCACCTGTCTCCAACCACGTGTATGAGCAGCGACTTATTGAGAAGTACATCGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGACATTAAAATGGgttaaacccctttcacattagttgcttacctttcacactggaagtcagac #### Prpf19_ID3045_4 --> 0 - 1 Original Alignment CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAg ctCTGGCTA CCTTGCAAGATGAGTGGgtgagtaaacttacttctctttatttgtaatagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAACAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAG------------------ggtaggactcattccactgctatttttatctgtttcttccagccTTGGCCA Alignment from CESAR CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAg ctCTGGCTA CCTTGCAAGATGAGTGGgtgaggaaacttacttctctttatttgtaatagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAACAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAG------------------ggtaggactcattccactgtttatgtttaacttctgttttagccTTGGCCA Alignment from Spaln_aa2Genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAG- GTCACTGCTG CCTTGCAAGATGAGTGGgtgagtaaacttacttctctttatttgtaatagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAACAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGgtaggactcattccactgctatttttatctgtttcttcca Alignment from Spaln_nt2Genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGG TCACTGCTG CCTTGCAAGATGAGTGGgtgagtaaacttacttctctttatttgtaatagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAACAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGgtaggactcattccactgctatttttatctgtttcttccag--------- Alignment from Pairagon CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGG TCACTGCTG CCTTGCAAGATGAGTGGgtgagtaaacttacttctctttatttgtaatagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAACAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGgtaggactcattccactgctatttttatctgtttcttccag--------- Alignment from Exonerate_protein2genome GCTCTGGCTA ccttgcaagatgagtgggtgagtaaacttacttctctttatttgtaataggatgcagtcatgctgcacagcttcactcttcgccaacaactgcagacaacccgccaggaactgtgccatgctctgtaccaacatgatgctgcctgccgagtcattgctcggctcaccaaagagggtaggactcattccactgctatttttatctgtttcttccaGCCTTGGCCA Alignment from Exonerate_coding2genome GCTCTGGCTA ccttgcaagatgagtgggtgagtaaacttacttctctttatttgtaataggatgcagtcatgctgcacagcttcactcttcgccaacaactgcagacaacccgccaggaactgtgccatgctctgtaccaacatgatgctgcctgccgagtcattgctcggctcaccaaagagggtaggactcattccactgctatttttatctgtttcttccaGCCTTGGCCA Alignment from GeneWise CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAG---------------------GTCACTGCTGCT--CGAGAAGCTCTGGCTA CCTTGCAAGATGAGTGGgtgagtaaacttacttctctttatttgtaatagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAACAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGGTAGGACTCATTCCACTGCTATTTTTATCTGTTTCTTCCAGCCTTGGCCA #### Prpf19_ID3047_6 --> 0 - 0 Original Alignment GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGTGGGA---ATGACCCCTGAGATTATCCAGAAG gtttttgttgtaggtagtctgtcatgtgttggccatccttgtatccacagGGGGCTGGAGATGCGATGGACTTGGGTGAGCTGGTTGGGGAAATGACCCCAGAGATTATCCAG---gtgagtgtatgagatccatccacagcaagctgcgacctcatcatattaac Alignment from CESAR GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGTGGGA---ATGACCCCTGAGATTATCCAGAAG gtttttgttgtaggtagtctgtcatgtgttggccatccttgtatccacagGGGGCTGGAGATGCGATGGACTTGGGTGAGCTGGTTGGGGAAATGACCCCAGAGATTATCCAG---gtgagtgtatgagatccatccacagcaagctgcgacctcatcatatt Alignment from Spaln_aa2Genome GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGTGGGA---ATGACCCCTGAGATTATCCAG gtttttgttgtaggtagtctgtcatgtgttggccatccttgtatccacagGGGGCTGGAGATGCGATGGACTTGGGTGAGCTGGTTGGGGAAATGACCCCAGAGATTATCCAGgtgagtgtatgagatccatccacagcaagctgcgacctcatcatattaac Alignment from Spaln_nt2Genome GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGTGGG---AATGACCCCTGAGATTATCCAGAAG--- gtttttgttgtaggtagtctgtcatgtgttggccatccttgtatccacagGGGGCTGGAGATGCGATGGACTTGGGTGAGCTGGTTGGGGAAATGACCCCAGAGATTATCCAGGTGAGTgtatgagatccatccacagcaagctgcgacctcatcatattaac Alignment from Pairagon GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGT---GGGAATGACCCCTGAGATTATCCAG gtttttgttgtaggtagtctgtcatgtgttggccatccttgtatccacagGGGGCTGGAGATGCGATGGACTTGGGTGAGCTGGTTGGGGAAATGACCCCAGAGATTATCCAGgtgagtgtatgagatccatccacagcaagctgcgacctcatcatattaac Alignment from Exonerate_protein2genome GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGTGGGA---ATGACCCCTGAGATTATCCAG gtttttgttgtaggtagtctgtcatgtgttggccatccttgtatccacagGGGGCTGGAGATGCGATGGACTTGGGTGAGCTGGTTGGGGAAATGACCCCAGAGATTATCCAGgtgagtgtatgagatccatccacagcaagctgcgacctcatcatattaac Alignment from Exonerate_coding2genome GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGTGGGA---ATGACCCCTGAGATTATCCAG gtttttgttgtaggtagtctgtcatgtgttggccatccttgtatccacagGGGGCTGGAGATGCGATGGACTTGGGTGAGCTGGTTGGGGAAATGACCCCAGAGATTATCCAGgtgagtgtatgagatccatccacagcaagctgcgacctcatcatattaac Alignment from GeneWise GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGTGGGA---ATGACCCCTGAGATTATCCAG gtttttgttgtaggtagtctgtcatgtgttggccatccttgtatccacagGGGGCTGGAGATGCGATGGACTTGGGTGAGCTGGTTGGGGAAATGACCCCAGAGATTATCCAGgtgagtgtatgagatccatccacagcaagctgcgacctcatcatattaac #### Prpf19_ID3053_12 --> 0 - 1 Original Alignment TACTGGGCCTTCTCTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCCGGCTGCt ccagaccatgttcaaatggatagtattcataattttctttatcttcacag---------TTCTTTGACATCCAGACAGGGCGTGTGCTCACTAAGGCGACAGATGAGACCTCTGGCTGCtgtatccgattactgaaacactatcctattatggtggtagttttgcagtgc Alignment from CESAR TACTGGGCCTTCTCTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCCGGCTGCt cttaaggcgccagaccatgttcaaattcataattttctttatcttcacag---------TTCTTTGACATCCAGACAGGGCGTGTGCTCACTAAGGCGACAGATGAGACCTCTGGCTGCtgtatccgattactgaaacactatcctattatggtggtagttttgcagtgc Alignment from Spaln_aa2Genome TACTGGGCCTTCTCTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCCGGCTGCT ccagaccatgttcaaatggatagtattcataattttctttatcttcacag---------TTCTTTGACATCCAGACAGGGCGTGTGCTCACTAAGGCGACAGATGAGACCTCTGGCTGCTgtatccgattactgaaacactatcctattatggtggtagttttgcagtgc Alignment from Spaln_nt2Genome TACTGGGCCTTCTCTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCCGGCTGCT ccagaccatgttcaaatggatagtattcataattttctttatcttcacag---------TTCTTTGACATCCAGACAGGGCGTGTGCTCACTAAGGCGACAGATGAGACCTCTGGCTGCTgtatccgattactgaaacactatcctattatggtggtagttttgcagtgc Alignment from Pairagon TACTGGGCCTTCTCTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCCGGCTGCT ccagaccatgttcaaatggatagtattcataattttctttatcttcacag---------TTCTTTGACATCCAGACAGGGCGTGTGCTCACTAAGGCGACAGATGAGACCTCTGGCTGCTgtatccgattactgaaacactatcctattatggtggtagttttgcagtgc Alignment from Exonerate_protein2genome TTCTCTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCCGGCTGCT ccagaccatgttcaaatggatagtattcataattttctttatcttcacagTTCTTTGACATCCAGACAGGGCGTGTGCTCACTAAGGCGACAGATGAGACCTCTGGCTGCTgtatccgattactgaaacactatcctattatggtggtagttttgcagtgc Alignment from Exonerate_coding2genome TTCTCTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCCGGCTGCT ccagaccatgttcaaatggatagtattcataattttctttatcttcacagTTCTTTGACATCCAGACAGGGCGTGTGCTCACTAAGGCGACAGATGAGACCTCTGGCTGCTgtatccgattactgaaacactatcctattatggtggtagttttgcagtgc Alignment from GeneWise TACTGGGCCTTCTCTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCCGGCTGCT ccagaccatgttcaaatggatagtattcataattttctttatcttcacagTTCTTT---------GACATCCAGACAGGGCGTGTGCTCACTAAGGCGACAGATGAGACCTCTGGCTGCTgtatccgattactgaaacactatcctattatggtggtagttttgcagtgc #### Pygm_ID1680_4 --> 2 - 0 Original Alignment ctTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG agtatttgtagccttcaggtctttacaggaaatcactttttatttttcagctTGCTTTCTGGACTCTATGGCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGT------gtaagttataccaatcctgaccctaatattttttggggtttagtcatagt Alignment from CESAR ctTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG agtatttgtagccttcaggtctttacaggaaatcactttttatttttcagctTGCTTTCTGGACTCTATGGCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGT------gtaagttataccaatcctgaccctaatattttttggggtttagt Alignment from Spaln_aa2Genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGC agtatttgtagccttcaggtctttacaggaaatcactttttatttttcagCTTGCTTTCTGGACTCTATGGCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTgtaagttataccaatcctgaccctaatattttttggggtttagtcatagt Alignment from Spaln_nt2Genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGC TGGCA agtatttgtagccttcaggtctttacaggaaatcactttttatttttcagCTTGCTTTCTGGACTCTATGGCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTgtaagttataccaatcctgaccctaatattttttggggtttagTCATAgt Alignment from Pairagon CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGC agtatttgtagccttcaggtctttacaggaaatcactttttatttttcagCTTGCTTTCTGGACTCTATGGCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTgtaagttataccaatcctgaccctaatattttttggggtttagtcatagt Alignment from Exonerate_protein2genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAGATGGAAGAAGCTGATGACTGG agtatttgtagccttcaggtctttacaggaaatcactttttatttttcagCTTGCTTTCTGGACTCTATGGCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTGTAAGTTATACCAATCCTGACCCTAATattttttggggtttagtcatagt Alignment from Exonerate_coding2genome agtatttgtagccttcaggtctttacaggaaatcactttttatttttcagcttgctttctggactctatggcccccctagggcttgctgcttatggctatgggatccgctatgagtttggaatttttaatcagaagatctgtgggggtgtaagttataccaatcctgaccctaatattttttggggtttagtcatagt Alignment from GeneWise CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAGATGGAAGAAGCTGATGACTGGCTTCGCTAT- agtatttgtagccttcaggtctttacaggaaatcactttttatttttcagCTTGCTTTCTGGACTCTATGGCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTGTAAGTTATACCAATCCTGACCCTAATATTTTTTGGGgtttagtcatagt #### Pygm_ID1685_9 --> 0 - 0 Original Alignment GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTG---GCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG gagtggtcactaaaggctcccctgctgtgtttctcatctcacttttccag---GTGATACAACTTAATGACACACGTCATTCTTTGGCCACCATTCCTGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGACTGGGACAAAgtgggtcttttcatcaagcactgacaggttgtcctcctgtgggtggggag Alignment from CESAR GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCC---ATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG atggagtggtcactaaaggctcccctgtgtttctcatctcacttttccagGTG---ATACAACTTAATGACACACGTCATTCTTTGGCCACCATTCCTGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGACTGGGACAAAgtgggtcttttcatcaagcactgacaggttgtcctcctgtgggtggggag Alignment from Spaln_aa2Genome GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCC---ATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG gagtggtcactaaaggctcccctgctgtgtttctcatctcacttttccagGTG---ATACAACTTAATGACACACGTCATTCTTTGGCCACCATTCCTGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGACTGGGACAAAgtgggtcttttcatcaagcactgacaggttgtcctcctgtgggtggggag Alignment from Spaln_nt2Genome GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCCATC---CCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG gagtggtcactaaaggctcccctgctgtgtttctcatctcacttttccagGTG---ATACAACTTAATGACACACGTCATTCTTTGGCCACCATTCCTGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGACTGGGACAAAgtgggtcttttcatcaagcactgacaggttgtcctcctgtgggtggggag Alignment from Pairagon GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCCATC---CCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG gagtggtcactaaaggctcccctgctgtgtttctcatctcacttttccagGTG---ATACAACTTAATGACACACGTCATTCTTTGGCCACCATTCCTGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGACTGGGACAAAgtgggtcttttcatcaagcactgacaggttgtcctcctgtgggtggggag Alignment from Exonerate_protein2genome GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCC---ATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG gagtggtcactaaaggctcccctgctgtgtttctcatctcacttttccagGTG---ATACAACTTAATGACACACGTCATTCTTTGGCCACCATTCCTGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGACTGGGACAAAgtgggtcttttcatcaagcactgacaggttgtcctcctgtgggtggggag Alignment from Exonerate_coding2genome GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCC---ATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG gagtggtcactaaaggctcccctgctgtgtttctcatctcacttttccagGTG---ATACAACTTAATGACACACGTCATTCTTTGGCCACCATTCCTGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGACTGGGACAAAgtgggtcttttcatcaagcactgacaggttgtcctcctgtgggtggggag Alignment from GeneWise GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCC---ATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG gagtggtcactaaaggctcccctgctgtgtttctcatctcacttttccagGTG---ATACAACTTAATGACACACGTCATTCTTTGGCCACCATTCCTGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGACTGGGACAAAgtgggtcttttcatcaagcactgacaggttgtcctcctgtgggtggggag #### Pygm_ID1691_15 --> 2 - 0 Original Alignment gcATCAAAAGGGAGCCCAATAGGTTTATGGTGCCGAGGACTATCATGATTGGAGGCAAG--- tcagagcattttcagagcaacagtaagtagccttacttttccttttgtaggcATAAAAAGGGAGCTCAATCGGTTCATGGTGCCAAAGACTATCATGATTGGAGGGAAAGATgtaagaacagactgatgcatgaaaaaaggagattgatgcatgagaataag Alignment from CESAR gcATCAAAAGGGAGCCCAATAGGTTTATGGTGCCGAGGACTATCATGATTGGAGGCAAG--- tcagagcattttcagagcaacagtaagtagccttacttttccttttgtaggcATAAAAAGGGAGCTCAATCGGTTCATGGTGCCAAAGACTATCATGATTGGAGGGAAAGATgtaagaacagactgatgcatgaaaaaaggagattgatgcatgagaataag Alignment from Spaln_aa2Genome GCATCAAAAGGGAGCCCAATAGGTTTATGGTGCCGAGGACTATCATGATTGGAGGCAAG--- tcagagcattttcagagcaacagtaagtagccttacttttccttttgtagGCATAAAAAGGGAGCTCAATCGGTTCATGGTGCCAAAGACTATCATGATTGGAGGGAAAGATgtaagaacagactgatgcatgaaaaaaggagattgatgcatgagaataag Alignment from Spaln_nt2Genome GCATCAAAAGGGAGCCCAATAGGTTTATGGTGCCGAGGACTATCATGATTGGAGGCAAG--- tcagagcattttcagagcaacagtaagtagccttacttttccttttgtagGCATAAAAAGGGAGCTCAATCGGTTCATGGTGCCAAAGACTATCATGATTGGAGGGAAAGATgtaagaacagactgatgcatgaaaaaaggagattgatgcatgagaataag Alignment from Pairagon GCATCAAAAGGGAGCCCAATAGGTTTATGGTGCCGAGGACTATCATGATTGGAGGCA------------------------------------------------------- tcagagcattttcagagcaacagtaagtagccttacttttccttttgtagGCATAAAAAGGGAGCTCAATCGGTTCATGGTGCCAAAGACTATCATGATTGGAGGGAAAGATGTAAGAACAGACTGATGCATGAAAAAAGGAGATTGATGCATGAGAATAAG Alignment from Exonerate_protein2genome GCATCAAAAGGGAGCCCAATAGGTTTATGGTGCCGAGGACTATCATGATTGGAGGCAAG--- tcagagcattttcagagcaacagtaagtagccttacttttccttttgtagGCATAAAAAGGGAGCTCAATCGGTTCATGGTGCCAAAGACTATCATGATTGGAGGGAAAGATgtaagaacagactgatgcatgaaaaaaggagattgatgcatgagaataag Alignment from Exonerate_coding2genome GCATCAAAAGGGAGCCCAATAGGTTTATGGTGCCGAGGACTATCATGATTGGAGGCAAG--- tcagagcattttcagagcaacagtaagtagccttacttttccttttgtagGCATAAAAAGGGAGCTCAATCGGTTCATGGTGCCAAAGACTATCATGATTGGAGGGAAAGATgtaagaacagactgatgcatgaaaaaaggagattgatgcatgagaataag Alignment from GeneWise GCATCAAAAGGGAGCCCAATAGGTTTATGGTGCCGAGGACTATCATGATTGGAGGCAAGGCT tcagagcattttcagagcaacagtaagtagccttacttttccttttgtagGCATAAAAAGGGAGCTCAATCGGTTCATGGTGCCAAAGACTATCATGATTGGAGGGAAAGATgtaagaacagactgatgcatgaaaaaaggagattgatgcatgagaataag #### Pyroxd2_ID8597_11 --> 0 - 1 Original Alignment GAGTGGCTTCCCGGGGCTTTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCTGTCACCAAGATCAATg gcactacatctcagcagggtataagtttatccttatttctctttctccag------CTCCCTGGGGCATTTGGGAAGAGGATCTCTCAGTTGGACACCCAGTCTCCTGTAACTAAAATCAATggtgagagcccatacctgcttgatgacaatctatgtaaaatttcatatgta Alignment from CESAR GAGTGGCTTCCCGGGGCTTTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCTGTCACCAAGATCAATg tcacaagcactacatctcagcagggtttatccttatttctctttctccag------CTCCCTGGGGCATTTGGGAAGAGGATCTCTCAGTTGGACACCCAGTCTCCTGTAACTAAAATCAATggtgagagcccatacctgcttgatgacaatctatgtaaaatttcatatgta Alignment from Spaln_aa2Genome GAGTGGCTTCCCGGGGCTTTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCTGTCACCAAGATCAATG gcactacatctcagcagggtataagtttatccttatttctctttctccag------CTCCCTGGGGCATTTGGGAAGAGGATCTCTCAGTTGGACACCCAGTCTCCTGTAACTAAAATCAATGgtgagagcccatacctgcttgatgacaatctatgtaaaatttcatatgta Alignment from Spaln_nt2Genome CTTCCCGGGGCTTTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCTGTCACCAAGATCAATG gcactacatctcagcagggtataagtttatccttatttctctttctccagCTCCCTGGGGCATTTGGGAAGAGGATCTCTCAGTTGGACACCCAGTCTCCTGTAACTAAAATCAATGgtgagagcccatacctgcttgatgacaatctatgtaaaatttcatatgta Alignment from Pairagon GAGTGGCTTCCCGGGGCTTTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCTGTCACCAAGATCAATG gcactacatctcagcagggtataagtttatccttatttctctttctccag------CTCCCTGGGGCATTTGGGAAGAGGATCTCTCAGTTGGACACCCAGTCTCCTGTAACTAAAATCAATGgtgagagcccatacctgcttgatgacaatctatgtaaaatttcatatgta Alignment from Exonerate_protein2genome CTTCCCGGGGCTTTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCTGTCACCAAGATCAATG gcactacatctcagcagggtataagtttatccttatttctctttctccagCTCCCTGGGGCATTTGGGAAGAGGATCTCTCAGTTGGACACCCAGTCTCCTGTAACTAAAATCAATGgtgagagcccatacctgcttgatgacaatctatgtaaaatttcatatgta Alignment from Exonerate_coding2genome CTTCCCGGGGCTTTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCTGTCACCAAGATCAATG gcactacatctcagcagggtataagtttatccttatttctctttctccagCTCCCTGGGGCATTTGGGAAGAGGATCTCTCAGTTGGACACCCAGTCTCCTGTAACTAAAATCAATGgtgagagcccatacctgcttgatgacaatctatgtaaaatttcatatgta Alignment from GeneWise CTTCCCGGGGCTTTTGTGAAGAGAATCTCCCAGCTGGACACCCAGTCTCCTGTCACCAAGATCAATG gcactacatctcagcagggtataagtttatccttatttctctttctccagCTCCCTGGGGCATTTGGGAAGAGGATCTCTCAGTTGGACACCCAGTCTCCTGTAACTAAAATCAATGgtgagagcccatacctgcttgatgacaatctatgtaaaatttcatatgta #### Rab3il1_ID2648_4 --> 0 - 0 Original Alignment GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG------ cctattcctgtcctggttcttttagtggtgcatttttctccttttcttagGAAGCCCACAAAATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAGCAGCTGAAGGAAGCTTGGGGCAAGGAAAATgtaggctggggcaaagtgatcgcgagtgccgtttacccctgttaccaagc Alignment from CESAR GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG------ cctattcctgtcctggttcttttagtggtgcatttttctccttttcttagGAAGCCCACAAAATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAGCAGCTGAAGGAAGCTTGGGGCAAGGAAAATgtaggctggggcaaagtgatcgcgagtgccgtttacccctgttaccaagc Alignment from Spaln_aa2Genome GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG------ cctattcctgtcctggttcttttagtggtgcatttttctccttttcttagGAAGCCCACAAAATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAGCAGCTGAAGGAAGCTTGGGGCAAGGAAAATgtaggctggggcaaagtgatcgcgagtgccgtttacccctgttaccaagc Alignment from Spaln_nt2Genome GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG------ cctattcctgtcctggttcttttagtggtgcatttttctccttttcttagGAAGCCCACAAAATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAGCAGCTGAAGGAAGCTTGGGGCAAGGAAAATgtaggctggggcaaagtgatcgcgagtgccgtttacccctgttaccaagc Alignment from Pairagon ----------------------------------------------TGAGGAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG------ CCTATTCCTGTCCTGGTTCTTTTAGTGGTGCATTTTTCTCCTTTTCTTAGGAAGCCCACAAAATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAGCAGCTGAAGGAAGCTTGGGGCAAGGAAAATgtaggctggggcaaagtgatcgcgagtgccgtttacccctgttaccaagc Alignment from Exonerate_protein2genome GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctattcctgtcctggttcttttagtggtgcatttttctccttttcttagGAAGCCCACAAAATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAGCAGCTGAAGGAAGCTTGGGGCAAGgaaaatgtaggctggggcaaagtgatcgcgagtgccgtttacccctgttaccaagc Alignment from Exonerate_coding2genome GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctattcctgtcctggttcttttagtggtgcatttttctccttttcttagGAAGCCCACAAAATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAGCAGCTGAAGGAAGCTTGGGGCAAGgaaaatgtaggctggggcaaagtgatcgcgagtgccgtttacccctgttaccaagc Alignment from GeneWise GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG------ cctattcctgtcctggttcttttagtggtgcatttttctccttttcttagGAAGCCCACAAAATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAGCAGCTGAAGGAAGCTTGGGGCAAGGAAAATgtaggctggggcaaagtgatcgcgagtgccgtttacccctgttaccaagc #### Rab3il1_ID2652_7 --> 0 - 2 Original Alignment CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACC---aa tcttgtagtggtctgtcaccctcttaagtgtctgctctctttcccattagCTATCAGCTTTGGTTCAAACTGCTGTAGAAGACAATACACTCACTATTGAGCCTGTTGCTTCACAGACACTGCCTGCAGTGAAGGTACCTAGTATTGAGTGTAACAACACCGTAaagtgagttcacactcccaatactcccatgcctccgaaaggctcaaaatttc Alignment from CESAR CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACC---aa tcttgtagtggtctgtcaccctcttaagtgtctgctctctttcccattagCTATCAGCTTTGGTTCAAACTGCTGTAGAAGACAATACACTCACTATTGAGCCTGTTGCTTCACAGACACTGCCTGCAGTGAAGGTACCTAGTATTGAGTGTAACAACACCGTAaagtgagttcacactcccaatactcccatgcctccgaaaggctcaaaatttc Alignment from Spaln_aa2Genome CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCAAC-- tcttgtagtggtctgtcaccctcttaagtgtctgctctctttcccattagCTATCAGCTTTGGTTCAAACTGCTGTAGAAGACAATACACTCACTATTGAGCCTGTTGCTTCACAGACACTGCCTGCAGTGAAGGTACCTAGTATTGAGTGTAACAACACCGTAAAgtgagttcacactcccaatactcccatgcctccgaaaggctcaaaatttc Alignment from Spaln_nt2Genome CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACC---AA tcttgtagtggtctgtcaccctcttaagtgtctgctctctttcccattagCTATCAGCTTTGGTTCAAACTGCTGTAGAAGACAATACACTCACTATTGAGCCTGTTGCTTCACAGACACTGCCTGCAGTGAAGGTACCTAGTATTGAGTGTAACAACACCGTAAAgtgagttcacactcccaatactcccatgcctccgaaaggctcaaaatttc Alignment from Pairagon CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACC---AA tcttgtagtggtctgtcaccctcttaagtgtctgctctctttcccattagCTATCAGCTTTGGTTCAAACTGCTGTAGAAGACAATACACTCACTATTGAGCCTGTTGCTTCACAGACACTGCCTGCAGTGAAGGTACCTAGTATTGAGTGTAACAACACCGTAAAgtgagttcacactcccaatactcccatgcctccgaaaggctcaaaatttc Alignment from Exonerate_protein2genome CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACC---AA tcttgtagtggtctgtcaccctcttaagtgtctgctctctttcccattagCTATCAGCTTTGGTTCAAACTGCTGTAGAAGACAATACACTCACTATTGAGCCTGTTGCTTCACAGACACTGCCTGCAGTGAAGGTACCTAGTATTGAGTGTAACAACACCGTAAAgtgagttcacactcccaatactcccatgcctccgaaaggctcaaaatttc Alignment from Exonerate_coding2genome CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACC---AA tcttgtagtggtctgtcaccctcttaagtgtctgctctctttcccattagCTATCAGCTTTGGTTCAAACTGCTGTAGAAGACAATACACTCACTATTGAGCCTGTTGCTTCACAGACACTGCCTGCAGTGAAGGTACCTAGTATTGAGTGTAACAACACCGTAAAgtgagttcacactcccaatactcccatgcctccgaaaggctcaaaatttc Alignment from GeneWise CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCAAC-- tcttgtagtggtctgtcaccctcttaagtgtctgctctctttcccattagCTATCAGCTTTGGTTCAAACTGCTGTAGAAGACAATACACTCACTATTGAGCCTGTTGCTTCACAGACACTGCCTGCAGTGAAGGTACCTAGTATTGAGTGTAACAACACCGTAAAgtgagttcacactcccaatactcccatgcctccgaaaggctcaaaatttc #### Rasgrp2_ID1703_2 --> 2 - 2 Original Alignment atGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACtt tcagcaggcttaagctccagatatcttagtccccctaactttttttttagat---------AAGGTGCAAGATTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGGTATATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACttgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa Alignment from CESAR atGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACtt ccgatgtcctcagcaggcttaagctttagtccccctaactttttttttagat---------AAGGTGCAAGATTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGGTATATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACttgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa Alignment from Spaln_aa2Genome ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT tcagcaggcttaagctccagatatcttagtccccctaactttttttttagAT---------AAGGTGCAAGATTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGGTATATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa Alignment from Spaln_nt2Genome A-AAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT tcagcaggcttaagctccagatatcttagtccccctaactttttttttagATAAGGTGCAAGATTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGGTATATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa Alignment from Pairagon ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT tcagcaggcttaagctccagatatcttagtccccctaactttttttttagAT---------AAGGTGCAAGATTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGGTATATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa Alignment from Exonerate_protein2genome CGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT tcagcaggcttaagctccagatatcttagtccccctaactttttttttAGATAAGGTGCAAGATTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGGTATATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa Alignment from Exonerate_coding2genome CGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT tcagcaggcttaagctccagatatcttagtccccctaactttttttttAGATAAGGTGCAAGATTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGGTATATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa Alignment from GeneWise ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT tcagcaggcttaagctccagatatcttagtccccctaactttttttttagAT---------AAGGTGCAAGATTCCCAGCTAGTACGTATGTTCCTAATGATGTATCCATGGTATATACCTTCCACTCAGTTGGCTTCAAAACTGCTCCACTTgtgagtttggtggtccataacattggaagatgttgagtgtctagtaccaa #### Rbp4_ID7524_3 --> 0 - 2 Original Alignment TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGag ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagTTTTCAGGGCTCTTGTATACTATTGCA---AAGGGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACAT------aggtacaatcagcagaacctgagtgcagtactgtcactttagccaaataagg Alignment from CESAR TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGag ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagTTTTCAGGGCTCTTGTATACTATTGCA---AAGGGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACAT------aggtacaatcagcagaacctgagtgcagtactgtcactttagccaaataagg Alignment from Spaln_aa2Genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCT ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagTTTTCAGGGCTCTTGTATACTATTGCA---AAGGGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATAGgtacaatcagcagaacctgagtgcagtactgtcactttagccaaataagg Alignment from Spaln_nt2Genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCT ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagTTTTCAGGGCTCTTGTATACTATTGC---AAAGGGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATAGgtacaatcagcagaacctgagtgcagtactgtcactttagccaaataagg Alignment from Pairagon TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagTTTTCAGGGCTCTTGTATACTATTGC---AAAGGGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGAC--------------AGgtacataggtacaatcagcagaacctgagtgcagtactgtcactttagccaaataagg Alignment from Exonerate_protein2genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGA ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagTTTTCAGGGCTCTTGTATACTATTGCA---AAGGGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGgtacataggtacaatcagcagaacctgagtgcagtactgtcactttagccaaataagg Alignment from Exonerate_coding2genome TTCGACAAGGCTCGTTTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGA ctaacttagttgggaggtgaacttaggcttaaatgTTCATCTCAATTCAGTTTTCAGGGCTCTTGTATACTATTGCA---AAGGGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGgtacataggtacaatcagcagaacctgagtgcagtactgtcactttagccaaataagg Alignment from GeneWise TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCT ctaacttagttgggaggtgaacttaggcttaaatgttcatctcaattcagTTTTCAGGGCTCTTGTATACTATTGCAAAG---GGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATAGgtacaatcagcagaacctgagtgcagtactgtcactttagccaaataagg #### Rbp4_ID7525_2 --> 0 - 0 Original Alignment ---GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT tatgggcattgctttgcttttaaccctgtgcttgcataccttctcctcagCCTGGCAGTCTCCGAGGTGCAATGGCATGGGTGTGGGCACTTGTGCTTCTGTCAGCCCTTGGAGGTGGTAGCACAGAGTATGAG------TTAAGCAGCTTTCAAGTTAAAGATAACTTTGACAAAGCTCATgtattattcaactaacttagttgggaggtgaacttaggctatctcatgct Alignment from CESAR ---GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT tatgggcattgctttgcttttaaccctgtgcttgcataccttctcctcagCCTGGCAGTCTCCGAGGTGCAATGGCATGGGTGTGGGCACTTGTGCTTCTGTCAGCCCTTGGAGGTGGTAGCACAGAGTATGAG------TTAAGCAGCTTTCAAGTTAAAGATAACTTTGACAAAGCTCATgtattattcaactaacttagttgggaggtgaacttaggcttaaatgttca Alignment from Spaln_aa2Genome ---GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCG tatgggcattgctttgcttttaaccctgtgcttgcataccttctcctcagCCTGGCAGTCTCCGAGGTGCAATGGCATGGGTGTGGGCACTTGTGCTTCTGTCAGCCCTTGGAGGTGGTAGCACAGAGTATGAG------TTAAGCAGCTTTCAAGTTAAAGATAACTTTGACAAAGCTCATgtattattcaactaacttagttgggaggtgaacttaggctatctcatgct Alignment from Spaln_nt2Genome ---GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT tatgggcattgctttgcttttaaccctgtgcttgcataccttctcctcagCCTGGCAGTCTCCGAGGTGCAATGGCATGGGTGTGGGCACTTGTGCTTCTGTCAGCCCTTGGAGGTGGTAGCACAGAGTATGA------GTTAAGCAGCTTTCAAGTTAAAGATAACTTTGACAAAGCTCATgtattattcaactaacttagttgggaggtgaacttaggctatctcatgct Alignment from Pairagon ---GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT tatgggcattgctttgcttttaaccctgtgcttgcataccttctcctcagCCTGGCAGTCTCCGAGGTGCAATGGCATGGGTGTGGGCACTTGTGCTTCTGTCAGCCCTTGGAGGTGGTAGCACAGAGTATGAGT------TAAGCAGCTTTCAAGTTAAAGATAACTTTGACAAAGCTCATgtattattcaactaacttagttgggaggtgaacttaggctatctcatgct Alignment from Exonerate_protein2genome GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT tatgggcattgctttgcttttaaccctgtgcttgcataccttctcctcagcctGGCAGTCTCCGAGGTGCAATGGCATGGGTGTGGGCACTTGTGCTTCTGTCAGCCCTTGGAGGTGGTAGCACAGAGTATGAG------TTAAGCAGCTTTCAAGTTAAAGATAACTTTGACAAAGCTCATgtattattcaactaacttagttgggaggtgaacttaggctatctcatgct Alignment from Exonerate_coding2genome tatgggcattgctttgcttttaaccctgtgcttgcataccttctcctcagcctggcagtctccgaggtgcaatggcatgggtgtgggcacttgtgcttctgtcagcccttggaggtggtagcacagagtatgagttaagcagctttcaagttaaagataactttgacaaagctcatgtattattcaactaacttagttgggaggtgaacttaggctatctcatgct Alignment from GeneWise ---GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT tatgggcattgctttgcttttaaccctgtgcttgcataccttctcctcagCCTGGCAGTCTCCGAGGTGCAATGGCATGGGTGTGGGCACTTGTGCTTCTGTCAGCCCTTGGAGGTGGTAGCACAGAGTATGAG------TTAAGCAGCTTTCAAGTTAAAGATAACTTTGACAAAGCTCATgtattattcaactaacttagttgggaggtgaacttaggctatctcatgct #### Rce1_ID577_5 --> 2 - 1 Original Alignment ccCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCg ccCATTTTCACCAC gctagtttaaacaagtgggtgagggtagctcacgcctctctctcccgcagcg---------------------CTGACTGAAATGCGCTGGCTGAGTAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCGGTGTTCACATGCCCACTCTTTCTTGGGGTTggtaagtctgttgtgtctccttgtcatgcttttccagccCATTTTCAGCAC Alignment from CESAR ccCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCg ccCATTTTCACCAC gtagttttgttcaaacaggtggctatagctcacgcctctctctcccgcagcg---------------------CTGACTGAAATGCGCTGGCTGAGTAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCGGTGTTCACATGCCCACTCTTTCTTGGGGTTggtaagtctgttgtgcgttagccttcttttcttgtagccCATTTTCAGCAC Alignment from Spaln_aa2Genome TGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTC GCCCATTTTCACCAC gctagtttaaacaagtgggtgagggtagctcacgcctctctctcccgcagCGCTGACTGAAATGCGCTGGCTGAGTAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCGGTGTTCACATGCCCACTCTTTCTTGGGGTTGgtaagtctgttgtgtctccttgtcatgcttttccagCCCATTTTCAGCAC Alignment from Spaln_nt2Genome CCCCTCGTTCTTGGGCCCGCTGC-CTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCAC gctagtttaaacaagtgggtgagggtagCTCACGCCTCTCTCTCCCGCAGCGCTGACTGAAATGCGCTGGCTGAGTAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCGGTGTTCACATGCCCACTCTTTCTTGGGGTTGgtaagtctgttgtgtctccttgtcatgcttttccagCCCATTTTCAGCAC Alignment from Pairagon CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCAC gctagtttaaacaagtgggtgagggtagctcacgcctctctctcccgcag-----------------CGCTGACT----GAAATGCGCTGGCTGAGTAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCGGTGTTCACATGCCCACTCTTTCTTGGGGTTGgtaagtctgttgtgtctccttgtcatgcttttccagCCCATTTTCAGCAC Alignment from Exonerate_protein2genome GCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCAC gctagtttaaacaagtgggtgagggtagctcacgcctctctctcccgCAGCGCTGACTGAAATGCGCTGGCTGAGTAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCGGTGTTCACATGCCCACTCTTTCTTGGGGTTGgtaagtctgttgtgtctccttgtcatgcttttccagCCCATTTTCAGCAC Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTGGCCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTC------------------------------------GCCCATTTTCACCAC agtttaaacaagtgggtgagggtagCTCACGCCTCTCTCTCCCGCA---GCGCTGACTGAAATGCGCTGGCTGAGTAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCGGTGTTCACATGCCCACTCTTTCTTGGGGTTGGTAAGTCTGTTGTGTCTCCTTGTCATGCTTTTCCAGCCCATTTTCAGCAC #### Rcor2_ID2095_6 --> 1 - 0 Original Alignment tGATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG--------- tggataggtatgatcctcccttatctgcctcttttctctgtccatctcagtGATGAAGTAGATGAGGGGCAGCGGGCCGTCAGTGAGGGGGATCCAGATACTGGGGATCCCAAGCAGAAGCTGCGTCAGgtaagctccatgccatattgtatcccatgccatactaaccctcttgccgg Alignment from CESAR tGATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAG---------CGAGAG tggataggtatgatcctcccttatctgcctcttttctctgtccatctcagtGATGAAGTAGATGAGGGGCAGCGGGCCGTCAGTGAGGGGGATCCAGATACTGGGGATCCCAAGCAGAAGCTGCGTCAGgtaagctccatgccatattgtatcccatgccatactaaccctcttgccgg Alignment from Spaln_aa2Genome TGATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAG---------CGAGAG tggataggtatgatcctcccttatctgcctcttttctctgtccatctcagTGATGAAGTAGATGAGGGGCAGCGGGCCGTCAGTGAGGGGGATCCAGATACTGGGGATCCCAAGCAGAAGCTGCGTCAGgtaagctccatgccatattgtatcccatgccatactaaccctcttgccgg Alignment from Spaln_nt2Genome TGATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tggataggtatgatcctcccttatctgcctcttttctctgtccatctcagTGATGAAGTAGATGAGGGGCAGCGGGCCGTCAGTGAGGGGGATCCAGATACTGGGGATCCCAAGC-AGAAgctgcgtcaggtaagctccatgccatattgtatcccatgccatactaaccctcttgccgg Alignment from Pairagon TGATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAA---------GCGAGAG tggataggtatgatcctcccttatctgcctcttttctctgtccatctcagTGATGAAGTAGATGAGGGGCAGCGGGCCGTCAGTGAGGGGGATCCAGATACTGGGGATCCCAAGCAGAAGCTGCGTCAGgtaagctccatgccatattgtatcccatgccatactaaccctcttgccgg Alignment from Exonerate_protein2genome TGATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tggataggtatgatcctcccttatctgcctcttttctctgtccatctcagTGATGAAGTAGATGAGGGGCAGCGGGCCGTCAGTGAGGGGGATCCAGATACTGGGGATCCCAAGCAGAAGctgcgtcaggtaagctccatgccatattgtatcccatgccatactaaccctcttgccgg Alignment from Exonerate_coding2genome TGATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tggataggtatgatcctcccttatctgcctcttttctctgtccatctcagTGATGAAGTAGATGAGGGGCAGCGGGCCGTCAGTGAGGGGGATCCAGATACTGGGGATCCCAAGCAGAAGctgcgtcaggtaagctccatgccatattgtatcccatgccatactaaccctcttgccgg Alignment from GeneWise TGATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAG---------CGAGAG tggataggtatgatcctcccttatctgcctcttttctctgtccatctcagTGATGAAGTAGATGAGGGGCAGCGGGCCGTCAGTGAGGGGGATCCAGATACTGGGGATCCCAAGCAGAAGCTGCGTCAGgtaagctccatgccatattgtatcccatgccatactaaccctcttgccgg #### Rcor2_ID2099_10 --> 2 - 0 Original Alignment ctATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG--------- GTCC ggaccagctgttttgtccacattcagacatagttctactctgtcctgcagccATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCTCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGAAGAGACCTgtacgggacctctctatgaaacatttgttttgtcttttatatctagGTAC Alignment from CESAR ctATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG--------- GTCC ggaccagctgttttgtccacattcagacatagttctactctgtcctgcagccATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCTCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGAAGAGACCTgtacgggacctctctatgaaacatctgctgctctctgtgttttcagGTAC Alignment from Spaln_aa2Genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG--------- GTCC ggaccagctgttttgtccacattcagacatagttctactctgtcctgcagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCTCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGAAGAGACCTgtacgggacctctctatgaaacatttgttttgtcttttatatctagGTAC Alignment from Spaln_nt2Genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG--------- GTCC ggaccagctgttttgtccacattcagacatagttctactctgtcctgcagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCTCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGAAGAGACCTgtacgggacctctctatgaaacatttgttttgtcttttatatctagGTAC Alignment from Pairagon CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATG-------------------------------------------------------AGGTCC ggaccagctgttttgtccacattcagacatagttctactctgtcctgcagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCTCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGAAGAGACCTGTACGGGACCTCTCTATGAAACATTTGTTTTGTCTTTTATATCTAGGTAC Alignment from Exonerate_protein2genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCC ggaccagctgttttgtccacattcagacatagttctactctgtcctgcagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCTCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGaagagacctgtacgggacctctctatgaaacatttgttttgtcttttatatctagGTAC Alignment from Exonerate_coding2genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATG ATGA ggaccagctgttttgtccacattcagacatagttctactctgtcctgcagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCTCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGataagaagagacctgtacgggacctctctatgaaacatttgttttgtcttttatatctag---- Alignment from GeneWise CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG--------- GTCC ggaccagctgttttgtccacattcagacatagttctactctgtcctgcagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACGTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCTCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAGGAGGATGATAAGAAGAGACCTgtacgggacctctctatgaaacatttgttttgtcttttatatctagGTAC #### Rin1_ID809_4 --> 2 - 2 Original Alignment gt---GTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCag tgagaattgccctgatctaactggatagtatatattttgtttatttctaggaGGAATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCaggtgagcctgtctgtgcataactgctgacccgtcaagccaacttggcatgt Alignment from CESAR gt---GTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCag tgagaattgccctgatctaactggatagtatatattttgtttatttctaggaGGAATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCaggtgagcctgtctgtgcataactgctgacccgtcaagccaacttggcatgt Alignment from Spaln_aa2Genome GCGGTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgagaattgccctgatctaactggatagtatatattttgtttatttctagGAGGAATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCAGgtgagcctgtctgtgcataactgctgacccgtcaagccaacttggcatgt Alignment from Spaln_nt2Genome GCGGTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgagaattgccctgatctaactggatagtatatattttgtttatttctagGAGGAATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCAGgtgagcctgtctgtgcataactgctgacccgtcaagccaacttggcatgt Alignment from Pairagon GCGGTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgagaattgccctgatctaactggatagtatatattttgtttatttctagGAGGAATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCAGgtgagcctgtctgtgcataactgctgacccgtcaagccaacttggcatgt Alignment from Exonerate_protein2genome GCGGTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgagaattgccctgatctaactggatagtatatattttgtttatttctagGAGGAATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCAGgtgagcctgtctgtgcataactgctgacccgtcaagccaacttggcatgt Alignment from Exonerate_coding2genome GCGGTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgagaattgccctgatctaactggatagtatatattttgtttatttctagGAGGAATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCAGgtgagcctgtctgtgcataactgctgacccgtcaagccaacttggcatgt Alignment from GeneWise --GGTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgagaattgccctgatctaactggatagtatatattttgtttatttctagGAGGAATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCAGgtgagcctgtctgtgcataactgctgacccgtcaagccaacttggcatgt #### Rin1_ID812_7 --> 2 - 1 Original Alignment aaTTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAg gaagtgattccaacataaaatccactggacactccctcctccttttccagaaTTGGTGCTGGAGAAGTCCCAGCATCGCTCAGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGTCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCGAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTTTGTCAGAAGCTTCTACAGCTCCTACGCGCATACTCACCAAGTGCCCAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGC------ggtgagtataggcgaccaccaacttcccctagggctagagcacatatcaca Alignment from CESAR aaTTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAg gaagtgattccaacataaaatccactggacactccctcctccttttccagaaTTGGTGCTGGAGAAGTCCCAGCATCGCTCAGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGTCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCGAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTTTGTCAGAAGCTTCTACAGCTCCTACGCGCATACTCACCAAGTGCCCAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGC------ggtgagtataggcgaccaccaacttcccctagggctagagcacatatcaca Alignment from Spaln_aa2Genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGC- gaagtgattccaacataaaatccactggacactccctcctccttttccagAATTGGTGCTGGAGAAGTCCCAGCATCGCTCAGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGTCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCGAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTTTGTCAGAAGCTTCTACAGCTCCTACGCGCATACTCACCAAGTGCCCAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGCGgtgagtataggcgaccaccaacttcccctagggctagagcacatatcaca Alignment from Spaln_nt2Genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCC gaagtgattccaacataaaatccactggacactccctcctccttttccagAATTGGTGCTGGAGAAGTCCCAGCATCGCTCAGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGTCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCGAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTTTGTCAGAAGCTTCTACAGCTCCTACGCGCATACTCACCAAGTGCCCAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGCGgtgagtataggcgaccaccaacttcccctagggctagagcacatatcaca Alignment from Pairagon AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG gaagtgattccaacataaaatccactggacactccctcctccttttccagAATTGGTGCTGGAGAAGTCCCAGCATCGCTCAGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGTCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCGAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTTTGTCAGAAGCTTCTACAGCTCCTACGCGCATACTCACCAAGTGCCCAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGC------Ggtgagtataggcgaccaccaacttcccctagggctagagcacatatcaca Alignment from Exonerate_protein2genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCC gaagtgattccaacataaaatccactggacactccctcctccttttccagAATTGGTGCTGGAGAAGTCCCAGCATCGCTCAGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGTCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCGAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTTTGTCAGAAGCTTCTACAGCTCCTACGCGCATACTCACCAAGTGCCCAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGCGgtgagtataggcgaccaccaacttcccctagggctagagcacatatcaca Alignment from Exonerate_coding2genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCC gaagtgattccaacataaaatccactggacactccctcctccttttccagAATTGGTGCTGGAGAAGTCCCAGCATCGCTCAGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGTCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCGAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTTTGTCAGAAGCTTCTACAGCTCCTACGCGCATACTCACCAAGTGCCCAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGCGgtgagtataggcgaccaccaacttcccctagggctagagcacatatcaca Alignment from GeneWise AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCC gaagtgattccaacataaaatccactggacactccctcctccttttccagAATTGGTGCTGGAGAAGTCCCAGCATCGCTCAGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGTCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCGAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTTTGTCAGAAGCTTCTACAGCTCCTACGCGCATACTCACCAAGTGCCCAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGCGgtgagtataggcgaccaccaacttcccctagggctagagcacatatcaca #### Rin1_ID813_8 --> 2 - 1 Original Alignment gaGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTC---ACTGGAGAGg taaattccaaacctcaagtacacttgctttctttcatcttttgtctttagga------ACAGGTGCTGATCAGTTCCTCCCCCTGCTAAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACCGCAGGTGAGggtaccgatcactcttatatagtatgacctggtacttgttagtaggtcctt Alignment from CESAR gaGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACT---GGAGAGg tgactctaaattccaaacctcaagtgctttctttcatcttttgtctttagga------ACAGGTGCTGATCAGTTCCTCCCCCTGCTAAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACCGCAGGTGAGggtaccgatcactcttatatagtatgacctggtacttgttagtaggtcctt Alignment from Spaln_aa2Genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACT---GGAGAGG taaattccaaacctcaagtacacttgctttctttcatcttttgtctttagGA------ACAGGTGCTGATCAGTTCCTCCCCCTGCTAAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACCGCAGGTGAGGgtaccgatcactcttatatagtatgacctggtacttgttagtaggtcctt Alignment from Spaln_nt2Genome ATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAG---AGG taaattccaaacctcaagtacacttgctttctttcatcttttgtctttagGAACAGGTGCTGATCAGTTCCTCCCCCTGCTAAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACCGCAGGTGAGGgtaccgatcactcttatatagtatgacctggtacttgttagtaggtcctt Alignment from Pairagon GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAG taaattccaaacctcaagtacacttgctttctttcatcttttgtctttagGA------ACAGGTGCTGATCAGTTCCTCCCCCTGCTAAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACCGCAGgtgagggtaccgatcactcttatatagtatgacctggtacttgttagtaggtcctt Alignment from Exonerate_protein2genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAGAGG taaattccaaacctcaagtacacttgctttctttcatcttttgtctttagGA------ACAGGTGCTGATCAGTTCCTCCCCCTGCTAAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACCGCA---Ggtgagggtaccgatcactcttatatagtatgacctggtacttgttagtaggtcctt Alignment from Exonerate_coding2genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAGAGG taaattccaaacctcaagtacacttgctttctttcatcttttgtctttagGA------ACAGGTGCTGATCAGTTCCTCCCCCTGCTAAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACCGCA---Ggtgagggtaccgatcactcttatatagtatgacctggtacttgttagtaggtcctt Alignment from GeneWise GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACT---GGAGAGG taaattccaaacctcaagtacacttgctttctttcatcttttgtctttagGA------ACAGGTGCTGATCAGTTCCTCCCCCTGCTAAGTCTTATTTTGGCACAGTGTGACCTGCCAGACCTCTTATTGGAAGCTGAGTATATGTCAGAGCTTCTTGAACCAACTCTACTCACCGCAGGTGAGGgtaccgatcactcttatatagtatgacctggtacttgttagtaggtcctt #### Rpp30_ID7088_8 --> 0 - 0 Original Alignment AATGTAATTCTGTCCAGTGCTGCAGAAAGG--- tagtatgcaactggtcattgatttctctgactcgaatcttctttttacagAATGTTATTCTGTCAAGTACAGCAGCAAGAAGAgtaggcttagggcactggcagtggttaagacacttaacataggcaactct Alignment from CESAR AATGTAATTCTGTCCAGT---GCTGCAGAAAGG tagtatgcaactggtcattgatttctctgactcgaatcttctttttacagAATGTTATTCTGTCAAGTACAGCAGCAAGAAGAgtaggcttagggcactggcagtggttaagacacttaacataggcaactct Alignment from Spaln_aa2Genome AATGTAATTCTGTCCAGT---GCTGCAGAAAGG tagtatgcaactggtcattgatttctctgactcgaatcttctttttacagAATGTTATTCTGTCAAGTACAGCAGCAAGAAGAgtaggcttagggcactggcagtggttaagacacttaacataggcaactct Alignment from Spaln_nt2Genome AATGTAATTCTGTCCAGTGCTGCA tagtatgcaactggtcattgatttctctgactcgaatcttctttttacagAATGTTATTCTGTCAAGTACAGCAgcaagaagagtaggcttagggcactggcagtggttaagacacttaacataggcaactct Alignment from Pairagon AATGTAATTCTGTCCAGTGCTGCAGAAAGG--- tagtatgcaactggtcattgatttctctgactcgaatcttctttttacagAATGTTATTCTGTCAAGTACAGCAGCAAGAAGAgtaggcttagggcactggcagtggttaagacacttaacataggcaactct Alignment from Exonerate_protein2genome AATGTAATTCTGTCCAGT---GCTGCAGAAAGG tagtatgcaactggtcattgatttctctgactcgaatcttctttttacagAATGTTATTCTGTCAAGTACAGCAGCAAGAAGAgtaggcttagggcactggcagtggttaagacacttaacataggcaactct Alignment from Exonerate_coding2genome tagtatgcaactggtcattgatttctctgactcgaatcttctttttacagaatgttattctgtcaagtacagcagcaagaagagtaggcttagggcactggcagtggttaagacacttaacataggcaactct Alignment from GeneWise tagtatgcaactggtcattgatttctctgactcgaatcttctttttacagaatgttattctgtcaagtacagcagcaagaagagtaggcttagggcactggcagtggttaagacacttaacataggcaactct #### Rps6ka4_ID1805_15 --> 0 - 1 Original Alignment TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGA---g tgaccatgtgttccacttgtgggtaattgtgtagcttctgtctcctctagTACATGATGCTCTCTAGCCAGGTCCCATTTCAAGGTGCTCCAGGACAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCACGTTTCTCCCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCAAAGGAGCTGGTTAGGTATggtagtttggaggtaagacctgattaaggaaacagcaatgtaggatcccca Alignment from CESAR TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGA---g tgaccatgtgttccacttgtgggtaattgtgtagcttctgtctcctctagTACATGATGCTCTCTAGCCAGGTCCCATTTCAAGGTGCTCCAGGACAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCACGTTTCTCCCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCAAAGGAGCTGGTTAGGTATggtagtttggaggtaagacctgattaaggaaacagcaatgtaggatcccca Alignment from Spaln_aa2Genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGA---G tgaccatgtgttccacttgtgggtaattgtgtagcttctgtctcctctagTACATGATGCTCTCTAGCCAGGTCCCATTTCAAGGTGCTCCAGGACAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCACGTTTCTCCCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCAAAGGAGCTGGTTAGGTATGgtagtttggaggtaagacctgattaaggaaacagcaatgtaggatcccca Alignment from Spaln_nt2Genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGAG tgaccatgtgttccacttgtgggtaattgtgtagcttctgtctcctctagTACATGATGCTCTCTAGCCAGGTCCCATTTCAAGGTGCTCCAGGACAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCACGTTTCTCCCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCAAAGGAGCTGGT--TAGgtatggtagtttggaggtaagacctgattaaggaaacagcaatgtaggatcccca Alignment from Pairagon TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCG------------------------------------------------------- tgaccatgtgttccacttgtgggtaattgtgtagcttctgtctcctctagTACATGATGCTCTCTAGCCAGGTCCCATTTCAAGGTGCTCCAGGACAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCACGTTTCTCCCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCAAAGGAGCTGGTTAGGTATGGTAGTTTGGAGGTAAGACCTGATTAAGGAAACAGCAATGTAGGATCCCCA Alignment from Exonerate_protein2genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCG tgaccatgtgttccacttgtgggtaattgtgtagcttctgtctcctctagTACATGATGCTCTCTAGCCAGGTCCCATTTCAAGGTGCTCCAGGACAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCACGTTTCTCCCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCAAAGGAGCTGGTTAGgtatggtagtttggaggtaagacctgattaaggaaacagcaatgtaggatcccca Alignment from Exonerate_coding2genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCG tgaccatgtgttccacttgtgggtaattgtgtagcttctgtctcctctagTACATGATGCTCTCTAGCCAGGTCCCATTTCAAGGTGCTCCAGGACAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCACGTTTCTCCCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCAAAGGAGCTGGTTAGgtatggtagtttggaggtaagacctgattaaggaaacagcaatgtaggatcccca Alignment from GeneWise TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGAGGG- tgaccatgtgttccacttgtgggtaattgtgtagcttctgtctcctctagTACATGATGCTCTCTAGCCAGGTCCCATTTCAAGGTGCTCCAGGACAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCACGTTTCTCCCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCAAAGGAGCTGGTTAGGTATGgtagtttggaggtaagacctgattaaggaaacagcaatgtaggatcccca #### Rps6ka4_ID1808_12 --> 1 - 0 Original Alignment gCTGGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG--------- tgatttggcgtgacagcacaatttacttactcacagccacctcctcacaggCTTGAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGTCAGTCACACCCCAATGTGGTGAATCTTCATGAGGTGCTTCATGATCAGAAAATCCATgtaagtatagcttgttattgaccactcatgtagagagctagaaggtggaa Alignment from CESAR gCTGGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG--------- tgatttggcgtgacagcacaatttacttactcacagccacctcctcacaggCTTGAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGTCAGTCACACCCCAATGTGGTGAATCTTCATGAGGTGCTTCATGATCAGAAAATCCATgtaagtatagcttgttattgaccactcatgtagagagctagaaggtggaa Alignment from Spaln_aa2Genome GCTGGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG--------- tgatttggcgtgacagcacaatttacttactcacagccacctcctcacagGCTTGAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGTCAGTCACACCCCAATGTGGTGAATCTTCATGAGGTGCTTCATGATCAGAAAATCCATgtaagtatagcttgttattgaccactcatgtagagagctagaaggtggaa Alignment from Spaln_nt2Genome GCTGGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG--------- tgatttggcgtgacagcacaatttacttactcacagccacctcctcacagGCTTGAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGTCAGTCACACCCCAATGTGGTGAATCTTCATGAGGTGCTTCATGATCAGAAAATCCATgtaagtatagcttgttattgaccactcatgtagagagctagaaggtggaa Alignment from Pairagon GCTGGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG--------- tgatttggcgtgacagcacaatttacttactcacagccacctcctcacagGCTTGAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGTCAGTCACACCCCAATGTGGTGAATCTTCATGAGGTGCTTCATGATCAGAAAATCCATgtaagtatagcttgttattgaccactcatgtagagagctagaaggtggaa Alignment from Exonerate_protein2genome GCTGGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG tgatttggcgtgacagcacaatttacttactcacagccacctcctcacagGCTTGAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGTCAGTCACACCCCAATGTGGTGAATCTTCATGAGGTGCTTCATGATCAGaaaatccatgtaagtatagcttgttattgaccactcatgtagagagctagaaggtggaa Alignment from Exonerate_coding2genome GCTGGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG tgatttggcgtgacagcacaatttacttactcacagccacctcctcacagGCTTGAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGTCAGTCACACCCCAATGTGGTGAATCTTCATGAGGTGCTTCATGATCAGaaaatccatgtaagtatagcttgttattgaccactcatgtagagagctagaaggtggaa Alignment from GeneWise GCTGGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG--------- tgatttggcgtgacagcacaatttacttactcacagccacctcctcacagGCTTGAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGTCAGTCACACCCCAATGTGGTGAATCTTCATGAGGTGCTTCATGATCAGAAAATCCATgtaagtatagcttgttattgaccactcatgtagagagctagaaggtggaa #### Rps6ka4_ID1818_2 --> 2 - 1 Original Alignment ccAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAg tcttcttcatcctgtctcttcttattggacagtgtcttttttttccacagcc---------------GAGGAGAAGGTTAGTGTGGAGAACTTTGCGCTGCTCAAGGTGCTGGGCACAGGAggtatgtaacaacatttctgggctggacactgagaggttggggatgttgtg Alignment from CESAR ccAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAg tgagggggataagtgtcttcttcattggacagtgtcttttttttccacagcc---------------GAGGAGAAGGTTAGTGTGGAGAACTTTGCGCTGCTCAAGGTGCTGGGCACAGGAggtatgtaacaacatttctgggctggacactgagaggttggggatgttgtg Alignment from Spaln_aa2Genome CCAAC---CTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAG tcttcttcatcctgtctcttcttattggacagTGTCTTTTTTTTCCACAGCCGAGGAGAAGGTTAGTGTGGAGAACTTTGCGCTGCTCAAGGTGCTGGGCACAGGAGgtatgtaacaacatttctgggctggacactgagaggttggggatgttgtg Alignment from Spaln_nt2Genome CCAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAG tcttcttcatcctgtctcttcttattggacagtgtcttttttttccacagCC---------------GAGGAGAAGGTTAGTGTGGAGAACTTTGCGCTGCTCAAGGTGCTGGGCACAGGAGgtatgtaacaacatttctgggctggacactgagaggttggggatgttgtg Alignment from Pairagon CCAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAG tcttcttcatcctgtctcttcttattggacagtgtcttttttttccacagCC---------------GAGGAGAAGGTTAGTGTGGAGAACTTTGCGCTGCTCAAGGTGCTGGGCACAGGAGgtatgtaacaacatttctgggctggacactgagaggttggggatgttgtg Alignment from Exonerate_protein2genome CCAAC---CTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAG tcttcttcatcctgtctcttcttattggacagTGTCTTTTTTTTCCACAGCCGAGGAGAAGGTTAGTGTGGAGAACTTTGCGCTGCTCAAGGTGCTGGGCACAGGAGgtatgtaacaacatttctgggctggacactgagaggttggggatgttgtg Alignment from Exonerate_coding2genome GAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAG tcttcttcatcctgtctcttcttattggacagtgtcttttttttccacagccGAGGAGAAGGTTAGTGTGGAGAACTTTGCGCTGCTCAAGGTGCTGGGCACAGGAGgtatgtaacaacatttctgggctggacactgagaggttggggatgttgtg Alignment from GeneWise ----------------------------------------CTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAG TCTTCTTCATCCTGTCTCTTCTTATTGGACAGTGTCTTTTTTTTCCACAGCCGAGGAGAAGGTTAGTGTGGAGAACTTTGCGCTGCTCAAGGTGCTGGGCACAGGAGgtatgtaacaacatttctgggctggacactgagaggttggggatgttgtg #### Rps6kb2_ID368_14 --> 0 - 2 Original Alignment GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCag ggacggggttgtgccacctggctttactgttcgattaccttcctttccagAGTTTTATGTATGTGGCGCCTTTTGTCCTAGACAGCATCAAAGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTCTCCACGATGCCTTAACAGCAGTCCCCGCACACCC---aggtgagtactggcagggcagataaatgtctagactgtgactttcaaacatg Alignment from CESAR GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCag ggacggggttgtgccacctggctttactgttcgattaccttcctttccagAGTTTTATGTATGTGGCGCCTTTTGTCCTAGACAGCATCAAAGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTCTCCACGATGCCTTAACAGCAGTCCCCGCACACCC---aggtgagtactggcagggcagataaatgtctagactgtgactttcaaacatg Alignment from Spaln_aa2Genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCAT ggacggggttgtgccacctggctttactgttcgattaccttcctttccagAGTTTTATGTATGTGGCGCCTTTTGTCCTAGACAGCATCAAAGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTCTCCACGATGCCTTAACAGCAGTCCCCGCACACCCAGgtgagtactggcagggcagataaatgtctagactgtgactttcaaacatg Alignment from Spaln_nt2Genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG ggacggggttgtgccacctggctttactgttcgattaccttcctttccagAGTTTTATGTATGTGGCGCCTTTTGTCCTAGACAGCATCAAAGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTCTCCACGATGCCTTAACAGCAGTCCCCGCACACC---CAGgtgagtactggcagggcagataaatgtctagactgtgactttcaaacatg Alignment from Pairagon GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG ggacggggttgtgccacctggctttactgttcgattaccttcctttccagAGTTTTATGTATGTGGCGCCTTTTGTCCTAGACAGCATCAAAGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTCTCCACGATGCCTTAACAGCAGTCCCCGCACACC---CAGgtgagtactggcagggcagataaatgtctagactgtgactttcaaacatg Alignment from Exonerate_protein2genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG ggacggggttgtgccacctggctttactgttcgattaccttcctttccagAGTTTTATGTATGTGGCGCCTTTTGTCCTAGACAGCATCAAAGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTCTCCACGATGCCTTAACAGCAGTCCCCGCACACCC---AGgtgagtactggcagggcagataaatgtctagactgtgactttcaaacatg Alignment from Exonerate_coding2genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG ggacggggttgtgccacctggctttactgttcgattaccttcctttccagAGTTTTATGTATGTGGCGCCTTTTGTCCTAGACAGCATCAAAGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTCTCCACGATGCCTTAACAGCAGTCCCCGCACACCC---AGgtgagtactggcagggcagataaatgtctagactgtgactttcaaacatg Alignment from GeneWise GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCAT ggacggggttgtgccacctggctttactgttcgattaccttcctttccagAGTTTTATGTATGTGGCGCCTTTTGTCCTAGACAGCATCAAAGAAGGTTTTTCATTCCAGCCCAAGCTGCGTTCTCCACGATGCCTTAACAGCAGTCCCCGCACACCCAGgtgagtactggcagggcagataaatgtctagactgtgactttcaaacatg #### Rps6kb2_ID369_13 --> 0 - 0 Original Alignment CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG--------- tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCTTCATGCGACAAACTCCAGTCGGTACCCCTGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAATGCCGTCAgtgagtcgctggattatgagaaaggacggggttgtgccacctggctttac Alignment from CESAR CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG--------- tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCTTCATGCGACAAACTCCAGTCGGTACCCCTGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAATGCCGTCAgtgagtcgctggattatgagaaaggacggggttgtgccacctggctttac Alignment from Spaln_aa2Genome CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTGGG tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCTTCATGCGACAAACTCCAGTCGGTACCCCTGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAATgccgtcagtgagtcgctggattatgagaaaggacggggttgtgccacctggctttac Alignment from Spaln_nt2Genome CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTGG---- tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCTTCATGCGACAAACTCCAGTCGGTACCCCTGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAATGCCgtcagtgagtcgctggattatgagaaaggacggggttgtgccacctggctttac Alignment from Pairagon CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCT------------------------------------------------------------ tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCTTCATGCGACAAACTCCAGTCGGTACCCCTGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAATGCCGTCAGTGAGTCGCTGGATTATGAGAAAGGACGGGGTTGTGCCACCTGGCTTTAC Alignment from Exonerate_protein2genome CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCTTCATGCGACAAACTCCAGTCGGTACCCCTGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAatgccgtcagtgagtcgctggattatgagaaaggacggggttgtgccacctggctttac Alignment from Exonerate_coding2genome CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCTTCATGCGACAAACTCCAGTCGGTACCCCTGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAatgccgtcagtgagtcgctggattatgagaaaggacggggttgtgccacctggctttac Alignment from GeneWise CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTGGGC-- tattggggttttcagtaccccagatcattcttgtctggcttctcccttagCAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGCTTCATGCGACAAACTCCAGTCGGTACCCCTGATGACACACCACTGACTGAGTGCGCCAACCAAGCCTTCTTAATGCCgtcagtgagtcgctggattatgagaaaggacggggttgtgccacctggctttac #### Rps6kb2_ID370_12 --> 0 - 0 Original Alignment AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG tcttagtataatcaggtcgaggcatagtgtttcctttgctttttttctag------------------------------GATGACCCCTTAGCCTGCTGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtgggtacatggacattggtattcgttactcactattggggttttcagta Alignment from CESAR AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG acaagccaagttgacatagtggcatagtgtttcctttgctttttttctag------------------------------GATGACCCCTTAGCCTGCTGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtgggtacatggacattggtattcgttactcactattggggttttcagta Alignment from Spaln_aa2Genome AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG tcttagtataatcaggtcgaggcatagtgtttcctttgctttttttctag------------------------------GATGACCCCTTAGCCTGCTGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtgggtacatggacattggtattcgttactcactattggggttttcagta Alignment from Spaln_nt2Genome ----AGGCACCCCTTTTTCCGGCACATCAATTG--GGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG cttagtataatcagGTCGAGGCA-TAGTGTTTCCTTTGCTTTTTTTCTAGGATGACCCCTTAGCCTGCTGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtgggtacatggacattggtattcgttactcactattggggttttcagta Alignment from Pairagon AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG tcttagtataatcaggtcgaggcatagtgtttcctttgctttttttctag------------------------------GATGACCCCTTAGCCTGCTGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtgggtacatggacattggtattcgttactcactattggggttttcagta Alignment from Exonerate_protein2genome tcttagtataatcaggtcgaggcatagtgtttcctttgctttttttctaggatgaccccttagcctgctgtgtggaccctctcttcaggccaagtctggtgggtacatggacattggtattcgttactcactattggggttttcagta Alignment from Exonerate_coding2genome AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG tcttagtataatcaggtcgaGGCATAGTGTTTCCTTTGCTTTTTTTCTAGGATGACCCCTTAGCCTGCTGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtgggtacatggacattggtattcgttactcactattggggttttcagta Alignment from GeneWise --------GTGGACCCTCCCTTCAGGCCAAGTCTG tcttagtataatcaggtcgaggcatagtgtttcctttgctttttttctaggatgaccccttagCCTGCTGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtgggtacatggacattggtattcgttactcactattggggttttcagta #### Rps6kb2_ID371_11 --> 0 - 0 Original Alignment TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG--------------------------------------- tcttgaccgcctttgttcattttcacccttcctcttctctcctgaattagTTACTGAAGCGAAATCCAACGCAGCAAATTGGGGATGATTTGGGAGATGCTGCTGATGTCCAGTTCTTGCCTTTCGAAGAATTGTACATGCCTTTCTGGCTGgtatgtagatccgttgcttaacctgctggagaacacagagatcgagaaca Alignment from CESAR TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG tcttgaccgcctttgttcattttcacccttcctcttctctcctgaattagTTACTGAAGCGAAATCCAACGCAGCAAATTGGGGATGATTTGGGAGATGCTGCTGATGTCCAGttcttgcctttcgaagaattgtacatgcctttctggctggtatgtagatccgttgcttaacctgctggagaacacagagatcgagaaca Alignment from Spaln_aa2Genome CCTCCCTCAGGAACCAAGAAGTCCAAGAAGGGACGGGGCCGCTCAGGGCGT agcactgccagttgcatacaaatcacttatctggtcatcttctccctgcag Alignment from Spaln_nt2Genome TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCA tcttgaccgcctttgttcattttcacccttcctcttctctcctgaattagTTACTGAAGCGAAATCCAACGCAGCAAATTGGGGATGATTTGGGAGATGCTGCTGATGTCCAgttcttgcctttcgaagaattgtacatgcctttctggctggtatgtagatccgttgcttaacctgctggagaacacagagatcgagaaca Alignment from Pairagon TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG--------------------------------------- tcttgaccgcctttgttcattttcacccttcctcttctctcctgaattagTTACTGAAGCGAAATCCAACGCAGCAAATTGGGGATGATTTGGGAGATGCTGCTGATGTCCAGTTCTTGCCTTTCGAAGAATTGTACATGCCTTTCTGGCTGgtatgtagatccgttgcttaacctgctggagaacacagagatcgagaaca Alignment from Exonerate_protein2genome TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG tcttgaccgcctttgttcattttcacccttcctcttctctcctgaattagTTACTGAAGCGAAATCCAACGCAGCAAATTGGGGATGATTTGGGAGATGCTGCTGATGTCCAGttcttgcctttcgaagaattgtacatgcctttctggctggtatgtagatccgttgcttaacctgctggagaacacagagatcgagaaca Alignment from Exonerate_coding2genome TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG tcttgaccgcctttgttcattttcacccttcctcttctctcctgaattagTTACTGAAGCGAAATCCAACGCAGCAAATTGGGGATGATTTGGGAGATGCTGCTGATGTCCAGttcttgcctttcgaagaattgtacatgcctttctggctggtatgtagatccgttgcttaacctgctggagaacacagagatcgagaaca Alignment from GeneWise TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTC-- tcttgaccgcctttgttcattttcacccttcctcttctctcctgaattagTTACTGAAGCGAAATCCAACGCAGCAAATTGGGGATGATTTGGGAGATGCTGCTGATGTCCAgttcttgcctttcgaagaattgtacatgcctttctggctggtatgtagatccgttgcttaacctgctggagaacacagagatcgagaaca #### Rps6kb2_ID372_10 --> 0 - 0 Original Alignment CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG gcattgagctcttccttgcacttaaattactttgtcaatgtttcctctag---------ACTGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAAGTTA---CTCCCACCGGATCTTATGCCTGATGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc Alignment from CESAR CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG agggcgactgcattgagctcttcctattactttgtcaatgtttcctctag---------ACTGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAAGTTA---CTCCCACCGGATCTTATGCCTGATGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc Alignment from Spaln_aa2Genome CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG gcattgagctcttccttgcacttaaattactttgtcaatgtttcctctag---------ACTGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAAGTTA---CTCCCACCGGATCTTATGCCTGATGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc Alignment from Spaln_nt2Genome ACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG gcattgagctcttccttgcacttaaattactttgtcaatgtttcctctagACTGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAA---GTTACTCCCACCGGATCTTATGCCTGATGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc Alignment from Pairagon CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAG----------------------CTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG gcattgagctcttccttgcacttaaattactttgtcaatgtttcctctag---------ACTGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAAGTTACTCCCACCGGATCTTATGCCT-------------------------GATGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc Alignment from Exonerate_protein2genome TGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG gcattgagctcttccttgcacttaaattactttgtcaatgtttcctctagacTGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAAGTTA---CTCCCACCGGATCTTATGCCTGATGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc Alignment from Exonerate_coding2genome TGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG gcattgagctcttccttgcacttaaattactttgtcaatgtttcctctagacTGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAAGTTA---CTCCCACCGGATCTTATGCCTGATGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc Alignment from GeneWise ACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG gcattgagctcttccttgcacttaaattactttgtcaatgtttcctctagACTGCTGAGAACCGGAAGAAACCAACTGATAATATGATTAAAAGTAAGTTA---CTCCCACCGGATCTTATGCCTGATGCTCGGGACCTTGCCAGAAAGgtgagatccactctcattcaaaaaattacaaacacctcctttagatttcc #### Rrp12_ID8296_27 --> 1 - 2 Original Alignment a------------TTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACag atgccatccagacatcaacccttggtgaacatgctctcttttattctcaggCTCTCCTATGGGTATGAATCGGTCAAGGGACTGTTACCTGCAGAGTACCACAAAGTACTGATAAACATGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCTTTGCAAAGCAAAGGTGACaggtaagtccaattctcgtctcagcaattagtaagttagggcagggtagcct Alignment from CESAR a------------TTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACag atgccatccagacatcaacccttggtgaacatgctctcttttattctcaggCTCTCCTATGGGTATGAATCGGTCAAGGGACTGTTACCTGCAGAGTACCACAAAGTACTGATAAACATGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCTTTGCAAAGCAAAGGTGACaggtaagtccaattctcgtctcagcaattagtaagttagggcagggtagcct Alignment from Spaln_aa2Genome G------TTTGGATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG atgccatccagacatcaacccttggtgaacatgctctcttttattctcagGCTCTCCTATGGGTATGAATCGGTCAAGGGACTGTTACCTGCAGAGTACCACAAAGTACTGATAAACATGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCTTTGCAAAGCAAAGGTGACAGgtaagtccaattctcgtctcagcaattagtaagttagggcagggtagcct Alignment from Spaln_nt2Genome ATTC------------GAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG atgccatccagacatcaacccttggtgaacatgctctcttttattctcagGCTCTCCTATGGGTATGAATCGGTCAAGGGACTGTTACCTGCAGAGTACCACAAAGTACTGATAAACATGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCTTTGCAAAGCAAAGGTGACAGgtaagtccaattctcgtctcagcaattagtaagttagggcagggtagcct Alignment from Pairagon ATTC------------GAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG atgccatccagacatcaacccttggtgaacatgctctcttttattctcagGCTCTCCTATGGGTATGAATCGGTCAAGGGACTGTTACCTGCAGAGTACCACAAAGTACTGATAAACATGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCTTTGCAAAGCAAAGGTGACAGgtaagtccaattctcgtctcagcaattagtaagttagggcagggtagcct Alignment from Exonerate_protein2genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG atgccatccagacatcaacccttggtgaacatgctctcttttattctcaggctctcctatggGTATGAATCGGTCAAGGGACTGTTACCTGCAGAGTACCACAAAGTACTGATAAACATGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCTTTGCAAAGCAAAGGTGACAGgtaagtccaattctcgtctcagcaattagtaagttagggcagggtagcct Alignment from Exonerate_coding2genome atgccatccagacatcaacccttggtgaacatgctctcttttattctcaggctctcctatgggtatgaatcggtcaagggactgttacctgcagagtaccacaaagtactgataaacatgaggaaagcagagacccgggcaaagaaatatagggccttgagtcaggctgctgtagaggaggaagaagtggaagaagaggaacaggagcctttgcaaagcaaaggtgacaggtaagtccaattctcgtctcagcaattagtaagttagggcagggtagcct Alignment from GeneWise ----------GGATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG atgccatccagacatcaacccttggtgaacatgctctcttttattctcagGCTCTCCTATGGGTATGAATCGGTCAAGGGACTGTTACCTGCAGAGTACCACAAAGTACTGATAAACATGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCTTTGCAAAGCAAAGGTGACAGgtaagtccaattctcgtctcagcaattagtaagttagggcagggtagcct #### Rrp12_ID8298_25 --> 2 - 0 Original Alignment ggCTGATGGGGACCAGCACAGTGGAGCAGCTCCTGGAGAACGTGTGCCTGCTGCTGGCCTCTCGAACCCGTGATGTGGTCAAGTCCGCGCTAGGCTTCATCAAGGTTGCTGTGGTGGTCATGGACGTGGTGCACCTTGCTAAGCATGTGCAGCTAGTG--- actgggtactgggtcaatatgtcttattaagaatgcattttgtttttcaggcTTGATGGGGACCAGCACGGCAGAACAGCTCTTAGGGAATGTGTGCTTCCTGTTAGCGTCTAGAACCTGGGATGTAGTAAAAGCTGCACTAGGCTTCATCAAGGTTACTGTAGTGGTCATGGATGTAGTTCATCTTGCTAAGCATGTGCAACTAGTGGATgtgagtccttccagtgtacatgggggggaacaacactagtggactccaac Alignment from CESAR ggCTGATGGGGACCAGCACAGTGGAGCAGCTCCTGGAGAACGTGTGCCTGCTGCTGGCCTCTCGAACCCGTGATGTGGTCAAGTCCGCGCTAGGCTTCATCAAGGTTGCTGTGGTGGTCATGGACGTGGTGCACCTTGCTAAGCATGTGCAGCTAGTG--- actgggtactgggtcaatatgtcttattaagaatgcattttgtttttcaggcTTGATGGGGACCAGCACGGCAGAACAGCTCTTAGGGAATGTGTGCTTCCTGTTAGCGTCTAGAACCTGGGATGTAGTAAAAGCTGCACTAGGCTTCATCAAGGTTACTGTAGTGGTCATGGATGTAGTTCATCTTGCTAAGCATGTGCAACTAGTGGATgtgagtccttccagtgtacatgggggggaacaacactagtggactccaac Alignment from Spaln_aa2Genome GGCTGATGGGGACCAGCACAGTGGAGCAGCTCCTGGAGAACGTGTGCCTGCTGCTGGCCTCTCGAACCCGTGATGTGGTCAAGTCCGCGCTAGGCTTCATCAAGGTTGCTGTGGTGGTCATGGACGTGGTGCACCTTGCTAAGCATGTGCAGCTAGTG--- actgggtactgggtcaatatgtcttattaagaatgcattttgtttttcagGCTTGATGGGGACCAGCACGGCAGAACAGCTCTTAGGGAATGTGTGCTTCCTGTTAGCGTCTAGAACCTGGGATGTAGTAAAAGCTGCACTAGGCTTCATCAAGGTTACTGTAGTGGTCATGGATGTAGTTCATCTTGCTAAGCATGTGCAACTAGTGGATgtgagtccttccagtgtacatgggggggaacaacactagtggactccaac Alignment from Spaln_nt2Genome GGCTGATGGGGACCAGCACAGTGGAGCAGCTCCTGGAGAACGTGTGCCTGCTGCTGGCCTCTCGAACCCGTGATGTGGTCAAGTCCGCGCTAGGCTTCATCAAGGTTGCTGTGGTGGTCATGGACGTGGTGCACCTTGCTAAGCATGTGCAGCTAGTG--- actgggtactgggtcaatatgtcttattaagaatgcattttgtttttcagGCTTGATGGGGACCAGCACGGCAGAACAGCTCTTAGGGAATGTGTGCTTCCTGTTAGCGTCTAGAACCTGGGATGTAGTAAAAGCTGCACTAGGCTTCATCAAGGTTACTGTAGTGGTCATGGATGTAGTTCATCTTGCTAAGCATGTGCAACTAGTGGATgtgagtccttccagtgtacatgggggggaacaacactagtggactccaac Alignment from Pairagon GGCTGATGGGGACCAGCACAGTGGAGCAGCTCCTGGAGAACGTGTGCCTGCTGCTGGCCTCTCGAACCCGTGATGTGGTCAAGTCCGCGCTAGGCTTCATCAAGGTTGCTGTGGTGGTCATGGACGTGGTGCACCTTGCTAAGCATGTGCAGCTAGTG--- actgggtactgggtcaatatgtcttattaagaatgcattttgtttttcagGCTTGATGGGGACCAGCACGGCAGAACAGCTCTTAGGGAATGTGTGCTTCCTGTTAGCGTCTAGAACCTGGGATGTAGTAAAAGCTGCACTAGGCTTCATCAAGGTTACTGTAGTGGTCATGGATGTAGTTCATCTTGCTAAGCATGTGCAACTAGTGGATgtgagtccttccagtgtacatgggggggaacaacactagtggactccaac Alignment from Exonerate_protein2genome GGCTGATGGGGACCAGCACAGTGGAGCAGCTCCTGGAGAACGTGTGCCTGCTGCTGGCCTCTCGAACCCGTGATGTGGTCAAGTCCGCGCTAGGCTTCATCAAGGTTGCTGTGGTGGTCATGGACGTGGTGCACCTTGCTAAGCATGTGCAGCTAGTG--- actgggtactgggtcaatatgtcttattaagaatgcattttgtttttcagGCTTGATGGGGACCAGCACGGCAGAACAGCTCTTAGGGAATGTGTGCTTCCTGTTAGCGTCTAGAACCTGGGATGTAGTAAAAGCTGCACTAGGCTTCATCAAGGTTACTGTAGTGGTCATGGATGTAGTTCATCTTGCTAAGCATGTGCAACTAGTGGATgtgagtccttccagtgtacatgggggggaacaacactagtggactccaac Alignment from Exonerate_coding2genome actgggtactgggtcaatatgtcttattaagaatgcattttgtttttcaggcttgatggggaccagcacggcagaacagctcttagggaatgtgtgcttcctgttagcgtctagaacctgggatgtagtaaaagctgcactaggcttcatcaaggttactgtagtggtcatggatgtagttcatcttgctaagcatgtgcaactagtggatgtgagtccttccagtgtacatgggggggaacaacactagtggactccaac Alignment from GeneWise GGCTGATGGGGACCAGCACAGTGGAGCAGCTCCTGGAGAACGTGTGCCTGCTGCTGGCCTCTCGAACCCGTGATGTGGTCAAGTCCGCGCTAGGCTTCATCAAGGTTGCTGTGGTGGTCATGGACGTGGTGCACCTTGCTAAGCATGTGCAGCTAGTGATG actgggtactgggtcaatatgtcttattaagaatgcattttgtttttcagGCTTGATGGGGACCAGCACGGCAGAACAGCTCTTAGGGAATGTGTGCTTCCTGTTAGCGTCTAGAACCTGGGATGTAGTAAAAGCTGCACTAGGCTTCATCAAGGTTACTGTAGTGGTCATGGATGTAGTTCATCTTGCTAAGCATGTGCAACTAGTGGATgtgagtccttccagtgtacatgggggggaacaacactagtggactccaac #### Rrp12_ID8304_19 --> 0 - 2 Original Alignment TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACC------ag ggaccatagttaatggatgggtcttttattctaacttccttctctggcagCTGGTGAATAGCTTCCTAGATAAAGCAATTGAAAAGGTTCTTGACCCCCCCAGTTCAGATTTCACTCCTACCaggtgagtctgctgagcttttcaggtgtcttggtatacaatgcatggtacct Alignment from CESAR TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTC------ACCag ggaccatagttaatggatgggtcttttattctaacttccttctctggcagCTGGTGAATAGCTTCCTAGATAAAGCAATTGAAAAGGTTCTTGACCCCCCCAGTTCAGATTTCACTCCTACCaggtgagtctgctgagcttttcaggtgtcttggtatacaatgcatggtacct Alignment from Spaln_aa2Genome TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAGATTGTC ggaccatagttaatggatgggtcttttattctaacttccttctctggcagCTGGTGAATAGCTTCCTAGATAAAGCAATTGAAAAGGTTCTTGACCCCCCCAGTTCAGATTTCACTCCTACCAGgtgagtctgctgagcttttcaggtgtcttggtatacaatgcatggtacct Alignment from Spaln_nt2Genome TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCAC------CAG ggaccatagttaatggatgggtcttttattctaacttccttctctggcagCTGGTGAATAGCTTCCTAGATAAAGCAATTGAAAAGGTTCTTGACCCCCCCAGTTCAGATTTCACTCCTACCAGgtgagtctgctgagcttttcaggtgtcttggtatacaatgcatggtacct Alignment from Pairagon TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTC------ACCAG ggaccatagttaatggatgggtcttttattctaacttccttctctggcagCTGGTGAATAGCTTCCTAGATAAAGCAATTGAAAAGGTTCTTGACCCCCCCAGTTCAGATTTCACTCCTACCAGgtgagtctgctgagcttttcaggtgtcttggtatacaatgcatggtacct Alignment from Exonerate_protein2genome TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAGATTGTC ggaccatagttaatggatgggtcttttattctaacttccttctctggcagCTGGTGAATAGCTTCCTAGATAAAGCAATTGAAAAGGTTCTTGACCCCCCCAGTTCAGATTTCACTCCTACCAGgtgagtctgctgagcttttcaggtgtcttggtatacaatgcatggtacct Alignment from Exonerate_coding2genome TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACC ggaccatagttaatggatgggtcttttattctaacttccttctctggcagCTGGTGAATAGCTTCCTAGATAAAGCAATTGAAAAGGTTCTTGACCCCCCCAGTTCAGATTTCACTcctaccaggtgagtctgctgagcttttcaggtgtcttggtatacaatgcatggtacct Alignment from GeneWise TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAGATTGTC ggaccatagttaatggatgggtcttttattctaacttccttctctggcagCTGGTGAATAGCTTCCTAGATAAAGCAATTGAAAAGGTTCTTGACCCCCCCAGTTCAGATTTCACTCCTACCAGgtgagtctgctgagcttttcaggtgtcttggtatacaatgcatggtacct #### Rrp12_ID8308_15 --> 1 - 1 Original Alignment gGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAg catcgactgagctaactacacccgattctccccctccccacccgccgcagg------TTGGACTTT---CAGAGCTGGTTGCTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAggtgagcaggttttctttttataaaatacaggtcacagaaggaatatcagc Alignment from CESAR gGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAg ccaaaacatcgactgagctaactacttctccccctccccacccgccgcagg------TTGGACTTT---CAGAGCTGGTTGCTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAggtgagcaggttttctttttataaaatacaggtcacagaaggaatatcagc Alignment from Spaln_aa2Genome TCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG catcgactgagctaactacacccgattctccccctccccacccgccgcagGTTGGACTTT---CAGAGCTGGTTGCTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtgagcaggttttctttttataaaatacaggtcacagaaggaatatcagc Alignment from Spaln_nt2Genome TCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG catcgactgagctaactacacccgattctccccctccccacccgccgcagGTTGGACTT---TCAGAGCTGGTTGCTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtgagcaggttttctttttataaaatacaggtcacagaaggaatatcagc Alignment from Pairagon GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG catcgactgagctaactacacccgattctccccctccccacccgccgcaggttggactttcag----------------------AGCTGGTTGCTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtgagcaggttttctttttataaaatacaggtcacagaaggaatatcagc Alignment from Exonerate_protein2genome TCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG catcgactgagctaactacacccgattctccccctccccacccgccgcagGTTGGACTTT---CAGAGCTGGTTGCTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtgagcaggttttctttttataaaatacaggtcacagaaggaatatcagc Alignment from Exonerate_coding2genome TCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAGCAATGGACCTGGCTCAGGCAGGCAGCACAGTGGAGTCGAAGATTTATGAT catcgactgagctaactacacccgattctccccctccccacccgccgcagGTTGGACTTT---CAGAGCTGGTTGCTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGGTGAGCAGGTTTTCTTTTTATAAAATACAGGTCACAGAAGGAATATCAGC Alignment from GeneWise TCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG catcgactgagctaactacacccgattctccccctccccacccgccgcagGTTGGACTTT---CAGAGCTGGTTGCTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGCTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtgagcaggttttctttttataaaatacaggtcacagaaggaatatcagc #### Sart1_ID958_17 --> 1 - 0 Original Alignment g------------------------------GCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAGGAG caagaaagaagtcttcagaggacctgattttctgtctccttatgccctaggAACATAACATGTTCAACAGATGAGTTCACTGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGAGACTTCACTCAGGACTTTAAGGAGAGAGATGGGTATAAGCCTGATGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTAACTCCTGAAAAGgtgagacagcactttgtagataaacaatccacttacaatggtttatggca Alignment from CESAR acttaatcattaggctgccccaactggtcacatgtgtgtcagtatgatgtt Alignment from Spaln_aa2Genome GGCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAGGAG caagaaagaagtcttcagaggacctgattttctgtctccttatgccctaggaacataacatgttcaacagatgagttcacTGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGAGACTTCACTCAGGACTTTAAGGAGAGAGATGGGTATAAGCCTGATGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTAACTCCTGAAAAGgtgagacagcactttgtagataaacaatccacttacaatggtttatggca Alignment from Spaln_nt2Genome GGCCATTGAT----------GACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAGGAG caagaaagaagtcttcagaggacctgattttctgtctccttatgccctaggaacataacatgttcaacagATGAGTTCACTGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGAGACTTCACTCAGGACTTTAAGGAGAGAGATGGGTATAAGCCTGATGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTAACTCCTGAAAAGgtgagacagcactttgtagataaacaatccacttacaatggtttatggca Alignment from Pairagon G------------------------------GCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAGGAG caagaaagaagtcttcagaggacctgattttctgtctccttatgccctagGAACATAACATGTTCAACAGATGAGTTCACTGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGAGACTTCACTCAGGACTTTAAGGAGAGAGATGGGTATAAGCCTGATGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTAACTCCTGAAAAGgtgagacagcactttgtagataaacaatccacttacaatggtttatggca Alignment from Exonerate_protein2genome GGCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAGGAG caagaaagaagtcttcagaggacctgattttctgtctccttatgccctaggaacataacatgttcaacagatgagttcacTGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGAGACTTCACTCAGGACTTTAAGGAGAGAGATGGGTATAAGCCTGATGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTAACTCCTGAAAAGgtgagacagcactttgtagataaacaatccacttacaatggtttatggca Alignment from Exonerate_coding2genome caagaaagaagtcttcagaggacctgattttctgtctccttatgccctaggaacataacatgttcaacagatgagttcactgccattgatgacaagtacagtcaacaggaggagtatagagacttcactcaggactttaaggagagagatgggtataagcctgatgttaagattgaatatgtagataagacaagcaggaagctaactcctgaaaaggtgagacagcactttgtagataaacaatccacttacaatggtttatggca Alignment from GeneWise ----------------------------ATGGCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAGGAG caagaaagaagtcttcagaggacctgattttctgtctccttatgccctagGAACATAACATGTTCAACAGATGAGTTCACTGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGAGACTTCACTCAGGACTTTAAGGAGAGAGATGGGTATAAGCCTGATGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTAACTCCTGAAAAGgtgagacagcactttgtagataaacaatccacttacaatggtttatggca #### Sart1_ID959_16 --> 2 - 2 Original Alignment gaCTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGat gctcaagactttcatgttcccaggatttatcctttgtcctttcaccctagga---CTTGAAACCACAGTACAAAAGGTTGCCTGGGTTGAAGCTCCCAATAGGACCCTACCTTCAGCAGTGTACTGCATAGGGGATAAGatgtaagatttatcaaaaggtgtgatagcaactgccatgattctggagatcc Alignment from CESAR gaCTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGat agggctcaagactttcatgttcccatttatcctttgtcctttcaccctagga---CTTGAAACCACAGTACAAAAGGTTGCCTGGGTTGAAGCTCCCAATAGGACCCTACCTTCAGCAGTGTACTGCATAGGGGATAAGatgtaagatttatcaaaaggtgtgatagcaactgccatgattctggagatcc Alignment from Spaln_aa2Genome GACTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT gctcaagactttcatgttcccaggatttatcctttgtcctttcaccctagGACTTGAAACCACAGTACAA---AAGGTTGCCTGGGTTGAAGCTCCCAATAGGACCCTACCTTCAGCAGTGTACTGCATAGGGGATAAGATgtaagatttatcaaaaggtgtgatagcaactgccatgattctggagatcc Alignment from Spaln_nt2Genome GACTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT gctcaagactttcatgttcccaggatttatcctttgtcctttcaccctagGA---CTTGAAACCACAGTACAAAAGGTTGCCTGGGTTGAAGCTCCCAATAGGACCCTACCTTCAGCAGTGTACTGCATAGGGGATAAGATgtaagatttatcaaaaggtgtgatagcaactgccatgattctggagatcc Alignment from Pairagon GACTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT gctcaagactttcatgttcccaggatttatcctttgtcctttcaccctagGA---CTTGAAACCACAGTACAAAAGGTTGCCTGGGTTGAAGCTCCCAATAGGACCCTACCTTCAGCAGTGTACTGCATAGGGGATAAGATgtaagatttatcaaaaggtgtgatagcaactgccatgattctggagatcc Alignment from Exonerate_protein2genome GACTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT gctcaagactttcatgttcccaggatttatcctttgtcctttcaccctagGA---CTTGAAACCACAGTACAAAAGGTTGCCTGGGTTGAAGCTCCCAATAGGACCCTACCTTCAGCAGTGTACTGCATAGGGGATAAGATgtaagatttatcaaaaggtgtgatagcaactgccatgattctggagatcc Alignment from Exonerate_coding2genome gctcaagactttcatgttcccaggatttatcctttgtcctttcaccctaggacttgaaaccacagtacaaaaggttgcctgggttgaagctcccaataggaccctaccttcagcagtgtactgcataggggataagatgtaagatttatcaaaaggtgtgatagcaactgccatgattctggagatcc Alignment from GeneWise GACTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT gctcaagactttcatgttcccaggatttatcctttgtcctttcaccctagGACTT---GAAACCACAGTACAAAAGGTTGCCTGGGTTGAAGCTCCCAATAGGACCCTACCTTCAGCAGTGTACTGCATAGGGGATAAGATgtaagatttatcaaaaggtgtgatagcaactgccatgattctggagatcc #### Sart1_ID960_15 --> 0 - 1 Original Alignment ---TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAg gaaggcgatctggggtggccacctttccctgactcccaactgtcctctagGACTTCTCTGCTTCTTCTACCACTATCTTGGATGAGGAGCCCATAGTGAACCGGGGGCTAGCAGCTGCCCTGCTCCTATGTCAGAACAGAggtaagcctttggggaggctgttattacagttgtatattttattgatcatg Alignment from CESAR ---TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAg gaaggcgatctggggtggccacctttccctgactcccaactgtcctctagGACTTCTCTGCTTCTTCTACCACTATCTTGGATGAGGAGCCCATAGTGAACCGGGGGCTAGCAGCTGCCCTGCTCCTATGTCAGAACAGAggtaagcctttggggaggctgttattacagttgtatattttattgatcatg Alignment from Spaln_aa2Genome GATTTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAG gaaggcgatctggggtggccacctttccctgactcccaactgtcctctagGACTTCTCTGCTTCTTCTACCACTATCTTGGATGAGGAGCCCATAGTGAACCGGGGGCTAGCAGCTGCCCTGCTCCTATGTCAGAACAGAGgtaagcctttggggaggctgttattacagttgtatattttattgatcatg Alignment from Spaln_nt2Genome CAGGATTTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAG gaaggcgatctggggtggccacctttccctgactcccaactgtcctctag---GACTTCTCTGCTTCTTCTACCACTATCTTGGATGAGGAGCCCATAGTGAACCGGGGGCTAGCAGCTGCCCTGCTCCTATGTCAGAACAGAGgtaagcctttggggaggctgttattacagttgtatattttattgatcatg Alignment from Pairagon ---TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAG gaaggcgatctggggtggccacctttccctgactcccaactgtcctctagGACTTCTCTGCTTCTTCTACCACTATCTTGGATGAGGAGCCCATAGTGAACCGGGGGCTAGCAGCTGCCCTGCTCCTATGTCAGAACAGAGgtaagcctttggggaggctgttattacagttgtatattttattgatcatg Alignment from Exonerate_protein2genome GATTTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAG gaaggcgatctggggtggccacctttccctgactcccaactgtcctctagGACTTCTCTGCTTCTTCTACCACTATCTTGGATGAGGAGCCCATAGTGAACCGGGGGCTAGCAGCTGCCCTGCTCCTATGTCAGAACAGAGgtaagcctttggggaggctgttattacagttgtatattttattgatcatg Alignment from Exonerate_coding2genome gaaggcgatctggggtggccacctttccctgactcccaactgtcctctaggacttctctgcttcttctaccactatcttggatgaggagcccatagtgaaccgggggctagcagctgccctgctcctatgtcagaacagaggtaagcctttggggaggctgttattacagttgtatattttattgatcatg Alignment from GeneWise ---TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAG gaaggcgatctggggtggccacctttccctgactcccaactgtcctctagGACTTCTCTGCTTCTTCTACCACTATCTTGGATGAGGAGCCCATAGTGAACCGGGGGCTAGCAGCTGCCCTGCTCCTATGTCAGAACAGAGgtaagcctttggggaggctgttattacagttgtatattttattgatcatg #### Sart1_ID964_11 --> 1 - 1 Original Alignment gCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACT---------CGAGTAGAGAACATGGACATCAGTGATGAAg caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagaCTTCGGGGACGGGGAAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCGAGTC------ATGGACATCAGTGAT---ggtaggaagctgttgaagaataggggtccagggtaaatctgcaggcaaggc Alignment from CESAR gCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAAg caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagaCTTCGGGGACGGGGAAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCGAGTCATGGACATCAGTGAT---ggtaggaagctgttgaagaataggggtccagggtaaatctgcaggcaaggc Alignment from Spaln_aa2Genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGAT- caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagACTTCGGGGACGGGGAAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCGAGTCATGGACATCAGTGATGgtaggaagctgttgaagaataggggtccagggtaaatctgcaggcaaggc Alignment from Spaln_nt2Genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTA----GAGAACATGGACATCAGTGATG caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagACTTCGGGGACGGGGAAGGCACCAAGTTCC------CAAGGAGGAGACACTTGAGGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCGAG-TCATGGACATCAGTGATGgtaggaagctgttgaagaataggggtccagggtaaatctgcaggcaaggc Alignment from Pairagon GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGT------AGAGAACATGGACATCAGTGATG caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagACTTCGGGGACGGGGAAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCGAG---TCATGGACATCAGTGATGgtaggaagctgttgaagaataggggtccagggtaaatctgcaggcaaggc Alignment from Exonerate_protein2genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAAG caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagACTTCGGGGACGGGGAAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCGAGTCATGGACATCAGTGATGGTAggaagctgttgaagaataggggtccagggtaaatctgcaggcaaggc Alignment from Exonerate_coding2genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGAT caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagACTTCGGGGACGGGGAAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCGAGTCATGGACATCAGTGATggtaggaagctgttgaagaataggggtccagggtaaatctgcaggcaaggc Alignment from GeneWise GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATG caagatggagaaattcaaagagcataataagtattgtgtctttgtcctagACTTCGGGGACGGGGAAGGCACCAAGTTCCCAAG------GAGGAGACACTTGAGGATGAGGAGAAGGATCTTGTTGCCAAACCACCTCCATCAGATGACACTCGAGTCATTCGAGTCATGGACATCAGTGATGgtaggaagctgttgaagaataggggtccagggtaaatctgcaggcaaggc #### Sec31b_ID9028_24 --> 0 - 0 Original Alignment AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA--------- ttggtagtatggcccaaaatcaggatcttaaagttaactttgtttcctagAAAACAAAAAAGGAACTAGAGGAGGCAGCACGGCACCTTGAATGCCTATATGAGAAGCTTTGTGAGGGAACACTAAGCTTCgtatgtcctttgtacagtgaacccacagttatgcctaggacagttagccc Alignment from CESAR AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA--------- ttggtagtatggcccaaaatcaggatcttaaagttaactttgtttcctagAAAACAAAAAAGGAACTAGAGGAGGCAGCACGGCACCTTGAATGCCTATATGAGAAGCTTTGTGAGGGAACACTAAGCTTCgtatgtcctttgtacagtgaacccacagttatgcctaggacagttagccc Alignment from Spaln_aa2Genome AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA--------- ttggtagtatggcccaaaatcaggatcttaaagttaactttgtttcctagAAAACAAAAAAGGAACTAGAGGAGGCAGCACGGCACCTTGAATGCCTATATGAGAAGCTTTGTGAGGGAACACTAAGCTTCgtatgtcctttgtacagtgaacccacagttatgcctaggacagttagccc Alignment from Spaln_nt2Genome AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTT ttggtagtatggcccaaaatcaggatcttaaagttaactttgtttcctagAAAACAAAAAAGGAACTAGAGGAGGCAGCACGGCACCTTGAATGCCTATATGAGAAGCTTTgtgagggaacactaagcttcgtatgtcctttgtacagtgaacccacagttatgcctaggacagttagccc Alignment from Pairagon AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA--------- ttggtagtatggcccaaaatcaggatcttaaagttaactttgtttcctagAAAACAAAAAAGGAACTAGAGGAGGCAGCACGGCACCTTGAATGCCTATATGAGAAGCTTTGTGAGGGAACACTAAGCTTCgtatgtcctttgtacagtgaacccacagttatgcctaggacagttagccc Alignment from Exonerate_protein2genome AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ttggtagtatggcccaaaatcaggatcttaaagttaactttgtttcctagAAAACAAAAAAGGAACTAGAGGAGGCAGCACGGCACCTTGAATGCCTATATGAGAAGCTTTGTGAGGGAACActaagcttcgtatgtcctttgtacagtgaacccacagttatgcctaggacagttagccc Alignment from Exonerate_coding2genome AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ttggtagtatggcccaaaatcaggatcttaaagttaactttgtttcctagAAAACAAAAAAGGAACTAGAGGAGGCAGCACGGCACCTTGAATGCCTATATGAGAAGCTTTGTGAGGGAACActaagcttcgtatgtcctttgtacagtgaacccacagttatgcctaggacagttagccc Alignment from GeneWise AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACACTC------ ttggtagtatggcccaaaatcaggatcttaaagttaactttgtttcctagAAAACAAAAAAGGAACTAGAGGAGGCAGCACGGCACCTTGAATGCCTATATGAGAAGCTTTGTGAGGGAACACTAAGCTTCgtatgtcctttgtacagtgaacccacagttatgcctaggacagttagccc #### Sec31b_ID9030_22 --> 0 - 0 Original Alignment CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCATTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTG---gtaagaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctg Alignment from CESAR CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCATTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTG---gtaagaagcgaaagtctgcccctgccctaatttgcatttgaggtagc Alignment from Spaln_aa2Genome CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCATTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTGgtaagaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctg Alignment from Spaln_nt2Genome CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCATTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTGgtaagaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctg Alignment from Pairagon CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCATTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTGgtaagaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctg Alignment from Exonerate_protein2genome CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCATTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTGgtaagaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctg Alignment from Exonerate_coding2genome CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCATTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTGgtaagaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctg Alignment from GeneWise CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTG ttatatgttgtatgatccccggtagctaatgttcatctttcctcccacagCTGCCTGAAGCATTCATGACTCCTGCACCAACTACAGCCCCACTTAGAAGCCCTGGACCAGATTCACAACAAGCCTTGCTTCCAAAACCATTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGCCCCCAGGGAATGTAGCTTGgtaagaagcgaaagtctgcccctgccctaatttgcatttgaggtagcctg #### Sec31b_ID9044_8 --> 0 - 0 Original Alignment GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGAGGTCA---------gtgggtagtagtacgttgggttgtattaataagcaggggacttgcaggaa Alignment from CESAR GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGAGGTCA---------gtgggtagtagtacgttgggttgtattaataagcaggggac Alignment from Spaln_aa2Genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACA gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGAGGTCAGTGGGTAgtagtacgttgggttgtattaataagcaggggacttgcaggaa Alignment from Spaln_nt2Genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAG gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGAGgtcagtgggtagtagtacgttgggttgtattaataagcaggggacttgcaggaa Alignment from Pairagon GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAG gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGAGgtcagtgggtagtagtacgttgggttgtattaataagcaggggacttgcaggaa Alignment from Exonerate_protein2genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACA gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGAGGTCAGTGGGTAgtagtacgttgggttgtattaataagcaggggacttgcaggaa Alignment from Exonerate_coding2genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACA gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGAGGTCAGTGGGTAgtagtacgttgggttgtattaataagcaggggacttgcaggaa Alignment from GeneWise GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCT- gcttagttccactggcatgtgttctcgactattttctccattatacacagATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTCTATGTTCTGTGACAGGAAGGAGCTGGGAAGTGCAGCATATGAGGTCAGTGGgtagtagtacgttgggttgtattaataagcaggggacttgcaggaa #### Sema4g_ID9250_8 --> 0 - 2 Original Alignment ---GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGtg ctagttctaccccccagttttatggactctcctttcctgtcctcccacagATTGGAGACCTAGCTGGAGAAGAAATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCGCGACTAATCTGCCATGTTCCTAAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCTTCTCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGtggtaagtatggagaatgggtatatatagcgggtaaggacaagagagccggc Alignment from CESAR ---GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGtg ctagttctaccccccagttttatggactctcctttcctgtcctcccacagATTGGAGACCTAGCTGGAGAAGAAATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCGCGACTAATCTGCCATGTTCCTAAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCTTCTCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGtggtaagtatggagaatgggtatatatagcgggtaaggacaagagagccggc Alignment from Spaln_aa2Genome ---GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGT ctagttctaccccccagttttatggactctcctttcctgtcctcccacagATTGGAGACCTAGCTGGAGAAGAAATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCGCGACTAATCTGCCATGTTCCTAAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCTTCTCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtaagtatggagaatgggtatatatagcgggtaaggacaagagagccggc Alignment from Spaln_nt2Genome ---GGAGATCTGGGAGG-GAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG ctagttctaccccccagttttatggactctcctttcctgtcctcccacagATTGGAGACCTAGCTGGAGAAGAA-ATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCGCGACTAATCTGCCATGTTCCTAAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCTTCTCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtaagtatggagaatgggtatatatagcgggtaaggacaagagagccggc Alignment from Pairagon GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG ctagttctaccccccagttttatggactctcctttcctgtcctcccacagattggagacctagctggagaagaaattttacag------------------------------AAGAAGTGGGAATCCTTCCTGAAGGCGCGACTAATCTGCCATGTTCCTAAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCTTCTCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtaagtatggagaatgggtatatatagcgggtaaggacaagagagccggc Alignment from Exonerate_protein2genome ---GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG ctagttctaccccccagttttatggactctcctttcctgtcctcccacagATTGGAGACCTAGCTGGAGAAGAAATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCGCGACTAATCTGCCATGTTCCTAAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCTTCTCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtaagtatggagaatgggtatatatagcgggtaaggacaagagagccggc Alignment from Exonerate_coding2genome ---GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG ctagttctaccccccagttttatggactctcctttcctgtcctcccacagATTGGAGACCTAGCTGGAGAAGAAATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCGCGACTAATCTGCCATGTTCCTAAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCTTCTCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtaagtatggagaatgggtatatatagcgggtaaggacaagagagccggc Alignment from GeneWise ---GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG ctagttctaccccccagttttatggactctcctttcctgtcctcccacagATTGGAGACCTAGCTGGAGAAGAAATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCGCGACTAATCTGCCATGTTCCTAAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCTTCTCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtaagtatggagaatgggtatatatagcgggtaaggacaagagagccggc #### Sema4g_ID9251_9 --> 1 - 0 Original Alignment gAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG aggtgcaggttgaaggtatttgaacctgtcatcttctcttctccctccagg---ACACTGGAGGCTTCAGATATCTGCCGGCATGACTTGGCAGAGATTCATGCTGTTTTT---AGCCCCTTTATGGAGTACCAGGATGGTGCCCGATGCTGGGGGTGTTATGGAGGTGGAGTACATCAACCCCAACCTGGCTTAgtaagaactcaaagtttggaccacactaatcgggacatagagagttaccc Alignment from CESAR gAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG cataggtgcaggttgaaggtatttgctgtcatcttctcttctccctccagg---ACACTGGAGGCTTCAGATATCTGCCGGCATGACTTGGCAGAGATTCATGCTGTTTTT---AGCCCCTTTATGGAGTACCAGGATGGTGCCCGATGCTGGGGGTGTTATGGAGGTGGAGTACATCAACCCCAACCTGGCTTAgtaagaactcaaagtttggaccacactaatcgggacatagagagttaccc Alignment from Spaln_aa2Genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG aggtgcaggttgaaggtatttgaacctgtcatcttctcttctccctccagG---ACACTGGAGGCTTCAGATATCTGCCGGCATGACTTGGCAGAGATTCATGCTGTTTTTAGC---CCCTTTATGGAGTACCAGGATGGTGCCCGATGCTGGGGGTGTTATGGAGGTGGAGTACATCAACCCCAACCTGGCTTAgtaagaactcaaagtttggaccacactaatcgggacatagagagttaccc Alignment from Spaln_nt2Genome GACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG aggtgcaggttgaaggtatttgaacctgtcatcttctcttctccctccagGACACTGGAGGCTTCAGATATCTGCCGGCATGACTTGGCAGAGATTCATGCTGTTTTTA---GCCCCTTTATGGAGTACCAGGATGGTGCCCGATGCTGGGGGTGTTATGGAGGTGGAGTACATCAACCCCAACCTGGCTTAgtaagaactcaaagtttggaccacactaatcgggacatagagagttaccc Alignment from Pairagon GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG aggtgcaggttgaaggtatttgaacctgtcatcttctcttctccctccag---GACACTGGAGGCTTCAGATATCTGCCGGCATGACTTGGCAGAGATTCATGCTGTTTTTA---GCCCCTTTATGGAGTACCAGGATGGTGCCCGATGCTGGGGGTGTTATGGAGGTGGAGTACATCAACCCCAACCTGGCTTAgtaagaactcaaagtttggaccacactaatcgggacatagagagttaccc Alignment from Exonerate_protein2genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG aggtgcaggttgaaggtatttgaacctgtcatcttctcttctccctccagG---ACACTGGAGGCTTCAGATATCTGCCGGCATGACTTGGCAGAGATTCATGCTGTTTTTAGC---CCCTTTATGGAGTACCAGGATGGTGCCCGATGCTGGGGGTGTTATGGAGGTGGAGTACATCAACCCCAACCTGGCTTAgtaagaactcaaagtttggaccacactaatcgggacatagagagttaccc Alignment from Exonerate_coding2genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG aggtgcaggttgaaggtatttgaacctgtcatcttctcttctccctccagG---ACACTGGAGGCTTCAGATATCTGCCGGCATGACTTGGCAGAGATTCATGCTGTTTTTAGC---CCCTTTATGGAGTACCAGGATGGTGCCCGATGCTGGGGGTGTTATGGAGGTGGAGTACATCAACCCCAACCTGGCTTAgtaagaactcaaagtttggaccacactaatcgggacatagagagttaccc Alignment from GeneWise GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG aggtgcaggttgaaggtatttgaacctgtcatcttctcttctccctccagG---ACACTGGAGGCTTCAGATATCTGCCGGCATGACTTGGCAGAGATTCATGCTGTTTTTAGC---CCCTTTATGGAGTACCAGGATGGTGCCCGATGCTGGGGGTGTTATGGAGGTGGAGTACATCAACCCCAACCTGGCTTAgtaagaactcaaagtttggaccacactaatcgggacatagagagttaccc #### Sf1_ID1667_8 --> 1 - 2 Original Alignment gATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAG------------ag gtttaagttaccgaaggatcatggagtgctgtgatttttgtgttccgtagaATCTTGAGGCCCTGGCAAAGCTCAGAGACCCGGACTATTACCAATTCTACTGTGTGTACCAAATGTGGAGGAGCCGGTCACATAGCCTCTGATTGCAAAGTTCAGAACCTCTTTGCAaggtgaggccaaccgagaagacctggctactacagaagttgatagcctatgt Alignment from CESAR gATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAG------------ag gtttaagttaccgaaggatcatggagtgctgtgatttttgtgttccgtagaATCTTGAGGCCCTGGCAAAGCTCAGAGACCCGGACTATTACCAATTCTACTGTGTGTACCAAATGTGGAGGAGCCGGTCACATAGCCTCTGATTGCAAAGTTCAGAACCTCTTTGCAaggtgaggccaaccgagaagacctggctactacagaagttgatagcctatgt Alignment from Spaln_aa2Genome GATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGAGG----------- gtttaagttaccgaaggatcatggagtgctgtgatttttgtgttccgtagAATCTTGAGGCCCTGGCAAAGCTCAGAGACCCGGACTATTACCAATTCTACTGTGTGTACCAAATGTGGAGGAGCCGGTCACATAGCCTCTGATTGCAAAGTTCAGAACCTCTTTGCAAGgtgaggccaaccgagaagacctggctactacagaagttgatagcctatgt Alignment from Spaln_nt2Genome GATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGA------------G gtttaagttaccgaaggatcatggagtgctgtgatttttgtgttccgtagAATCTTGAGGCCCTGGCAAAGCTCAGAGACCCGGACTATTACCAATTCTACTGTGTGTACCAAATGTGGAGGAGCCGGTCACATAGCCTCTGATTGCAAAGTTCAGAACCTCTTTGCAAGgtgaggccaaccgagaagacctggctactacagaagttgatagcctatgt Alignment from Pairagon -----------------------------------------------TAGGATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAG------------AG GTTTAAGTTACCGAAGGATCATGGAGTGCTGTGATTTTTGTGTTCCGTAGAATCTTGAGGCCCTGGCAAAGCTCAGAGACCCGGACTATTACCAATTCTACTGTGTGTACCAAATGTGGAGGAGCCGGTCACATAGCCTCTGATTGCAAAGTTCAGAACCTCTTTGCAAGgtgaggccaaccgagaagacctggctactacagaagttgatagcctatgt Alignment from Exonerate_protein2genome TAGGATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCA gtttaagttaccgaaggatcatggagtgctgtgatttttgtgttccgTAGAATCTTGAGGCCCTGGCAAAGCTCAGAGACCCGGACTATTACCAATTCTACTGTGTGTACCAAATGTGGAGGAGCCGGTCACATAGCCTCTGATTGCAAAGTTCAgaacctctttgcaaggtgaggccaaccgagaagacctggctactacagaagttgatagcctatgt Alignment from Exonerate_coding2genome TAGGATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCA gtttaagttaccgaaggatcatggagtgctgtgatttttgtgttccgTAGAATCTTGAGGCCCTGGCAAAGCTCAGAGACCCGGACTATTACCAATTCTACTGTGTGTACCAAATGTGGAGGAGCCGGTCACATAGCCTCTGATTGCAAAGTTCAgaacctctttgcaaggtgaggccaaccgagaagacctggctactacagaagttgatagcctatgt Alignment from GeneWise -------------------AATAGGATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAA gtttaagttaccgaaggatcatggagTGCTGTGATTTTTGTGTTCCGTAGAATCTTGAGGCCCTGGCAAAGCTCAGAGACCCGGACTATTACCAATTCTACTGTGTGTACCAAATGTGGAGGAGCCGGTCACATAGCCTCTGATTGCAAAgttcagaacctctttgcaaggtgaggccaaccgagaagacctggctactacagaagttgatagcctatgt #### Sf3b2_ID908_10 --> 0 - 0 Original Alignment CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG aaccatattatgactggaccttgggtgcctggcctctctttgtcttctag------------GTAAGGAAAGAGAAAGAAAAGGAGCCTGAGAAGCTTGACACAATGGAAAGTCCTACAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtatgggctatgtgattatgaattgttgatagggggtttagccgctggtg Alignment from CESAR CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG ggttaaggcacaaaccatattatgatgcctggcctctctttgtcttctag------------GTAAGGAAAGAGAAAGAAAAGGAGCCTGAGAAGCTTGACACAATGGAAAGTCCTACAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtatgggctatgtgattatgaattgttgatagggggtttagccgctggtg Alignment from Spaln_aa2Genome CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG aaccatattatgactggaccttgggtgcctggcctctctttgtcttctag------------GTAAGGAAAGAGAAAGAAAAGGAGCCTGAGAAGCTTGACACAATGGAAAGTCCTACAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtatgggctatgtgattatgaattgttgatagggggtttagccgctggtg Alignment from Spaln_nt2Genome CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG aaccatattatgactggaccttgggtgcctggcctctctttgtcttctag------------GTAAGGAAAGAGAAAGAAAAGGAGCCTGAGAAGCTTGACACAATGGAAAGTCCTACAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtatgggctatgtgattatgaattgttgatagggggtttagccgctggtg Alignment from Pairagon CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG aaccatattatgactggaccttgggtgcctggcctctctttgtcttctag------------GTAAGGAAAGAGAAAGAAAAGGAGCCTGAGAAGCTTGACACAATGGAAAGTCCTACAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtatgggctatgtgattatgaattgttgatagggggtttagccgctggtg Alignment from Exonerate_protein2genome CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG aaccatattatgactggaccttgggtgcctggcctctcTTTGTCTTCTAGGTAAGGAAAGAGAAAGAAAAGGAGCCTGAGAAGCTTGACACAATGGAAAGTCCTACAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtatgggctatgtgattatgaattgttgatagggggtttagccgctggtg Alignment from Exonerate_coding2genome CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG aaccatattatgactggaccttgggtgcctggcctctcTTTGTCTTCTAGGTAAGGAAAGAGAAAGAAAAGGAGCCTGAGAAGCTTGACACAATGGAAAGTCCTACAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtatgggctatgtgattatgaattgttgatagggggtttagccgctggtg Alignment from GeneWise GTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG aaccatattatgactggaccttgggtgcctggcctctctttgtcttctagGTAAGGAAAGAGAAAGAAAAGGAGCCTGAGAAGCTTGACACAATGGAAAGTCCTACAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGCGATGATGATAGCAGTGATGATGAACAAgtatgggctatgtgattatgaattgttgatagggggtttagccgctggtg #### Sf3b2_ID911_7 --> 0 - 1 Original Alignment ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAG------g tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagATT---GACCCCTCAGTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAG---ACCAGTggtgaggttgatacttcaacacacattagctgggggctgctgctttcacta Alignment from CESAR ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGg tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagATT---GACCCCTCAGTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGACCagtggtgaggttgatacttcaacacacattagctgggggctgctgctttcacta Alignment from Spaln_aa2Genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagATT---GACCCCTCAGTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGACCAgtggtgaggttgatacttcaacacacattagctgggggctgctgctttcacta Alignment from Spaln_nt2Genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAG--CAG-G tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagAT---TGACCCCTCAGTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGACCAGTGgtgaggttgatacttcaacacacattagctgggggctgctgctttcacta Alignment from Pairagon ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAG------- tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagAT---TGACCCCTCAGTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGACCAGTGgtgaggttgatacttcaacacacattagctgggggctgctgctttcacta Alignment from Exonerate_protein2genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagATT---GACCCCTCAGTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGACCAgtggtgaggttgatacttcaacacacattagctgggggctgctgctttcacta Alignment from Exonerate_coding2genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagATT---GACCCCTCAGTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGACCAgtggtgaggttgatacttcaacacacattagctgggggctgctgctttcacta Alignment from GeneWise ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG tttttgcaacgggataagtttcagacccctatcctatcccctgctcccagATTGAC---CCCTCAGTGGGCCCCAAAATTCCTCAGGCTGTGGAAAAAATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGACCAgtggtgaggttgatacttcaacacacattagctgggggctgctgctttcacta #### Sfxn2_ID9971_9 --> 0 - 2 Original Alignment AAGGTCAAAGTGATGCACGCCCCCCTGCAGGTCTTGCTGTGTGGCTGCtt ccctgcacctagcttttcagcagctttatctctgaccctctgtcccacag------AAAGTGATACATGCCCCCCTACAGGTC---CTTTGTGGTTGTtcgtgagatgatcttccaagaccatgagctgatcagtattcttagaacttgg Alignment from CESAR AAGGTCAAAGTGATGCACGCCCCCCTGCAGGTCTTGCTGTGTGGCTGCtt ttggttccctgcacctagcttttcattatctctgaccctctgtcccacag------AAAGTGATACATGCCCCCCTACAGGTC---CTTTGTGGTTGTtcgtgagatgatcttccaagaccatgagctgatcagtattcttagaacttgg Alignment from Spaln_aa2Genome AAGGTCAAAGTGATGCACGCCCCCCTGCAGGTCTTGCTGTGTGGCTGCTT ccctgcacctagcttttcagcagctttatctctgaccctctgtcccacag------AAAGTGATACATGCCCCCCTACAGGTC---CTTTGTGGTTGTTCgtgagatgatcttccaagaccatgagctgatcagtattcttagaacttgg Alignment from Spaln_nt2Genome AAAGTGATGCACGCCCCCCTGCAGGTCTTGCTGTGTGGCTGCTT ccctgcacctagcttttcagcagctttatctctgaccctctgtcccacagAAAGTGATACATGCCCCCCTACAGGTC---CTTTGTGGTTGTTCgtgagatgatcttccaagaccatgagctgatcagtattcttagaacttgg Alignment from Pairagon AAGGTCAAAGTGATGCACGCCCCCCTGCAGGTCTTGCTGTGTGGCTGCTT ccctgcacctagcttttcagcagctttatctctgaccctctgtcccacag------AAAGTGATACATGCCCCCCTACAGGTC---CTTTGTGGTTGTTCgtgagatgatcttccaagaccatgagctgatcagtattcttagaacttgg Alignment from Exonerate_protein2genome AAAGTGATGCACGCCCCCCTGCAGGTCTTGCTGTGTGGCTGCTT ccctgcacctagcttttcagcagctttatctctgaccctctgtcccacagAAAGTGATACATGCCCCCCTACAGGTC---CTTTGTGGTTGTTCgtgagatgatcttccaagaccatgagctgatcagtattcttagaacttgg Alignment from Exonerate_coding2genome ccctgcacctagcttttcagcagctttatctctgaccctctgtcccacagaaagtgatacatgcccccctacaggtcctttgtggttgttcgtgagatgatcttccaagaccatgagctgatcagtattcttagaacttgg Alignment from GeneWise ccctgcacctagcttttcagcagctttatctctgaccctctgtcccacagaaagtgatacatgcccccctacaggtcctttgtggttgttcgtgagatgatcttccaagaccatgagctgatcagtattcttagaacttgg #### Sfxn3_ID9286_4 --> 1 - 0 Original Alignment gCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG--------- tccagcctaaacttggtagcttcctactttttttttcttttaattaataggCCGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACGGCTCTGGGACTAAAGTCTCTGACCAAGATCTCTTTTgtacagtttccctccttctttctaaagttctaccttcatgaggtcaccac Alignment from CESAR gCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG--------- tccagcctaaacttggtagcttcctactttttttttcttttaattaataggCCGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACGGCTCTGGGACTAAAGTCTCTGACCAAGATCTCTTTTgtacagtttccctccttctttctaaagttctaccttcatgaggtcaccac Alignment from Spaln_aa2Genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG--------- tccagcctaaacttggtagcttcctactttttttttcttttaattaatagGCCGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACGGCTCTGGGACTAAAGTCTCTGACCAAGATCTCTTTTgtacagtttccctccttctttctaaagttctaccttcatgaggtcaccac Alignment from Spaln_nt2Genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG--------- tccagcctaaacttggtagcttcctactttttttttcttttaattaatagGCCGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACGGCTCTGGGACTAAAGTCTCTGACCAAGATCTCTTTTgtacagtttccctccttctttctaaagttctaccttcatgaggtcaccac Alignment from Pairagon GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCA------------------------------------------------------------- tccagcctaaacttggtagcttcctactttttttttcttttaattaatagGCCGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACGGCTCTGGGACTAAAGTCTCTGACCAAGATCTCTTTTGTACAGTTTCCCTCCTTCTTTCTAAAGTTCTACCTTCATGAGGTCACCAC Alignment from Exonerate_protein2genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG tccagcctaaacttggtagcttcctactttttttttcttttaattaatagGCCGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACGGCTCTGGGACTAAAGTCTCTGACCAAGatctcttttgtacagtttccctccttctttctaaagttctaccttcatgaggtcaccac Alignment from Exonerate_coding2genome CAGCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG tccagcctaaacttggtagcttcctactttttttttcttttaattaatAGGCCGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACGGCTCTGGGACTAAAGTCTCTGACCAAGatctcttttgtacagtttccctccttctttctaaagttctaccttcatgaggtcaccac Alignment from GeneWise GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG--------- tccagcctaaacttggtagcttcctactttttttttcttttaattaatagGCCGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACGGCTCTGGGACTAAAGTCTCTGACCAAGATCTCTTTTgtacagtttccctccttctttctaaagttctaccttcatgaggtcaccac #### Sfxn3_ID9291_9 --> 1 - 2 Original Alignment c------TTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAGAag agctatgctgtaatatgcttttcacgaaggtaacgtgtgctcccttccagcAAGATCCTGGTATTCGCCACCCCCCTGTGTTGTGCCTTGTTCCCACAGAGAgcgtaagtgagtgataccaacatagttgctctgtctgaataagttgtatgtt Alignment from CESAR c------TTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAGAag agctatgctgtaatatgcttttcacgaaggtaacgtgtgctcccttccagcAAGATCCTGGTATTCGCCACCCCCCTGTGTTGTGCCTTGTTCCCACAGAGAgcgtaagtgagtgataccaacatagttgctctgtctgaataagttgtatgtt Alignment from Spaln_aa2Genome C-------TTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAGAAG agctatgctgtaatatgcttttcacgaaggtaacgtgtgctcccttccagCAAGATCCTGGTATTCGCCACCCCCCTGTGTTGTGCCTTGTTCCCACAGAGAGCgtaagtgagtgataccaacatagttgctctgtctgaataagttgtatgtt Alignment from Spaln_nt2Genome CT------TGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAGAAG agctatgctgtaatatgcttttcacgaaggtaacgtgtgctcccttccagCAAGATCCTGGTATTCGCCACCCCCCTGTGTTGTGCCTTGTTCCCACAGAGAGCgtaagtgagtgataccaacatagttgctctgtctgaataagttgtatgtt Alignment from Pairagon ------CTTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAGAAG agctatgctgtaatatgcttttcacgaaggtaacgtgtgctcccttccagCAAGATCCTGGTATTCGCCACCCCCCTGTGTTGTGCCTTGTTCCCACAGAGAGCgtaagtgagtgataccaacatagttgctctgtctgaataagttgtatgtt Alignment from Exonerate_protein2genome CTTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAGAAG agctatgctgtaatatgcttttcacgaaggtaacgtgtgctcccttccagcaagatCCTGGTATTCGCCACCCCCCTGTGTTGTGCCTTGTTCCCACAGAGAGCgtaagtgagtgataccaacatagttgctctgtctgaataagttgtatgtt Alignment from Exonerate_coding2genome agctatgctgtaatatgcttttcacgaaggtaacgtgtgctcccttccagcaagatcctggtattcgccacccccctgtgttgtgccttgttcccacagagagcgtaagtgagtgataccaacatagttgctctgtctgaataagttgtatgtt Alignment from GeneWise ----TGCTTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAGAAG agctatgctgtaatatgcttttcacgaaggtaacgtgtgctcccttccagCAAGATCCTGGTATTCGCCACCCCCCTGTGTTGTGCCTTGTTCCCACAGAGAGCgtaagtgagtgataccaacatagttgctctgtctgaataagttgtatgtt #### Shoc2_ID11421_7 --> 0 - 1 Original Alignment AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCg gaatatacaccatgtatgtttgtgtggcttttccctcgtccatttaacag------GTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCACTAACCTCACTCACCTTGGTCTAGGTGAGAACCTGCTCACTCACCTGCCTGAAGAAATTggtaagtacttggatgacaccgataattttgtatatctgacattttaagaa Alignment from CESAR AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCg gcaattgaatatacaccatgtatgtggcttttccctcgtccatttaacag------GTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCACTAACCTCACTCACCTTGGTCTAGGTGAGAACCTGCTCACTCACCTGCCTGAAGAAATTggtaagtacttggatgacaccgataattttgtatatctgacattttaagaa Alignment from Spaln_aa2Genome AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG gaatatacaccatgtatgtttgtgtggcttttccctcgtccatttaacag------GTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCACTAACCTCACTCACCTTGGTCTAGGTGAGAACCTGCTCACTCACCTGCCTGAAGAAATTGgtaagtacttggatgacaccgataattttgtatatctgacattttaagaa Alignment from Spaln_nt2Genome GTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG gaatatacaccatgtatgtttgtgtggcttttccctcgtccatttaacagGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCACTAACCTCACTCACCTTGGTCTAGGTGAGAACCTGCTCACTCACCTGCCTGAAGAAATTGgtaagtacttggatgacaccgataattttgtatatctgacattttaagaa Alignment from Pairagon GTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG gaatatacaccatgtatgtttgtgtggcttttccctcgtccatttaacagGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCACTAACCTCACTCACCTTGGTCTAGGTGAGAACCTGCTCACTCACCTGCCTGAAGAAATTGgtaagtacttggatgacaccgataattttgtatatctgacattttaagaa Alignment from Exonerate_protein2genome AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG gaatatacaccatgtatgtttgtgtggcttttccctcgtccatttaacag------GTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCACTAACCTCACTCACCTTGGTCTAGGTGAGAACCTGCTCACTCACCTGCCTGAAGAAATTGgtaagtacttggatgacaccgataattttgtatatctgacattttaagaa Alignment from Exonerate_coding2genome AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG gaatatacaccatgtatgtttgtgtggcttttccctcgtccatttaacag------GTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCACTAACCTCACTCACCTTGGTCTAGGTGAGAACCTGCTCACTCACCTGCCTGAAGAAATTGgtaagtacttggatgacaccgataattttgtatatctgacattttaagaa Alignment from GeneWise AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG gaatatacaccatgtatgtttgtgtggcttttccctcgtccatttaacagGTCTTA------ACAAACAACCAGTTAAGCATGCTCCCAAGGGGTATAGGCCACCTCACTAACCTCACTCACCTTGGTCTAGGTGAGAACCTGCTCACTCACCTGCCTGAAGAAATTGgtaagtacttggatgacaccgataattttgtatatctgacattttaagaa #### Sipa1_ID1139_13 --> 2 - 2 Original Alignment gaCAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCT---------ga ggtgatgctgttcattggacattagccattaatctcttggaatgctatagggCAATCAATCTCTGAGAGTGGTGATCTCAAGGAGGCTTCAAAGTGTGATTCTGTTCAATTTgagtaagtcttctcttgtgatcatgttgcttgattttctgttgggtgtggca Alignment from CESAR gaCAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCT---------ga ggtgatgctgttcattggacattagccattaatctcttggaatgctatagggCAATCAATCTCTGAGAGTGGTGATCTCAAGGAGGCTTCAAAGTGTGATTCTGTTCAATTTgagtaagtcttctcttgtgatcatgttgcttgattttctgttgggtgtggca Alignment from Spaln_aa2Genome GACAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTGAGCCA----- ggtgatgctgttcattggacattagccattaatctcttggaatgctatagGGCAATCAATCTCTGAGAGTGGTGATCTCAAGGAGGCTTCAAAGTGTGATTCTGTTCAATTTGAgtaagtcttctcttgtgatcatgttgcttgattttctgttgggtgtggca Alignment from Spaln_nt2Genome GACAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTGAGCCA---GA ggtgatgctgttcattggacattagccattaatctcttggaatgctatagGGCAATCAATCTCTGAGAGTGGTGATCTCAAGGAGGCTTCAAAGTGTGATTCTGTTCAATTTGAgtaagtcttctcttgtgatcatgttgcttgattttctgttgggtgtggca Alignment from Pairagon GACAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTC---------TGA ggtgatgctgttcattggacattagccattaatctcttggaatgctatagGGCAATCAATCTCTGAGAGTGGTGATCTCAAGGAGGCTTCAAAGTGTGATTCTGTTCAATTTGAgtaagtcttctcttgtgatcatgttgcttgattttctgttgggtgtggca Alignment from Exonerate_protein2genome GACAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTGAGCC ggtgatgctgttcattggacattagccattaatctcttggaatgctatagGGCAATCAATCTCTGAGAGTGGTGATCTCAAGGAGGCTTCAAAGTGTGATTCTGTTCAatttgagtaagtcttctcttgtgatcatgttgcttgattttctgttgggtgtggca Alignment from Exonerate_coding2genome ggtgatgctgttcattggacattagccattaatctcttggaatgctatagggcaatcaatctctgagagtggtgatctcaaggaggcttcaaagtgtgattctgttcaatttgagtaagtcttctcttgtgatcatgttgcttgattttctgttgggtgtggca Alignment from GeneWise GACAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTGAGCCAGAA-- ggtgatgctgttcattggacattagccattaatctcttggaatgctatagGGCAATCAATCTCTGAGAGTGGTGATCTCAAGGAGGCTTCAAAGTGTGATTCTGTTCAATTTGAgtaagtcttctcttgtgatcatgttgcttgattttctgttgggtgtggca #### Sipa1_ID1142_10 --> 1 - 0 Original Alignment c---------TCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG agggaggtgcttccgcaagagaataatctgaccccacattctctccgtagcCTCTTTGGATCCCTGACTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTACTGATTACAACAGCTAACACTTCTGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtaaggagggaggcgtaggctctattaacacatggcccactgtcaaggtc Alignment from CESAR c---------TCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG agggaggtgcttccgcaagagaataatctgaccccacattctctccgtagcCTCTTTGGATCCCTGACTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTACTGATTACAACAGCTAACACTTCTGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtaaggagggaggcgtaggctctattaacacatggcccactgtcaaggtc Alignment from Spaln_aa2Genome C----------TCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG agggaggtgcttccgcaagagaataatctgaccccacattctctccgtagCCTCTTTGGATCCCTGACTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTACTGATTACAACAGCTAACACTTCTGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtaaggagggaggcgtaggctctattaacacatggcccactgtcaaggtc Alignment from Spaln_nt2Genome C---------TCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG agggaggtgcttccgcaagagaataatctgaccccacattctctccgtagCCTCTTTGGATCCCTGACTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTACTGATTACAACAGCTAACACTTCTGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtaaggagggaggcgtaggctctattaacacatggcccactgtcaaggtc Alignment from Pairagon C---------TCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG agggaggtgcttccgcaagagaataatctgaccccacattctctccgtagCCTCTTTGGATCCCTGACTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTACTGATTACAACAGCTAACACTTCTGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtaaggagggaggcgtaggctctattaacacatggcccactgtcaaggtc Alignment from Exonerate_protein2genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG agggaggtgcttccgcaagagaataatctgaccccacattctctccgtagcctctttggATCCCTGACTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTACTGATTACAACAGCTAACACTTCTGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtaaggagggaggcgtaggctctattaacacatggcccactgtcaaggtc Alignment from Exonerate_coding2genome agggaggtgcttccgcaagagaataatctgaccccacattctctccgtagcctctttggatccctgactgatgaggtccctgtcctacccaagattacaccagatctcctactgattacaacagctaacacttctgcccctgatactgatagagaaacaccaccttcccaggtaaggagggaggcgtaggctctattaacacatggcccactgtcaaggtc Alignment from GeneWise -------AGCTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG agggaggtgcttccgcaagagaataatctgaccccacattctctccgtagCCTCTTTGGATCCCTGACTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTACTGATTACAACAGCTAACACTTCTGCCCCTGATACTGATAGAGAAACACCACCTTCCCAGgtaaggagggaggcgtaggctctattaacacatggcccactgtcaaggtc #### Sipa1_ID1146_6 --> 0 - 2 Original Alignment CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATAC---ag ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACGTGaggtgagcatttggttaagctggggtcttagggatgggtcagctgtcatggt Alignment from CESAR CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATAC---ag ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACGTGaggtgagcatttggttaagctggggtcttagggatgggtcagctgtcatggt Alignment from Spaln_aa2Genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAGG-- ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACGTGAGgtgagcatttggttaagctggggtcttagggatgggtcagctgtcatggt Alignment from Spaln_nt2Genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATAC---AG ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACGTGAGgtgagcatttggttaagctggggtcttagggatgggtcagctgtcatggt Alignment from Pairagon CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATAC ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACgtgaggtgagcatttggttaagctggggtcttagggatgggtcagctgtcatggt Alignment from Exonerate_protein2genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATAC---AG ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACGTGAGgtgagcatttggttaagctggggtcttagggatgggtcagctgtcatggt Alignment from Exonerate_coding2genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATAC---AG ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACGTGAGgtgagcatttggttaagctggggtcttagggatgggtcagctgtcatggt Alignment from GeneWise CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAGG-- ttgagcacactgaaaatcaggtatttttaatttaacaatttttctaacagCTGCTAAGGAAATGTCACATCAGTAATGACATTGTGACTATTGTTTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAGTATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACGTGAGgtgagcatttggttaagctggggtcttagggatgggtcagctgtcatggt #### Slc15a3_ID3029_4 --> 0 - 0 Original Alignment ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG gggctctactactaggtgtactgactccgaaacatattttcttttcctag---CAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTTAGGACC---CCTAACATATCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtaaaatgcttgtgctaaactacatggttatatcacagtcactgaggaaa Alignment from CESAR ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ttagggctctactactaggtgtacttccgaaacatattttcttttcctag---CAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTTAGGACC---CCTAACATATCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtaaaatgcttgtgctaaactacatggttatatcacagtcactgaggaaa Alignment from Spaln_aa2Genome ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG gggctctactactaggtgtactgactccgaaacatattttcttttcctag---CAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTTAGGACC---CCTAACATATCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtaaaatgcttgtgctaaactacatggttatatcacagtcactgaggaaa Alignment from Spaln_nt2Genome ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG gggctctactactaggtgtactgactccgaaacatattttcttttcctag---CAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTTAGGAC---CCCTAACATATCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtaaaatgcttgtgctaaactacatggttatatcacagtcactgaggaaa Alignment from Pairagon ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG gggctctactactaggtgtactgactccgaaacatattttcttttcctag---CAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTTAGGAC---CCCTAACATATCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtaaaatgcttgtgctaaactacatggttatatcacagtcactgaggaaa Alignment from Exonerate_protein2genome CAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG gggctctactactaggtgtactgactccgaaacatattttcttttcctagCAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTTAGGACC---CCTAACATATCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtaaaatgcttgtgctaaactacatggttatatcacagtcactgaggaaa Alignment from Exonerate_coding2genome CAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG gggctctactactaggtgtactgactccgaaacatattttcttttcctagCAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTTAGGACC---CCTAACATATCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtaaaatgcttgtgctaaactacatggttatatcacagtcactgaggaaa Alignment from GeneWise CAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG gggctctactactaggtgtactgactccgaaacatattttcttttcctagCAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTTAGGACC---CCTAACATATCTCTCTTGCTGAGATCAGACAGCAGTAACTACAGAgtaaaatgcttgtgctaaactacatggttatatcacagtcactgaggaaa #### Slc18a2_ID12936_4 --> 2 - 1 Original Alignment tgTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTg gtttatgtaggggaccaggaaggcaacccttctctcctgtcctgatacagtg---GCATAT------GGTTATGCCTTCCTCCTGATCGCCAAGTCCTTGCAAGGAATAGGTTCATCTTGCTCATCTGTTGCTggtacagctataattaatgtatgaccatggactcacaggtattgaggcagg Alignment from CESAR tgTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTg caggtttatgtaggggaccaggaagacccttctctcctgtcctgatacagtg---GCATAT------GGTTATGCCTTCCTCCTGATCGCCAAGTCCTTGCAAGGAATAGGTTCATCTTGCTCATCTGTTGCTggtacagctataattaatgtatgaccatggactcacaggtattgaggcagg Alignment from Spaln_aa2Genome TCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG gtttatgtaggggaccaggaaggcaacccttctctcctgtcctgatacagTGGCATATGGTTATGCCTTCCTCCTGATCGCCAAGTCCTTGCAAGGAATAGGTTCATCTTGCTCATCTGTTGCTGgtacagctataattaatgtatgaccatggactcacaggtattgaggcagg Alignment from Spaln_nt2Genome TCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG gtttatgtaggggaccaggaaggcaacccttctctcctgtcctgatacagTGGCATATGGTTATGCCTTCCTCCTGATCGCCAAGTCCTTGCAAGGAATAGGTTCATCTTGCTCATCTGTTGCTGgtacagctataattaatgtatgaccatggactcacaggtattgaggcagg Alignment from Pairagon TGTTTGCCTTCTCCAGCA----GCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG gtttatgtaggggaccaggaaggcaacccttctctcctgtcctgatacagTG-------------GCATATGGTTATGCCTTCCTCCTGATCGCCAAGTCCTTGCAAGGAATAGGTTCATCTTGCTCATCTGTTGCTGgtacagctataattaatgtatgaccatggactcacaggtattgaggcagg Alignment from Exonerate_protein2genome TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG gtttatgtaggggaccaggaaggcaacccttctctcctgtcCTGATACAGTGGCATATGGTTATGCCTTCCTCCTGATCGCCAAGTCCTTGCAAGGAATAGGTTCATCTTGCTCATCTGTTGCTGgtacagctataattaatgtatgaccatggactcacaggtattgaggcagg Alignment from Exonerate_coding2genome TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG gtttatgtaggggaccaggaaggcaacccttctctcctgtcCTGATACAGTGGCATATGGTTATGCCTTCCTCCTGATCGCCAAGTCCTTGCAAGGAATAGGTTCATCTTGCTCATCTGTTGCTGgtacagctataattaatgtatgaccatggactcacaggtattgaggcagg Alignment from GeneWise TCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG gtttatgtaggggaccaggaaggcaacccttctctcctgtcctgatacagTGGCATATGGTTATGCCTTCCTCCTGATCGCCAAGTCCTTGCAAGGAATAGGTTCATCTTGCTCATCTGTTGCTGgtacagctataattaatgtatgaccatggactcacaggtattgaggcagg #### Slc18a2_ID12939_7 --> 2 - 0 Original Alignment ct------ATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA gccaagtatgggatacctgtggtatgattcatatattgtcattctttcagctTTGAGTATTCAACTCTTTGTAATTCAA---TCCTGCATACTTCCGGATgtaagaagccgggaatttaaagcacagttaaatttttcaaatcaaatctt Alignment from CESAR ct------ATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA gccaagtatgggatacctgtggtatgattcatatattgtcattctttcagctTTGAGTATTCAACTCTTTGTAATTCAA---TCCTGCATACTTCCGGATgtaagaagccgggaatttaaagcacagttaaatttttctttcaattttgg Alignment from Spaln_aa2Genome CT------ATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA gccaagtatgggatacctgtggtatgattcatatattgtcattctttcagCTTTGAGTATTCAACTCTTTGTAATTCAA---TCCTGCATACTTCCGGATgtaagaagccgggaatttaaagcacagttaaatttttcaaatcaaatctt Alignment from Spaln_nt2Genome CT------ATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA gccaagtatgggatacctgtggtatgattcatatattgtcattctttcagCTTTGAGTATTCAACTCTTTGTAATTCA---ATCCTGCATACTTCCGGATgtaagaagccgggaatttaaagcacagttaaatttttcaaatcaaatctt Alignment from Pairagon gccaagtatgggatacctgtggtatgattcatatattgtcattctttcagctttgagtattcaactctttgtaattcaatcctgcatacttccggatgtaagaagccgggaatttaaagcacagttaaatttttcaaatcaaatctt Alignment from Exonerate_protein2genome CTATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA gccaagtatgggatacctgtggtatgattcatatattgtcattctttcagctttgaGTATTCAACTCTTTGTAATTCAA---TCCTGCATACTTCCGGATgtaagaagccgggaatttaaagcacagttaaatttttcaaatcaaatctt Alignment from Exonerate_coding2genome gccaagtatgggatacctgtggtatgattcatatattgtcattctttcagctttgagtattcaactctttgtaattcaatcctgcatacttccggatgtaagaagccgggaatttaaagcacagttaaatttttcaaatcaaatctt Alignment from GeneWise gccaagtatgggatacctgtggtatgattcatatattgtcattctttcagctttgagtattcaactctttgtaattcaatcctgcatacttccggatgtaagaagccgggaatttaaagcacagttaaatttttcaaatcaaatctt #### Slc18a2_ID12944_11 --> 1 - 0 Original Alignment gTGGCTGTGTGCTCTTCTGGGAATGATAGTTGTTGGGATCAGCATTTTATGT------ atggactcaattttccctgtctaatgagtctacaaatgcctttcctccaggTGGCTGTGTGCCCTTTTGGGAATGACAGTAGTAGGCATCACTATCTTATGTTGCCTGgtcagacaggggggacagtattccttacatggatcccaattagctgacaa Alignment from CESAR gTGGCTGTGTGCTCTTCTGGGAATGATAGTTGTTGGGATCAGCATTTTATGT------ atggactcaattttccctgtctaatgagtctacaaatgcctttcctccaggTGGCTGTGTGCCCTTTTGGGAATGACAGTAGTAGGCATCACTATCTTATGTTGCCTGgtcagacaggggggacagtattccttacatggatcccaattagctgacaa Alignment from Spaln_aa2Genome GTGGCTGTGTGCTCTTCTGGGAATGATAGTTGTTGGGATCAGCATTTTATGT------ atggactcaattttccctgtctaatgagtctacaaatgcctttcctccagGTGGCTGTGTGCCCTTTTGGGAATGACAGTAGTAGGCATCACTATCTTATGTTGCCTGgtcagacaggggggacagtattccttacatggatcccaattagctgacaa Alignment from Spaln_nt2Genome GTGGCTGTGTGCTCTTCTGGGAATGATAGTTGTTGGGATCAGCATTTTAT atggactcaattttccctgtctaatgagtctacaaatgcctttcctccagGTGGCTGTGTGCCCTTTTGGGAATGACAGTAGTAGGCATCACTATCTTATgttgcctggtcagacaggggggacagtattccttacatggatcccaattagctgacaa Alignment from Pairagon GTGGCTGTGTGCTCTTCTGGGAATGATAGTTGTTGGGATCAGCATTTTATGT------ atggactcaattttccctgtctaatgagtctacaaatgcctttcctccagGTGGCTGTGTGCCCTTTTGGGAATGACAGTAGTAGGCATCACTATCTTATGTTGCCTGgtcagacaggggggacagtattccttacatggatcccaattagctgacaa Alignment from Exonerate_protein2genome GTGGCTGTGTGCTCTTCTGGGAATGATAGTTGTTGGGATCAGCATTTTATGT------ atggactcaattttccctgtctaatgagtctacaaatgcctttcctccagGTGGCTGTGTGCCCTTTTGGGAATGACAGTAGTAGGCATCACTATCTTATGTTGCCTGgtcagacaggggggacagtattccttacatggatcccaattagctgacaa Alignment from Exonerate_coding2genome GTGGCTGTGTGCTCTTCTGGGAATGATAGTTGTTGGGATCAGCATTTTATGT------ atggactcaattttccctgtctaatgagtctacaaatgcctttcctccagGTGGCTGTGTGCCCTTTTGGGAATGACAGTAGTAGGCATCACTATCTTATGTTGCCTGgtcagacaggggggacagtattccttacatggatcccaattagctgacaa Alignment from GeneWise GTGGCTGTGTGCTCTTCTGGGAATGATAGTTGTTGGGATCAGCATTTTATGT------ atggactcaattttccctgtctaatgagtctacaaatgcctttcctccagGTGGCTGTGTGCCCTTTTGGGAATGACAGTAGTAGGCATCACTATCTTATGTTGCCTGgtcagacaggggggacagtattccttacatggatcccaattagctgacaa #### Slc22a12_ID1788_9 --> 1 - 2 Original Alignment gATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAAca gcctaatgaatacaaaagaatattgctgctctgcttttgcgatgtttcaggATGACTGCAGTATGTGTCTGCCATGTTGTGGCTCGAGGGGGAGCTACTTTGGGGCCTTTATTG---------------------------ATACCCTTGCTGGTTTATGGA------CCAGTTTTAAGTGGCTTTGCAGCATTGCTACTGCCTGAGACCAAAATATTACCTCTTCCTGACACCATTCAAGATATACAG---cagtatgtagtttaaacagactgtttgaatttgctgtttgattccctccatc Alignment from CESAR gATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAAca gcctaatgaatacaaaagaatattgctgctctgcttttgcgatgtttcaggATGACTGCAGTATGTGTCTGCCATGTTGTGGCTCGAGGGGGAGCTACTTTGGGGCCTTTATTG---------------------------ATACCCTTGCTGGTTTATGGA------CCAGTTTTAAGTGGCTTTGCAGCATTGCTACTGCCTGAGACCAAAATATTACCTCTTCCTGACACCATTCAAGATATACAG---cagtatgtagtttaaacagactgtttgaatttgctgtttgattccctccatc Alignment from Spaln_aa2Genome GATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAA gcctaatgaatacaaaagaatattgctgctctgcttttgcgatgtttcagGATGACTGCAGTATGTGTCTGCCATGTTGTGGCTCGAGGGGGAGCTACTTTGGGGCCTTTATTG---------------------------ATACCCTTGCTGGTTTATGGA------CCAGTTTTAAGTGGCTTTGCAGCATTGCTACTGCCTGAGACCAAAATATTACCTCTTCCTGACACCATTCAAGATATACAGCAgtatgtagtttaaacagactgtttgaatttgctgtttgattccctccatc Alignment from Spaln_nt2Genome GATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAACA gcctaatgaatacaaaagaatattgctgctctgcttttgcgatgtttcagGATGACTGCAGTATGTGTCTGCCATGTTGTGGCTCGAGGGGGAGCTACTTTGGGGCCTTT---------------------------ATTGATACCCTTGCTGGTTTATGGA------CCAGTTTTAAGTGGCTTTGCAGCATTGCTACTGCCTGAGACCAAAATATTACCTCTTCCTGACACCATTCAAGATATACAG---CAgtatgtagtttaaacagactgtttgaatttgctgtttgattccctccatc Alignment from Pairagon GATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAACA gcctaatgaatacaaaagaatattgctgctctgcttttgcgatgtttcagGATGACTGCAGTATGTGTCTGCCATGTTGTGGCTCGAGGGGGAGCTACTTTGGGGCCTTTA---------------------------TTGATACCCTTGCTGGTTTATGGA------CCAGTTTTAAGTGGCTTTGCAGCATTGCTACTGCCTGAGACCAAAATATTACCTCTTCCTGACACCATTCAAGATATACAG---CAgtatgtagtttaaacagactgtttgaatttgctgtttgattccctccatc Alignment from Exonerate_protein2genome GATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATG----CCCCTGCTGGTGTATGGAGTGGTG------CCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAA gcctaatGAATACAAAAGAATATTGCTGCTCTGCTTTTGCGATGTTTCAGGATGACTGCAGTATGTGTCTGCCATGTTGTGGCTCGAGGGGGAGCTACTTTGGGGCCTTTATTGATACCCTTGCTGGTTTATGGACCAGTTTTAAGTGGCTTTGCAGCATTGCTACTGCCTGAGACCAAAATATTACCTCTTCCTGACACCATTCAAGATATACAGCAgtatgtagtttaaacagactgtttgaatttgctgtttgattccctccatc Alignment from Exonerate_coding2genome gcctaatgaatacaaaagaatattgctgctctgcttttgcgatgtttcaggatgactgcagtatgtgtctgccatgttgtggctcgagggggagctactttggggcctttattgatacccttgctggtttatggaccagttttaagtggctttgcagcattgctactgcctgagaccaaaatattacctcttcctgacaccattcaagatatacagcagtatgtagtttaaacagactgtttgaatttgctgtttgattccctccatc Alignment from GeneWise GATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAA gcctaatgaatacaaaagaatattgctgctctgcttttgcgatgtttcagGATGACTGCAGTATGTGTCTGCCATGTTGTGGCTCGAGGGGGAGCTACTTTGGGGCCTTTATTG---------------------------ATACCCTTGCTGGTTTATGGA------CCAGTTTTAAGTGGCTTTGCAGCATTGCTACTGCCTGAGACCAAAATATTACCTCTTCCTGACACCATTCAAGATATACAGCAgtatgtagtttaaacagactgtttgaatttgctgtttgattccctccatc #### Slc22a20_ID1345_8 --> 2 - 2 Original Alignment at---CTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCag ttaccagtacatgcaagtccagcctagattccgtgtttactctcctttaggtGCTCAGCAGATGTTGCGAACTGTGCCAGCTGAACTAGGGAAGGGCTGTCTGGTGAGTTCGTTTATCTGTGTGTACCTTTTTATAGGGGGACTGTATCCA------ATCaggtgggtccaggacttaatcatctctggaccaggtccttgcttgtgggcat Alignment from CESAR at---CTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCag ttaccagtacatgcaagtccagcctagattccgtgtttactctcctttaggtGCTCAGCAGATGTTGCGAACTGTGCCAGCTGAACTAGGGAAGGGCTGTCTGGTGAGTTCGTTTATCTGTGTGTACCTTTTTATAGGGGGACTGTATCCA------ATCaggtgggtccaggacttaatcatctctggaccaggtcctttgcctctttctc Alignment from Spaln_aa2Genome CAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCAG ttaccagtacatgcaagtccagcctagattccgtgtttactctcctttaggtgctcagCAGATGTTGCGAACTGTGCCAGCTGAACTAGGGAAGGGCTGTCTGGTGAGTTCGTTTATCTGTGTGTACCTTTTTATAGGGGGACTGTATCCA------ATCAGgtgggtccaggacttaatcatctctggaccaggtccttgcttgtgggcat Alignment from Spaln_nt2Genome AT---CTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCAG ttaccagtacatgcaagtccagcctagattccgtgtttactctcctttagGTGCTCAGCAGATGTTGCGAACTGTGCCAGCTGAACTAGGGAAGGGCTGTCTGGTGAGTTCGTTTATCTGTGTGTACCTTTTTATAGGGGGACTGTATCC------AATCAGgtgggtccaggacttaatcatctctggaccaggtccttgcttgtgggcat Alignment from Pairagon ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCAG ttaccagtacatgcaagtccagcctagattccgtgtttactctcctttaggtgctcag-----CAGATGTTGCGAACTGTGCCAGCTGAACTAGGGAAGGGCTGTCTGGTGAGTTCGTTTATCTGTGTGTACCTTTTTATAGGGGGACTGTATCC------AATCAGgtgggtccaggacttaatcatctctggaccaggtccttgcttgtgggcat Alignment from Exonerate_protein2genome CAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCAG ttaccagtacatgcaagtccagcctagattccgtgtttactctcctttaggtgctcagCAGATGTTGCGAACTGTGCCAGCTGAACTAGGGAAGGGCTGTCTGGTGAGTTCGTTTATCTGTGTGTACCTTTTTATAGGGGGACTGTATCCA------ATCAGgtgggtccaggacttaatcatctctggaccaggtccttgcttgtgggcat Alignment from Exonerate_coding2genome ttaccagtacatgcaagtccagcctagattccgtgtttactctcctttaggtgctcagcagatgttgcgaactgtgccagctgaactagggaagggctgtctggtgagttcgtttatctgtgtgtacctttttatagggggactgtatccaatcaggtgggtccaggacttaatcatctctggaccaggtccttgcttgtgggcat Alignment from GeneWise CAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAG------------------------------------------------- ttaccagtacatgcaagtccagcctagattccgtgtttactctcctttaggtgctcagCAGATGTTGCGAACTGTGCCAGCTGAACTAGGGAAGGGCTGTCTGGTGAGTTCGTTTATCTGTGTGTACCTTTTTATAGGGGGACTGTATCCAATCAGGTGGGTCCAGGACTTAATCATCTCTGGACCAGGTCCTTGCTTGTGGGCAT #### Slc22a8_ID2276_9 --> 1 - 2 Original Alignment gCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACtg atgagtggaccagactctctttggcctctgaatttcattgcctctaacagg---------ATGGGTATCAGTAATATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGTCCTTCACTCCTAATGTCATCTTTGGTACCATG---CTACTGGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCCTAAATAGATCTCTACCAGAGACCATCAAGGACATACAAGATtggtgagttcccttagccccttaacttttgttacacacagttaacctagcag Alignment from CESAR gCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACtg aagttcagtatgagtggaccagactctctgaatttcattgcctctaacagg---------ATGGGTATCAGTAATATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGTCCTTCACTCCTAATGTCATCTTTGGTACCATG---CTACTGGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCCTAAATAGATCTCTACCAGAGACCATCAAGGACATACAAGATtggtgagttcccttagccccttaacttttgttacacacagttaacctagcag Alignment from Spaln_aa2Genome TATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG atgagtggaccagactctctttggcctctgaatttcattgcctctaacagGATGGGTATCAGTAATATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGTCCTTCACTCCTAATGTCATCTTTGGTACCATGCTACTGGGA---GGCAGTGCTGCATTCTTTCTACTTGAAACCCTAAATAGATCTCTACCAGAGACCATCAAGGACATACAAGATTGgtgagttcccttagccccttaacttttgttacacacagttaacctagcag Alignment from Spaln_nt2Genome TATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG atgagtggaccagactctctttggcctctgaatttcattgcctctaacagGATGGGTATCAGTAATATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGTCCTTCACTCCTAATGTCATCTTTGGTACCATG---CTACTGGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCCTAAATAGATCTCTACCAGAGACCATCAAGGACATACAAGATTGgtgagttcccttagccccttaacttttgttacacacagttaacctagcag Alignment from Pairagon TATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG atgagtggaccagactctctttggcctctgaatttcattgcctctaacagGATGGGTATCAGTAATATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGTCCTTCACTCCTAATGTCATCTTTGGTACCATG---CTACTGGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCCTAAATAGATCTCTACCAGAGACCATCAAGGACATACAAGATTGgtgagttcccttagccccttaacttttgttacacacagttaacctagcag Alignment from Exonerate_protein2genome TATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG atgagtggaccagactctctttggcctctgaatttcattgcctctaacagGATGGGTATCAGTAATATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGTCCTTCACTCCTAATGTCATCTTTGGTACCATG---CTACTGGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCCTAAATAGATCTCTACCAGAGACCATCAAGGACATACAAGATTGgtgagttcccttagccccttaacttttgttacacacagttaacctagcag Alignment from Exonerate_coding2genome TATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG atgagtggaccagactctctttggcctctgaatttcattgcctctaacagGATGGGTATCAGTAATATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGTCCTTCACTCCTAATGTCATCTTTGGTACCATG---CTACTGGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCCTAAATAGATCTCTACCAGAGACCATCAAGGACATACAAGATTGgtgagttcccttagccccttaacttttgttacacacagttaacctagcag Alignment from GeneWise TATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG atgagtggaccagactctctttggcctctgaatttcattgcctctaacagGATGGGTATCAGTAATATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGTGAACTGCAGTCCTTCACTCCTAATGTCATCTTTGGTACCATG---CTACTGGGAGGCAGTGCTGCATTCTTTCTACTTGAAACCCTAAATAGATCTCTACCAGAGACCATCAAGGACATACAAGATTGgtgagttcccttagccccttaacttttgttacacacagttaacctagcag #### Slc25a28_ID8782_3 --> 2 - 1 Original Alignment gt------GCAGCCGGATGTGTGGCGACATTACTTCATGATGCAGCCATGAATCCAGCGGAAg atcagtgtttagacaacatgttgtctggtatcccctgccctgcctcccaggtATTGATGCAGCTGGATGTGTAGCAACACTGCTGCATGATGCTGCAATGAATCCAGCAGAAggtgggcctccacttgccgtgtcgacctgcttgtagcctctaagcctaaca Alignment from CESAR gt------GCAGCCGGATGTGTGGCGACATTACTTCATGATGCAGCCATGAATCCAGCGGAAg atcagtgtttagacaacatgttgtctggtatcccctgccctgcctcccaggtATTGATGCAGCTGGATGTGTAGCAACACTGCTGCATGATGCTGCAATGAATCCAGCAGAAggtgggcctccacttgccgtgtcgacctgcttgtagcctctaagcctaaca Alignment from Spaln_aa2Genome GTGCAGCCGGATGT------GTGGCGACATTACTTCATGATGCAGCCATGAATCCAGCGGAAG atcagtgtttagacaacatgttgtctggtatcccctgccctgcctcccagGTATTGATGCAGCTGGATGTGTAGCAACACTGCTGCATGATGCTGCAATGAATCCAGCAGAAGgtgggcctccacttgccgtgtcgacctgcttgtagcctctaagcctaaca Alignment from Spaln_nt2Genome GTGCAGCCGGATGT------GTGGCGACATTACTTCATGATGCAGCCATGAATCCAGCGGAAG atcagtgtttagacaacatgttgtctggtatcccctgccctgcctcccagGTATTGATGCAGCTGGATGTGTAGCAACACTGCTGCATGATGCTGCAATGAATCCAGCAGAAGgtgggcctccacttgccgtgtcgacctgcttgtagcctctaagcctaaca Alignment from Pairagon G------TGCAGCCGGATGTGTGGCGACATTACTTCATGATGCAGCCATGAATCCAGCGGAAG atcagtgtttagacaacatgttgtctggtatcccctgccctgcctcccagGTATTGATGCAGCTGGATGTGTAGCAACACTGCTGCATGATGCTGCAATGAATCCAGCAGAAGgtgggcctccacttgccgtgtcgacctgcttgtagcctctaagcctaaca Alignment from Exonerate_protein2genome GTGCAGCCGGATGTGTGGCGACATTACTTCATGATGCAGCCATGAATCCAGCGGAAG atcagtgtttagacaacatgttgtctggtatcccctgccctgcctcccaggtattgATGCAGCTGGATGTGTAGCAACACTGCTGCATGATGCTGCAATGAATCCAGCAGAAGgtgggcctccacttgccgtgtcgacctgcttgtagcctctaagcctaaca Alignment from Exonerate_coding2genome atcagtgtttagacaacatgttgtctggtatcccctgccctgcctcccaggtattgatgcagctggatgtgtagcaacactgctgcatgatgctgcaatgaatccagcagaaggtgggcctccacttgccgtgtcgacctgcttgtagcctctaagcctaaca Alignment from GeneWise -----GGTGCAGCCGGATGTGTGGCGACATTACTTCATGATGCAGCCATGAATCCAGCGGAAG atcagtgtttagacaacatgttgtctggtatcccctgccctgcctcccagGTATTGATGCAGCTGGATGTGTAGCAACACTGCTGCATGATGCTGCAATGAATCCAGCAGAAGgtgggcctccacttgccgtgtcgacctgcttgtagcctctaagcctaaca #### Slc25a45_ID1291_2 --> 2 - 0 Original Alignment gaGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG--------- gagtcatgtccagggggtctggctagacttaaattcttgatctgttgcagggGCTGTGGGCCTGGTCCTGGGGCACCCATTTGACACTGTAAAGTTTCCCTCCgtaggtaacatgctgggatgagagcaaatattgaaaagttgggtgtgggt Alignment from CESAR gaGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG--------- gagtcatgtccagggggtctggctagacttaaattcttgatctgttgcagggGCTGTGGGCCTGGTCCTGGGGCACCCATTTGACACTGTAAAGTTTCCCTCCgtaggtaacatgctgggatgagagcaaatattgaaaagttgggtgtgggt Alignment from Spaln_aa2Genome GAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG--------- gagtcatgtccagggggtctggctagacttaaattcttgatctgttgcagGGGCTGTGGGCCTGGTCCTGGGGCACCCATTTGACACTGTAAAGTTTCCCTCCgtaggtaacatgctgggatgagagcaaatattgaaaagttgggtgtgggt Alignment from Spaln_nt2Genome GAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAA gagtcatgtccagggggtctggctagacttaaattcttgatctgttgcagGGGCTGTGGGCCTGGTCCTGGGGCACCCATTTGACACTGTAAAgtttccctccgtaggtaacatgctgggatgagagcaaatattgaaaagttgggtgtgggt Alignment from Pairagon GAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG--------- gagtcatgtccagggggtctggctagacttaaattcttgatctgttgcagGGGCTGTGGGCCTGGTCCTGGGGCACCCATTTGACACTGTAAAGTTTCCCTCCgtaggtaacatgctgggatgagagcaaatattgaaaagttgggtgtgggt Alignment from Exonerate_protein2genome GAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG gagtcatgtccagggggtctggctagacttaaattcttgatctgttgcagGGGCTGTGGGCCTGGTCCTGGGGCACCCATTTGACACTGTAAAGtttccctccgtaggtaacatgctgggatgagagcaaatattgaaaagttgggtgtgggt Alignment from Exonerate_coding2genome gagtcatgtccagggggtctggctagacttaaattcttgatctgttgcaggggctgtgggcctggtcctggggcacccatttgacactgtaaagtttccctccgtaggtaacatgctgggatgagagcaaatattgaaaagttgggtgtgggt Alignment from GeneWise ATCTCTGGAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG--------- gagtcatgtccagggggtctggctagacttaaattcttgatctGTTGCAGGGGCTGTGGGCCTGGTCCTGGGGCACCCATTTGACACTGTAAAGTTTCCCTCCgtaggtaacatgctgggatgagagcaaatattgaaaagttgggtgtgggt #### Slc25a45_ID1292_3 --> 0 - 0 Original Alignment GTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA--------- tgacttaaccattatgggagcactgctcttatttcctcggttcttttcagGTGCGCTTACAAACCCAAAGCACATATCAGGGCATTGTTGACTGTGTTGCTAAGACATATCGGCATCAATCACTCATGTACgtgagccccatccttgctataacactatttttgcccttaagagtgtctga Alignment from CESAR GTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA--------- tgacttaaccattatgggagcactgctcttatttcctcggttcttttcagGTGCGCTTACAAACCCAAAGCACATATCAGGGCATTGTTGACTGTGTTGCTAAGACATATCGGCATCAATCACTCATGTACgtgagccccatccttgctataacactatttttgcccttaagagtgtctga Alignment from Spaln_aa2Genome GTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA--------- tgacttaaccattatgggagcactgctcttatttcctcggttcttttcagGTGCGCTTACAAACCCAAAGCACATATCAGGGCATTGTTGACTGTGTTGCTAAGACATATCGGCATCAATCACTCATGTACgtgagccccatccttgctataacactatttttgcccttaagagtgtctga Alignment from Spaln_nt2Genome GTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCAGTCCT tgacttaaccattatgggagcactgctcttatttcctcggttcttttcagGTGCGCTTACAAACCCAAAGCACATATCAGGGCATTGTTGACTGTGTTGCTAAGACATATCGGCATCAATCACTCATgtacgtgagccccatccttgctataacactatttttgcccttaagagtgtctga Alignment from Pairagon GTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCAGTCCT tgacttaaccattatgggagcactgctcttatttcctcggttcttttcagGTGCGCTTACAAACCCAAAGCACATATCAGGGCATTGTTGACTGTGTTGCTAAGACATATCGGCATCAATCACTCATgtacgtgagccccatccttgctataacactatttttgcccttaagagtgtctga Alignment from Exonerate_protein2genome GTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgacttaaccattatgggagcactgctcttatttcctcggttcttttcagGTGCGCTTACAAACCCAAAGCACATATCAGGGCATTGTTGACTGTGTTGCTAAGACATATCGGCATCAATCActcatgtacgtgagccccatccttgctataacactatttttgcccttaagagtgtctga Alignment from Exonerate_coding2genome tgacttaaccattatgggagcactgctcttatttcctcggttcttttcaggtgcgcttacaaacccaaagcacatatcagggcattgttgactgtgttgctaagacatatcggcatcaatcactcatgtacgtgagccccatccttgctataacactatttttgcccttaagagtgtctga Alignment from GeneWise GTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA--------- tgacttaaccattatgggagcactgctcttatttcctcggttcttttcagGTGCGCTTACAAACCCAAAGCACATATCAGGGCATTGTTGACTGTGTTGCTAAGACATATCGGCATCAATCACTCATGTACgtgagccccatccttgctataacactatttttgcccttaagagtgtctga #### Slc29a2_ID788_2 --> 1 - 0 Original Alignment c------TACCACCTGGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG tgattgatgtcctccagtagaaaaggtgtgtgtgttttggttccacacagcAGGCTGTACCACCTGGCTGGCATCAGCTTTTTCATTCTGGGACTAGGCACCCTTCTCCCCTGGAATTTCTTCATTACTGCGATCCCAgtaggttagtgcattataaatgctacgaacaaattcccctatcacacctc Alignment from CESAR c------TACCACCTGGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG tgattgatgtcctccagtagaaaaggtgtgtgtgttttggttccacacagcAGGCTGTACCACCTGGCTGGCATCAGCTTTTTCATTCTGGGACTAGGCACCCTTCTCCCCTGGAATTTCTTCATTACTGCGATCCCAgtaggttagtgcattataaatgctacgaacaaattcccctatcacacctc Alignment from Spaln_aa2Genome C------TACCACCTGGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG tgattgatgtcctccagtagaaaaggtgtgtgtgttttggttccacacagCAGGCTGTACCACCTGGCTGGCATCAGCTTTTTCATTCTGGGACTAGGCACCCTTCTCCCCTGGAATTTCTTCATTACTGCGATCCCAgtaggttagtgcattataaatgctacgaacaaattcccctatcacacctc Alignment from Spaln_nt2Genome CTACCACCTG------GTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG tgattgatgtcctccagtagaaaaggtgtgtgtgttttggttccacacagCAGGCTGTACCACCTGGCTGGCATCAGCTTTTTCATTCTGGGACTAGGCACCCTTCTCCCCTGGAATTTCTTCATTACTGCGATCCCAgtaggttagtgcattataaatgctacgaacaaattcccctatcacacctc Alignment from Pairagon C------TACCACCTGGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG tgattgatgtcctccagtagaaaaggtgtgtgtgttttggttccacacagCAGGCTGTACCACCTGGCTGGCATCAGCTTTTTCATTCTGGGACTAGGCACCCTTCTCCCCTGGAATTTCTTCATTACTGCGATCCCAgtaggttagtgcattataaatgctacgaacaaattcccctatcacacctc Alignment from Exonerate_protein2genome C---TACCACCTGGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG tgattgatgtcctccagtagaaaaggtgtgtgtgttttggttccacacagcagGCTGTACCACCTGGCTGGCATCAGCTTTTTCATTCTGGGACTAGGCACCCTTCTCCCCTGGAATTTCTTCATTACTGCGATCCCAgtaggttagtgcattataaatgctacgaacaaattcccctatcacacctc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TACCACCTGGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG tgattgatgtcctccagtagaaaaggtgtgtgtgttttggttccacacagcaggctgTACCACCTGGCTGGCATCAGCTTTTTCATTCTGGGACTAGGCACCCTTCTCCCCTGGAATTTCTTCATTACTGCGATCCCAgtaggttagtgcattataaatgctacgaacaaattcccctatcacacctc #### Slc29a2_ID789_3 --> 0 - 2 Original Alignment TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAGTCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAG---tg gggttactcttgagaagctccctgtgcatttgtctttgttgttgacacag---CTCCGGGGACAGTTGGCGGGTACTAACAGCAGTGCTGACACCATCAGCAAAAACCACACCAGCCCTACTGATGCATCAAATGTCAACAATTGGGTGACACTGCTATCGCAGTTGCCTCTATTGTTGTTCACACTGCTCAACTCCTTCCTGTATCAGTGGtggtaagcaccacatagagtcaatccctcaacaaccattatcagacacctct Alignment from CESAR TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAGTCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAG---tg tgggggttactcttgagaagctcccgcatttgtctttgttgttgacacag---CTCCGGGGACAGTTGGCGGGTACTAACAGCAGTGCTGACACCATCAGCAAAAACCACACCAGCCCTACTGATGCATCAAATGTCAACAATTGGGTGACACTGCTATCGCAGTTGCCTCTATTGTTGTTCACACTGCTCAACTCCTTCCTGTATCAGTGGtggtaagcaccacatagagtcaatccctcaacaaccattatcagacacctct Alignment from Spaln_aa2Genome TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAGTCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAGTG gggttactcttgagaagctccctgtgcatttgtctttgttgttgacacag---CTCCGGGGACAGTTGGCGGGTACTAACAGCAGTGCTGACACCATCAGCAAAAACCACACCAGCCCTACTGATGCATCAAATGTCAACAATTGGGTGACACTGCTATCGCAGTTGCCTCTATTGTTGTTCACACTGCTCAACTCCTTCCTGTATCAGTGgtggtaagcaccacatagagtcaatccctcaacaaccattatcagacacctct Alignment from Spaln_nt2Genome TTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAGTCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAGTG gggttactcttgagaagctccctgtgcatttgtctttgttgttgacacagCTCCGGGGACAGTTGGCGGGTACTAACAGCAGTGCTGACACCATCAGCAAAAACCACACCAGCCCTACTGATGCATCAAATGTCAACAATTGGGTGACACTGCTATCGCAGTTGCCTCTATTGTTGTTCACACTGCTCAACTCCTTCCTGTATCAGTGgtggtaagcaccacatagagtcaatccctcaacaaccattatcagacacctct Alignment from Pairagon TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAGTCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAGTG gggttactcttgagaagctccctgtgcatttgtctttgttgttgacacag---CTCCGGGGACAGTTGGCGGGTACTAACAGCAGTGCTGACACCATCAGCAAAAACCACACCAGCCCTACTGATGCATCAAATGTCAACAATTGGGTGACACTGCTATCGCAGTTGCCTCTATTGTTGTTCACACTGCTCAACTCCTTCCTGTATCAGTGgtggtaagcaccacatagagtcaatccctcaacaaccattatcagacacctct Alignment from Exonerate_protein2genome TTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAGTCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAGTG gggttactcttgagaagctccctgtgcatttgtctttgttgttgacacagCTCCGGGGACAGTTGGCGGGTACTAACAGCAGTGCTGACACCATCAGCAAAAACCACACCAGCCCTACTGATGCATCAAATGTCAACAATTGGGTGACACTGCTATCGCAGTTGCCTCTATTGTTGTTCACACTGCTCAACTCCTTCCTGTATCAGTGgtggtaagcaccacatagagtcaatccctcaacaaccattatcagacacctct Alignment from Exonerate_coding2genome gggttactcttgagaagctccctgtgcatttgtctttgttgttgacacagctccggggacagttggcgggtactaacagcagtgctgacaccatcagcaaaaaccacaccagccctactgatgcatcaaatgtcaacaattgggtgacactgctatcgcagttgcctctattgttgttcacactgctcaactccttcctgtatcagtggtggtaagcaccacatagagtcaatccctcaacaaccattatcagacacctct Alignment from GeneWise TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAGTCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAGTG gggttactcttgagaagctccctgtgcatttgtctttgttgttgacacagCTC---CGGGGACAGTTGGCGGGTACTAACAGCAGTGCTGACACCATCAGCAAAAACCACACCAGCCCTACTGATGCATCAAATGTCAACAATTGGGTGACACTGCTATCGCAGTTGCCTCTATTGTTGTTCACACTGCTCAACTCCTTCCTGTATCAGTGgtggtaagcaccacatagagtcaatccctcaacaaccattatcagacacctct #### Slc29a2_ID793_7 --> 0 - 1 Original Alignment AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGCTg gggtttaactgtatcaagatgcttacattggagtttttcttcacaatcagAAGTTTTCCCGCTACTACCTAACTAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCAGAACTCCTTCAA---ggtaggttgtatcaggattaattggctctgctaaaggctttactctttttc Alignment from CESAR AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGCTg gggtttaactgtatcaagatgcttacattggagtttttcttcacaatcagAAGTTTTCCCGCTACTACCTAACTAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCAGAACTCCTTCAA---ggtaggttgtatcaggattaattggctctgctaaaggctttactctttttc Alignment from Spaln_aa2Genome AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAA- gggtttaactgtatcaagatgcttacattggagtttttcttcacaatcagAAGTTTTCCCGCTACTACCTAACTAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCAGAACTCCTTCAAGgtaggttgtatcaggattaattggctctgctaaaggctttactctttttc Alignment from Spaln_nt2Genome AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAG gggtttaactgtatcaagatgcttacattggagtttttcttcacaatcagAAGTTTTCCCGCTACTACCTAACTAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCAGAACTCCTTCAAGgtaggttgtatcaggattaattggctctgctaaaggctttactctttttc Alignment from Pairagon AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAG gggtttaactgtatcaagatgcttacattggagtttttcttcacaatcagAAGTTTTCCCGCTACTACCTAACTAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCAGAACTCCTTCAAGgtaggttgtatcaggattaattggctctgctaaaggctttactctttttc Alignment from Exonerate_protein2genome AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGCTG gggtttaactgtatcaagatgcttacattggagtttttcttcacaatcagAAGTTTTCCCGCTACTACCTAACTAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCAGAACTCCTTCAA---Ggtaggttgtatcaggattaattggctctgctaaaggctttactctttttc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAG gggtttaactgtatcaagatgcttacattggagtttttcttcacaatcagAAGTTTTCCCGCTACTACCTAACTAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCAGAACTCCTTCAAGgtaggttgtatcaggattaattggctctgctaaaggctttactctttttc #### Slc29a2_ID794_8 --> 2 - 0 Original Alignment atGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgaaaatctttaaagccataatgtccttttccctctcctttcccagatGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCCAGCCCAACTCTTGAGCTGGACCCTGAAACGGAGCCAGAACCAGAGCAGCCACAGAAGCCAGGCAAACCCTCAGTCTTTGTGGTTTTCAGG---gtgagtagttatcatgtacagccaggggtgggagcagtgggttgtttgac Alignment from CESAR atGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgaaaatctttaaagccataatgtccttttccctctcctttcccagatGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCCAGCCCAACTCTTGAGCTGGACCCTGAAACGGAGCCAGAACCAGAGCAGCCACAGAAGCCAGGCAAACCCTCAGTCTTTGTGGTTTTCAGG---gtgagtagttatcatgtacagccaggggtgggagcagtgggttgttt Alignment from Spaln_aa2Genome ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGG ctaatgaaaatctttaaagccataatgtccttttccctctcctttcccagATGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCCAGCCCAACTCTTGAGCTGGACCCTGAAACGGAGCCAGAACCAGAGCAGCCACAGAAGCCAGGCAAACCCTCAGTCTTTGTGGTTTTCAGGgtgagtagttatcatgtacagccaggggtgggagcagtgggttgtttgac Alignment from Spaln_nt2Genome ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGG ctaatgaaaatctttaaagccataatgtccttttccctctcctttcccagATGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCCAGCCCAACTCTTGAGCTGGACCCTGAAACGGAGCCAGAACCAGAGCAGCCACAGAAGCCAGGCAAACCCTCAGTCTTTGTGGTTTTCAGGgtgagtagttatcatgtacagccaggggtgggagcagtgggttgtttgac Alignment from Pairagon ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGG ctaatgaaaatctttaaagccataatgtccttttccctctcctttcccagATGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCCAGCCCAACTCTTGAGCTGGACCCTGAAACGGAGCCAGAACCAGAGCAGCCACAGAAGCCAGGCAAACCCTCAGTCTTTGTGGTTTTCAGGgtgagtagttatcatgtacagccaggggtgggagcagtgggttgtttgac Alignment from Exonerate_protein2genome ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGG ctaatgaaaatctttaaagccataatgtccttttccctctcctttcccagATGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCCAGCCCAACTCTTGAGCTGGACCCTGAAACGGAGCCAGAACCAGAGCAGCCACAGAAGCCAGGCAAACCCTCAGTCTTTGTGGTTTTCAGGgtgagtagttatcatgtacagccaggggtgggagcagtgggttgtttgac Alignment from Exonerate_coding2genome ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGG ctaatgaaaatctttaaagccataatgtccttttccctctcctttcccagATGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCCAGCCCAACTCTTGAGCTGGACCCTGAAACGGAGCCAGAACCAGAGCAGCCACAGAAGCCAGGCAAACCCTCAGTCTTTGTGGTTTTCAGGgtgagtagttatcatgtacagccaggggtgggagcagtgggttgtttgac Alignment from GeneWise ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG ctaatgaaaatctttaaagccataatgtccttttccctctcctttcccagATGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCCAGCCCAACTCTTGAGCTGGACCCTGAAACGGAGCCAGAACCAGAGCAGCCACAGAAGCCAGGCAAACCCTCAGTCTTTGTGGTTTTC---AGGgtgagtagttatcatgtacagccaggggtgggagcagtgggttgtttgac #### Slc29a2_ID795_9 --> 0 - 1 Original Alignment ------------ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGg tgacatgaatacttcagtgactatccagatgtctgtctgttctgccccagGTGCTCACTGCAATCTGGCTGACAGCGCTGTGCCTTGTGTTAGTCTTCACAGTTACCCTATCTGTTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGggtaagtactggtgatagttcacagcatggaacagaggagccaggtctaat Alignment from CESAR ------------ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGg tgacatgaatacttcagtgactatccagatgtctgtctgttctgccccagGTGCTCACTGCAATCTGGCTGACAGCGCTGTGCCTTGTGTTAGTCTTCACAGTTACCCTATCTGTTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGggtaagtactggtgatagttcacagcatggaacagaggagccagtcttgta Alignment from Spaln_aa2Genome ATCTGGCTGACG------------GCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgacatgaatacttcagtgactatccagatgtctgtctgttctgccccagGTGCTCACTGCAATCTGGCTGACAGCGCTGTGCCTTGTGTTAGTCTTCACAGTTACCCTATCTGTTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtaagtactggtgatagttcacagcatggaacagaggagccaggtctaat Alignment from Spaln_nt2Genome ------------ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgacatgaatacttcagtgactatccagatgtctgtctgttctgccccagGTGCTCACTGCAATCTGGCTGACAGCGCTGTGCCTTGTGTTAGTCTTCACAGTTACCCTATCTGTTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtaagtactggtgatagttcacagcatggaacagaggagccaggtctaat Alignment from Pairagon ------------ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgacatgaatacttcagtgactatccagatgtctgtctgttctgccccagGTGCTCACTGCAATCTGGCTGACAGCGCTGTGCCTTGTGTTAGTCTTCACAGTTACCCTATCTGTTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtaagtactggtgatagttcacagcatggaacagaggagccaggtctaat Alignment from Exonerate_protein2genome GTCTTCCGGAAGATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgacatgaatacttcagtgactatccagatgtctgtctgttctgccccagGTGCTCACTGCAATCTGGCTGACAGCGCTGTGCCTTGTGTTAGTCTTCACAGTTACCCTATCTGTTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtaagtactggtgatagttcacagcatggaacagaggagccaggtctaat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ------------ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG tgacatgaatacttcagtgactatccagatgtctgtctgttctgccccagGTGCTCACTGCAATCTGGCTGACAGCGCTGTGCCTTGTGTTAGTCTTCACAGTTACCCTATCTGTTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtaagtactggtgatagttcacagcatggaacagaggagccaggtctaat #### Smc3_ID11318_6 --> 0 - 2 Original Alignment ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTC---ac aatgatcacccagaaactggggatctctcaatcttttctgctctcctaagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCTAAAAAGGATCTGTATTTTCTAGATCAGAAGATGGTCGGGacgtaagcattctttctattctttctaatcatagagtgttacagttgatcca Alignment from CESAR ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTC---ac aatgatcacccagaaactggggatctctcaatcttttctgctctcctaagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCTAAAAAGGATCTGTATTTTCTAGATCAGAAGATGGTCGGGacgtaagcattctttctattctttctaatcatagagtgttacagttgatcca Alignment from Spaln_aa2Genome ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCACG-- aatgatcacccagaaactggggatctctcaatcttttctgctctcctaagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCTAAAAAGGATCTGTATTTTCTAGATCAGAAGATGGTCGGGACgtaagcattctttctattctttctaatcatagagtgttacagttgatcca Alignment from Spaln_nt2Genome ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTC---AC aatgatcacccagaaactggggatctctcaatcttttctgctctcctaagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCTAAAAAGGATCTGTATTTTCTAGATCAGAAGATGGTCGGGACgtaagcattctttctattctttctaatcatagagtgttacagttgatcca Alignment from Pairagon ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTC---AC aatgatcacccagaaactggggatctctcaatcttttctgctctcctaagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCTAAAAAGGATCTGTATTTTCTAGATCAGAAGATGGTCGGGACgtaagcattctttctattctttctaatcatagagtgttacagttgatcca Alignment from Exonerate_protein2genome ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTC---AC aatgatcacccagaaactggggatctctcaatcttttctgctctcctaagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCTAAAAAGGATCTGTATTTTCTAGATCAGAAGATGGTCGGGACgtaagcattctttctattctttctaatcatagagtgttacagttgatcca Alignment from Exonerate_coding2genome ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTC---AC aatgatcacccagaaactggggatctctcaatcttttctgctctcctaagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCTAAAAAGGATCTGTATTTTCTAGATCAGAAGATGGTCGGGACgtaagcattctttctattctttctaatcatagagtgttacagttgatcca Alignment from GeneWise ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCACG-- aatgatcacccagaaactggggatctctcaatcttttctgctctcctaagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCTAAAAAGGATCTGTATTTTCTAGATCAGAAGATGGTCGGGACgtaagcattctttctattctttctaatcatagagtgttacagttgatcca #### Smc3_ID11322_10 --> 0 - 0 Original Alignment ---------------CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG atttttatccaatgttcgaagtagatagactctttgtcatttgtcctcagCTCCTGAGCACTCCCCTTTCAGCTAAGCAGGAAACAAGTGGAGAGAAATCAAGACAACTAAGGGATGCACAGCAGGATACAAGAGATAAAATGGAGgtaagttgacacctaaggtcatacctgatttccaatgttacttgtactga Alignment from CESAR ---------------CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG atttttatccaatgttcgaagtagatagactctttgtcatttgtcctcagCTCCTGAGCACTCCCCTTTCAGCTAAGCAGGAAACAAGTGGAGAGAAATCAAGACAACTAAGGGATGCACAGCAGGATACAAGAGATAAAATGGAGgtaagttgacacctaaggtcatacctgatttccaatgttacttgtactga Alignment from Spaln_aa2Genome ATCACAGCAGAGATGGCCAAAGATTTTGTAGAAGACGATACCACGCATGGT atcctggccttggtctaaatccagttttgtttacctatcatttttttccag Alignment from Spaln_nt2Genome CTAAGCGAGAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG atttttatccaatgttcgaagtagatagactctttgtcatttgtcctcagctcctgagcactcccctttcagCTAAGCAGGAAACAAGTGGAGAGAAATCAAGACAACTAAGGGATGCACAGCAGGATACAAGAGATAAAATGGAGgtaagttgacacctaaggtcatacctgatttccaatgttacttgtactga Alignment from Pairagon ---------------CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG atttttatccaatgttcgaagtagatagactctttgtcatttgtcctcagCTCCTGAGCACTCCCCTTTCAGCTAAGCAGGAAACAAGTGGAGAGAAATCAAGACAACTAAGGGATGCACAGCAGGATACAAGAGATAAAATGGAGgtaagttgacacctaaggtcatacctgatttccaatgttacttgtactga Alignment from Exonerate_protein2genome CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG atttttatccaatgttcgaagtagatagactctttgtcatttgtcctcagctcctgagcactcccCTTTCAGCTAAGCAGGAAACAAGTGGAGAGAAATCAAGACAACTAAGGGATGCACAGCAGGATACAAGAGATAAAATGGAGgtaagttgacacctaaggtcatacctgatttccaatgttacttgtactga Alignment from Exonerate_coding2genome CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG atttttatccaatgttcgaagtagatagactctttgtcatttgtcctcagctcctgagcactcccCTTTCAGCTAAGCAGGAAACAAGTGGAGAGAAATCAAGACAACTAAGGGATGCACAGCAGGATACAAGAGATAAAATGGAGgtaagttgacacctaaggtcatacctgatttccaatgttacttgtactga Alignment from GeneWise ---------------CTTTCTGCTAAGCGAGAAACGAGTGGAGAGAAATCCAGACAACTAAGGGATGCCCAGCAGGATGCAAGAGACAAAATGGAG atttttatccaatgttcgaagtagatagactctttgtcatttgtcctcagCTCCTGAGCACTCCCCTTTCAGCTAAGCAGGAAACAAGTGGAGAGAAATCAAGACAACTAAGGGATGCACAGCAGGATACAAGAGATAAAATGGAGgtaagttgacacctaaggtcatacctgatttccaatgttacttgtactga #### Smc3_ID11338_26 --> 0 - 0 Original Alignment GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG cacctagttcgcaaggctgttagaatctaacagtggtttggtattttcag---------------------ATCTTCCAGAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATGTGGAGAGCAGTGAATCTAAGGACAAAGGAGAGGGGAGTGGCGAGAGTGAGCGAGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGTgtaagtgacttattatacttagtttctgatgtacctttttactttaaaac Alignment from CESAR GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG cgtttaagaaaagaagcatgccacctctaacagtggtttggtattttcag---------------------ATCTTCCAGAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATGTGGAGAGCAGTGAATCTAAGGACAAAGGAGAGGGGAGTGGCGAGAGTGAGCGAGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGTgtaagtgacttattatacttagtttctgatgtacctttttactttaaaac Alignment from Spaln_aa2Genome AAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG cacctagttcgcaaggctgttagaatctaacagtggtttggtattttcag---------------ATCTTCCAGAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATGTGGAGAGCAGTGAATCTAAGGACAAAGGAGAGGGGAGTGGCGAGAGTGAGCGAGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGTgtaagtgacttattatacttagtttctgatgtacctttttactttaaaac Alignment from Spaln_nt2Genome AAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG cacctagttcgcaaggctgttagaatctaacagtggtttggtattttcagA--TCTTCCAGAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATGTGGAGAGCAGTGAATCTAAGGACAAAGGAGAGGGGAGTGGCGAGAGTGAGCGAGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGTgtaagtgacttattatacttagtttctgatgtacctttttactttaaaac Alignment from Pairagon GTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG cacctagttcgcaaggctgttagaatctaacagtggtttggtattttcagATCTTCCAGAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATGTGGAGAGCAGTGAATCTAAGGACAAAGGAGAGGGGAGTGGCGAGAGTGAGCGAGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGTgtaagtgacttattatacttagtttctgatgtacctttttactttaaaac Alignment from Exonerate_protein2genome cacctagttcgcaaggctgttagaatctaacagtggtttggtattttcagatcttccagaaattggtacctggtggcaaatcaactttggtgatgaagaaaggtgatgtggagagcagtgaatctaaggacaaaggagaggggagtggcgagagtgagcgaggctctgggtcacagtgcagtgttccatcagttgaccaattcacaggagttgggatcagtgtaagtgacttattatacttagtttctgatgtacctttttactttaaaac Alignment from Exonerate_coding2genome AAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG cacctagttcgcaaggctgttagaatctaacagtggtttggtattttcagatcttccagAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATGTGGAGAGCAGTGAATCTAAGGACAAAGGAGAGGGGAGTGGCGAGAGTGAGCGAGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGTgtaagtgacttattatacttagtttctgatgtacctttttactttaaaac Alignment from GeneWise ------------AAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGGGTG----------------------------------------------- cacctagttcgcaaggctgttagAATCTAACAGTGGTTTGGTATTTTCAGATCTTCCAGAAATTGGTACCTGGTGGCAAATCAACTTTGGTGATGAAGAAAGGTGATGTGGAGAGCAGTGAATCTAAGGACAAAGGAGAGGGGAGTGGCGAGAGTGAGCGAGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGTGTAAGTGACTTATTATACTTAGTTTCTGATGTACCTTTTTACTTTAAAAC #### Smc5_ID5113_20 --> 0 - 0 Original Alignment ------------------------------GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgataccatggtgttcctttatgcagAATCTCAGAGGAAGTCCTGGTCCAAAAGCATTTGAAGATCTCCCGAACACATTGGATGAAATTGATGCATTATTAACTGCAGAAAGATCAAGAGCTTCATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattctct Alignment from CESAR ---------------------------GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgataccatggtgttcctttatgcagAATCTCAGAGGAAGTCCTGGTCCAAAAGCATTTGAAGATCTCCCGAACACATTGGATGAAATTGATGCATTATTAACTGCAGAAAGATCAAGAGCTTCATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattctct Alignment from Spaln_aa2Genome CTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgataccatggtgttcctttatgcagaatctcagaggaagtcctggtccaaaagCATTTGAAGATCTCCCGAACACATTGGATGAAATTGATGCATTATTAACTGCAGAAAGATCAAGAGCTTCATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattctct Alignment from Spaln_nt2Genome GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgataccatggtgttcctttatgcagaatctcagaggaagtcctggtccaaaag-CATTTGAAGATCTCCCGAACACATTGGATGAAATTGATGCATTATTAACTGCAGAAAGATCAAGAGCTTCATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattctct Alignment from Pairagon -------------------GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgataccatggtgttcctttatgcagaatctcagAGGAAGTCCTGGTCCAAAAGCATTTGAAGATCTCCCGAACACATTGGATGAAATTGATGCATTATTAACTGCAGAAAGATCAAGAGCTTCATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattctct Alignment from Exonerate_protein2genome GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgataccatggtgttcctttatgcagaatctcagaggaagtcctggtccaaaaGCATTTGAAGATCTCCCGAACACATTGGATGAAATTGATGCATTATTAACTGCAGAAAGATCAAGAGCTTCATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattctct Alignment from Exonerate_coding2genome GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgataccatggtgttcctttatgcagaatctcagaggaagtcctggtccaaaaGCATTTGAAGATCTCCCGAACACATTGGATGAAATTGATGCATTATTAACTGCAGAAAGATCAAGAGCTTCATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattctct Alignment from GeneWise AATGGACACAGCTCCTCACCCCCCATGGCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG catactggtatgctcatcacttactgataccatggtgttcctttatgcagAATCTCAGAGGAAGTCCTGGTCCAAAAGCATTTGAAGATCTCCCGAACACATTGGATGAAATTGATGCATTATTAACTGCAGAAAGATCAAGAGCTTCATGCTTCACAGGATTAAATCCTTCAgtatgactccatatttttgctatttaccctatttccacatgactgtattctct #### Smc5_ID5118_15 --> 0 - 2 Original Alignment GAAATGAATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAAAGAAAAACCAGGAAAAGGCAGCTGGAGCAGAAAATCAGCTCCAAGCTGGCAag agttcatatactggcttaatgtgctctttccgtccctcctctctcctcag------AATAGACAACTGGAGGCGGTTGACTCAGGGTGGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTCCTTGAACGAGAAACCAGAAAAAGGCAGCTGGAGCAAAAAGTTAGCTCCAAGCCAGGGaggtaagttctactgaagatttgaggccaggaagataatgaaagttagctcc Alignment from CESAR GAAATGAATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAAAGAAAAACCAGGAAAAGGCAGCTGGAGCAGAAAATCAGCTCCAAGCTGGCAag attcacagttcatatactggcttaactttccgtccctcctctctcctcag------AATAGACAACTGGAGGCGGTTGACTCAGGGTGGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTCCTTGAACGAGAAACCAGAAAAAGGCAGCTGGAGCAAAAAGTTAGCTCCAAGCCAGGGaggtaagttctactgaagatttgaggccaggaagataatgaaagttagctcc Alignment from Spaln_aa2Genome GAAATGAATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAAAGAAAAACCAGGAAAAGGCAGCTGGAGCAGAAAATCAGCTCCAAGCTGGCAAG agttcatatactggcttaatgtgctctttccgtccctcctctctcctcag------AATAGACAACTGGAGGCGGTTGACTCAGGGTGGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTCCTTGAACGAGAAACCAGAAAAAGGCAGCTGGAGCAAAAAGTTAGCTCCAAGCCAGGGAGgtaagttctactgaagatttgaggccaggaagataatgaaagttagctcc Alignment from Spaln_nt2Genome GAAATGAATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAAAGAAAAACCAGGAAAAGGCAGCTGGAGCAGAAAATCAGCTCCAAGCTGGCAAG agttcatatactggcttaatgtgctctttccgtccctcctctctcctcag------AATAGACAACTGGAGGCGGTTGACTCAGGGTGGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTCCTTGAACGAGAAACCAGAAAAAGGCAGCTGGAGCAAAAAGTTAGCTCCAAGCCAGGGAGgtaagttctactgaagatttgaggccaggaagataatgaaagttagctcc Alignment from Pairagon -------------------------------------------------GAATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAAAGAAAAACCAGGAAAAGGCAGCTGGAGCAGAAAATCAGCTCCAAGCTGGCAAG AGTTCATATACTGGCTTAATGTGCTCTTTCCGTCCCTCCTCTCTCCTCAGAATAGACAACTGGAGGCGGTTGACTCAGGGTGGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTCCTTGAACGAGAAACCAGAAAAAGGCAGCTGGAGCAAAAAGTTAGCTCCAAGCCAGGGAGgtaagttctactgaagatttgaggccaggaagataatgaaagttagctcc Alignment from Exonerate_protein2genome AATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAAAGAAAAACCAGGAAAAGGCAGCTGGAGCAGAAAATCAGCTCCAAGCTGGCAAG agttcatatactggcttaatgtgctctttccgtccctcctctctcctcagAATAGACAACTGGAGGCGGTTGACTCAGGGTGGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTCCTTGAACGAGAAACCAGAAAAAGGCAGCTGGAGCAAAAAGTTAGCTCCAAGCCAGGGAGgtaagttctactgaagatttgaggccaggaagataatgaaagttagctcc Alignment from Exonerate_coding2genome AATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAAAGAAAAACCAGGAAAAGGCAGCTGGAGCAGAAAATCAGCTCCAAGCTGGCAAG agttcatatactggcttaatgtgctctttccgtccctcctctctcctcagAATAGACAACTGGAGGCGGTTGACTCAGGGTGGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTCCTTGAACGAGAAACCAGAAAAAGGCAGCTGGAGCAAAAAGTTAGCTCCAAGCCAGGGAGgtaagttctactgaagatttgaggccaggaagataatgaaagttagctcc Alignment from GeneWise --------------------------------------------------AATAGACAACTGGAAGCAGTGGACTCAGGGTTGGCTGCCTTGCGTGATACGAACAGGCACCTTGAGCTCAAAGACAACGAGCTAAGGCTGAAGAAGAAGGAGCTTCTTGAAAGAAAAACCAGGAAAAGGCAGCTGGAGCAGAAAATCAGCTCCAAGCTGGCAAG AGTTCATATACTGGCTTAATGTGCTCTTTCCGTCCCTCCTCTCTCCTCAGAATAGACAACTGGAGGCGGTTGACTCAGGGTGGGTTGTACTGCGTGATGCAAACAGGCACCTCGAGCTTAAAGATAATGAGCTAAAGCTGAAGGAGAAGGAGCTCCTTGAACGAGAAACCAGAAAAAGGCAGCTGGAGCAAAAAGTTAGCTCCAAGCCAGGGAGgtaagttctactgaagatttgaggccaggaagataatgaaagttagctcc #### Snx15_ID1465_7 --> 2 - 1 Original Alignment aa------AGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAGCCT------GCCCCAGCTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAg tggatgaataggtccccaccccaagaggtaacaggcccaattctccccagcaATCTGGAGTACTGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAGGTCGGGGCTAAGAAGCTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATGGTGAGCCTGCTCCAGGTCCCCCTTATCTTGGCCAGGCAGCAGAGCTTATCACTCAAACTGTTAGAAATAAAAAGGCAGGCACCTACACTGCTGCCCTTCAAGGCTACCAAGACGGGGTTCACATCCTTTTGCAGGGTGTTTCTggtaagtagtaaggtagttaagcagaacacacaaatcccaattatgttatc Alignment from CESAR aa------AGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAGCCTGCCCCA------GCTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAg tggatgaataggtccccaccccaagaggtaacaggcccaattctccccagcaATCTGGAGTACTGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAGGTCGGGGCTAAGAAGCTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATGGTGAGCCTGCTCCAGGTCCCCCTTATCTTGGCCAGGCAGCAGAGCTTATCACTCAAACTGTTAGAAATAAAAAGGCAGGCACCTACACTGCTGCCCTTCAAGGCTACCAAGACGGGGTTCACATCCTTTTGCAGGGTGTTTCTggtaagtagtaaggtagttaagcagaacacacaaatcccaattatgttatc Alignment from Spaln_aa2Genome AA------AGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAGCCTGCC------CCAGCTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAG tggatgaataggtccccaccccaagaggtaacaggcccaattctccccagCAATCTGGAGTACTGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAGGTCGGGGCTAAGAAGCTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATGGTGAGCCTGCTCCAGGTCCCCCTTATCTTGGCCAGGCAGCAGAGCTTATCACTCAAACTGTTAGAAATAAAAAGGCAGGCACCTACACTGCTGCCCTTCAAGGCTACCAAGACGGGGTTCACATCCTTTTGCAGGGTGTTTCTGgtaagtagtaaggtagttaagcagaacacacaaatcccaattatgttatc Alignment from Spaln_nt2Genome AAA------GTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAGCCTGCCCCAGC------TTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAG tggatgaataggtccccaccccaagaggtaacaggcccaattctccccagCAATCTGGAGTACTGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAGGTCGGGGCTAAGAAGCTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATGGTGAGCCTGCTCCAGGTCCCCCTTATCTTGGCCAGGCAGCAGAGCTTATCACTCAAACTGTTAGAAATAAAAAGGCAGGCACCTACACTGCTGCCCTTCAAGGCTACCAAGACGGGGTTCACATCCTTTTGCAGGGTGTTTCTGgtaagtagtaaggtagttaagcagaacacacaaatcccaattatgttatc Alignment from Pairagon AA------AGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAGCCTGCCCCAG------CTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAG tggatgaataggtccccaccccaagaggtaacaggcccaattctccccagCAATCTGGAGTACTGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAGGTCGGGGCTAAGAAGCTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATGGTGAGCCTGCTCCAGGTCCCCCTTATCTTGGCCAGGCAGCAGAGCTTATCACTCAAACTGTTAGAAATAAAAAGGCAGGCACCTACACTGCTGCCCTTCAAGGCTACCAAGACGGGGTTCACATCCTTTTGCAGGGTGTTTCTGgtaagtagtaaggtagttaagcagaacacacaaatcccaattatgttatc Alignment from Exonerate_protein2genome GAGGAA--AGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAGCCTGCCCCAGCT------TACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAG tggatgaataggtccccaccccaagaggtaacaggcccaattctccccagCAATCTGGAGTACTGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAGGTCGGGGCTAAGAAGCTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATGGTGAGCCTGCTCCAGGTCCCCCTTATCTTGGCCAGGCAGCAGAGCTTATCACTCAAACTGTTAGAAATAAAAAGGCAGGCACCTACACTGCTGCCCTTCAAGGCTACCAAGACGGGGTTCACATCCTTTTGCAGGGTGTTTCTGgtaagtagtaaggtagttaagcagaacacacaaatcccaattatgttatc Alignment from Exonerate_coding2genome GAGGAA--AGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAGCCTGCCCCAGCT------TACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAG tggatgaataggtccccaccccaagaggtaacaggcccaattctccccagCAATCTGGAGTACTGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAGGTCGGGGCTAAGAAGCTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATGGTGAGCCTGCTCCAGGTCCCCCTTATCTTGGCCAGGCAGCAGAGCTTATCACTCAAACTGTTAGAAATAAAAAGGCAGGCACCTACACTGCTGCCCTTCAAGGCTACCAAGACGGGGTTCACATCCTTTTGCAGGGTGTTTCTGgtaagtagtaaggtagttaagcagaacacacaaatcccaattatgttatc Alignment from GeneWise -----GAAAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAGCCTGCCCCAGCT------TACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAG tggatgaataggtccccaccccaagaggtaacaggcccaattctccccagCAATCTGGAGTACTGGCCCCAGCCCAACCCATCCTGGTGAGTTAACTGCGATTGAGGTCGGGGCTAAGAAGCTGGATCATGAACCCTGGGAACCAGGTGGACAACAGCAGGAGGAAGCTGAGGATGGTGAGCCTGCTCCAGGTCCCCCTTATCTTGGCCAGGCAGCAGAGCTTATCACTCAAACTGTTAGAAATAAAAAGGCAGGCACCTACACTGCTGCCCTTCAAGGCTACCAAGACGGGGTTCACATCCTTTTGCAGGGTGTTTCTGgtaagtagtaaggtagttaagcagaacacacaaatcccaattatgttatc #### Snx15_ID1466_6 --> 2 - 1 Original Alignment tg------GATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGg atgtttccatcccccggataagtcttggtttctctcattctttctcctagtaAATATGGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGggtaagtttggatggaggggcagtcattaatgccctgaagaactccattag Alignment from CESAR tg------GATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGg atgtttccatcccccggataagtcttggtttctctcattctttctcctagtaAATATGGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGggtaagtttggatggaggggcagtcattaatgccctgaagaactccattag Alignment from Spaln_aa2Genome TG------GATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccatcccccggataagtcttggtttctctcattctttctcctagTAAATATGGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGGgtaagtttggatggaggggcagtcattaatgccctgaagaactccattag Alignment from Spaln_nt2Genome T------GGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccatcccccggataagtcttggtttctctcattctttctcctagTAAATATGGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGGgtaagtttggatggaggggcagtcattaatgccctgaagaactccattag Alignment from Pairagon ------TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccatcccccggataagtcttggtttctctcattctttctcctagTAAATATGGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGGgtaagtttggatggaggggcagtcattaatgccctgaagaactccattag Alignment from Exonerate_protein2genome TG------GATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccatcccccggataagtcttggtttctctcattctttctcctagTAAATATGGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGGgtaagtttggatggaggggcagtcattaatgccctgaagaactccattag Alignment from Exonerate_coding2genome TG------GATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccatcccccggataagtcttggtttctctcattctttctcctagTAAATATGGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGGgtaagtttggatggaggggcagtcattaatgccctgaagaactccattag Alignment from GeneWise -----GTGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG atgtttccatcccccggataagtcttggtttctctcattctttctcctagTAAATATGGACCCTCTACCATCTGGTCCTGCTCATGAGGCCCTCGAACATCTCTTCAGCTGTGACAGTACGGAGGAGGCCTCTGGTACTCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGTGGgtaagtttggatggaggggcagtcattaatgccctgaagaactccattag #### Snx15_ID1467_5 --> 0 - 1 Original Alignment GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAg ccttgatggtcagccatattccgccctctttagctgtgctccttttacagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCTAGAGACCTGCGGATCCCACTACCTCCTCTCATTCCAACAATGCCTCCAGTTGAAGCTCGTTTATTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAA------ggtagagtcctagctggtttcaggtgatgggctgatactgccaattgtagc Alignment from CESAR GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAg ccttgatggtcagccatattccgccctctttagctgtgctccttttacagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCTAGAGACCTGCGGATCCCACTACCTCCTCTCATTCCAACAATGCCTCCAGTTGAAGCTCGTTTATTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAA------ggtagagtcctagctggtttcaggtgatgggctgatactgccaattgtagc Alignment from Spaln_aa2Genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAG- ccttgatggtcagccatattccgccctctttagctgtgctccttttacagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCTAGAGACCTGCGGATCCCACTACCTCCTCTCATTCCAACAATGCCTCCAGTTGAAGCTCGTTTATTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAAGgtagagtcctagctggtttcaggtgatgggctgatactgccaattgtagc Alignment from Spaln_nt2Genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAG ccttgatggtcagccatattccgccctctttagctgtgctccttttacagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCTAGAGACCTGCGGATCCCACTACCTCCTCTCATTCCAACAATGCCTCCAGTTGAAGCTCGTTTATTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGA------AGgtagagtcctagctggtttcaggtgatgggctgatactgccaattgtagc Alignment from Pairagon GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGA----------------GGTGCCAG ccttgatggtcagccatattccgccctctttagctgtgctccttttacagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCTAGAGACCTGCGGATCCCACTACCTCCTCTCATTCCAACAATGCCTCCAGTTGAAGCTCGTTTATTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAAGGTAGAGTCCTAGCTGGTTTCAGgtgatgggctgatactgccaattgtagc Alignment from Exonerate_protein2genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAG ccttgatggtcagccatattccgccctctttagctgtgctccttttacagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCTAGAGACCTGCGGATCCCACTACCTCCTCTCATTCCAACAATGCCTCCAGTTGAAGCTCGTTTATTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAA------Ggtagagtcctagctggtttcaggtgatgggctgatactgccaattgtagc Alignment from Exonerate_coding2genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAG ccttgatggtcagccatattccgccctctttagctgtgctccttttacagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCTAGAGACCTGCGGATCCCACTACCTCCTCTCATTCCAACAATGCCTCCAGTTGAAGCTCGTTTATTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAA------Ggtagagtcctagctggtttcaggtgatgggctgatactgccaattgtagc Alignment from GeneWise GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGG ccttgatggtcagccatattccgccctctttagctgtgctccttttacagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCTAGAGACCTGCGGATCCCACTACCTCCTCTCATTCCAACAATGCCTCCAGTTGAAGCTCGTTTATTTCAGGCTTTGCCGGCTGAAAGAAGGGGCCAGGAGGAGCTGGAAGgtagagtcctagctggtttcaggtgatgggctgatactgccaattgtagc #### Snx15_ID1469_3 --> 0 - 1 Original Alignment GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTT---g gttttacccagctcttgctaaggtctgcgcatcatgcctctccccatcagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTATACTCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTGACggtggtatttagactctgtacctctccagcttatgacatccagaatctcca Alignment from CESAR GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTT------g gttttacccagctcttgctaaggtctgcgcatcatgcctctccccatcagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTATACTCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTGACGGTggtatttagactctgtacctctccagcttatgacatccagaatctcca Alignment from Spaln_aa2Genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTT---G gttttacccagctcttgctaaggtctgcgcatcatgcctctccccatcagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTATACTCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTGACGgtggtatttagactctgtacctctccagcttatgacatccagaatctcca Alignment from Spaln_nt2Genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG--- gttttacccagctcttgctaaggtctgcgcatcatgcctctccccatcagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTATACTCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTGACGgtggtatttagactctgtacctctccagcttatgacatccagaatctcca Alignment from Pairagon GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG------ gttttacccagctcttgctaaggtctgcgcatcatgcctctccccatcagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTATACTCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTGACGGTGgtatttagactctgtacctctccagcttatgacatccagaatctcca Alignment from Exonerate_protein2genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTT---G gttttacccagctcttgctaaggtctgcgcatcatgcctctccccatcagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTATACTCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTGACGgtggtatttagactctgtacctctccagcttatgacatccagaatctcca Alignment from Exonerate_coding2genome GAGGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTT---G gttttacccagctcttgctaaggtctgcgcatcatgcctctccccatCAGGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTATACTCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTGACGgtggtatttagactctgtacctctccagcttatgacatccagaatctcca Alignment from GeneWise ---TTCATCTCAAAGAAGGACCCAGAGGATATCAAAGAGGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTGGG- gttttacccagCTCTTGCTAAGGTCTGCGCATCATGCCTCTCCCCATCAGGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTATACTCACCGGAATCTCTTCCAGGATCTCGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGTTTGACGgtggtatttagactctgtacctctccagcttatgacatccagaatctcca #### Snx32_ID1066_12 --> 2 - 0 Original Alignment ag------------------------------------------------CTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG taagtcctgaaggattgcaacaatcaatataattttctttatcttcacagaaCAACCCATCTCCGACAGTGGGGACCCCAAGCTATTGCTGCAGCCCATCCTCATGGACTTCAAATCTCACAGGGTCTCCTCTTTCCGTAAGAACCTCATTGAGTTGACTGAGCTGGAGCTCAAGCAGGCCAAGgtaagttgttactccagttacatcaaaaagaactcaatctgctcattgtt Alignment from CESAR acattgtcctttcctcatgtttcagctgggagaagtccaatctattggcat Alignment from Spaln_aa2Genome CGAGCGCCTCTCTGACTCCGCCAAACAAGAGCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG taagtcctgaaggattgcaacaatcaatataattttctttatcttcacagaacaacccatctccgacagTGGGGACCCCAAGCTATTGCTGCAGCCCATCCTCATGGACTTCAAATCTCACAGGGTCTCCTCTTTCCGTAAGAACCTCATTGAGTTGACTGAGCTGGAGCTCAAGCAGGCCAAGgtaagttgttactccagttacatcaaaaagaactcaatctgctcattgtt Alignment from Spaln_nt2Genome AGC----TCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG taagtcctgaaggattgcaacaatcaatataattttctttatcttcacagaacaacccatctccgacagtggggaccccaagctattgctgcagCCCATCCTCATGGACTTCAAATCTCACAGGGTCTCCTCTTTCCGTAAGAACCTCATTGAGTTGACTGAGCTGGAGCTCAAGCAGGCCAAGgtaagttgttactccagttacatcaaaaagaactcaatctgctcattgtt Alignment from Pairagon ----AGCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG taagtcctgaaggattgcaacaatcaatataattttctttatcttcacagaacaacccatctccgacagtggggaccccaagctattgctgcagCCCATCCTCATGGACTTCAAATCTCACAGGGTCTCCTCTTTCCGTAAGAACCTCATTGAGTTGACTGAGCTGGAGCTCAAGCAGGCCAAGgtaagttgttactccagttacatcaaaaagaactcaatctgctcattgtt Alignment from Exonerate_protein2genome AGCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG taagtcctgaaggattgcaacaatcaatataattttctttatcttcacagaacaacccatctccgacagtggggaccccaagctattgctgcagcccaTCCTCATGGACTTCAAATCTCACAGGGTCTCCTCTTTCCGTAAGAACCTCATTGAGTTGACTGAGCTGGAGCTCAAGCAGGCCAAGgtaagttgttactccagttacatcaaaaagaactcaatctgctcattgtt Alignment from Exonerate_coding2genome taagtcctgaaggattgcaacaatcaatataattttctttatcttcacagaacaacccatctccgacagtggggaccccaagctattgctgcagcccatcctcatggacttcaaatctcacagggtctcctctttccgtaagaacctcattgagttgactgagctggagctcaagcaggccaaggtaagttgttactccagttacatcaaaaagaactcaatctgctcattgtt Alignment from GeneWise G-- -------------------------------CTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAGGCCAGC---------ACCCTGCTTCTCCAGAACACCCTTGTTGCCCTTAA TAAgtcctgaaggattgcaacaatcaatataattttctttatcttcacagaacaacccatctccgacagTGGGGACCCCAAGCTATTGCTGCAGCCCATCCTCATGGACTTCAAATCTCACAGGGTCTCCTCTTTCCGTAAGAACCTCATTGAGTTGACTGAGCTGGAGCTCAAGCAGGCCAAGGTAAGTTGTTACTCCAGTTACATCAAAAAGAACTCAATCTGCTCATTGTT #### Snx32_ID1070_8 --> 2 - 2 Original Alignment gcCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAG---------------------ag atgtgcacataccttgaattgcaattgccttgtgttcctccttactataggcCTGGCAGACAATTATATTCCCATTTCAGCT---GTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAGGGGAGCTTCCAGATAACATAaggtaaccgtcatgcgatgttgctttgctcacccatgtaccattatcggggt Alignment from CESAR gcCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAG---------------------ag atgtgcacataccttgaattgcaattgccttgtgttcctccttactataggcCTGGCAGACAATTATATTCCCATTTCAGCTGTG---AGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAGGGGAGCTTCCAGATAACATAaggtaaccgtcatgcgatgttgctttgctcacccatgtaccattatcggggt Alignment from Spaln_aa2Genome GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAGGAG atgtgcacataccttgaattgcaattgccttgtgttcctccttactatagGCCTGGCAGACAATTATATTCCCATTTCA---GCTGTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAGGGGAgcttccagataacataaggtaaccgtcatgcgatgttgctttgctcacccatgtaccattatcggggt Alignment from Spaln_nt2Genome GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG--- atgtgcacataccttgaattgcaattgccttgtgttcctccttactatagGCCTGGCAGACAATTATATTCCCATTTCAGCTG---TGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAGGGGAgcttccagataacataaggtaaccgtcatgcgatgttgctttgctcacccatgtaccattatcggggt Alignment from Pairagon GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAA---------------------GAG atgtgcacataccttgaattgcaattgccttgtgttcctccttactatagGCCTGGCAGACAATTATATTCCCATTTCAGCTG---TGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAGGGGAGCTTCCAGATAACATAAGgtaaccgtcatgcgatgttgctttgctcacccatgtaccattatcggggt Alignment from Exonerate_protein2genome GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG atgtgcacataccttgaattgcaattgccttgtgttcctccttactatagGCCTGGCAGACAATTATATTCCCATTTCA---GCTGTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAGGggagcttccagataacataaggtaaccgtcatgcgatgttgctttgctcacccatgtaccattatcggggt Alignment from Exonerate_coding2genome AATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGTGCCTGGCAGACAACTATAT-CCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAGGAGCTTCCTGAAGCTGGCAGA ATGTGCACATACCTTGAATTGCAATTGCCTTGTGTTCCTCCTTACTATAGGCCTGGCAGACAATTATATTCCCATT----TCAGCTGTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAGGGGAGCTTCCAGATAACATAAGgtaaccgtcatgcgatgttgctttgctcacccatgtaccattatcggggt Alignment from GeneWise GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAG---------------------AG atgtgcacataccttgaattgcaattgccttgtgttcctccttactatagGCCTGGCAGACAATTATATTCCCATTTCAGCT---GTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAGGGGAGCTTCCAGATAACATAAGgtaaccgtcatgcgatgttgctttgctcacccatgtaccattatcggggt #### Snx32_ID1071_7 --> 0 - 1 Original Alignment GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAG---t ccaagtgtactgcccccctcaggcctggaaccttcctgctctcccaacagGAGCTAGATGATTTTTTTGAACATGAAAGGCCTTTCCTAGTTCAATATAAAACCCGAATTCGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAAATTcgtatgacacctttagggctagagcactgaatgtgcacataccttgaattg Alignment from CESAR GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAG---t ccaagtgtactgcccccctcaggcctggaaccttcctgctctcccaacagGAGCTAGATGATTTTTTTGAACATGAAAGGCCTTTCCTAGTTCAATATAAAACCCGAATTCGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAAATTcgtatgacacctttagggctagagcactgaatgtgcacataccttgaattg Alignment from Spaln_aa2Genome GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAG---T ccaagtgtactgcccccctcaggcctggaaccttcctgctctcccaacagGAGCTAGATGATTTTTTTGAACATGAAAGGCCTTTCCTAGTTCAATATAAAACCCGAATTCGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAAATTCgtatgacacctttagggctagagcactgaatgtgcacataccttgaattg Alignment from Spaln_nt2Genome GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGT--- ccaagtgtactgcccccctcaggcctggaaccttcctgctctcccaacagGAGCTAGATGATTTTTTTGAACATGAAAGGCCTTTCCTAGTTCAATATAAAACCCGAATTCGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAAATTCgtatgacacctttagggctagagcactgaatgtgcacataccttgaattg Alignment from Pairagon GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAA------------------------------------------------------- ccaagtgtactgcccccctcaggcctggaaccttcctgctctcccaacagGAGCTAGATGATTTTTTTGAACATGAAAGGCCTTTCCTAGTTCAATATAAAACCCGAATTCGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAAATTCGTATGACACCTTTAGGGCTAGAGCACTGAATGTGCACATACCTTGAATTG Alignment from Exonerate_protein2genome GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGT ccaagtgtactgcccccctcaggcctggaaccttcctgctctcccaacagGAGCTAGATGATTTTTTTGAACATGAAAGGCCTTTCCTAGTTCAATATAAAACCCGAATTCGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAAAttcgtatgacacctttagggctagagcactgaatgtgcacataccttgaattg Alignment from Exonerate_coding2genome ccaagtgtactgcccccctcaggcctggaaccttcctgctctcccaacaggagctagatgatttttttgaacatgaaaggcctttcctagttcaatataaaacccgaattcgtgacagctgccaaagagcagaccgcattatacactcccacaaaattcgtatgacacctttagggctagagcactgaatgtgcacataccttgaattg Alignment from GeneWise GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGTGC- ccaagtgtactgcccccctcaggcctggaaccttcctgctctcccaacagGAGCTAGATGATTTTTTTGAACATGAAAGGCCTTTCCTAGTTCAATATAAAACCCGAATTCGTGACAGCTGCCAAAGAGCAGACCGCATTATACACTCCCACAAAATTCgtatgacacctttagggctagagcactgaatgtgcacataccttgaattg #### Snx32_ID1072_6 --> 0 - 0 Original Alignment CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAG--- acaacattattaagattatccaagtctcttatttgccctgggtcccacagCTGAGTGTCCAAGAGAAGAACAGAAAGGAGGTTTCTGGGGGGCTCCTACGAGGT---GTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAAAAgtatccatggcttctgttgtggtgggaggatcatgccagatagtgctgcc Alignment from CESAR CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTC---AAG acaacattattaagattatccaagtctcttatttgccctgggtcccacagCTGAGTGTCCAAGAGAAGAACAGAAAGGAGGTTTCTGGGGGGCTCCTACGAGGT---GTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAAAAgtatccatggcttctgttgtggtgggaggatcatgccagatagtgctgcc Alignment from Spaln_aa2Genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACCGGCATATCAGGGCTCAAGGAG acaacattattaagattatccaagtctcttatttgccctgggtcccacagCTGAGTGTCCAAGAGAAGAACAGAAAGGAGGTTTCTGGGGGGCTCCTACGAGGTGTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAAAAgtatccatggcttctgttgtggtgggaggatcatgccagatagtgctgcc Alignment from Spaln_nt2Genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACCGG---CATATCAGGGCTCAAG--- acaacattattaagattatccaagtctcttatttgccctgggtcccacagCTGAGTGTCCAAGAGAAGAACAGAAAGGAGGTTTCTGGGGGGCTCCT-ACGAG--GTGTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAAAAgtatccatggcttctgttgtggtgggaggatcatgccagatagtgctgcc Alignment from Pairagon CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCT--GAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCAC---CGGCATATCAGGGCTCA------------------------------------------------------- acaacattattaagattatccaagtctcttatttgccctgggtcccacagCTGAGTGTCCAAGAGAAGAACAGAAAGGAGGTTTCTGGGGGGCTCCTACGAGG-----TGTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAAAAGTATCCATGGCTTCTGTTGTGGTGGGAGGATCATGCCAGATAGTGCTGCC Alignment from Exonerate_protein2genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAGGAG acaacattattaagattatccaagtctcttatttgccctgggtcccacagCTGAGTGTCCAAGAGAAGAACAGAAAGGAGGTTTCTGGGGGGCTCCTACGAGGT---GTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAAAAgtatccatggcttctgttgtggtgggaggatcatgccagatagtgctgcc Alignment from Exonerate_coding2genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAGGAGGTA acaacattattaagattatccaagtctcttatttgccctgggtcccacagCTGAGTGTCCAAGAGAAGAACAGAAAGGAGGTTTCTGGGGGGCTCCTACGAGGT---GTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAAAAGTAtccatggcttctgttgtggtgggaggatcatgccagatagtgctgcc Alignment from GeneWise CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACCGGC---ATATCAGGGCTCAAGGAG acaacattattaagattatccaagtctcttatttgccctgggtcccacagCTGAGTGTCCAAGAGAAGAACAGAAAGGAGGTTTCTGGGGGGCTCCTACGAGGT---GTTAGGTATGCAGATGAAATCATCATCACTGGTGGCATTTCAGGGCTCAAAAAAgtatccatggcttctgttgtggtgggaggatcatgccagatagtgctgcc #### Sptbn2_ID609_4 --> 0 - 2 Original Alignment ATCCAAGACATCAGTGTGGAGACAGAAGACAACAAGGAGAAGAAGTCAGCCAAGGATGCCCTGCTGCTGTGGTGCCAGATGAAGACTGCAgg gttcttaagagtctaaggagcttatactcatacgcttttctccctcctag------------------GAAACAGAAGATAATAAGGAGAAGAAGTCAACTAAAGATGTCCTGCTACTGTGGTGCCAAATGAAGACAGCTgggtcagtgacatgaccaaccagggttgggaatgcacacagatgacctgtgc Alignment from CESAR ATCCAAGACATCAGTGTGGAGACAGAAGACAACAAGGAGAAGAAGTCAGCCAAGGATGCCCTGCTGCTGTGGTGCCAGATGAAGACTGCAgg atggtacaaacactgtcagttcttaactcatacgcttttctccctcctag------------------GAAACAGAAGATAATAAGGAGAAGAAGTCAACTAAAGATGTCCTGCTACTGTGGTGCCAAATGAAGACAGCTgggtcagtgacatgaccaaccagggttgggaatgcacacagatttttcctta Alignment from Spaln_aa2Genome GAGACAGAAGACAACAAGGAGAAGAAGTCAGCCAAGGATGCCCTGCTGCTGTGGTGCCAGATGAAGACTGCAGG gttcttaagagtctaaggagcttatactcatacgcttttctccctcctagGAAACAGAAGATAATAAGGAGAAGAAGTCAACTAAAGATGTCCTGCTACTGTGGTGCCAAATGAAGACAGCTGGgtcagtgacatgaccaaccagggttgggaatgcacacagatgacctgtgc Alignment from Spaln_nt2Genome GAGACAGAAGACAACAAGGAGAAGAAGTCAGCCAAGGATGCCCTGCTGCTGTGGTGCCAGATGAAGACTGCAGG gttcttaagagtctaaggagcttatactcatacgcttttctccctcctagGAAACAGAAGATAATAAGGAGAAGAAGTCAACTAAAGATGTCCTGCTACTGTGGTGCCAAATGAAGACAGCTGGgtcagtgacatgaccaaccagggttgggaatgcacacagatgacctgtgc Alignment from Pairagon ATCCAAGACATCAGTGTGGAGACAGAAGACAACAAGGAGAAGAAGTCAGCCAAGGATGCCCTGCTGCTGTGGTGCCAGATGAAGACTGCAGG gttcttaagagtctaaggagcttatactcatacgcttttctccctcctag------------------GAAACAGAAGATAATAAGGAGAAGAAGTCAACTAAAGATGTCCTGCTACTGTGGTGCCAAATGAAGACAGCTGGgtcagtgacatgaccaaccagggttgggaatgcacacagatgacctgtgc Alignment from Exonerate_protein2genome gttcttaagagtctaaggagcttatactcatacgcttttctccctcctaggaaacagaagataataaggagaagaagtcaactaaagatgtcctgctactgtggtgccaaatgaagacagctgggtcagtgacatgaccaaccagggttgggaatgcacacagatgacctgtgc Alignment from Exonerate_coding2genome gttcttaagagtctaaggagcttatactcatacgcttttctccctcctaggaaacagaagataataaggagaagaagtcaactaaagatgtcctgctactgtggtgccaaatgaagacagctgggtcagtgacatgaccaaccagggttgggaatgcacacagatgacctgtgc Alignment from GeneWise ---ACAGAAGACAACAAGGAGAAGAAGTCAGCCAAGGATGCCCTGCTGCTGTGGTGCCAGATGAAGACTGCAGG gttcttaagagtctaaggagcttatactcatacgcttttctccctcctagGAAACAGAAGATAATAAGGAGAAGAAGTCAACTAAAGATGTCCTGCTACTGTGGTGCCAAATGAAGACAGCTGGgtcagtgacatgaccaaccagggttgggaatgcacacagatgacctgtgc #### Sptbn2_ID612_7 --> 2 - 0 Original Alignment at---GTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaatttattgcttatcacaattcactgtttagatGGCGTGAATGTAGATCAGCCTGATGAGCAGTCTGTCATTACCTATGTGTCCACCTACTACCACTACTTCTCCAGGATGAAGGCTCTATCAGTGGAAGGAAAAAGAACTGGGAAGgtaaggtctccattgaacaccatctgaaagttctagtaaggaccagataa Alignment from CESAR at---GTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaatttattgcttatcacaattcactgtttagatGGCGTGAATGTAGATCAGCCTGATGAGCAGTCTGTCATTACCTATGTGTCCACCTACTACCACTACTTCTCCAGGATGAAGGCTCTATCAGTGGAAGGAAAAAGAACTGGGAAGgtaaggtctccattgaacaccatctgaaagttctagtaaggaccagataa Alignment from Spaln_aa2Genome AT---GTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaatttattgcttatcacaattcactgtttagATGGCGTGAATGTAGATCAGCCTGATGAGCAGTCTGTCATTACCTATGTGTCCACCTACTACCACTACTTCTCCAGGATGAAGGCTCTATCAGTGGAAGGAAAAAGAACTGGGAAGgtaaggtctccattgaacaccatctgaaagttctagtaaggaccagataa Alignment from Spaln_nt2Genome ATG---TGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaatttattgcttatcacaattcactgtttagATGGCGTGAATGTAGATCAGCCTGATGAGCAGTCTGTCATTACCTATGTGTCCACCTACTACCACTACTTCTCCAGGATGAAGGCTCTATCAGTGGAAGGAAAAAGAACTGGGAAGgtaaggtctccattgaacaccatctgaaagttctagtaaggaccagataa Alignment from Pairagon AT---GTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaatttattgcttatcacaattcactgtttagATGGCGTGAATGTAGATCAGCCTGATGAGCAGTCTGTCATTACCTATGTGTCCACCTACTACCACTACTTCTCCAGGATGAAGGCTCTATCAGTGGAAGGAAAAAGAACTGGGAAGgtaaggtctccattgaacaccatctgaaagttctagtaaggaccagataa Alignment from Exonerate_protein2genome agggacatggggggaacacaatttattgcttatcacaattcactgtttagatggcgtgaatgtagatcagcctgatgagcagtctgtcattacctatgtgtccacctactaccactacttctccaggatgaaggctctatcagtggaaggaaaaagaactgggaaggtaaggtctccattgaacaccatctgaaagttctagtaaggaccagataa Alignment from Exonerate_coding2genome agggacatggggggaacacaatttattgcttatcacaattcactgtttagatggcgtgaatgtagatcagcctgatgagcagtctgtcattacctatgtgtccacctactaccactacttctccaggatgaaggctctatcagtggaaggaaaaagaactgggaaggtaaggtctccattgaacaccatctgaaagttctagtaaggaccagataa Alignment from GeneWise --GATGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG agggacatggggggaacacaatttattgcttatcacaattcactgtttagATGGCGTGAATGTAGATCAGCCTGATGAGCAGTCTGTCATTACCTATGTGTCCACCTACTACCACTACTTCTCCAGGATGAAGGCTCTATCAGTGGAAGGAAAAAGAACTGGGAAGgtaaggtctccattgaacaccatctgaaagttctagtaaggaccagataa #### Sptbn2_ID628_23 --> 0 - 2 Original Alignment ---------GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGag ctcttactcaagcaaacctgaagttatgaaatgcagtttgtttttcatagCGCAAAGTCGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTGTTGGAACAAGCGCTTGCTGATTACGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAACATCCAGAGaggtaagaccatatagttatctttagcccgatttcacttttctattgtacag Alignment from CESAR ---------GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGag ctcttactcaagcaaacctgaagttatgaaatgcagtttgtttttcatagCGCAAAGTCGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTGTTGGAACAAGCGCTTGCTGATTACGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAACATCCAGAGaggtaagaccatatagttatctttagcccgtcttctctgctgtttcttccag Alignment from Spaln_aa2Genome GCCAAG---GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG ctcttactcaagcaaacctgaagttatgaaatgcagtttgtttttcatagCGCAAAGTCGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTGTTGGAACAAGCGCTTGCTGATTACGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAACATCCAGAGAGgtaagaccatatagttatctttagcccgatttcacttttctattgtacag Alignment from Spaln_nt2Genome -GCCAAG--GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG ctcttactcaagcaaacctgaagttatgaaatgcagtttgtttttcatagCGCAAAGTCGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTGTTGGAACAAGCGCTTGCTGATTACGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAACATCCAGAGAGgtaagaccatatagttatctttagcccgatttcacttttctattgtacag Alignment from Pairagon ---------GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG ctcttactcaagcaaacctgaagttatgaaatgcagtttgtttttcatagCGCAAAGTCGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTGTTGGAACAAGCGCTTGCTGATTACGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAACATCCAGAGAGgtaagaccatatagttatctttagcccgatttcacttttctattgtacag Alignment from Exonerate_protein2genome GCCAAG---GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG ctcttactcaagcaaacctgaagttatgaaatgcagtttgtttttcatagCGCAAAGTCGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTGTTGGAACAAGCGCTTGCTGATTACGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAACATCCAGAGAGgtaagaccatatagttatctttagcccgatttcacttttctattgtacag Alignment from Exonerate_coding2genome GCCAAG---GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG ctcttactcaagcaaacctgaagttatgaaatgcagtttgtttttcatagCGCAAAGTCGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTGTTGGAACAAGCGCTTGCTGATTACGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAACATCCAGAGAGgtaagaccatatagttatctttagcccgatttcacttttctattgtacag Alignment from GeneWise ---------GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG ctcttactcaagcaaacctgaagttatgaaatgcagtttgtttttcatagCGCAAAGTCGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTGTTGGAACAAGCGCTTGCTGATTACGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAACATCCAGAGAGgtaagaccatatagttatctttagcccgatttcacttttctattgtacag #### Sptbn2_ID631_26 --> 0 - 2 Original Alignment GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCcg atctaccatctcttccagtcctgagccaaaattgcctttgttcttggtag------CAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATCGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGATACAACGGATAAATTTCGATTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCcggtataccttgtggtggctggttttacccaattgctactaagttgggcagg Alignment from CESAR GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCcg tctgtgatctaccatctcttccagtccaaaattgcctttgttcttggtag------CAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATCGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGATACAACGGATAAATTTCGATTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCcggtataccttgtggtggctggttttacccaattgctactaagttgggcagg Alignment from Spaln_aa2Genome GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG atctaccatctcttccagtcctgagccaaaattgcctttgttcttggtag------CAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATCGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGATACAACGGATAAATTTCGATTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtataccttgtggtggctggttttacccaattgctactaagttgggcagg Alignment from Spaln_nt2Genome CAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG atctaccatctcttccagtcctgagccaaaattgcctttgttcttggtagCAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATCGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGATACAACGGATAAATTTCGATTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtataccttgtggtggctggttttacccaattgctactaagttgggcagg Alignment from Pairagon GTCCAGCAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG atctaccatctcttccagtcctgagccaaaattgcctttgttcttggtag------CAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATCGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGATACAACGGATAAATTTCGATTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtataccttgtggtggctggttttacccaattgctactaagttgggcagg Alignment from Exonerate_protein2genome CAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG atctaccatctcttccagtcctgagccaaaattgcctttgttcttggtagCAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATCGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGATACAACGGATAAATTTCGATTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtataccttgtggtggctggttttacccaattgctactaagttgggcagg Alignment from Exonerate_coding2genome CAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG atctaccatctcttccagtcctgagccaaaattgcctttgttcttggtagCAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATCGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGATACAACGGATAAATTTCGATTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtataccttgtggtggctggttttacccaattgctactaagttgggcagg Alignment from GeneWise CAAGTTCAAGATGATGGCCAAAGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGAAATTGGCCGTCACATGCAGGCAGTGGCTGAGGCCTGGGCCCAGCTCCAGGGAAGTTCTGCTGCCCGCCGACAGCTGTTACTGGATACCACGGACAAATTCCGATTCTTTAAGGCTGTCCGAGAGTTGATGCTGTGGATGGATGGGATTAACCTGCAGATGGATGCCCAGGAGCGGCCCCG atctaccatctcttccagtcctgagccaaaattgcctttgttcttggtagCAAGTTCATGATGATGGCCCACGGCTACAGAAGGCCTATGCTGGAGACAAGGCTGAGGCAATCGGTCGTCATATGCAGGCAGTAGCTGAGGCCTGGGCCCAGCTCCAAGGAAGTTCTGCTGCCCGCCGACAGCTGCTACTTGATACAACGGATAAATTTCGATTCTTTAAGGCTGTCCGAGAGTTAATGCTATGGATGGATGGGATTAACCTGCAGATGGATGCTCAGGAGCAACCCCGgtataccttgtggtggctggttttacccaattgctactaagttgggcagg #### Sptbn2_ID632_27 --> 1 - 0 Original Alignment g---GATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG actaagttgggcagggccagacttcaaaggtccttgggcccgctcattagtCTCGAAGTGTCCTCTGCAGACTTAGTCATCAAGAACCAGCCAGGAATCAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGACATGGGCCAGGAGCTGCTTGCCAGGAGCCATTATGCTGCCCAGGAAgtaggaaagggctggaaaatatcattactacaaccaagcaagcaagccca Alignment from CESAR g---GATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG actaagttgggcagggccagacttcaaaggtccttgggcccgctcattagtCTCGAAGTGTCCTCTGCAGACTTAGTCATCAAGAACCAGCCAGGAATCAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGACATGGGCCAGGAGCTGCTTGCCAGGAGCCATTATGCTGCCCAGGAAgtaggaaagggctggaaaatatcattactacaaccaagcaagcaagccca Alignment from Spaln_aa2Genome GGATGTGTCCTCTGCA---GATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG actaagttgggcagggccagacttcaaaggtccttgggcccgctcattagTCTCGAAGTGTCCTCTGCAGACTTAGTCATCAAGAACCAGCCAGGAATCAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGACATGGGCCAGGAGCTGCTTGCCAGGAGCCATTATGCTGCCCAGGAAgtaggaaagggctggaaaatatcattactacaaccaagcaagcaagccca Alignment from Spaln_nt2Genome G---GATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG actaagttgggcagggccagacttcaaaggtccttgggcccgctcattagTCTCGAAGTGTCCTCTGCAGACTTAGTCATCAAGAACCAGCCAGGAATCAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGACATGGGCCAGGAGCTGCTTGCCAGGAGCCATTATGCTGCCCAGGAAgtaggaaagggctggaaaatatcattactacaaccaagcaagcaagccca Alignment from Pairagon ------------------------------------------------------GATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG ACTAAGTTGGGCAGGGCCAGACTTCAAAGGTCCTTGGGCCCGCTCATTAGTCTCGAAGTGTCCTCTGCAGACTTAGTCATCAAGAACCAGCCAGGAATCAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGACATGGGCCAGGAGCTGCTTGCCAGGAGCCATTATGCTGCCCAGGAAgtaggaaagggctggaaaatatcattactacaaccaagcaagcaagccca Alignment from Exonerate_protein2genome GGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG actaagttgggcagggccagacttcaaaggtccttgggcccgctcattagtctCGAAGTGTCCTCTGCAGACTTAGTCATCAAGAACCAGCCAGGAATCAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGACATGGGCCAGGAGCTGCTTGCCAGGAGCCATTATGCTGCCCAGGAAgtaggaaagggctggaaaatatcattactacaaccaagcaagcaagccca Alignment from Exonerate_coding2genome GGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG actaagttgggcagggccagacttcaaaggtccttgggcccgctcattagtctCGAAGTGTCCTCTGCAGACTTAGTCATCAAGAACCAGCCAGGAATCAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGACATGGGCCAGGAGCTGCTTGCCAGGAGCCATTATGCTGCCCAGGAAgtaggaaagggctggaaaatatcattactacaaccaagcaagcaagccca Alignment from GeneWise -CGGGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG actaagttgggcagggccagacttcaaaggtccttgggcccgctcattagTCTCGAAGTGTCCTCTGCAGACTTAGTCATCAAGAACCAGCCAGGAATCAAGGCAGAAATTGAGGCTAGAGCAGACAGGTTTTCTTCCTGCATTGACATGGGCCAGGAGCTGCTTGCCAGGAGCCATTATGCTGCCCAGGAAgtaggaaagggctggaaaatatcattactacaaccaagcaagcaagccca #### Sptbn2_ID634_29 --> 2 - 0 Original Alignment ttTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG------------------------------ aacaaacctttaaagtctctatacaaccacaagcccatgtcttcctgcagttTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATGAAGCGGCATGAGGCCTATCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCATTAGATAAGCTCACCGCACATCCTGATCGACAGGGGCCGAGCCCCACCgtccaggctgtagaggctcacaaacctagcagtgtcattctcaagccaat Alignment from CESAR ttTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aacaaacctttaaagtctctatacaaccacaagcccatgtcttcctgcagttTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATGAAGCGGCATGAGGCCTATCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCATTAGATAAGCTCACCGCAcatcctgatcgacaggggccgagccccaccgtccaggctgtagaggctcacaaacctagcagtgtcattctcaagccaat Alignment from Spaln_aa2Genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACT aacaaacctttaaagtctctatacaaccacaagcccatgtcttcctgcagTTTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATGAAGCGGCATGAGGCCTATCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCATTAGATAAGCTCACCgcacatcctgatcgacaggggccgagccccaccgtccaggctgtagaggctcacaaacctagcagtgtcattctcaagccaat Alignment from Spaln_nt2Genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACT GCG aacaaacctttaaagtctctatacaaccacaagcccatgtcttcctgcagTTTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATGAAGCGGCATGAGGCCTATCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCATTAGATAAGCTCACCgcacatcctgatcgacaggggccgagccccaccgtccagGCTgtagaggctcacaaacctagcagtgtcattctcaagccaat Alignment from Pairagon TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG--------------------------------------- aacaaacctttaaagtctctatacaaccacaagcccatgtcttcctgcagTTTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATGAAGCGGCATGAGGCCTATCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCATTAGATAAGCTCACCGCACATCCTGATCGACAGGGGCCGAGCCCCACCGTCCAGGCTgtagaggctcacaaacctagcagtgtcattctcaagccaat Alignment from Exonerate_protein2genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACT aacaaacctttaaagtctctatacaaccacaagcccatgtcttcctgcagTTTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATGAAGCGGCATGAGGCCTATCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCATTAGATAAGCTCACCgcacatcctgatcgacaggggccgagccccaccgtccaggctgtagaggctcacaaacctagcagtgtcattctcaagccaat Alignment from Exonerate_coding2genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACT aacaaacctttaaagtctctatacaaccacaagcccatgtcttcctgcagTTTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATGAAGCGGCATGAGGCCTATCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCATTAGATAAGCTCACCgcacatcctgatcgacaggggccgagccccaccgtccaggctgtagaggctcacaaacctagcagtgtcattctcaagccaat Alignment from GeneWise TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG------------------------------ aacaaacctttaaagtctctatacaaccacaagcccatgtcttcctgcagTTTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGCAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATGAAGCGGCATGAGGCCTATCAGAAATCAGCTGTAGCATGGGAAGAGCGATTTGGTGCATTAGATAAGCTCACCGCACATCCTGATCGACAGGGGCCGAGCCCCACCgtccaggctgtagaggctcacaaacctagcagtgtcattctcaagccaat #### Sptbn2_ID636_31 --> 1 - 0 Original Alignment g---ACTCAGTCAAAATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG aatgatgctaatactggcaaatgacccttccctctcccctctctctgcaggGAGAATCAATCAAAACTTCCCCCATTGTCTCAAGCACCATGTGTTAATGGGGTTTGTACGGGCACTGACTCTTCACAGgtaattcatcgtgacagacatcttttgaaactcagccagcatttaaatcc Alignment from CESAR g---ACTCAGTCAAAATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG aatgatgctaatactggcaaatgacccttccctctcccctctctctgcaggGAGAATCAATCAAAACTTCCCCCATTGTCTCAAGCACCATGTGTTAATGGGGTTTGTACGGGCACTGACTCTTCACAGgtaattcatcgtgacagacatcttttgaaactcagccagcatttaaatca Alignment from Spaln_aa2Genome G---ACTCAGTCAAAATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACA aatgatgctaatactggcaaatgacccttccctctcccctctctctgcagGGAGAATCAATCAAAACTTCCCCCATTGTCTCAAGCACCATGTGTTAATGGGGTTTGTACGGGCACTGACTCTTCACAGgtaattcatcgtgacagacatcttttgaaactcagccagcatttaaatcc Alignment from Spaln_nt2Genome G---ACTCAGTCAAAATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG aatgatgctaatactggcaaatgacccttccctctcccctctctctgcagGGAGAATCAATCAAAACTTCCCCCATTGTCTCAAGCACCATGTGTTAATGGGGTTTGTACGGGCACTGACTCTTCACAGgtaattcatcgtgacagacatcttttgaaactcagccagcatttaaatcc Alignment from Pairagon ---GACTCAGTCAAAATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG aatgatgctaatactggcaaatgacccttccctctcccctctctctgcagGGAGAATCAATCAAAACTTCCCCCATTGTCTCAAGCACCATGTGTTAATGGGGTTTGTACGGGCACTGACTCTTCACAGgtaattcatcgtgacagacatcttttgaaactcagccagcatttaaatcc Alignment from Exonerate_protein2genome G---ACTCAGTCAAAATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG aatgatgctaatactggcaaatgacccttccctctcccctctctctgcagGGAGAATCAATCAAAACTTCCCCCATTGTCTCAAGCACCATGTGTTAATGGGGTTTGTACGGGCACTGACTCTTCACAGgtaattcatcgtgacagacatcttttgaaactcagccagcatttaaatcc Alignment from Exonerate_coding2genome G---ACTCAGTCAAAATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG aatgatgctaatactggcaaatgacccttccctctcccctctctctgcagGGAGAATCAATCAAAACTTCCCCCATTGTCTCAAGCACCATGTGTTAATGGGGTTTGTACGGGCACTGACTCTTCACAGgtaattcatcgtgacagacatcttttgaaactcagccagcatttaaatcc Alignment from GeneWise -GGGACTCAGTCAAAATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG aatgatgctaatactggcaaatgacccttccctctcccctctctctgcagGGAGAATCAATCAAAACTTCCCCCATTGTCTCAAGCACCATGTGTTAATGGGGTTTGTACGGGCACTGACTCTTCACAGgtaattcatcgtgacagacatcttttgaaactcagccagcatttaaatcc #### Sptbn2_ID638_33 --> 0 - 2 Original Alignment GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTG---CCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACag agaggagaataaaattagtagtaagaaccatgttgtatttcattttctag------GGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGAGAACAAGACATGGAAGCGTTGAACAAGAAAGCTGCAAATaggtaactatcgtacatactgatgccttttcctcactccccctagcctctaa Alignment from CESAR GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTG---CCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACag taaagcagaggagaataaaattagtaaccatgttgtatttcattttctag------GGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGAGAACAAGACATGGAAGCGTTGAACAAGAAAGCTGCAAATaggtaactatcgtacatactgatgccttttcctcactccccctagcctctaa Alignment from Spaln_aa2Genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG agaggagaataaaattagtagtaagaaccatgttgtatttcattttctag------GGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGAGAACAAGACATGGAAGCGTTGAACAAGAAAGCTGCAAATAGgtaactatcgtacatactgatgccttttcctcactccccctagcctctaa Alignment from Spaln_nt2Genome GGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTGC---CCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG agaggagaataaaattagtagtaagaaccatgttgtatttcattttctagGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGAGAACAAGACATGGAAGCGTTGAACAAGAAAGCTGCAAATAGgtaactatcgtacatactgatgccttttcctcactccccctagcctctaa Alignment from Pairagon GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG agaggagaataaaattagtagtaagaaccatgttgtatttcattttctag------GGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGAGAACAAGACATGGAAGCGTTGAACAAGAAAGCTGCAAATAGgtaactatcgtacatactgatgccttttcctcactccccctagcctctaa Alignment from Exonerate_protein2genome GGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG agaggagaataaaattagtagtaagaaccatgttgtatttcattttctagGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGAGAACAAGACATGGAAGCGTTGAACAAGAAAGCTGCAAATAGgtaactatcgtacatactgatgccttttcctcactccccctagcctctaa Alignment from Exonerate_coding2genome GGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG agaggagaataaaattagtagtaagaaccatgttgtatttcattttctagGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGAGAACAAGACATGGAAGCGTTGAACAAGAAAGCTGCAAATAGgtaactatcgtacatactgatgccttttcctcactccccctagcctctaa Alignment from GeneWise GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTG---CCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG agaggagaataaaattagtagtaagaaccatgttgtatttcattttctagGGT------ATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACGCAAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGAGAACAAGACATGGAAGCGTTGAACAAGAAAGCTGCAAATAGgtaactatcgtacatactgatgccttttcctcactccccctagcctctaa #### Sptbn2_ID639_34 --> 1 - 2 Original Alignment gTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGgg cactccccctagcctctaacattgagagaagaacttttctttccactcaggTCATGGCAAAATGTGTATTGCGTACTTAGGTGTGGAAGCCTTGGCTTCTACAAGGATGCCAAGGCTGCTAGTGCTGGGGTGCCATAT------GAAGTGCCCGTCAGCCTGGCCAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGGAAGCGCAAA---------------gggtaagcttgcaagctgcctatgacaactgataactaagtggccacctata Alignment from CESAR gTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGgg cactccccctagcctctaacattgagagaagaacttttctttccactcaggTCATGGCAAAATGTGTATTGCGTACTTAGGTGTGGAAGCCTTGGCTTCTACAAGGATGCCAAGGCTGCTAGTGCTGGGGTGCCATAT------GAAGTGCCCGTCAGCCTGGCCAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGGAAGCGCAAA---------------gggtaagcttgcaagctgcctatgacaactgataactaagtggccacctata Alignment from Spaln_aa2Genome GTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAAC cactccccctagcctctaacattgagagaagaacttttctttccactcagGTCATGGCAAAATGTGTATTGCGTACTTAGGTGTGGAAGCCTTGGCTTCTACAAGGATGCCAAGGCTGCTAGTGCTGGGGTGCCATAT------GAAGTGCCCGTCAGCCTGGCCAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGGAAGCgcaaagggtaagcttgcaagctgcctatgacaactgataactaagtggccacctata Alignment from Spaln_nt2Genome GTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACA cactccccctagcctctaacattgagagaagaacttttctttccactcagGTCATGGCAAAATGTGTATTGCGTACTTAGGTGTGGAAGCCTTGGCTTCTACAAGGATGCCAAGGCTGCTAGTGCTGGGGTGCCATA------TGAAGTGCCCGTCAGCCTGGCCAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGGAAGCGCAAAGGgtaagcttgcaagctgcctatgacaactgataactaagtggccacctata Alignment from Pairagon GTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGG cactccccctagcctctaacattgagagaagaacttttctttccactcagGTCATGGCAAAATGTGTATTGCGTACTTAGGTGTGGAAGCCTTGGCTTCTACAAGGATGCCAAGGCTGCTAGTGCTGGGGTGCCATAT------GAAGTGCCCGTCAGCCTGGCCAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGGAAGCGCAAA---------------GGgtaagcttgcaagctgcctatgacaactgataactaagtggccacctata Alignment from Exonerate_protein2genome GTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACA cactccccctagcctctaacattgagagaagaacttttctttccactcagGTCATGGCAAAATGTGTATTGCGTACTTAGGTGTGGAAGCCTTGGCTTCTACAAGGATGCCAAGGCTGCTAGTGCTGGGGTGCCATAT------GAAGTGCCCGTCAGCCTGGCCAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGGAAGCGCAAAGGgtaagcttgcaagctgcctatgacaactgataactaagtggccacctata Alignment from Exonerate_coding2genome GTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACA cactccccctagcctctaacattgagagaagaacttttctttccactcagGTCATGGCAAAATGTGTATTGCGTACTTAGGTGTGGAAGCCTTGGCTTCTACAAGGATGCCAAGGCTGCTAGTGCTGGGGTGCCATAT------GAAGTGCCCGTCAGCCTGGCCAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGGAAGCGCAAAGGgtaagcttgcaagctgcctatgacaactgataactaagtggccacctata Alignment from GeneWise GTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAA-- cactccccctagcctctaacattgagagaagaacttttctttccactcagGTCATGGCAAAATGTGTATTGCGTACTTAGGTGTGGAAGCCTTGGCTTCTACAAGGATGCCAAGGCTGCTAGTGCTGGGGTGCCATAT------GAAGTGCCCGTCAGCCTGGCCAGGGCCCAAGGTAGTGTGGCGTTTGATTATAGGAAGCGCAAAGGgtaagcttgcaagctgcctatgacaactgataactaagtggccacctata #### Ssh3_ID448_8 --> 1 - 0 Original Alignment gGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG--- cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttaggGCCTCAGAGCAGGAGAAGACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAAAGTGTTACTTCCAAAGAGGGGgtaagtataaagcagggtagctgccaattgttcctatctgacgcccccca Alignment from CESAR gGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG--- cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttaggGCCTCAGAGCAGGAGAAGACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAAAGTGTTACTTCCAAAGAGGGGgtaagtataaagcagggtagctgccaattgttcctatctgacgcccccca Alignment from Spaln_aa2Genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG--- cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttagGGCCTCAGAGCAGGAGAAGACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAAAGTGTTACTTCCAAAGAGGGGgtaagtataaagcagggtagctgccaattgttcctatctgacgcccccca Alignment from Spaln_nt2Genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAGA-- cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttagGGCCTCAGAGCAGGAGAAGACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAAAGTGTTACTTCCAAAGAGGGGgtaagtataaagcagggtagctgccaattgttcctatctgacgcccccca Alignment from Pairagon GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG--- cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttagGGCCTCAGAGCAGGAGAAGACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAAAGTGTTACTTCCAAAGAGGGGgtaagtataaagcagggtagctgccaattgttcctatctgacgcccccca Alignment from Exonerate_protein2genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG--- cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttagGGCCTCAGAGCAGGAGAAGACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAAAGTGTTACTTCCAAAGAGGGGgtaagtataaagcagggtagctgccaattgttcctatctgacgcccccca Alignment from Exonerate_coding2genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG--- cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttagGGCCTCAGAGCAGGAGAAGACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAAAGTGTTACTTCCAAAGAGGGGgtaagtataaagcagggtagctgccaattgttcctatctgacgcccccca Alignment from GeneWise GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAGATC cgtgtttgctgctactaactaacaggtaactcagacttttcatgttttagGGCCTCAGAGCAGGAGAAGACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAAAGTGTTACTTCCAAAGAGGGGgtaagtataaagcagggtagctgccaattgttcctatctgacgcccccca #### Ssh3_ID450_6 --> 1 - 2 Original Alignment gGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGtg gcccactgatcacctgctctcaaagtctttagggttgcctttctcctcagcAGCTTAAGTGTGACGCCTGGTGGCAAAAGCCGAATCTTCAAGCCT------------------tggtgagtggtccaaacaatcatttgccccttatgagcaaggttcccaagca Alignment from CESAR gGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGtg gcccactgatcacctgctctcaaagtctttagggttgcctttctcctcagcAGCTTAAGTGTGACGCCTGGTGGCAAAAGCCGAATCTTCAAGCCT------------------tggtgagtggtccaaacaatcatttgccccttatgagcaaggttcccaagca Alignment from Spaln_aa2Genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAA gcccactgatcacctgctctcaaagtctttagggttgcctttctcctcagCAGCTTAAGTGTGACGCCTGGTGGCAAAAGCCGAATCTTCAAgccttggtgagtggtccaaacaatcatttgccccttatgagcaaggttcccaagca Alignment from Spaln_nt2Genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCT-G gcccactgatcacctgctctcaaagtctttagggttgcctttctcctcagCAGCTTAAGTGTGACGCCTGGTGGCAAAAGCCGAATCTTCAAGCCTTGgtgagtggtccaaacaatcatttgccccttatgagcaaggttcccaagca Alignment from Pairagon GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG gcccactgatcacctgctctcaaagtctttagggttgcctttctcctcagCAGCTTAAGTGTGACGCCTGGTGGCAAAAGCCGAATCTTCAAGCCT------------------TGgtgagtggtccaaacaatcatttgccccttatgagcaaggttcccaagca Alignment from Exonerate_protein2genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTC---TCTATCCAGACCATGTG gcccactgatcacctgctctcaaagtctttagggttgcctttctcctcagCAGCTTAAGTGTGACGCCTGGTGGCAAAAGCCGAATCTTCAAGCCTTGGTGAGTGGTCCAAACAATCATttgccccttatgagcaaggttcccaagca Alignment from Exonerate_coding2genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTC---TCTATCCAGACCATGTG gcccactgatcacctgctctcaaagtctttagggttgcctttctcctcagCAGCTTAAGTGTGACGCCTGGTGGCAAAAGCCGAATCTTCAAGCCTTGGTGAGTGGTCCAAACAATCATttgccccttatgagcaaggttcccaagca Alignment from GeneWise gcccactgatcacctgctctcaaagtctttagggttgcctttctcctcagcagcttaagtgtgacgcctggtggcaaaagccgaatcttcaagccttggtgagtggtccaaacaatcatttgccccttatgagcaaggttcccaagca #### Stambpl1_ID6902_9 --> 1 - 0 Original Alignment cACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT------ tgttcctgactggttccttctgatgtgccaacatctcgttcttttcatagcACTGGTATCTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTATCGAAgtttggagacaccatgggaataggaatgggaagatgttcaatcatataaa Alignment from CESAR cACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT------ tgttcctgactggttccttctgatgtgccaacatctcgttcttttcatagcACTGGTATCTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTATCGAAgtttggagacaccatgggaataggaatgggaagatgttcaatcatataaa Alignment from Spaln_aa2Genome CACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT------ tgttcctgactggttccttctgatgtgccaacatctcgttcttttcatagCACTGGTATCTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTATCGAAgtttggagacaccatgggaataggaatgggaagatgttcaatcatataaa Alignment from Spaln_nt2Genome CACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCA tgttcctgactggttccttctgatgtgccaacatctcgttcttttcatagCACTGGTATCTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAgtatcgaagtttggagacaccatgggaataggaatgggaagatgttcaatcatataaa Alignment from Pairagon CACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT------ tgttcctgactggttccttctgatgtgccaacatctcgttcttttcatagCACTGGTATCTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTATCGAAgtttggagacaccatgggaataggaatgggaagatgttcaatcatataaa Alignment from Exonerate_protein2genome CACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgactggttccttctgatgtgccaacatctcgttcttttcatagCACTGGTATCTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTatcgaagtttggagacaccatgggaataggaatgggaagatgttcaatcatataaa Alignment from Exonerate_coding2genome CACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgactggttccttctgatgtgccaacatctcgttcttttcatagCACTGGTATCTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTatcgaagtttggagacaccatgggaataggaatgggaagatgttcaatcatataaa Alignment from GeneWise CACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGTATA--- tgttcctgactggttccttctgatgtgccaacatctcgttcttttcatagCACTGGTATCTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAAGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTATCGAAgtttggagacaccatgggaataggaatgggaagatgttcaatcatataaa #### Stip1_ID1994_7 --> 2 - 2 Original Alignment ctGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCC------aa gttaatttgtctggcttttttatctaactgtgttgactgggcttttctagctGTTCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGATTACCGGCAAATTGCTATTCCAaagtgaggcatcaaattcggaggcttaggcaaggcacctttcttactgccta Alignment from CESAR ctGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCC------aa gttaatttgtctggcttttttatctaactgtgttgactgggcttttctagctGTTCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGATTACCGGCAAATTGCTATTCCAaagtgaggcatcaaattcggaggcttaggcaaggcacctttcttactgccta Alignment from Spaln_aa2Genome CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAAA----- gttaatttgtctggcttttttatctaactgtgttgactgggcttttctagCTGTTCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGATTACCGGCAAATTGCTATTCCAAAgtgaggcatcaaattcggaggcttaggcaaggcacctttcttactgccta Alignment from Spaln_nt2Genome CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCA------A gttaatttgtctggcttttttatctaactgtgttgactgggcttttctagCTGTTCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGATTACCGGCAAATTGCTATTCCAAAgtgaggcatcaaattcggaggcttaggcaaggcacctttcttactgccta Alignment from Pairagon CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCC------AA gttaatttgtctggcttttttatctaactgtgttgactgggcttttctagCTGTTCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGATTACCGGCAAATTGCTATTCCAAAgtgaggcatcaaattcggaggcttaggcaaggcacctttcttactgccta Alignment from Exonerate_protein2genome CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCC------AA gttaatttgtctggcttttttatctaactgtgttgactgggcttttctagCTGTTCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGATTACCGGCAAATTGCTATTCCAAAgtgaggcatcaaattcggaggcttaggcaaggcacctttcttactgccta Alignment from Exonerate_coding2genome CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCC------AA gttaatttgtctggcttttttatctaactgtgttgactgggcttttctagCTGTTCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGATTACCGGCAAATTGCTATTCCAAAgtgaggcatcaaattcggaggcttaggcaaggcacctttcttactgccta Alignment from GeneWise -------------------------------------------------GCTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCC------AA GTTAATTTGTCTGGCTTTTTTATCTAACTGTGTTGACTGGGCTTTTCTAGCTGTTCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGATTACCGGCAAATTGCTATTCCAAAgtgaggcatcaaattcggaggcttaggcaaggcacctttcttactgccta #### Stx5a_ID2335_7 --> 0 - 1 Original Alignment AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTT---g ccatgcacaaatgttcacagagccttgggttttcatttcctacctcccagAATTTAAAACAGCAGAGGAATCGA---GCCCAGCTATCCAGGGCCCCAGTGTCTGCCTTTCCATTAGCACCCAACAACCTTTTAggtaagtttgccttatttttgtatagggggtctgatctgacctgctttcaa Alignment from CESAR AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTT---g ccatgcacaaatgttcacagagccttgggttttcatttcctacctcccagAATTTAAAACAGCAGAGGAATCGA---GCCCAGCTATCCAGGGCCCCAGTGTCTGCCTTTCCATTAGCACCCAACAACCTTTTAggtaagtttgccttatttttgtatagggggtctgatctgacctgctttcaa Alignment from Spaln_aa2Genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTGGAG ccatgcacaaatgttcacagagccttgggttttcatttcctacctcccagAATTTAAAACAGCAGAGGAAT---CGAGCCCAGCTATCCAGGGCCCCAGTGTCTGCCTTTCCATTAGCACCCAACAACCTTTTAGgtaagtttgccttatttttgtatagggggtctgatctgacctgctttcaa Alignment from Spaln_nt2Genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTT---G ccatgcacaaatgttcacagagccttgggttttcatttcctacctcccagAATTTAAAACAGCAGAGGAA---TCGAGCCCAGCTATCCAGGGCCCCAGTGTCTGCCTTTCCATTAGCACCCAACAACCTTTTAGgtaagtttgccttatttttgtatagggggtctgatctgacctgctttcaa Alignment from Pairagon AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTT---G ccatgcacaaatgttcacagagccttgggttttcatttcctacctcccagAATTTAAAACAGCAGAGGAA---TCGAGCCCAGCTATCCAGGGCCCCAGTGTCTGCCTTTCCATTAGCACCCAACAACCTTTTAGgtaagtttgccttatttttgtatagggggtctgatctgacctgctttcaa Alignment from Exonerate_protein2genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTGGAG ccatgcacaaatgttcacagagccttgggttttcatttcctacctcccagAATTTAAAACAGCAGAGGAAT---CGAGCCCAGCTATCCAGGGCCCCAGTGTCTGCCTTTCCATTAGCACCCAACAACCTTTTAGgtaagtttgccttatttttgtatagggggtctgatctgacctgctttcaa Alignment from Exonerate_coding2genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTGGAG ccatgcacaaatgttcacagagccttgggttttcatttcctacctcccagAATTTAAAACAGCAGAGGAAT---CGAGCCCAGCTATCCAGGGCCCCAGTGTCTGCCTTTCCATTAGCACCCAACAACCTTTTAGgtaagtttgccttatttttgtatagggggtctgatctgacctgctttcaa Alignment from GeneWise AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTGGA- ccatgcacaaatgttcacagagccttgggttttcatttcctacctcccagAATTTAAAACAGCAGAGGAATCGAGCC---CAGCTATCCAGGGCCCCAGTGTCTGCCTTTCCATTAGCACCCAACAACCTTTTAGgtaagtttgccttatttttgtatagggggtctgatctgacctgctttcaa #### Stx5a_ID2336_8 --> 2 - 0 Original Alignment gaGGTGGTCCCATAATTTTGGGAGCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aatgttgaacttccacaaagcgccagaagctgactcccatgtccccacaggaGGGGGTACCATAATCCTGGGAGCAGAATCACAAGCCTCCAGAGATGTAGCAATTGATATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAG---gtgagtagttacaccacattgtgaagctgacctttaaccagggttcccct Alignment from CESAR gaGGTGGTCCCATAATTTTGGGAGCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aatgttgaacttccacaaagcgccagaagctgactcccatgtccccacaggaGGGGGTACCATAATCCTGGGAGCAGAATCACAAGCCTCCAGAGATGTAGCAATTGATATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAG---gtgagtagttacaccacattgtgaagctgacctttaaccagggttcc Alignment from Spaln_aa2Genome GAGGTGGTCCCATAATTTTGGGAGCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAG aatgttgaacttccacaaagcgccagaagctgactcccatgtccccacagGAGGGGGTACCATAATCCTGGGAGCAGAATCACAAGCCTCCAGAGATGTAGCAATTGATATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAGgtgagtagttacaccacattgtgaagctgacctttaaccagggttcccct Alignment from Spaln_nt2Genome GAGGTGGTCCCATAATTTTGGGAGCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG- aatgttgaacttccacaaagcgccagaagctgactcccatgtccccacagGAGGGGGTACCATAATCCTGGGAGCAGAATCACAAGCCTCCAGAGATGTAGCAATTGATATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAGGTGAgtagttacaccacattgtgaagctgacctttaaccagggttcccct Alignment from Pairagon GAGGTGGTCCCATAATTTTGGGAGCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAG aatgttgaacttccacaaagcgccagaagctgactcccatgtccccacagGAGGGGGTACCATAATCCTGGGAGCAGAATCACAAGCCTCCAGAGATGTAGCAATTGATATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAGgtgagtagttacaccacattgtgaagctgacctttaaccagggttcccct Alignment from Exonerate_protein2genome GAGGTGGTCCCATAATTTTGGGAGCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aatgttgaacttccacaaagcgccagaagctgactcccatgtccccacagGAGGGGGTACCATAATCCTGGGAGCAGAATCACAAGCCTCCAGAGATGTAGCAATTGATATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAG---gtgagtagttacaccacattgtgaagctgacctttaaccagggttcc Alignment from Exonerate_coding2genome GAGGTGGTCCCATAATTTTGGGAGCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aatgttgaacttccacaaagcgccagaagctgactcccatgtccccacagGAGGGGGTACCATAATCCTGGGAGCAGAATCACAAGCCTCCAGAGATGTAGCAATTGATATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGATGAG---gtgagtagttacaccacattgtgaagctgacctttaaccagggttcc Alignment from GeneWise GAGGTGGTCCCATAATTTTGGGAGCAGAGTCCCGAGCTTCCAGGGACGTGGCTATTGACATGATGGACCCTAGAACAAGCCAGCAGCTTCAGCTCATTGATGAGCAG aatgttgaacttccacaaagcgccagaagctgactcccatgtccccacagGAGGGGGTACCATAATCCTGGGAGCAGAATCACAAGCCTCCAGAGATGTAGCAATTGATATGATGGACCCTAGAACAAGCCAACAGCTGCAGGTCATTGAT---GAGgtgagtagttacaccacattgtgaagctgacctttaaccagggttcccct #### Suv420h1_ID146_8 --> 0 - 2 Original Alignment TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAag tgcttaaagtcaatggttacctgttgttcacggggacattcatgccacag---------ACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAaggtgagtacctaagccctatacctaacttccatggaggagtatttattgtg Alignment from CESAR TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAag tatttggcctgcttaaagtcaatgggttcacggggacattcatgccacag---------ACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAaggtgagtacctaagccctatacctaacttccatggaggagtatttattgtg Alignment from Spaln_aa2Genome TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG tgcttaaagtcaatggttacctgttgttcacggggacattcatgccacag---------ACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtgagtacctaagccctatacctaacttccatggaggagtatttattgtg Alignment from Spaln_nt2Genome TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG tgcttaaagtcaatggttacctgttgttcacggggacattcatgccacag---------ACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtgagtacctaagccctatacctaacttccatggaggagtatttattgtg Alignment from Pairagon TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG tgcttaaagtcaatggttacctgttgttcacggggacattcatgccacag---------ACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtgagtacctaagccctatacctaacttccatggaggagtatttattgtg Alignment from Exonerate_protein2genome ACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG tgcttaaagtcaatggttacctgttgttcacggggacattcatgccacagACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtgagtacctaagccctatacctaacttccatggaggagtatttattgtg Alignment from Exonerate_coding2genome AGACCTAACTGTAAGTTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG tgcttaaagtcaatggttacctgttgTTCACGGGGACATTCATGCCACAGACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtgagtacctaagccctatacctaacttccatggaggagtatttattgtg Alignment from GeneWise -----------GATTGCAGACCTAACTGTAAGTTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG tgcttaaagTCAATGGTTACCTGTTGTTCACGGGGACATTCATGCCACAGACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAAGgtgagtacctaagccctatacctaacttccatggaggagtatttattgtg #### Syvn1_ID1386_5 --> 2 - 0 Original Alignment ctCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG--- tgtcaaacataggtcaatagaagccttgatacttctctactgtgttgcagctCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGGGTCCTGACTCGTGGCGCTTCAGTGCAGTTGGTATTTGGCTTTGTAACCgtaatgccaagcgatgaggtaacaacccagctgttctttttgcccctcta Alignment from CESAR ctCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tgtcaaacataggtcaatagaagccttgatacttctctactgtgttgcagctCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGGGTCCTGACTCGTGGCGCTTCAGTGCAGTTGGTATTTGGCTTT---gtaaccgtaatgccaagcgatgaggtaacaacccagctgttctttttgcccctcta Alignment from Spaln_aa2Genome CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTT tgtcaaacataggtcaatagaagccttgatacttctctactgtgttgcagCTCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGGGTCCTGACTCGTGGCGCTTCAGTGCAGTTGGTATTTGGCTTTgtaaccgtaatgccaagcgatgaggtaacaacccagctgttctttttgcccctcta Alignment from Spaln_nt2Genome CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG--- tgtcaaacataggtcaatagaagccttgatacttctctactgtgttgcagCTCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGGGTCCTGACTCGTGGCGCTTCAGTGCAGTTGGTATTTGGCTTTGTAACCgtaatgccaagcgatgaggtaacaacccagctgttctttttgcccctcta Alignment from Pairagon CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTT tgtcaaacataggtcaatagaagccttgatacttctctactgtgttgcagCTCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGGGTCCTGACTCGTGGCGCTTCAGTGCAGTTGGTATTTGGCTTTgtaaccgtaatgccaagcgatgaggtaacaacccagctgttctttttgcccctcta Alignment from Exonerate_protein2genome CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTT tgtcaaacataggtcaatagaagccttgatacttctctactgtgttgcagCTCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGGGTCCTGACTCGTGGCGCTTCAGTGCAGTTGGTATTTGGCTTTgtaaccgtaatgccaagcgatgaggtaacaacccagctgttctttttgcccctcta Alignment from Exonerate_coding2genome CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTT tgtcaaacataggtcaatagaagccttgatacttctctactgtgttgcagCTCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGGGTCCTGACTCGTGGCGCTTCAGTGCAGTTGGTATTTGGCTTTgtaaccgtaatgccaagcgatgaggtaacaacccagctgttctttttgcccctcta Alignment from GeneWise CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAGTAC tgtcaaacataggtcaatagaagccttgatacttctctactgtgttgcagCTCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGGGTCCTGACTCGTGGCGCTTCAGTGCAGTTGGTATTTGGCTTTGTAACCgtaatgccaagcgatgaggtaacaacccagctgttctttttgcccctcta #### Syvn1_ID1387_6 --> 0 - 1 Original Alignment TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACGGAGCTGTTTACAg gcactcttggtatattatggttcagatcaacttgacaatgtcgtattcagTATGCCATTCTGATGACCATGGCACTCACTATTTTCATCAAGTATGTGCTGCATTCTGTTGACCTCCAGAGTAAAAATCCCTGGGAT---------------------------------------ggtgagcattcccagtcaatctagaggtgcttcacggttatcgcagttggc Alignment from CESAR TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACGGAGCTGTTTACAg gcactcttggtatattatggttcagatcaacttgacaatgtcgtattcagTATGCCATTCTGATGACCATGGCACTCACTATTTTCATCAAGTATGTGCTGCATTCTGTTGACCTCCAGAGTAAAAATCCCTGGGAT---------------------------------------ggtgagcattcccagtcaatctagaggtgcttcacggttatcgcagttggc Alignment from Spaln_aa2Genome TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGAC---AACAAGGCTGT gcactcttggtatattatggttcagatcaacttgacaatgtcgtattcagTATGCCATTCTGATGACCATGGCACTCACTATTTTCATCAAGTATGTGCTGCATTCTGTTGACCTCCAGAGTAAAAATCCCTGGGATGGTGAGCATTCCCAgtcaatctagaggtgcttcacggttatcgcagttggc Alignment from Spaln_nt2Genome TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACAC gcactcttggtatattatggttcagatcaacttgacaatgtcgtattcagTATGCCATTCTGATGACCATGGCACTCACTATTTTCATCAAGTATGTGCTGCATTCTGTTGACCTCCAGAGTAAAAATCCCTGGGATGGTGAGCATTCCCAGTCAATCTAGAGgtgcttcacggttatcgcagttggc Alignment from Pairagon TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACGGAGCTGTTTACAG gcactcttggtatattatggttcagatcaacttgacaatgtcgtattcagTATGCCATTCTGATGACCATGGCACTCACTATTTTCATCAAGTATGTGCTGCATTCTGTTGACCTCCAGAGTAAAAATCCCTGGGAT---------------------------------------Ggtgagcattcccagtcaatctagaggtgcttcacggttatcgcagttggc Alignment from Exonerate_protein2genome TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACGGAGCTGTTT gcactcttggtatattatggttcagatcaacttgacaatgtcgtattcagTATGCCATTCTGATGACCATGGCACTCACTATTTTCATCAAGTATGTGCTGCATTCTGTTGACCTCCAGAGTAAAAATCCCTGGGATGGTGAGCATTCCCAGTCAATCTAGAGGTGCTTCACGgttatcgcagttggc Alignment from Exonerate_coding2genome TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACGGAGCTGTTT gcactcttggtatattatggttcagatcaacttgacaatgtcgtattcagTATGCCATTCTGATGACCATGGCACTCACTATTTTCATCAAGTATGTGCTGCATTCTGTTGACCTCCAGAGTAAAAATCCCTGGGATGGTGAGCATTCCCAGTCAATCTAGAGGTGCTTCACGgttatcgcagttggc Alignment from GeneWise TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACA gcactcttggtatattatggttcagatcaacttgacaatgtcgtattcagTATGCCATTCTGATGACCATGGCACTCACTATTTTCATCAAGTATGTGCTGCATTCTGTTGACCTCCAGAGTAAAAATCCCTGGGATGgtgagcattcccagtcaatctagaggtgcttcacggttatcgcagttggc #### Syvn1_ID1391_10 --> 1 - 1 Original Alignment cTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAAT---t ggggatagtctaacaataacctactgacctgttttctatttacttcatagcTGCTTGCACTCCTGGTTCCATAGACAGCAGACCTGTCTGACATGTCATATGGATGTTTTGCGGGCATCACTGCCAGCCCAGCTGCCACCTCCTTCCGAGCCTGCTGAGCAAGGACCCCCCCCAGCGCCTCAGCCCCAACCACTCCTGCCA---CCGCCGAATAACagtacccgatgtctcatagtatagggccaatggacaagaaacttttggcta Alignment from CESAR cTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATt ggggatagtctaacaataacctactgacctgttttctatttacttcatagcTGCTTGCACTCCTGGTTCCATAGACAGCAGACCTGTCTGACATGTCATATGGATGTTTTGCGGGCATCACTGCCAGCCCAGCTGCCACCTCCTTCCGAGCCTGCTGAGCAAGGACCCCCCCCAGCGCCTCAGCCCCAACCACTCCTGCCACCGCCGAATAACagtacccgatgtctcatagtatagggccaatggacaagaaacttttggcta Alignment from Spaln_aa2Genome CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT ggggatagtctaacaataacctactgacctgttttctatttacttcatagCTGCTTGCACTCCTGGTTCCATAGACAGCAGACCTGTCTGACATGTCATATGGATGTTTTGCGGGCATCACTGCCAGCCCAGCTGCCACCTCCTTCCGAGCCTGCTGAGCAAGGACCCCCCCCAGCGCCTCAGCCCCAACCACTCCTGCCACCGCCGAATAACAgtacccgatgtctcatagtatagggccaatggacaagaaacttttggcta Alignment from Spaln_nt2Genome CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT ggggatagtctaacaataacctactgacctgttttctatttacttcatagCTGCTTGCACTCCTGGTTCCATAGACAGCAGACCTGTCTGACATGTCATATGGATGTTTTGCGGGCATCACTGCCAGCCCAGCTGCCACCTCCTTCCGAGCCTGCTGAGCAAGGACCCCCCCCAGCGCCTCAGCCCCAACCACTCCTGCCACCGCCGAATAACAgtacccgatgtctcatagtatagggccaatggacaagaaacttttggcta Alignment from Pairagon CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT ggggatagtctaacaataacctactgacctgttttctatttacttcatagCTGCTTGCACTCCTGGTTCCATAGACAGCAGACCTGTCTGACATGTCATATGGATGTTTTGCGGGCATCACTGCCAGCCCAGCTGCCACCTCCTTCCGAGCCTGCTGAGCAAGGACCCCCCCCAGCGCCTCAGCCCCAACCACTCCTGCCACCGCCGAATAACAgtacccgatgtctcatagtatagggccaatggacaagaaacttttggcta Alignment from Exonerate_protein2genome CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT ggggatagtctaacaataacctactgacctgttttctatttacttcatagCTGCTTGCACTCCTGGTTCCATAGACAGCAGACCTGTCTGACATGTCATATGGATGTTTTGCGGGCATCACTGCCAGCCCAGCTGCCACCTCCTTCCGAGCCTGCTGAGCAAGGACCCCCCCCAGCGCCTCAGCCCCAACCACTCCTGCCACCGCCGAATAACAgtacccgatgtctcatagtatagggccaatggacaagaaacttttggcta Alignment from Exonerate_coding2genome CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT ggggatagtctaacaataacctactgacctgttttctatttacttcatagCTGCTTGCACTCCTGGTTCCATAGACAGCAGACCTGTCTGACATGTCATATGGATGTTTTGCGGGCATCACTGCCAGCCCAGCTGCCACCTCCTTCCGAGCCTGCTGAGCAAGGACCCCCCCCAGCGCCTCAGCCCCAACCACTCCTGCCACCGCCGAATAACAgtacccgatgtctcatagtatagggccaatggacaagaaacttttggcta Alignment from GeneWise CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT ggggatagtctaacaataacctactgacctgttttctatttacttcatagCTGCTTGCACTCCTGGTTCCATAGACAGCAGACCTGTCTGACATGTCATATGGATGTTTTGCGGGCATCACTGCCAGCCCAGCTGCCACCTCCTTCCGAGCCTGCTGAGCAAGGACCCCCCCCAGCGCCTCAGCCCCAACCACTCCTGCCACCGCCGAATAACAgtacccgatgtctcatagtatagggccaatggacaagaaacttttggcta #### Syvn1_ID1394_13 --> 2 - 2 Original Alignment cc---------TTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGgg ccaatactaaactggtagctaggcctgaccactgggctaccccaccacagccTGTGTGGCTTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTTTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAATCAACCAATACCTCACTGTGCTGGCCTCCCTGgggtgagtatgcatgttcagctgcacacttccctgtagacagaccacctatt Alignment from CESAR cc---------TTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGgg ccaatactaaactggtagctaggcctgaccactgggctaccccaccacagccTGTGTGGCTTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTTTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAATCAACCAATACCTCACTGTGCTGGCCTCCCTGgggtgagtatgcatgttcagctgcacacttccctgtagacagaccacctatt Alignment from Spaln_aa2Genome CCTTCCCCCCA---------ATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG ccaatactaaactggtagctaggcctgaccactgggctaccccaccacagCCTGTGTGGCTTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTTTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAATCAACCAATACCTCACTGTGCTGGCCTCCCTGGGgtgagtatgcatgttcagctgcacacttccctgtagacagaccacctatt Alignment from Spaln_nt2Genome CCTTCCCCCCA---------ATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG ccaatactaaactggtagctaggcctgaccactgggctaccccaccacagCCTGTGTGGCTTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTTTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAATCAACCAATACCTCACTGTGCTGGCCTCCCTGGGgtgagtatgcatgttcagctgcacacttccctgtagacagaccacctatt Alignment from Pairagon ----------------------------------------------------------GCCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG CCAATACTAAACTGGTAGCTAGGCCTGACCACTGGGCTACCCCACCACAGCCTGTGTGGCTTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTTTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAATCAACCAATACCTCACTGTGCTGGCCTCCCTGGGgtgagtatgcatgttcagctgcacacttccctgtagacagaccacctatt Alignment from Exonerate_protein2genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG ccaatactaaactggtagctaggcctgaccactgggctaccccaccacagcctgtgtggCTTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTTTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAATCAACCAATACCTCACTGTGCTGGCCTCCCTGGGgtgagtatgcatgttcagctgcacacttccctgtagacagaccacctatt Alignment from Exonerate_coding2genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG ccaatactaaactggtagctaggcctgaccactgggctaccccaccacagcctgtgtggCTTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTTTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAATCAACCAATACCTCACTGTGCTGGCCTCCCTGGGgtgagtatgcatgttcagctgcacacttccctgtagacagaccacctatt Alignment from GeneWise --------GCCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG ccaatactaaactggtagctaggcctgaccactgggctaccccaccacagCCTGTGTGGCTTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACACCAGAGGAGTTGTGTGCTCTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTTTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAATCAACCAATACCTCACTGTGCTGGCCTCCCTGGGgtgagtatgcatgttcagctgcacacttccctgtagacagaccacctatt #### Syvn1_ID1395_14 --> 1 - 1 Original Alignment g---------CCCCCCAGGCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTg gtgcaacaattccaggcaaaatgttggagcctctctgaacttttgtacagaGTTGCCTTCCCCCCAAGGCCAGCAACCTCCGATAACCACACTGAGGAAACTGCATCTACTGTTGTATTTGCTGCACCCTCCAGTAGCACTCCAAGCTCTGAGGCTCCAACTCCTTCACCAGGGGCATCCCCCCCAATTCTTGAAGCAGAAAAGCCTCCTggtatgtttcaaaaagaataggccagcagaatctaggtggtatggcttgag Alignment from CESAR g---------CCCCCCAGGCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTg gtgcaacaattccaggcaaaatgttggagcctctctgaacttttgtacagaGTTGCCTTCCCCCCAAGGCCAGCAACCTCCGATAACCACACTGAGGAAACTGCATCTACTGTTGTATTTGCTGCACCCTCCAGTAGCACTCCAAGCTCTGAGGCTCCAACTCCTTCACCAGGGGCATCCCCCCCAATTCTTGAAGCAGAAAAGCCTCCTggtatgtttcaaaaagaataggccagcagaatctaggtggtatggcttgag Alignment from Spaln_aa2Genome GCCCCCCAGGCCA---------GCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTG gtgcaacaattccaggcaaaatgttggagcctctctgaacttttgtacagAGTTGCCTTCCCCCCAAGGCCAGCAACCTCCGATAACCACACTGAGGAAACTGCATCTACTGTTGTATTTGCTGCACCCTCCAGTAGCACTCCAAGCTCTGAGGCTCCAACTCCTTCACCAGGGGCATCCCCCCCAATTCTTGAAGCAGAAAAGCCTCCTGgtatgtttcaaaaagaataggccagcagaatctaggtggtatggcttgag Alignment from Spaln_nt2Genome GCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTG gtgcaacaattccaggcaaaatgttggagcctctctgaacttttgtacagagttgccttccccccaagGCCAGCAACCTCCGATAACCACACTGAGGAAACTGCATCTACTGTTGTATTTGCTGCACCCTCCAGTAGCACTCCAAGCTCTGAGGCTCCAACTCCTTCACCAGGGGCATCCCCCCCAATTCTTGAAGCAGAAAAGCCTCCTGgtatgtttcaaaaagaataggccagcagaatctaggtggtatggcttgag Alignment from Pairagon G--------------------------------------------CCCCCCAGGCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTG gtgcaacaattccagGCAAAATGTTGGAGCCTCTCTGAACTTTTGTACAGAGTTGCCTTCCCCCCAAGGCCAGCAACCTCCGATAACCACACTGAGGAAACTGCATCTACTGTTGTATTTGCTGCACCCTCCAGTAGCACTCCAAGCTCTGAGGCTCCAACTCCTTCACCAGGGGCATCCCCCCCAATTCTTGAAGCAGAAAAGCCTCCTGgtatgtttcaaaaagaataggccagcagaatctaggtggtatggcttgag Alignment from Exonerate_protein2genome GCCCCCCAGGCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTG gtgcaacaattccaggcaaaatgttggagcctctctgaacttttgtacagagttgccttCCCCCCAAGGCCAGCAACCTCCGATAACCACACTGAGGAAACTGCATCTACTGTTGTATTTGCTGCACCCTCCAGTAGCACTCCAAGCTCTGAGGCTCCAACTCCTTCACCAGGGGCATCCCCCCCAATTCTTGAAGCAGAAAAGCCTCCTGgtatgtttcaaaaagaataggccagcagaatctaggtggtatggcttgag Alignment from Exonerate_coding2genome GCCCCCCAGGCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTG gtgcaacaattccaggcaaaatgttggagcctctctgaacttttgtacagagttgccttCCCCCCAAGGCCAGCAACCTCCGATAACCACACTGAGGAAACTGCATCTACTGTTGTATTTGCTGCACCCTCCAGTAGCACTCCAAGCTCTGAGGCTCCAACTCCTTCACCAGGGGCATCCCCCCCAATTCTTGAAGCAGAAAAGCCTCCTGgtatgtttcaaaaagaataggccagcagaatctaggtggtatggcttgag Alignment from GeneWise -------GGGCCCCCCAGGCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTG gtgcaacaattccaggcaaaatgttggagcctctctgaacttttgtacagAGTTGCCTTCCCCCCAAGGCCAGCAACCTCCGATAACCACACTGAGGAAACTGCATCTACTGTTGTATTTGCTGCACCCTCCAGTAGCACTCCAAGCTCTGAGGCTCCAACTCCTTCACCAGGGGCATCCCCCCCAATTCTTGAAGCAGAAAAGCCTCCTGgtatgtttcaaaaagaataggccagcagaatctaggtggtatggcttgag #### Tbc1d10c_ID401_3 --> 0 - 0 Original Alignment GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG ttgctggcccaggcccttggatagccggagcttctcctgtctattgccag---------------------GGCATTCCCACTGTCTTGTGTGCGCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtaggaaggccaggaaatgcccttctcctgcttacctaccccagGAACTG Alignment from CESAR GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgccggagcttctcctgtctattgccag---------------------GGCATTCCCACTGTCTTGTGTGCGCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtaggaaggccaggaaatgccctaaaattctttcttctatatagGAACTG Alignment from Spaln_aa2Genome AGATCCAG---TGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG ttgctggcccaggcccttggatagccggagCTTCTCCTGTCTATTGCCAGGGCATTCCCACTGTCTTGTGTGCGCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtaggaaggccaggaaatgcccttctcctgcttacctaccccagGAACTG Alignment from Spaln_nt2Genome GGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG ttgctggcccaggcccttggatagccggagcttctcctgtctattgccagGGCATTCCCACTGTCTTGTGTGCGCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtaggaaggccaggaaatgcccttctcctgcttacctaccccagGAACTG Alignment from Pairagon GGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG ttgctggcccaggcccttggatagccggagcttctcctgtctattgccagGGCATTCCCACTGTCTTGTGTGCGCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtaggaaggccaggaaatgcccttctcctgcttacctaccccagGAACTG Alignment from Exonerate_protein2genome GCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG ttgctggcccaggcccttggatagccggagcttctcctgtctattGCCAGGGCATTCCCACTGTCTTGTGTGCGCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtaggaaggccaggaaatgcccttctcctgcttacctaccccagGAACTG Alignment from Exonerate_coding2genome GCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCT ttgctggcccaggcccttggatagccggagcttctcctgtctattgccagGG-----CATTCCCACTGTCTTGTGTGCGCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATatcaggtaggaaggccaggaaatgcccttctcctgcttacctaccccaggaactg Alignment from GeneWise -----AAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG ttgctggcccaggcccttggatagccggagCTTCTCCTGTCTATTGCCAG---GGCATTCCCACTGTCTTGTGTGCGCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAATCCTGGTACATATCAGgtaggaaggccaggaaatgcccttctcctgcttacctaccccagGAACTG #### Tcirg1_ID169_18 --> 2 - 2 Original Alignment agCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACtg aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagagCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGG------tggtgagtccttgcgtgatatctatatgacaggatgtgacagggaccatagg Alignment from CESAR agCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACtg aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagagCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGG------tggtgagtccttgcgtgatatctatatgacaggatgtgacagggaccatatt Alignment from Spaln_aa2Genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTT aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagAGCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTGgtgagtccttgcgtgatatctatatgacaggatgtgacagggaccatagg Alignment from Spaln_nt2Genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagAGCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGG------TGgtgagtccttgcgtgatatctatatgacaggatgtgacagggaccatagg Alignment from Pairagon AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagAGCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGG------TGgtgagtccttgcgtgatatctatatgacaggatgtgacagggaccatagg Alignment from Exonerate_protein2genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagAGCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGG------TGgtgagtccttgcgtgatatctatatgacaggatgtgacagggaccatagg Alignment from Exonerate_coding2genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGG aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagAGCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGtggtgagtccttgcgtgatatctatatgacaggatgtgacagggaccatagg Alignment from GeneWise AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTT aatgtcacaggtctacaatgctcttaggaccctagcttcttgcactttagAGCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGAGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTGgtgagtccttgcgtgatatctatatgacaggatgtgacagggaccatagg #### Tcirg1_ID172_15 --> 0 - 0 Original Alignment GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG agacaatgtaattccaattcaacacacttctccctctcttttgctttcagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCGTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCC------CTCCTACATGAGCACCAGCACAGAAGAAACTCC------------------------gtacagacatagtgttggggtcaacagtagaggcccgcgcttctagtagt Alignment from CESAR GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG agacaatgtaattccaattcaacacacttctccctctcttttgctttcagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCGTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCC------CTCCTACATGAGCACCAGCACAGAAGAAACTCC------------------------gtacagacatagtgttggggtcaaca Alignment from Spaln_aa2Genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACT agacaatgtaattccaattcaacacacttctccctctcttttgctttcagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCGTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCC------CTCCTACATGAGCACCAGCACAGAAGAAACTCCgtacagacatagtgttggggtcaacagtagaggcccgcgcttctagtagt Alignment from Spaln_nt2Genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACT---CAGAGAAGGCCAGCAGGCCAGCA agacaatgtaattccaattcaacacacttctccctctcttttgctttcagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCGTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACC------CCTCCTACATGAGCACCAGCACAGAAGAAACTCCGTACAGACATAGTGTTGGGGTCAACAgtagaggcccgcgcttctagtagt Alignment from Pairagon GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACT agacaatgtaattccaattcaacacacttctccctctcttttgctttcagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCGTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACC------CCTCCTACATGAGCACCAGCACAGAAGAAACTCCgtacagacatagtgttggggtcaacagtagaggcccgcgcttctagtagt Alignment from Exonerate_protein2genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG agacaatgtaattccaattcaacacacttctccctctcttttgctttcagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCGTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCCCTCCTACATGAGCACCAGCACAGA---AGAAACTCCGTACAGACATAGTGTTGGGGTCAACAGtagaggcccgcgcttctagtagt Alignment from Exonerate_coding2genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG agacaatgtaattccaattcaacacacttctccctctcttttgctttcagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCGTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCCCTCCTACATGAGCACCAGCACAGA---AGAAACTCCGTACAGACATAGTGTTGGGGTCAACAGtagaggcccgcgcttctagtagt Alignment from GeneWise GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACT agacaatgtaattccaattcaacacacttctccctctcttttgctttcagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCGTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCCCTC------CTACATGAGCACCAGCACAGAAGAAACTCCgtacagacatagtgttggggtcaacagtagaggcccgcgcttctagtagt #### Tcirg1_ID183_4 --> 0 - 2 Original Alignment GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCaa agacacaacctcacagtgtacatgctcactgcttttcaccctatttacag---GCAGCTGACCATACTGAAGGTCCTCTCTCAGAAACAACACCCCTTCTTCCAGGCACACGGGGTCCACATTCTGACCTGAAAGTTaagtaagatgaagcatccaagcttttttgacattctcacattcacactctgc Alignment from CESAR GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCaa cacagacacaacctcacagtgtacatcactgcttttcaccctatttacag---GCAGCTGACCATACTGAAGGTCCTCTCTCAGAAACAACACCCCTTCTTCCAGGCACACGGGGTCCACATTCTGACCTGAAAGTTaagtaagatgaagcatccaagcttttttgacattctcacattcacactctgc Alignment from Spaln_aa2Genome GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA agacacaacctcacagtgtacatgctcactgcttttcaccctatttacagGCAGCTGACCAT---ACTGAAGGTCCTCTCTCAGAAACAACACCCCTTCTTCCAGGCACACGGGGTCCACATTCTGACCTGAAAGTTAAgtaagatgaagcatccaagcttttttgacattctcacattcacactctgc Alignment from Spaln_nt2Genome GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA agacacaacctcacagtgtacatgctcactgcttttcaccctatttacag---GCAGCTGACCATACTGAAGGTCCTCTCTCAGAAACAACACCCCTTCTTCCAGGCACACGGGGTCCACATTCTGACCTGAAAGTTAAgtaagatgaagcatccaagcttttttgacattctcacattcacactctgc Alignment from Pairagon -------------------------------------------------GGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA AGACACAACCTCACAGTGTACATGCTCACTGCTTTTCACCCTATTTACAGGCAGCTGACCATACTGAAGGTCCTCTCTCAGAAACAACACCCCTTCTTCCAGGCACACGGGGTCCACATTCTGACCTGAAAGTTAAgtaagatgaagcatccaagcttttttgacattctcacattcacactctgc Alignment from Exonerate_protein2genome GCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA agacacaacctcacagtgtacatgctcactgcttttcaccctatttacagGCAGCTGACCATACTGAAGGTCCTCTCTCAGAAACAACACCCCTTCTTCCAGGCACACGGGGTCCACATTCTGACCTGAAAGTTAAgtaagatgaagcatccaagcttttttgacattctcacattcacactctgc Alignment from Exonerate_coding2genome GCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA agacacaacctcacagtgtacatgctcactgcttttcaccctatttacagGCAGCTGACCATACTGAAGGTCCTCTCTCAGAAACAACACCCCTTCTTCCAGGCACACGGGGTCCACATTCTGACCTGAAAGTTAAgtaagatgaagcatccaagcttttttgacattctcacattcacactctgc Alignment from GeneWise GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA agacacaacctcacagtgtacatgctcactgcttttcaccctatttacagGCAGCT---GACCATACTGAAGGTCCTCTCTCAGAAACAACACCCCTTCTTCCAGGCACACGGGGTCCACATTCTGACCTGAAAGTTAAgtaagatgaagcatccaagcttttttgacattctcacattcacactctgc #### Tcirg1_ID185_2 --> 0 - 1 Original Alignment CCTCGTGGAGTTCAGAGAC CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTa GCCTGTGGAGTTGAGAGATgtatggagttactgagctgctctgcccacagTTCAATGAGTTGGTGAGTGCATTCCAGAGACGCTTTGTAGTAGATGTGCAGCACTGTGAGGAGCTGGACAAG------agtaagtagatgtcctcagcgtatttgagatgacagggtgtactttattta Alignment from CESAR CCTCGTGGAGTTCAGAGAC CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTa GCCTGTGGAGTTGAGAGATgtaagtagttactgagctgctctgcccacagTTCAATGAGTTGGTGAGTGCATTCCAGAGACGCTTTGTAGTAGATGTGCAGCACTGTGAGGAGCTGGACAAG------agtaagtagatgtcctcagcgtatttgagatgacagggtgtactttattta Alignment from Spaln_aa2Genome CCTCGTGGAGTTCAGAGAC CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGA GCCTGTGGAGTTGAGAGATgtatggagttactgagctgctctgcccacagTTCAATGAGTTGGTGAGTGCATTCCAGAGACGCTTTGTAGTAGATGTGCAGCACTGTGAGGAGCTGGACAAGAgtaagtagatgtcctcagcgtatttgagatgacagggtgtactttattta Alignment from Spaln_nt2Genome CCTCGTGGAGTTCAGAGAC-------------------------------CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGA GCCTGTGGAGTTGAGAGATGTATGGAGTTACTGAGCTGCTCTGCCCACAGTTCAATGAGTTGGTGAGTGCATTCCAGAGACGCTTTGTAGTAGATGTGCAGCACTGTGAGGAGCTGGACAAGAgtaagtagatgtcctcagcgtatttgagatgacagggtgtactttattta Alignment from Pairagon CCTCGTGGAGTTCAGAGAC CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGA GCCTGTGGAGTTGAGAGATgtatggagttactgagctgctctgcccacagTTCAATGAGTTGGTGAGTGCATTCCAGAGACGCTTTGTAGTAGATGTGCAGCACTGTGAGGAGCTGGACAAGAgtaagtagatgtcctcagcgtatttgagatgacagggtgtactttattta Alignment from Exonerate_protein2genome CCTCGTGGAGTTCAGAGAC CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTT GCCTGTGGAGTTGAGAGATgtatggagttactgagctgctctgcccacagTTCAATGAGTTGGTGAGTGCATTCCAGAGACGCTTTGTAGTAGATGTGCAGCACTGTGAGGAGCTGGACAAGAGTAAgtagatgtcctcagcgtatttgagatgacagggtgtactttattta Alignment from Exonerate_coding2genome CCTCGTGGAGTTCAGAGAC CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTT GCCTGTGGAGTTGAGAGATgtatggagttactgagctgctctgcccacagTTCAATGAGTTGGTGAGTGCATTCCAGAGACGCTTTGTAGTAGATGTGCAGCACTGTGAGGAGCTGGACAAGAGTAAgtagatgtcctcagcgtatttgagatgacagggtgtactttattta Alignment from GeneWise CCTCGTGGAGTTCAGAGAC CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGA GCCTGTGGAGTTGAGAGATgtatggagttactgagctgctctgcccacagTTCAATGAGTTGGTGAGTGCATTCCAGAGACGCTTTGTAGTAGATGTGCAGCACTGTGAGGAGCTGGACAAGAgtaagtagatgtcctcagcgtatttgagatgacagggtgtactttattta #### Tctn3_ID7990_11 --> 0 - 2 Original Alignment ---------ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAag caacaacctcaccgatccctgactcaccgaggccttcctgtctctcccagAATGAAAGTATGACCCTGCTGCAGAGTGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAGTTTGGTGTGAATGCATTCTCTGGGTGCCAATTGaggtaagtaatttgtatgagacgactctgagatgagactttataagtcggat Alignment from CESAR ---------ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAag caacaacctcaccgatccctgactcaccgaggccttcctgtctctcccagAATGAAAGTATGACCCTGCTGCAGAGTGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAGTTTGGTGTGAATGCATTCTCTGGGTGCCAATTGaggtaagtaatttgtatgagacgactctgagatgagactttataagtcggat Alignment from Spaln_aa2Genome TCGATGACCCTG------TTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAAG caacaacctcaccgatccctgactcaccgaggccttcctgtctctcccagAATGAAAGTATGACCCTGCTGCAGAGTGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAGTTTGGTGTGAATGCATTCTCTGGGTGCCAATTGAGgtaagtaatttgtatgagacgactctgagatgagactttataagtcggat Alignment from Spaln_nt2Genome -ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAAG caacaacctcaccgatccctgactcaccgaggccttcctgtctctcccagaatgaaagTATGACCCTGCTGCAGAGTGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAGTTTGGTGTGAATGCATTCTCTGGGTGCCAATTGAGgtaagtaatttgtatgagacgactctgagatgagactttataagtcggat Alignment from Pairagon ---------ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAAG caacaacctcaccgatccctgactcaccgaggccttcctgtctctcccagAATGAAAGTATGACCCTGCTGCAGAGTGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAGTTTGGTGTGAATGCATTCTCTGGGTGCCAATTGAGgtaagtaatttgtatgagacgactctgagatgagactttataagtcggat Alignment from Exonerate_protein2genome TCACTCGATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAAG caacaacctcaccgatccctgactcaccgaggccttcctgtctctcccagaaTGAAAGTATGACCCTGCTGCAGAGTGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAGTTTGGTGTGAATGCATTCTCTGGGTGCCAATTGAGgtaagtaatttgtatgagacgactctgagatgagactttataagtcggat Alignment from Exonerate_coding2genome TCACTCGATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAAG caacaacctcaccgatccctgactcaccgaggccttcctgtctctcccagaaTGAAAGTATGACCCTGCTGCAGAGTGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAGTTTGGTGTGAATGCATTCTCTGGGTGCCAATTGAGgtaagtaatttgtatgagacgactctgagatgagactttataagtcggat Alignment from GeneWise ---------ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAAG caacaacctcaccgatccctgactcaccgaggccttcctgtctctcccagAATGAAAGTATGACCCTGCTGCAGAGTGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAGTTTGGTGTGAATGCATTCTCTGGGTGCCAATTGAGgtaagtaatttgtatgagacgactctgagatgagactttataagtcggat #### Tctn3_ID7996_5 --> 0 - 1 Original Alignment GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCA---g gtTTCCTAGAGAGTAAAAGCA gccatttaaagataccattttttcagttgttcctacctctgtcttcacagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTAAGCTTACTAAGACAACCTGCAGCTGTAGGAGCTGGTGGACTTTGTGCAGAGAGCAACCCAGCACTCggtacgttcgtcttctttcttacctaacaggaTTTCTAGAGACTAAGAGTA Alignment from CESAR GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCA---g gtTTCCTAGAGAGTAAAAGCA gccatttaaagataccattttttcagttgttcctacctctgtcttcacagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTAAGCTTACTAAGACAACCTGCAGCTGTAGGAGCTGGTGGACTTTGTGCAGAGAGCAACCCAGCACTCggtactgttgtttggtttctatttctttaggaTTTCTAGAGACTAAGAGTA Alignment from Spaln_aa2Genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAGGTTTCCTAG AGAGTAAAAGCA gccatttaaagataccattttttcagttgttcctacctctgtcttcacagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTAAGCTTACTAAGACAACCTGCAGCTGTAGGAGCTGGTGGACTTTGTGCAGAGAGCAACCCAGCA------CTCGgtacgttcgtcttctttcttacctaacaggatttctagAGACTAAGAGTA Alignment from Spaln_nt2Genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAGGTTTCCTAG AGAGTAAAAGCA gccatttaaagataccattttttcagttgttcctacctctgtcttcacagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTAAGCTTACTAAGACAACCTGCAGCTGTAGGAGCTGGTGGACTTTGTGCAGAGAGCAACCCAGCA------CTCGgtacgttcgtcttctttcttacctaacaggatttctagAGACTAAGAGTA Alignment from Pairagon GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTG--------------------------------CAGGTTTCCTAGAGAGTAAAAGCA gccatttaaagataccattttttcagttgttcctacctctgtcttcacagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTAAGCTTACTAAGACAACCTGCAGCTGTAGGAGCTGGTGGACTTTGTGCAGAGAGCAACCCAGCACTCGGTACGTTCGTCTTCTTTCTTACCTAACAGGATTTCTAGAGACTAAGAGTA Alignment from Exonerate_protein2genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCT GCAGGTTTCCTAGAGAGTAAAAGCA gccatttaaagataccattttttcagttgttcctacctctgtcttcacagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTAAGCTTACTAAGACAACCTGCAGCTGTAGGAGCTGGTGGACTTTGTGCAGAGAGCAACCCAgcactcggtacgttcgtcttctttcttacctaACAGGATTTCTAGAGACTAAGAGTA Alignment from Exonerate_coding2genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCT GCAGGTTTCCTAGAGAGTAAAAGCA gccatttaaagataccattttttcagttgttcctacctctgtcttcacagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTAAGCTTACTAAGACAACCTGCAGCTGTAGGAGCTGGTGGACTTTGTGCAGAGAGCAACCCAgcactcggtacgttcgtcttctttcttacctaACAGGATTTCTAGAGACTAAGAGTA Alignment from GeneWise GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCA---------------------------------GGTTTCCTAGAGAGTAAAAGC gccatttaaagataccattttttcagttgttcctacctctgtcttcacagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTAAGCTTACTAAGACAACCTGCAGCTGTAGGAGCTGGTGGACTTTGTGCAGAGAGCAACCCAGCACTCGGTACGTTCGTCTTCTTTCTTACCTA-ACAGGATTTCTAGAGACTAAGAGT #### Tdrd1_ID12205_6 --> 0 - 0 Original Alignment GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG gcaagatgggtggcttcagcccaatccttgcttttccctctgaatcctag---GACTGCCCCCCAGAAGTT---AGACAAATTACAGTAGGCGCTGAGAGAGTTATGTTCTCTGATTTAAGAACTCTTCAGCTAATGAAAACAATGGAGATAAAAgtgagtggatttgtctcctcctttcctcccatatgtgatccccttggctc Alignment from CESAR GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG caggcaagatgggtggcttcagcccccttgcttttccctctgaatcctag---GACTGCCCCCCAGAAGTT---AGACAAATTACAGTAGGCGCTGAGAGAGTTATGTTCTCTGATTTAAGAACTCTTCAGCTAATGAAAACAATGGAGATAAAAgtgagtggatttgtctcctcctttcctcccatatgtgatccccttggctc Alignment from Spaln_aa2Genome GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG gcaagatgggtggcttcagcccaatccttgcttttccctctgaatcctag---GACTGCCCCCCAGAAGTT---AGACAAATTACAGTAGGCGCTGAGAGAGTTATGTTCTCTGATTTAAGAACTCTTCAGCTAATGAAAACAATGGAGATAAAAgtgagtggatttgtctcctcctttcctcccatatgtgatccccttggctc Alignment from Spaln_nt2Genome GACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG gcaagatgggtggcttcagcccaatccttgcttttccctctgaatcctagGACTGCCCCCCAGAAGT---TAGACAAATTACAGTAGGCGCTGAGAGAGTTATGTTCTCTGATTTAAGAACTCTTCAGCTAATGAAAACAATGGAGATAAAAgtgagtggatttgtctcctcctttcctcccatatgtgatccccttggctc Alignment from Pairagon GACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG gcaagatgggtggcttcagcccaatccttgcttttccctctgaatcctagGACTGCCCCCCAGAAGT---TAGACAAATTACAGTAGGCGCTGAGAGAGTTATGTTCTCTGATTTAAGAACTCTTCAGCTAATGAAAACAATGGAGATAAAAgtgagtggatttgtctcctcctttcctcccatatgtgatccccttggctc Alignment from Exonerate_protein2genome GTGAGGTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG gcaagatgggtggcttcagcccaatccttgcttttccctctgAATCCTAGGACTGCCCCCCAGAAGTT---AGACAAATTACAGTAGGCGCTGAGAGAGTTATGTTCTCTGATTTAAGAACTCTTCAGCTAATGAAAACAATGGAGATAAAAgtgagtggatttgtctcctcctttcctcccatatgtgatccccttggctc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG gcaagatgggtggcttcagcccaatccttgcttttccctctgaatcctagGACTGCCCCCCAGAAGTT---AGACAAATTACAGTAGGCGCTGAGAGAGTTATGTTCTCTGATTTAAGAACTCTTCAGCTAATGAAAACAATGGAGATAAAAgtgagtggatttgtctcctcctttcctcccatatgtgatccccttggctc #### Tdrd1_ID12222_23 --> 2 - 0 Original Alignment agATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG tgtgactatagcatccacccaattccaatcagcattctctgttgtggcagagATACCTCACAGTAGGGACTGC------------------------gttagtatttactgctgctcaacacgtgatgaactgggaccaagacacag Alignment from CESAR agATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG tgtgactatagcatccacccaattccaatcagcattctctgttgtggcagagATACCTCACAGTAGGGACTGC------------------------gttagtatttactgctgctcaacacg Alignment from Spaln_aa2Genome AGATACCACACAGCAGAGACTGCTGTT tgtgactatagcatccacccaattccaatcagcattctctgttgtggcagAGATACCTCACAGTAGGGACTGCGTTAgtatttactgctgctcaacacgtgatgaactgggaccaagacacag Alignment from Spaln_nt2Genome AGATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGA-AACAG tgtgactatagcatccacccaattccaatcagcattctctgttgtggcagAGATACCTCACAGTAGGGACTGCGTTAGTATTTACTGCTGCTCAACACgtgatgaactgggaccaagacacag Alignment from Pairagon AGATACCACACAGCAGAGACTGC tgtgactatagcatccacccaattccaatcagcattctctgttgtggcagAGATACCTCACAGTAGGGACTGCgttagtatttactgctgctcaacacgtgatgaactgggaccaagacacag Alignment from Exonerate_protein2genome AGATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAGA tgtgactatagcatccacccaattccaatcagcattctctgttgtggcagAGATACCTCACAGTAGGGACTGCGTTAGTATTTACTGCTGCTCAACACgtgatgaactgggaccaagacacag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AGATACCACACAGCAGAGAC----------------------------------------------------- tgtgactatagcatccacccaattccaatcagcattctctgttgtggcagAGATACCTCACAGTAGGGACTGCGTTAGTATTTACTGCTGCTCAACACGTGATGAACTGGGACCAAGACACAG #### Tectb_ID11563_6 --> 1 - 2 Original Alignment gTTCAAAGTGGTCTTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCCCTTACAGTGGCAGCTCATCAATAAGgg atttttgtaacagtattgttttccaccgtgttgcgcttgtgccctcacagg------GTGGTCTTGAATAGCTGCTGGGCGACCCCCTTGGCTGACTTCATGTACCCTTTACAGTGGCAGCTTATCAATAAGgggtgaggaccaataacaactccacgatggtggcacgtttcttggaccccct Alignment from CESAR gTTCAAAGTGGTCTTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCCCTTACAGTGGCAGCTCATCAATAAGgg aaattcatttttgtaacagtattgtccgtgttgcgcttgtgccctcacagg------GTGGTCTTGAATAGCTGCTGGGCGACCCCCTTGGCTGACTTCATGTACCCTTTACAGTGGCAGCTTATCAATAAGgggtgaggaccaataacaactccacgatggtggcacgtttcttggaccccct Alignment from Spaln_aa2Genome GTTCAAAGTGGTCTTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCCCTTACAGTGGCAGCTCATCAATAAGGG atttttgtaacagtattgttttccaccgtgttgcgcttgtgccctcacagG------GTGGTCTTGAATAGCTGCTGGGCGACCCCCTTGGCTGACTTCATGTACCCTTTACAGTGGCAGCTTATCAATAAGGGgtgaggaccaataacaactccacgatggtggcacgtttcttggaccccct Alignment from Spaln_nt2Genome GTTCAAAGTGGTCTTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCCCTTACAGTGGCAGCTCATCAATAAGGG atttttgtaacagtattgttttccaccgtgttgcgcttgtgccctcacagG------GTGGTCTTGAATAGCTGCTGGGCGACCCCCTTGGCTGACTTCATGTACCCTTTACAGTGGCAGCTTATCAATAAGGGgtgaggaccaataacaactccacgatggtggcacgtttcttggaccccct Alignment from Pairagon GTTCAAAGTGGTCTTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCCCTTACAGTGGCAGCTCATCAATAAGGG atttttgtaacagtattgttttccaccgtgttgcgcttgtgccctcacagG------GTGGTCTTGAATAGCTGCTGGGCGACCCCCTTGGCTGACTTCATGTACCCTTTACAGTGGCAGCTTATCAATAAGGGgtgaggaccaataacaactccacgatggtggcacgtttcttggaccccct Alignment from Exonerate_protein2genome GTTCAAAGTGGTCTTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCCCTTACAGTGGCAGCTCATCAATAAGGG atttttgtaacagtattgttttccaccgtgttgcgcttgtgcccTCACAGGGTGGTCTTGAATAGCTGCTGGGCGACCCCCTTGGCTGACTTCATGTACCCTTTACAGTGGCAGCTTATCAATAAGGGgtgaggaccaataacaactccacgatggtggcacgtttcttggaccccct Alignment from Exonerate_coding2genome GTTCAAAGTGGTCTTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCCCTTACAGTGGCAGCTCATCAATAAGGG atttttgtaacagtattgttttccaccgtgttgcgcttgtgcccTCACAGGGTGGTCTTGAATAGCTGCTGGGCGACCCCCTTGGCTGACTTCATGTACCCTTTACAGTGGCAGCTTATCAATAAGGGgtgaggaccaataacaactccacgatggtggcacgtttcttggaccccct Alignment from GeneWise AGTGGTCTTGAATAGCTGCTGGGCCACCCCCTCGGCTGACTTCATGTACCCCTTACAGTGGCAGCTCATCAATAAGGG atttttgtaacagtattgttttccaccgtgttgcgcttgtgccctcacagGGTGGTCTTGAATAGCTGCTGGGCGACCCCCTTGGCTGACTTCATGTACCCTTTACAGTGGCAGCTTATCAATAAGGGgtgaggaccaataacaactccacgatggtggcacgtttcttggaccccct #### Tjp2_ID5274_13 --> 2 - 2 Original Alignment tgTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGC---------ag ggtgtagttgtctcctcgcaggtagagccctggtggggctttgtttacagctTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTTTGGCCTTCACTAGGGGAGAGGTCTTTCGAGTGGTAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTGATCCCCAACAAAAGCGTGAGAATGaggtaagcaccccattctgtcagaccccatcccaaaagacagcggccccgtg Alignment from CESAR tgTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGC---------ag ggtgtagttgtctcctcgcaggtagagccctggtggggctttgtttacagctTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTTTGGCCTTCACTAGGGGAGAGGTCTTTCGAGTGGTAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTGATCCCCAACAAAAGCGTGAGAATGaggtaagcaccccattctgtcagaccccatcccaaaagacagcggccccgtg Alignment from Spaln_aa2Genome TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCAGA-------- ggtgtagttgtctcctcgcaggtagagccctggtggggctttgtttacagCTTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTTTGGCCTTCACTAGGGGAGAGGTCTTTCGAGTGGTAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTGATCCCCAACAAAAGCGTGAGAATGAGgtaagcaccccattctgtcagaccccatcccaaaagacagcggccccgtg Alignment from Spaln_nt2Genome TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCA ggtgtagttgtctcctcgcaggtagagccctggtggggctttgtttacagCTTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTTTGGCCTTCACTAGGGGAGAGGTCTTTCGAGTGGTAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTGATCCCCAACAAAAGC-gtgagaatgaggtaagcaccccattctgtcagaccccatcccaaaagacagcggccccgtg Alignment from Pairagon TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGC ggtgtagttgtctcctcgcaggtagagccctggtggggctttgtttacagCTTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTTTGGCCTTCACTAGGGGAGAGGTCTTTCGAGTGGTAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTGATCCCCAACAAAAGCgtgagaatgaggtaagcaccccattctgtcagaccccatcccaaaagacagcggccccgtg Alignment from Exonerate_protein2genome TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCAG ggtgtagttgtctcctcgcaggtagagccctggtggggctttgtttacagCTTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTTTGGCCTTCACTAGGGGAGAGGTCTTTCGAGTGGTAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTGATCCCCAACAAAAGCGTgagaatgaggtaagcaccccattctgtcagaccccatcccaaaagacagcggccccgtg Alignment from Exonerate_coding2genome TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCAG ggtgtagttgtctcctcgcaggtagagccctggtggggctttgtttacagCTTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTTTGGCCTTCACTAGGGGAGAGGTCTTTCGAGTGGTAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTGATCCCCAACAAAAGCGTgagaatgaggtaagcaccccattctgtcagaccccatcccaaaagacagcggccccgtg Alignment from GeneWise TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGC---------AG ggtgtagttgtctcctcgcaggtagagccctggtggggctttgtttacagCTTACAGAGACATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGTTTGGCCTTCACTAGGGGAGAGGTCTTTCGAGTGGTAGACACACTCTATGAAGACAAGTTGGGTCACTGGCTAGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCCTGATCCCCAACAAAAGCGTGAGAATGAGgtaagcaccccattctgtcagaccccatcccaaaagacagcggccccgtg #### Tjp2_ID5277_10 --> 2 - 2 Original Alignment ttCCTCAACCCAGAACAGCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATAT---------------gg gcgtacacataggttgaacatggttgtccatgacaagatacacttaacagttCCTCAACCCAGGACAGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCATTTATGTGGTGAATCAGATGgggtgagaagcctaccttcgaaaatttgtattctgctcctcaagctatcacc Alignment from CESAR ttCCTCAACCCAGAACAGCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATAT---------------gg gcgtacacataggttgaacatggttgtccatgacaagatacacttaacagttCCTCAACCCAGGACAGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCATTTATGTGGTGAATCAGATGgggtgagaagcctaccttcgaaaatttgtattctgctcctcaagctatcacc Alignment from Spaln_aa2Genome TTCCTCAACCCAGAACAGCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATAT gcgtacacataggttgaacatggttgtccatgacaagatacacttaacagTTCCTCAACCCAGGACAGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCATTTATgtggtgaatcagatggggtgagaagcctaccttcgaaaatttgtattctgctcctcaagctatcacc Alignment from Spaln_nt2Genome TTCCTCAACCCAGAACAGCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATATG-G gcgtacacataggttgaacatggttgtccatgacaagatacacttaacagTTCCTCAACCCAGGACAGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCATTTATGTGgtgaatcagatggggtgagaagcctaccttcgaaaatttgtattctgctcctcaagctatcacc Alignment from Pairagon TTCCTCAACCCAGAACAGCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATAT---------------GG gcgtacacataggttgaacatggttgtccatgacaagatacacttaacagTTCCTCAACCCAGGACAGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCATTTATGTGGTGAATCAGATGGGgtgagaagcctaccttcgaaaatttgtattctgctcctcaagctatcacc Alignment from Exonerate_protein2genome TTCCTCAACCCAGAACAGCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATAT gcgtacacataggttgaacatggttgtccatgacaagatacacttaacagTTCCTCAACCCAGGACAGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCATTTATgtggtgaatcagatggggtgagaagcctaccttcgaaaatttgtattctgctcctcaagctatcacc Alignment from Exonerate_coding2genome TTCCTCAACCCAGAACAGCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATAT gcgtacacataggttgaacatggttgtccatgacaagatacacttaacagTTCCTCAACCCAGGACAGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCATTTATgtggtgaatcagatggggtgagaagcctaccttcgaaaatttgtattctgctcctcaagctatcacc Alignment from GeneWise TTCCTCAACCCAGAACAGCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATATGGCCCTAACACCAAA-- gcgtacacataggttgaacatggttgtccatgacaagatacacttaacagTTCCTCAACCCAGGACAGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCATTTATGTGGTGAATCAGATGGGgtgagaagcctaccttcgaaaatttgtattctgctcctcaagctatcacc #### Tle4_ID3619_18 --> 0 - 1 Original Alignment ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGT---g tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAGAATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCCCCagtaagtatactcccaacatctagcttcacttactgtgaaataaacttact Alignment from CESAR ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGT---g tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAGAATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCCCCagtaagtatactcccaacatctagcttcacttactgtgaaataaacttact Alignment from Spaln_aa2Genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGT---G tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAGAATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCCCCAgtaagtatactcccaacatctagcttcacttactgtgaaataaacttact Alignment from Spaln_nt2Genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTGGCA tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAGAATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCCCCAgtaagtatactcccaacatctagcttcacttactgtgaaataaacttact Alignment from Pairagon ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG--- tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAGAATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCCCCAgtaagtatactcccaacatctagcttcacttactgtgaaataaacttact Alignment from Exonerate_protein2genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGT---G tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAGAATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCCCCAgtaagtatactcccaacatctagcttcacttactgtgaaataaacttact Alignment from Exonerate_coding2genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGT---G tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAGAATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCCCCAgtaagtatactcccaacatctagcttcacttactgtgaaataaacttact Alignment from GeneWise ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTGGC- tttgcttcaagagaaggtgttgtcaaccacctcatggctttggttttcagATTTTTTCATTGGGATATTGCCCAACTGGAAAGTGGCTTGCAGTGGGCATGGAGAATAGCAATGTGGATGTATTGCATGTCACCAAACCAGACAAATGTCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCCCCAgtaagtatactcccaacatctagcttcacttactgtgaaataaacttact #### Tle4_ID3625_13 --> 2 - 0 Original Alignment caTCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttatctgtagctaaggcaagatgactgtcctacctctccccatactgcagctTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATATCCAACACCATTTGGAATTGTGCCACATGCAGGAATGAATGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGCGGGCTCCACAATGTCTCCCCCCAGATGAGTGCTTCCACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCT---gtacctagtcctgcatatatataagtctgttaaagtgcaaagctaataca Alignment from CESAR caTCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttatctgtagctaaggcaagatgactgtcctacctctccccatactgcagctTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATATCCAACACCATTTGGAATTGTGCCACATGCAGGAATGAATGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGCGGGCTCCACAATGTCTCCCCCCAGATGAGTGCTTCCACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCT---gtacctagtcctgcatatatataagtctgttaaagtgcaaagctaat Alignment from Spaln_aa2Genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCT ttatctgtagctaaggcaagatgactgtcctacctctccccatactgcagCTTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATATCCAACACCATTTGGAATTGTGCCACATGCAGGAATGAATGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGCGGGCTCCACAATGTCTCCCCCCAGATGAGTGCTTCCACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCTgtacctagtcctgcatatatataagtctgttaaagtgcaaagctaataca Alignment from Spaln_nt2Genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG---- ttatctgtagctaaggcaagatgactgtcctacctctccccatactgcagCTTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATATCCAACACCATTTGGAATTGTGCCACATGCAGGAATGAATGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGCGGGCTCCACAATGTCTCCCCCCAGATGAGTGCTTCCACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCTGTACCTAgtcctgcatatatataagtctgttaaagtgcaaagctaataca Alignment from Pairagon CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCT ttatctgtagctaaggcaagatgactgtcctacctctccccatactgcagCTTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATATCCAACACCATTTGGAATTGTGCCACATGCAGGAATGAATGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGCGGGCTCCACAATGTCTCCCCCCAGATGAGTGCTTCCACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCTgtacctagtcctgcatatatataagtctgttaaagtgcaaagctaataca Alignment from Exonerate_protein2genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttatctgtagctaaggcaagatgactgtcctacctctccccatactgcagCTTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATATCCAACACCATTTGGAATTGTGCCACATGCAGGAATGAATGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGCGGGCTCCACAATGTCTCCCCCCAGATGAGTGCTTCCACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCTGTAcctagtcctgcatatatataagtctgttaaagtgcaaagctaataca Alignment from Exonerate_coding2genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttatctgtagctaaggcaagatgactgtcctacctctccccatactgcagCTTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATATCCAACACCATTTGGAATTGTGCCACATGCAGGAATGAATGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGCGGGCTCCACAATGTCTCCCCCCAGATGAGTGCTTCCACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCTGTAcctagtcctgcatatatataagtctgttaaagtgcaaagctaataca Alignment from GeneWise CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCT ttatctgtagctaaggcaagatgactgtcctacctctccccatactgcagCTTCCAGCCTAAGGACTCCAGTAGCAGTACCTTGTCCATATCCAACACCATTTGGAATTGTGCCACATGCAGGAATGAATGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGCGGGCTCCACAATGTCTCCCCCCAGATGAGTGCTTCCACTGCTGCTGCCACAGCAGCAGCGGCTTATGGAAGATCACCTgtacctagtcctgcatatatataagtctgttaaagtgcaaagctaataca #### Tm7sf2_ID1412_8 --> 2 - 1 Original Alignment ttATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCCAGCGTGGCTg taggcttggtgttttaaccttccttctcgatgtctcttgcttgtttccagttATTGGTTATTATATCTTCCGAGGGGCGAACTCTGAGAAAAACACTTTCAGGCAGAATCCTTCTGAGCCCAGTGCG---ggtaagaagatgggttggctaggtctttgagggcttcatacccctcactct Alignment from CESAR ttATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCCAGCGTGGCTg taggcttggtgttttaaccttccttctcgatgtctcttgcttgtttccagttATTGGTTATTATATCTTCCGAGGGGCGAACTCTGAGAAAAACACTTTCAGGCAGAATCCTTCTGAGCCCAGT---GCGggtaagaagatgggttggctaggtctttgagggctatcggtaaagccttcc Alignment from Spaln_aa2Genome TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCCAGCGTGGCTG taggcttggtgttttaaccttccttctcgatgtctcttgcttgtttccagTTATTGGTTATTATATCTTCCGAGGGGCGAACTCTGAGAAAAACACTTTCAGGCAGAATCCTTCTGAGCCCAGT---GCGGgtaagaagatgggttggctaggtctttgagggcttcatacccctcactct Alignment from Spaln_nt2Genome TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCCAGCGTGG taggcttggtgttttaaccttccttctcgatgtctcttgcttgtttccagTTATTGGTTATTATATCTTCCGAGGGGCGAACTCTGAGAAAAACACTTTCAGGCAGAATCCTTCTGAGCCCAGTGCGGgtaagaagatgggttggctaggtctttgagggcttcatacccctcactct Alignment from Pairagon TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCCAGCGTGG taggcttggtgttttaaccttccttctcgatgtctcttgcttgtttccagTTATTGGTTATTATATCTTCCGAGGGGCGAACTCTGAGAAAAACACTTTCAGGCAGAATCCTTCTGAGCCCAGTGCGGgtaagaagatgggttggctaggtctttgagggcttcatacccctcactct Alignment from Exonerate_protein2genome TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCCAGCGTGGCTG taggcttggtgttttaaccttccttctcgatgtctcttgcttgtttccagTTATTGGTTATTATATCTTCCGAGGGGCGAACTCTGAGAAAAACACTTTCAGGCAGAATCCTTCTGAGCCCAGT---GCGGgtaagaagatgggttggctaggtctttgagggcttcatacccctcactct Alignment from Exonerate_coding2genome TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCCAGCGTGGCTG taggcttggtgttttaaccttccttctcgatgtctcttgcttgtttccagTTATTGGTTATTATATCTTCCGAGGGGCGAACTCTGAGAAAAACACTTTCAGGCAGAATCCTTCTGAGCCCAGT---GCGGgtaagaagatgggttggctaggtctttgagggcttcatacccctcactct Alignment from GeneWise TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCCAGCGTGGCTG taggcttggtgttttaaccttccttctcgatgtctcttgcttgtttccagTTATTGGTTATTATATCTTCCGAGGGGCGAACTCTGAGAAAAACACTTTCAGGCAGAATCCTTCTGAGCCCAGT---GCGGgtaagaagatgggttggctaggtctttgagggcttcatacccctcactct #### Tm7sf2_ID1417_3 --> 0 - 1 Original Alignment ---GTGGCCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAATg taccctgtgatatgacccatgtcctgtggctcacctctgtttgtccctagAGAGTAGCTGAAGGTGTAGAACTGAAGGATAAGAGTCGCTTGCAATACCCTATTAATggtaagtcagttttactctgcctaaatcagctttctggcagtgaaagttac Alignment from CESAR ---GTGGCCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAATg taccctgtgatatgacccatgtcctgtggctcacctctgtttgtccctagAGAGTAGCTGAAGGTGTAGAACTGAAGGATAAGAGTCGCTTGCAATACCCTATTAATggtaagtcagttttactctgcctaaatcagctttctggcagtgaaagttac Alignment from Spaln_aa2Genome CCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAATG taccctgtgatatgacccatgtcctgtggctcacctctgtttgtccctagagagtagCTGAAGGTGTAGAACTGAAGGATAAGAGTCGCTTGCAATACCCTATTAATGgtaagtcagttttactctgcctaaatcagctttctggcagtgaaagttac Alignment from Spaln_nt2Genome ---GTGGCCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAATG taccctgtgatatgacccatgtcctgtggctcacctctgtttgtccctagAGAGTAGCTGAAGGTGTAGAACTGAAGGATAAGAGTCGCTTGCAATACCCTATTAATGgtaagtcagttttactctgcctaaatcagctttctggcagtgaaagttac Alignment from Pairagon ---GTGGCCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAATG taccctgtgatatgacccatgtcctgtggctcacctctgtttgtccctagAGAGTAGCTGAAGGTGTAGAACTGAAGGATAAGAGTCGCTTGCAATACCCTATTAATGgtaagtcagttttactctgcctaaatcagctttctggcagtgaaagttac Alignment from Exonerate_protein2genome AAGGTGGCCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAATG taccctgtgatatgacccatgtcctgtggctcacctctgtttgtccctagAGAGTAGCTGAAGGTGTAGAACTGAAGGATAAGAGTCGCTTGCAATACCCTATTAATGgtaagtcagttttactctgcctaaatcagctttctggcagtgaaagttac Alignment from Exonerate_coding2genome AAGGTGGCCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAATG taccctgtgatatgacccatgtcctgtggctcacctctgtttgtccctagAGAGTAGCTGAAGGTGTAGAACTGAAGGATAAGAGTCGCTTGCAATACCCTATTAATGgtaagtcagttttactctgcctaaatcagctttctggcagtgaaagttac Alignment from GeneWise ---GTGGCCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAATG taccctgtgatatgacccatgtcctgtggctcacctctgtttgtccctagAGAGTAGCTGAAGGTGTAGAACTGAAGGATAAGAGTCGCTTGCAATACCCTATTAATGgtaagtcagttttactctgcctaaatcagctttctggcagtgaaagttac #### Tm9sf3_ID8137_13 --> 1 - 2 Original Alignment gCAGTGGACGAGTTTCCTGTCTGCGGCGTCGACCGCGATCTACGTTTACATGTACTCCTTTTACTACTACTTCTTCAAAACC---aa agatgcccagttactttatttagcttaatctgataacttttcatctttaggCAGTGGACGAGTTTCCTGTCTGCGGCCTCAACTGCTATCTATGTTTATATGTACTCCTTTTACTACTACTTCTTCAAAACCTTGaagtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag Alignment from CESAR gCAGTGGACGAGTTTCCTGTCTGCGGCGTCGACCGCGATCTACGTTTACATGTACTCCTTTTACTACTACTTCTTCAAAACC---aa agatgcccagttactttatttagcttaatctgataacttttcatctttaggCAGTGGACGAGTTTCCTGTCTGCGGCCTCAACTGCTATCTATGTTTATATGTACTCCTTTTACTACTACTTCTTCAAAACCTTGaagtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag Alignment from Spaln_aa2Genome GCAGTGGACGAGTTTCCTGTCTGCGGCGTCGACCGCGATCTACGTTTACATGTACTCCTTTTACTACTACTTCTTCAAAACCAAG-- agatgcccagttactttatttagcttaatctgataacttttcatctttagGCAGTGGACGAGTTTCCTGTCTGCGGCCTCAACTGCTATCTATGTTTATATGTACTCCTTTTACTACTACTTCTTCAAAACCTTGAAgtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag Alignment from Spaln_nt2Genome GCAGTGGACGAGTTTCCTGTCTGCGGCGTCGACCGCGATCTACGTTTACATGTACTCCTTTTACTACTACTTCTTCAAAACC---AA agatgcccagttactttatttagcttaatctgataacttttcatctttagGCAGTGGACGAGTTTCCTGTCTGCGGCCTCAACTGCTATCTATGTTTATATGTACTCCTTTTACTACTACTTCTTCAAAACCTTGAAgtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag Alignment from Pairagon GCAGTGGACGAGTTTCCTGTCTGCGGCGTCGACCGCGATCTACGTTTACATGTACTCCTTTTACTACTACTTCTTCAAAACC---AA agatgcccagttactttatttagcttaatctgataacttttcatctttagGCAGTGGACGAGTTTCCTGTCTGCGGCCTCAACTGCTATCTATGTTTATATGTACTCCTTTTACTACTACTTCTTCAAAACCTTGAAgtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag Alignment from Exonerate_protein2genome GCAGTGGACGAGTTTCCTGTCTGCGGCGTCGACCGCGATCTACGTTTACATGTACTCCTTTTACTACTACTTCTTCAAAACC---AA agatgcccagttactttatttagcttaatctgataacttttcatctttagGCAGTGGACGAGTTTCCTGTCTGCGGCCTCAACTGCTATCTATGTTTATATGTACTCCTTTTACTACTACTTCTTCAAAACCTTGAAgtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag Alignment from Exonerate_coding2genome GCAGTGGACGAGTTTCCTGTCTGCGGCGTCGACCGCGATCTACGTTTACATGTACTCCTTTTACTACTACTTCTTCAAAACC---AA agatgcccagttactttatttagcttaatctgataacttttcatctttagGCAGTGGACGAGTTTCCTGTCTGCGGCCTCAACTGCTATCTATGTTTATATGTACTCCTTTTACTACTACTTCTTCAAAACCTTGAAgtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag Alignment from GeneWise GCAGTGGACGAGTTTCCTGTCTGCGGCGTCGACCGCGATCTACGTTTACATGTACTCCTTTTACTACTACTTCTTCAAAACCAAG-- agatgcccagttactttatttagcttaatctgataacttttcatctttagGCAGTGGACGAGTTTCCTGTCTGCGGCCTCAACTGCTATCTATGTTTATATGTACTCCTTTTACTACTACTTCTTCAAAACCTTGAAgtgagtgtgcaatataagtatagagagatatccaacaaaaacagtgctag #### Tmc1_ID4822_19 --> 0 - 1 Original Alignment CAAGCTTTGGAGAACAAAATGCGAAACAAGAAAATGGCAGCGGCTCGAGCAg atacctgggctaaatgggccctggcctcgtaagccaagtgtttcctgtagCAGGCCTTGGAGAACAAAATACGAAACAAGAAAATGGCTGCA---------cgtgtgtgatctgggcccagttacatcttacactaaaaactatcaattaat Alignment from CESAR CAAGCTTTGGAGAACAAAATGCGAAACAAGAAAATGGCAGCGGCTCGAGCAg atacctgggctaaatgggccctggcctcgtaagccaagtgtttcctgtagCAGGCCTTGGAGAACAAAATACGAAACAAGAAAATGGCT---------GCAcgtgtgtgatctgggcccagttacatcttacactaaaaactatcaattaat Alignment from Spaln_aa2Genome CAAGCTTTGGAGAACAAAATGCGAAACAAGAAAATGGCAGCG- atacctgggctaaatgggccctggcctcgtaagccaagtgtttcctgtagCAGGCCTTGGAGAACAAAATACGAAACAAGAAAATGGCTGCACgtgtgtgatctgggcccagttacatcttacactaaaaactatcaattaat Alignment from Spaln_nt2Genome CAAGCTTTGGAGAACAAAATGCGAAACAAGAAAATGGCAGCGG atacctgggctaaatgggccctggcctcgtaagccaagtgtttcctgtagCAGGCCTTGGAGAACAAAATACGAAACAAGAAAATGGCTGCACgtgtgtgatctgggcccagttacatcttacactaaaaactatcaattaat Alignment from Pairagon CAAGCTTTGGAGAACAAAATGCGAAACAAGAAAATGGCAGCGGCTCGAGCAGCTGCAG atacctgggctaaatgggccctggcctcgtaagccaagtgtttcctgtagCAGGCCTTGGAGAACAAAATACGAAACAAGAAAATG---------------GCTGCACgtgtgtgatctgggcccagttacatcttacactaaaaactatcaattaat Alignment from Exonerate_protein2genome CAAGCTTTGGAGAACAAAATGCGAAACAAGAAAATGGCAGCG atacctgggctaaatgggccctggcctcgtaagccaagtgtttcctgtagCAGGCCTTGGAGAACAAAATACGAAACAAGAAAATGGCTGCAcgtgtgtgatctgggcccagttacatcttacactaaaaactatcaattaat Alignment from Exonerate_coding2genome CAAGCTTTGGAGAACAAAATGCGAAACAAGAAAATGGCAGCG atacctgggctaaatgggccctggcctcgtaagccaagtgtttcctgtagCAGGCCTTGGAGAACAAAATACGAAACAAGAAAATGGCTGCAcgtgtgtgatctgggcccagttacatcttacactaaaaactatcaattaat Alignment from GeneWise atacctgggctaaatgggccctggcctcgtaagccaagtgtttcctgtagcaggccttggagaacaaaatacgaaacaagaaaatggctgcacgtgtgtgatctgggcccagttacatcttacactaaaaactatcaattaat #### Tmem179b_ID2370_3 --> 1 - 2 Original Alignment aGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTag aagacttaattttagcaactcggttaattgctacccctctctgttcccaga---------------------------GCCATCTCAGCTACAGCTATCTTCCTAATTTTAGTATCTGCTTGCATAGTTCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAaggtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct Alignment from CESAR aGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTag caggttcactttgtggtaggttcttaattgctacccctctctgttcccaga---------------------------GCCATCTCAGCTACAGCTATCTTCCTAATTTTAGTATCTGCTTGCATAGTTCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAaggtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct Alignment from Spaln_aa2Genome TTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG aagacttaattttagcaactcggttaattgctacccctctctgttcccagA---GCCATCTCAGCTACAGCTATCTTCCTAATTTTAGTATCTGCTTGCATAGTTCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAAGgtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct Alignment from Spaln_nt2Genome TGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG aagacttaattttagcaactcggttaattgctacccctctctgttcccag-AGCCATCTCAGCTACAGCTATCTTCCTAATTTTAGTATCTGCTTGCATAGTTCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAAGgtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct Alignment from Pairagon AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG aagacttaattttagcaactcggttaattgctacccctctctgttcccagA---------------------------GCCATCTCAGCTACAGCTATCTTCCTAATTTTAGTATCTGCTTGCATAGTTCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAAGgtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct Alignment from Exonerate_protein2genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG aagacttaattttagcaactcggTTAATTGCTACCCCTCTCTGTTCCCAGAGCCATCTCAGCTACAGCTATCTTCCTAATTTTAGTATCTGCTTGCATAGTTCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAAGgtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct Alignment from Exonerate_coding2genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG aagacttaattttagcaactcggTTAATTGCTACCCCTCTCTGTTCCCAGAGCCATCTCAGCTACAGCTATCTTCCTAATTTTAGTATCTGCTTGCATAGTTCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAAGgtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct Alignment from GeneWise AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG aagacttaattttagcaactcggttaattgctacccctctctgttcccagA---------------------------GCCATCTCAGCTACAGCTATCTTCCTAATTTTAGTATCTGCTTGCATAGTTCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTTACAATAAGgtaggatgtagaataggtccactcagaggtgcaaactaaatttagttcct #### Tmem180_ID9861_3 --> 1 - 2 Original Alignment gTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTgg ggtacctaccttgttgtagactatccatctgccattgtcttttgtttcagaACAGGAGCGGGGCTCTCCTCAAGGGATGTAGTGCTAACCCGGGTGCGGTCACTAGGCTGGCATGGGCAACTGTGGGCATTGGCATTCCTTGCCTATTGGGTATCTTGGGCACCTGCTGGTCTACAATTCTTCTTGTGCCTCTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGTTAGCAGACTTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCAGCTGGTTCATTATCTGTCTTCGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCGTTTTGTGTGGTGCTTGCTGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTGAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTCTGGACCTAGAT---gggtgagtagtcactacttcagctcaagctcctgaagccagtataaacatgt Alignment from CESAR gTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTgg ggtacctaccttgttgtagactatccatctgccattgtcttttgtttcagaACAGGAGCGGGGCTCTCCTCAAGGGATGTAGTGCTAACCCGGGTGCGGTCACTAGGCTGGCATGGGCAACTGTGGGCATTGGCATTCCTTGCCTATTGGGTATCTTGGGCACCTGCTGGTCTACAATTCTTCTTGTGCCTCTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGTTAGCAGACTTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCAGCTGGTTCATTATCTGTCTTCGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCGTTTTGTGTGGTGCTTGCTGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTGAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTCTGGACCTAGAT---gggtgagtagtcactacttcagctcaagctcctgaagccagtataaagatgt Alignment from Spaln_aa2Genome GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGG ggtacctaccttgttgtagactatccatctgccattgtcttttgtttcagAACAGGAGCGGGGCTCTCCTCAAGGGATGTAGTGCTAACCCGGGTGCGGTCACTAGGCTGGCATGGGCAACTGTGGGCATTGGCATTCCTTGCCTATTGGGTATCTTGGGCACCTGCTGGTCTACAATTCTTCTTGTGCCTCTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGTTAGCAGACTTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCAGCTGGTTCATTATCTGTCTTCGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCGTTTTGTGTGGTGCTTGCTGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTGAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTCTGGACCTAGATGGgtgagtagtcactacttcagctcaagctcctgaagccagtataaacatgt Alignment from Spaln_nt2Genome GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGG ggtacctaccttgttgtagactatccatctgccattgtcttttgtttcagAACAGGAGCGGGGCTCTCCTCAAGGGATGTAGTGCTAACCCGGGTGCGGTCACTAGGCTGGCATGGGCAACTGTGGGCATTGGCATTCCTTGCCTATTGGGTATCTTGGGCACCTGCTGGTCTACAATTCTTCTTGTGCCTCTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGTTAGCAGACTTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCAGCTGGTTCATTATCTGTCTTCGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCGTTTTGTGTGGTGCTTGCTGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTGAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTCTGGACCTAGATGGgtgagtagtcactacttcagctcaagctcctgaagccagtataaacatgt Alignment from Pairagon GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGG ggtacctaccttgttgtagactatccatctgccattgtcttttgtttcagAACAGGAGCGGGGCTCTCCTCAAGGGATGTAGTGCTAACCCGGGTGCGGTCACTAGGCTGGCATGGGCAACTGTGGGCATTGGCATTCCTTGCCTATTGGGTATCTTGGGCACCTGCTGGTCTACAATTCTTCTTGTGCCTCTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGTTAGCAGACTTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCAGCTGGTTCATTATCTGTCTTCGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCGTTTTGTGTGGTGCTTGCTGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTGAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTCTGGACCTAGATGGgtgagtagtcactacttcagctcaagctcctgaagccagtataaacatgt Alignment from Exonerate_protein2genome GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGG ggtacctaccttgttgtagactatccatctgccattgtcttttgtttcagAACAGGAGCGGGGCTCTCCTCAAGGGATGTAGTGCTAACCCGGGTGCGGTCACTAGGCTGGCATGGGCAACTGTGGGCATTGGCATTCCTTGCCTATTGGGTATCTTGGGCACCTGCTGGTCTACAATTCTTCTTGTGCCTCTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGTTAGCAGACTTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCAGCTGGTTCATTATCTGTCTTCGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCGTTTTGTGTGGTGCTTGCTGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTGAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTCTGGACCTAGATGGgtgagtagtcactacttcagctcaagctcctgaagccagtataaacatgt Alignment from Exonerate_coding2genome GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGG ggtacctaccttgttgtagactatccatctgccattgtcttttgtttcagAACAGGAGCGGGGCTCTCCTCAAGGGATGTAGTGCTAACCCGGGTGCGGTCACTAGGCTGGCATGGGCAACTGTGGGCATTGGCATTCCTTGCCTATTGGGTATCTTGGGCACCTGCTGGTCTACAATTCTTCTTGTGCCTCTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGTTAGCAGACTTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCAGCTGGTTCATTATCTGTCTTCGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCGTTTTGTGTGGTGCTTGCTGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTGAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTCTGGACCTAGATGGgtgagtagtcactacttcagctcaagctcctgaagccagtataaacatgt Alignment from GeneWise GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGG ggtacctaccttgttgtagactatccatctgccattgtcttttgtttcagAACAGGAGCGGGGCTCTCCTCAAGGGATGTAGTGCTAACCCGGGTGCGGTCACTAGGCTGGCATGGGCAACTGTGGGCATTGGCATTCCTTGCCTATTGGGTATCTTGGGCACCTGCTGGTCTACAATTCTTCTTGTGCCTCTGCCTCTATGATAGCTTCCTGACCCTTGCGGACCTCCACCATCACACTTTGTTAGCAGACTTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCTATTGCTCCCTTTTCAGTGCAGCTGGTTCATTATCTGTCTTCGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCGTTTTGTGTGGTGCTTGCTGCTGGATCTGGACTGGGCTTTCTCGGCACCACACAATTATTGAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTCTGGACCTAGATGGgtgagtagtcactacttcagctcaagctcctgaagccagtataaacatgt #### Trim8_ID9936_5 --> 1 - 1 Original Alignment gACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAg tgatttagagcagctcatcttctaaaacagttctgacccttgtgtttcaggACCCAGACGTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACGGTTACGGAAA---------ggtgagtagtttgacaacctaatgggccaatgtaggtgaagtgcagtctgc Alignment from CESAR gACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAg taagttagagcagctcatcttctaaaacagttctgacccttgtgtttcaggACCCAGACGTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACGGTTACGGAAA---------ggtgagtagtttgacaacctaatgggccaatgtaggtgaagtgcagtctgc Alignment from Spaln_aa2Genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAG- tgatttagagcagctcatcttctaaaacagttctgacccttgtgtttcagGACCCAGACGTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACGGTTACGGAAAGgtgagtagtttgacaacctaatgggccaatgtaggtgaagtgcagtctgc Alignment from Spaln_nt2Genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAA-G tgatttagagcagctcatcttctaaaacagttctgacccttgtgtttcagGACCCAGACGTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACGGTTACGGAAAGgtgagtagtttgacaacctaatgggccaatgtaggtgaagtgcagtctgc Alignment from Pairagon GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG tgatttagagcagctcatcttctaaaacagttctgacccttgtgtttcagGACCCAGACGTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACGGTTACGGA---------AAGgtgagtagtttgacaacctaatgggccaatgtaggtgaagtgcagtctgc Alignment from Exonerate_protein2genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGA tgatttagagcagctcatcttctaaaacagttctgacccttgtgtttcagGACCCAGACGTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACGGTTACGGAAAGgtgagtagtttgacaacctaatgggccaatgtaggtgaagtgcagtctgc Alignment from Exonerate_coding2genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGA tgatttagagcagctcatcttctaaaacagttctgacccttgtgtttcagGACCCAGACGTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACGGTTACGGAAAGgtgagtagtttgacaacctaatgggccaatgtaggtgaagtgcagtctgc Alignment from GeneWise GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAG- tgatttagagcagctcatcttctaaaacagttctgacccttgtgtttcagGACCCAGACGTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACGGTTACGGAAAGgtgagtagtttgacaacctaatgggccaatgtaggtgaagtgcagtctgc #### Trmt112_ID1861_2 --> 0 - 0 Original Alignment GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC--- atggagatctaaccactctgaacattcttgtttttctgtaactgaaacagGCAACTGAAGTCTGTATTAACCCTGTGGAATTTAACCCTGAGTTAGTGGCACGTATGATCCCTAAAGTAGAGTGGGCAGCACTTGTTCGGGCTGCAGATACTATAgtgggggccccattcttcctataatatcttagattctggacctctttcta Alignment from CESAR GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC--- atggagatctaaccactctgaacattcttgtttttctgtaactgaaacagGCAACTGAAGTCTGTATTAACCCTGTGGAATTTAACCCTGAGTTAGTGGCACGTATGATCCCTAAAGTAGAGTGGGCAGCACTTGTTCGGGCTGCAGATACTATAgtgggggccccattcttcctataatatcttagattctggacctctttcta Alignment from Spaln_aa2Genome GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC--- atggagatctaaccactctgaacattcttgtttttctgtaactgaaacagGCAACTGAAGTCTGTATTAACCCTGTGGAATTTAACCCTGAGTTAGTGGCACGTATGATCCCTAAAGTAGAGTGGGCAGCACTTGTTCGGGCTGCAGATACTATAgtgggggccccattcttcctataatatcttagattctggacctctttcta Alignment from Spaln_nt2Genome GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACCTTA atggagatctaaccactctgaacattcttgtttttctgtaactgaaacagGCAACTGAAGTCTGTATTAACCCTGTGGAATTTAACCCTGAGTTAGTGGCACGTATGATCCCTAAAGTAGAGTGGGCAGCACTTGTTCGGGCTGCAGATACTATAgtgggggccccattcttcctataatatcttagattctggacctctttcta Alignment from Pairagon GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC--- atggagatctaaccactctgaacattcttgtttttctgtaactgaaacagGCAACTGAAGTCTGTATTAACCCTGTGGAATTTAACCCTGAGTTAGTGGCACGTATGATCCCTAAAGTAGAGTGGGCAGCACTTGTTCGGGCTGCAGATACTATAgtgggggccccattcttcctataatatcttagattctggacctctttcta Alignment from Exonerate_protein2genome GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACCTTA atggagatctaaccactctgaacattcttgtttttctgtaactgaaacagGCAACTGAAGTCTGTATTAACCCTGTGGAATTTAACCCTGAGTTAGTGGCACGTATGATCCCTAAAGTAGAGTGGGCAGCACTTGTTCGGGCTGCAGATACTATAgtgggggccccattcttcctataatatcttagattctggacctctttcta Alignment from Exonerate_coding2genome atggagatctaaccactctgaacattcttgtttttctgtaactgaaacaggcaactgaagtctgtattaaccctgtggaatttaaccctgagttagtggcacgtatgatccctaaagtagagtgggcagcacttgttcgggctgcagatactatagtgggggccccattcttcctataatatcttagattctggacctctttcta Alignment from GeneWise GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACCTTA atggagatctaaccactctgaacattcttgtttttctgtaactgaaacagGCAACTGAAGTCTGTATTAACCCTGTGGAATTTAACCCTGAGTTAGTGGCACGTATGATCCCTAAAGTAGAGTGGGCAGCACTTGTTCGGGCTGCAGATACTATAgtgggggccccattcttcctataatatcttagattctggacctctttcta #### Unc93b1_ID214_5 --> 1 - 0 Original Alignment gATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC------------------------ gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacaggATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACATGGACTACACACACCTTTTCTGCTGGTCTTCCATACTAACTTTTACAGTTTCTTGCATACCCATTTGCCCGAGGAGTTGTGCgtgagtgtgcttcaggaagcccttgtagtgggtgggcataagaaactggg Alignment from CESAR gATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC------------------------ gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacaggATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACATGGACTACACACACCTTTTCTGCTGGTCTTCCATACTAACTTTTACAGTTTCTTGCATACCCATTTGCCCGAGGAGTTGTGCgtgagtgtgcttcaggaagcccttgtagtgggtgggcataagaaactggg Alignment from Spaln_aa2Genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCACTTGAGCTTCGCGTGTGCCCAGCTGCCC gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACATGGACTACACACACCTTTTCTGCTGGTCTTCCATACTAACTTTTACAGTTTCTTGCATACCCATTTGCCC---GAGGAGTTGTGCgtgagtgtgcttcaggaagcccttgtagtgggtgggcataagaaactggg Alignment from Spaln_nt2Genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCACTTGAGCTTCGCGTGTGCCC----AGCTGCCC gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACATGGACTACACACACCTTTTCTGCTGGTCTTCCATACTAACTTTTACAGTTTCTTGCA-------TACCCATTTGCCCGAGGAGTTGTGCgtgagtgtgcttcaggaagcccttgtagtgggtgggcataagaaactggg Alignment from Pairagon GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCA------------------------C gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACATGGACTACACACACCTTTTCTGCTGGTCTTCCATACTAACTTTTACAGTTTCTTGCATACCCATTTGCCCGAGGAGTTGTGCgtgagtgtgcttcaggaagcccttgtagtgggtgggcataagaaactggg Alignment from Exonerate_protein2genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCACTTGAGCTTCGCGTGTGCCCAGCTGCCC gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACATGGACTACACACACCTTTTCTGCTGGTCTTCCATACTAACTTTTACAGTTTCTTGCATACCCATTTGCCC---GAGGAGTTGTGCgtgagtgtgcttcaggaagcccttgtagtgggtgggcataagaaactggg Alignment from Exonerate_coding2genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCACTTGAGCTTCGCGTGTGCCCAGCTGCCC gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACATGGACTACACACACCTTTTCTGCTGGTCTTCCATACTAACTTTTACAGTTTCTTGCATACCCATTTGCCC---GAGGAGTTGTGCgtgagtgtgcttcaggaagcccttgtagtgggtgggcataagaaactggg Alignment from GeneWise GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCACTTGAGCTTCGCGTGTGCCCAGCTGCCC gaggaaaaaactgtcatagtgagcagcttctatctctgtttcctccacagGATGTCTCAGAAATACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACATGGACTACACACACCTTTTCTGCTGGTCTTCCATACTAACTTTTACAGTTTCTTGCATACCCATTTGCCC---GAGGAGTTGTGCgtgagtgtgcttcaggaagcccttgtagtgggtgggcataagaaactggg #### Vegfb_ID1955_5 --> 1 - 2 Original Alignment aCCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGAC---ag agctatgacctaacagctggaatttgactgttcatgtgctcttctttcagaCCTAAAAAGAAGGAGTCTACTGTTCGGCCTGACTACcagtagggctattctgtcctgcaccttttagtgcatcggggggggtataaaa Alignment from CESAR aCCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGAC---ag agctatgacctaacagctggaatttgactgttcatgtgctcttctttcagaCCTAAAAAGAAGGAGTCTACTGTTCGGCCTGACTACcagtagggctattctgtcctgcaccttttagtgcatcggggggggtataaaa Alignment from Spaln_aa2Genome ACCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGACAGG-- agctatgacctaacagctggaatttgactgttcatgtgctcttctttcagACCTAAAAAGAAGGAGTCTACTGTTCGGCCTGACTACCAgtagggctattctgtcctgcaccttttagtgcatcggggggggtataaaa Alignment from Spaln_nt2Genome ACCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGACAG--- agctatgacctaacagctggaatttgactgttcatgtgctcttctttcagACCTAAAAAGAAGGAGTCTACTGTTCGGCCTGACTACCAgtagggctattctgtcctgcaccttttagtgcatcggggggggtataaaa Alignment from Pairagon ACCAAAAAAAAAGGA agctatgacctaacagctggaatttgactgttcatgtgctcttctttcagACCTAAAAAGAAGGAgtctactgttcggcctgactaccagtagggctattctgtcctgcaccttttagtgcatcggggggggtataaaa Alignment from Exonerate_protein2genome ACCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGAC---AG agctatgacctaacagctggaatttgactgttcatgtgctcttctttcagACCTAAAAAGAAGGAGTCTACTGTTCGGCCTGACTACCAgtagggctattctgtcctgcaccttttagtgcatcggggggggtataaaa Alignment from Exonerate_coding2genome ACCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGAC---AG agctatgacctaacagctggaatttgactgttcatgtgctcttctttcagACCTAAAAAGAAGGAGTCTACTGTTCGGCCTGACTACCAgtagggctattctgtcctgcaccttttagtgcatcggggggggtataaaa Alignment from GeneWise agctatgacctaacagctggaatttgactgttcatgtgctcttctttcagacctaaaaagaaggagtctactgttcggcctgactaccagtagggctattctgtcctgcaccttttagtgcatcggggggggtataaaa #### Vegfb_ID1956_4 --> 0 - 2 Original Alignment ---ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCag aagtttatctcttagcttcttagaaacatatgaccataactcttttgtagGCTATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCaggtgagagacagtctcagtacccatggtctggcatgtgttagggccatttg Alignment from CESAR ---ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCag aagtttatctcttagcttcttagaaacatatgaccataactcttttgtagGCTATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCaggtgagagacagtctcagtacccatggtctggcatgtgttagggccatttg Alignment from Spaln_aa2Genome ATCCTCATGATCCAG---TACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttatctcttagcttcttagaaacatatgaccataactcttttgtagGCTATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAGgtgagagacagtctcagtacccatggtctggcatgtgttagggccatttg Alignment from Spaln_nt2Genome ---ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttatctcttagcttcttagaaacatatgaccataactcttttgtagGCTATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAGgtgagagacagtctcagtacccatggtctggcatgtgttagggccatttg Alignment from Pairagon ---ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttatctcttagcttcttagaaacatatgaccataactcttttgtagGCTATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAGgtgagagacagtctcagtacccatggtctggcatgtgttagggccatttg Alignment from Exonerate_protein2genome ---ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttatctcttagcttcttagaaacatatgaccataactcttttgtagGCTATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAGgtgagagacagtctcagtacccatggtctggcatgtgttagggccatttg Alignment from Exonerate_coding2genome ---ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttatctcttagcttcttagaaacatatgaccataactcttttgtagGCTATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAGgtgagagacagtctcagtacccatggtctggcatgtgttagggccatttg Alignment from GeneWise ---ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttatctcttagcttcttagaaacatatgaccataactcttttgtagGCTATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAGgtgagagacagtctcagtacccatggtctggcatgtgttagggccatttg #### Vldlr_ID5810_9 --> 2 - 1 Original Alignment atATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAg aaatggatatagaaaacaaggaattggggagcctctctatgtgcctgcagacATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGATCTGTATCAACTTAAAAGGCGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAG------ggtgagtctagaaaagtagctgagcaatgatacgaggttcggagtgtaact Alignment from CESAR atATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAg aaatggatatagaaaacaaggaattggggagcctctctatgtgcctgcagacATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGATCTGTATCAACTTAAAAGGCGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAG------ggtgagtctagaaaagtagctgagcaatgatacgaggttcggagtgtaact Alignment from Spaln_aa2Genome ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAG- aaatggatatagaaaacaaggaattggggagcctctctatgtgcctgcagACATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGATCTGTATCAACTTAAAAGGCGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGgtgagtctagaaaagtagctgagcaatgatacgaggttcggagtgtaact Alignment from Spaln_nt2Genome ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGG aaatggatatagaaaacaaggaattggggagcctctctatgtgcctgcagACATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGATCTGTATCAACTTAAAAGGCGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGgtgagtctagaaaagtagctgagcaatgatacgaggttcggagtgtaact Alignment from Pairagon ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGG aaatggatatagaaaacaaggaattggggagcctctctatgtgcctgcagACATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGATCTGTATCAACTTAAAAGGCGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGgtgagtctagaaaagtagctgagcaatgatacgaggttcggagtgtaact Alignment from Exonerate_protein2genome ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGG aaatggatatagaaaacaaggaattggggagcctctctatgtgcctgcagACATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGATCTGTATCAACTTAAAAGGCGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGgtgagtctagaaaagtagctgagcaatgatacgaggttcggagtgtaact Alignment from Exonerate_coding2genome ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGG aaatggatatagaaaacaaggaattggggagcctctctatgtgcctgcagACATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGATCTGTATCAACTTAAAAGGCGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGgtgagtctagaaaagtagctgagcaatgatacgaggttcggagtgtaact Alignment from GeneWise ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAG- aaatggatatagaaaacaaggaattggggagcctctctatgtgcctgcagACATTGATGAATGCCAAAACCCAGGTATCTGTGGCCAGATCTGTATCAACTTAAAAGGCGGTTACAAGTGCGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGTGTGTGCAAGGgtgagtctagaaaagtagctgagcaatgatacgaggttcggagtgtaact #### Vldlr_ID5811_10 --> 2 - 2 Original Alignment gcAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCag atggcacttttcaagcgagtaaatttttactcttctgctttggcccacaggcAAAGAGCCAAGTCTGATCTTCACTAATCGAAGAGACATCAGAAAGATTGGCTTAGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGAGAAACACAGTGGCTCTTGATGCAGACATTGCAGCTCAGAAGCTATTTTGGGCTGAT---------------------aggtgcattaaatcagcctttcaaccccgaagttatgtataaatcagatgtc Alignment from CESAR gcAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCag atggcacttttcaagcgagtaaatttttactcttctgctttggcccacaggcAAAGAGCCAAGTCTGATCTTCACTAATCGAAGAGACATCAGAAAGATTGGCTTAGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGAGAAACACAGTGGCTCTTGATGCAGACATTGCAGCTCAGAAGCTATTTTGGGCTGAT---------------------aggtgcattaaatcagcctttcaaccccgaagttatgtataaatcagatgtc Alignment from Spaln_aa2Genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAGTGCCTCAA atggcacttttcaagcgagtaaatttttactcttctgctttggcccacagGCAAAGAGCCAAGTCTGATCTTCACTAATCGAAGAGACATCAGAAAGATTGGCTTAGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGAGAAACACAGTGGCTCTTGATGCAGACATTGCAGCTCAGAAGCTATTTTGGGCTGATAGGTGCATTAAATCAGCCTTTCAACCCCGAAgttatgtataaatcagatgtc Alignment from Spaln_nt2Genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCT CAGCC atggcacttttcaagcgagtaaatttttactcttctgctttggcccacagGCAAAGAGCCAAGTCTGATCTTCACTAATCGAAGAGACATCAGAAAGATTGGCTTAGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGAGAAACACAGTGGCTCTTGATGCAGACATTGCAGCTCAGAAGCTATTTTGGGCTGATAGgtgcattaaatcagcctttcaaccccgaagttatgtataaatcagATGTC Alignment from Pairagon GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atggcacttttcaagcgagtaaatttttactcttctgctttggcccacagGCAAAGAGCCAAGTCTGATCTTCACTAATCGAAGAGACATCAGAAAGATTGGCTTAGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGAGAAACACAGTGGCTCTTGATGCAGACATTGCAGCTCAGAAGCTATTTTGGGCTGAT---------------------AGgtgcattaaatcagcctttcaaccccgaagttatgtataaatcagatgtc Alignment from Exonerate_protein2genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAGTGCCTCAA atggcacttttcaagcgagtaaatttttactcttctgctttggcccacagGCAAAGAGCCAAGTCTGATCTTCACTAATCGAAGAGACATCAGAAAGATTGGCTTAGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGAGAAACACAGTGGCTCTTGATGCAGACATTGCAGCTCAGAAGCTATTTTGGGCTGATAGGTGCATTAAATCAGCCTTTCAACCCCGAAgttatgtataaatcagatgtc Alignment from Exonerate_coding2genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAGTGCCTCAA atggcacttttcaagcgagtaaatttttactcttctgctttggcccacagGCAAAGAGCCAAGTCTGATCTTCACTAATCGAAGAGACATCAGAAAGATTGGCTTAGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGAGAAACACAGTGGCTCTTGATGCAGACATTGCAGCTCAGAAGCTATTTTGGGCTGATAGGTGCATTAAATCAGCCTTTCAACCCCGAAgttatgtataaatcagatgtc Alignment from GeneWise GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAGTGCCTCAA atggcacttttcaagcgagtaaatttttactcttctgctttggcccacagGCAAAGAGCCAAGTCTGATCTTCACTAATCGAAGAGACATCAGAAAGATTGGCTTAGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGAGAAACACAGTGGCTCTTGATGCAGACATTGCAGCTCAGAAGCTATTTTGGGCTGATAGGTGCATTAAATCAGCCTTTCAACCCCGAAgttatgtataaatcagatgtc #### Vldlr_ID5814_13 --> 2 - 0 Original Alignment ac------CTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ctctatgaagtcaagatactggttctctacccccaccccttgccctccagacTGTCATCTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGTAGGATTGTGCTCAAGTCACTAAAGTTCCTAGCTCATCCTCTTGCCCTCTCTATATTTGAGgtaacttatatgccatatgaccttgtatcaatgagtatagtaaaaagagt Alignment from CESAR ac------CTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ctctatgaagtcaagatactggttctctacccccaccccttgccctccagacTGTCATCTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGTAGGATTGTGCTCAAGTCACTAAAGTTCCTAGCTCATCCTCTTGCCCTCTCTATATTTGAGgtaacttatatgccatatgaccttgtatcaatgagtatagtaaaaagagt Alignment from Spaln_aa2Genome ---CTCGACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGA ctctatgaagtcaagatactggttctctacccccaccccttgccctccagACTGTCATCTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGTAGGATTGTGCTCAAGTCACTAAAGTTCCTAGCTCATCCTCTTGCCCTCTCTATATTTGAGgtaacttatatgccatatgaccttgtatcaatgagtatagtaaaaagagt Alignment from Spaln_nt2Genome TCG---ACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ctctatgaagtcaagatactggttctctacccccaccccttgccctccagACTGTCATCTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGTAGGATTGTGCTCAAGTCACTAAAGTTCCTAGCTCATCCTCTTGCCCTCTCTATATTTGAGgtaacttatatgccatatgaccttgtatcaatgagtatagtaaaaagagt Alignment from Pairagon AC------CTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ctctatgaagtcaagatactggttctctacccccaccccttgccctccagACTGTCATCTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGTAGGATTGTGCTCAAGTCACTAAAGTTCCTAGCTCATCCTCTTGCCCTCTCTATATTTGAGgtaacttatatgccatatgaccttgtatcaatgagtatagtaaaaagagt Alignment from Exonerate_protein2genome TC---GACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ctctatgaagtcaagatactggttctctacccccaccccttgccctccagACTGTCATCTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGTAGGATTGTGCTCAAGTCACTAAAGTTCCTAGCTCATCCTCTTGCCCTCTCTATATTTGAGgtaacttatatgccatatgaccttgtatcaatgagtatagtaaaaagagt Alignment from Exonerate_coding2genome TC---GACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ctctatgaagtcaagatactggttctctacccccaccccttgccctccagACTGTCATCTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGTAGGATTGTGCTCAAGTCACTAAAGTTCCTAGCTCATCCTCTTGCCCTCTCTATATTTGAGgtaacttatatgccatatgaccttgtatcaatgagtatagtaaaaagagt Alignment from GeneWise --CTCGACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ctctatgaagtcaagatactggttctctacccccaccccttgccctccagACTGTCATCTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGTAGGATTGTGCTCAAGTCACTAAAGTTCCTAGCTCATCCTCTTGCCCTCTCTATATTTGAGgtaacttatatgccatatgaccttgtatcaatgagtatagtaaaaagagt #### Vps13a_ID4057_66 --> 0 - 1 Original Alignment ---------GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAg aaaaggtgggctgttataattctataatgtgctcttttctcacttcccagCTGCTCGATGGTTTTGTAAGTGGTATTACTGGCATTGTTTCAGAACCAATAAAAggtaagtcctggtatatctcttgcttatatcattcctatttgggcatggtt Alignment from CESAR ---------GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAg aaaaggtgggctgttataattctataatgtgctcttttctcacttcccagCTGCTCGATGGTTTTGTAAGTGGTATTACTGGCATTGTTTCAGAACCAATAAAAggtaagtcctggtatatctcttgcttatatcattcctatttgggcatggtt Alignment from Spaln_aa2Genome GGTTTTGTAAGT---------GGCATTACAGGGATTGTTACAAAGCCAATTAAAG aaaaggtgggctgttataattctataatgtgctcttttctcacttcccagCTGCTCGATGGTTTTGTAAGTGGTATTACTGGCATTGTTTCAGAACCAATAAAAGgtaagtcctggtatatctcttgcttatatcattcctatttgggcatggtt Alignment from Spaln_nt2Genome CCTTGTCTCTGGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAG aaaaggtgggctgttataattctataatgtgctcttttctcacttcccagCTGCTCGATGGTTTTGTAA-GTGGTATTACTGGCATTGTTTCAGAACCAATAAAAGgtaagtcctggtatatctcttgcttatatcattcctatttgggcatggtt Alignment from Pairagon ---------GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAG aaaaggtgggctgttataattctataatgtgctcttttctcacttcccagCTGCTCGATGGTTTTGTAAGTGGTATTACTGGCATTGTTTCAGAACCAATAAAAGgtaagtcctggtatatctcttgcttatatcattcctatttgggcatggtt Alignment from Exonerate_protein2genome GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAG aaaaggtgggctgttataattctataatgtgctcttttctcacttcccagctgctcgatGGTTTTGTAAGTGGTATTACTGGCATTGTTTCAGAACCAATAAAAGgtaagtcctggtatatctcttgcttatatcattcctatttgggcatggtt Alignment from Exonerate_coding2genome GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAG aaaaggtgggctgttataattctataatgtgctcttttctcacttcccagctgctcgatGGTTTTGTAAGTGGTATTACTGGCATTGTTTCAGAACCAATAAAAGgtaagtcctggtatatctcttgcttatatcattcctatttgggcatggtt Alignment from GeneWise ---GTCTCTGGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAG aaaaggtgggctgttataattctataatgtgctcttttctcacttcccagCTGCTCGATGGTTTTGTAAGTGGTATTACTGGCATTGTTTCAGAACCAATAAAAGgtaagtcctggtatatctcttgcttatatcattcctatttgggcatggtt #### Vps13a_ID4058_65 --> 2 - 0 Original Alignment gtGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT--------- acaccagtggggaaaaggttgtatctgaataactttttcttctttattaggtGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGGAAAGGTTTGGTCTCTGGTCCTGAAgtacaacctctctatgtctcagattacatagaaggactgtttcattcata Alignment from CESAR gtGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT--------- acaccagtggggaaaaggttgtatctgaataactttttcttctttattaggtGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGGAAAGGTTTGGTCTCTGGTCCTGAAgtacaacctctctatgtctcagattacatagaaggactgtttcattcata Alignment from Spaln_aa2Genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT--------- acaccagtggggaaaaggttgtatctgaataactttttcttctttattagGTGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGGAAAGGTTTGGTCTCTGGTCCTGAAgtacaacctctctatgtctcagattacatagaaggactgtttcattcata Alignment from Spaln_nt2Genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT- acaccagtggggaaaaggttgtatctgaataactttttcttctttattagGTGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGGAAAGGTTTGGTCTCTGgtcctgaagtacaacctctctatgtctcagattacatagaaggactgtttcattcata Alignment from Pairagon GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT--------- acaccagtggggaaaaggttgtatctgaataactttttcttctttattagGTGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGGAAAGGTTTGGTCTCTGGTCCTGAAgtacaacctctctatgtctcagattacatagaaggactgtttcattcata Alignment from Exonerate_protein2genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtggggaaaaggttgtatctgaataactttttcttctttattagGTGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGGAAAGGTTTGGTCTCTggtcctgaagtacaacctctctatgtctcagattacatagaaggactgtttcattcata Alignment from Exonerate_coding2genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtggggaaaaggttgtatctgaataactttttcttctttattagGTGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGGAAAGGTTTGGTCTCTggtcctgaagtacaacctctctatgtctcagattacatagaaggactgtttcattcata Alignment from GeneWise GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCTGGT------ acaccagtggggaaaaggttgtatctgaataactttttcttctttattagGTGGGCTAGCTAGTGCTGCCTCCAAACTTACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGGAAAGGTTTGGTCTCTGGTCCTGAAgtacaacctctctatgtctcagattacatagaaggactgtttcattcata #### Vps13a_ID4067_56 --> 0 - 0 Original Alignment GTT---------CGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAGTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG caaaaacacacaacaaccaaatcgctttcaattatgtttttgttttttag---CATGTAACACGTCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCGCTAAAGATAGCATACAATACAATAGTACATCAGTGGACATTTCGGATTCAGATTTACAGGATTCAGgtaaagttgagaatggaatgaggacaagaatgacaccatgagtccttatc Alignment from CESAR ------GTTCGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAGTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG tcacaaaaacacacaacaaccaaattttcaattatgtttttgttttttagCATGTAACACGTCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCGCTAAAGATAGCATACAATACAATAGTACATCAGTGGACATTTCGGATTCAGATTTACAGGATTCAGgtaaagttgagaatggaatgaggacaagaatgacaccatgagtccttatc Alignment from Spaln_aa2Genome GTTCGTTTAACACCT------AGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAGTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG caaaaacacacaacaaccaaatcgctttcaattatgtttttgttttttagCATGTAACACGTCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCGCTAAAGATAGCATACAATACAATAGTACATCAGTGGACATTTCGGATTCAGATTTACAGGATTCAGgtaaagttgagaatggaatgaggacaagaatgacaccatgagtccttatc Alignment from Spaln_nt2Genome GTT------CGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAGTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG caaaaacacacaacaaccaaatcgctttcaattatgtttttgttttttagCATGTAACACGTCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCGCTAAAGATAGCATACAATACAATAGTACATCAGTGGACATTTCGGATTCAGATTTACAGGATTCAGgtaaagttgagaatggaatgaggacaagaatgacaccatgagtccttatc Alignment from Pairagon GTT------CGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAGTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG caaaaacacacaacaaccaaatcgctttcaattatgtttttgttttttagCATGTAACACGTCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCGCTAAAGATAGCATACAATACAATAGTACATCAGTGGACATTTCGGATTCAGATTTACAGGATTCAGgtaaagttgagaatggaatgaggacaagaatgacaccatgagtccttatc Alignment from Exonerate_protein2genome GTT---CGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAGTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG caaaaacacacaacaaccaaatcgctttcaattatgtttttgttttttagcatGTAACACGTCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCGCTAAAGATAGCATACAATACAATAGTACATCAGTGGACATTTCGGATTCAGATTTACAGGATTCAGgtaaagttgagaatggaatgaggacaagaatgacaccatgagtccttatc Alignment from Exonerate_coding2genome GTT---CGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAGTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG caaaaacacacaacaaccaaatcgctttcaattatgtttttgttttttagcatGTAACACGTCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCGCTAAAGATAGCATACAATACAATAGTACATCAGTGGACATTTCGGATTCAGATTTACAGGATTCAGgtaaagttgagaatggaatgaggacaagaatgacaccatgagtccttatc Alignment from GeneWise ------GTTCGTTTAACACCTAGTGGCAATGACATGAAAATTCTGCAACCACATGTGATACCTGTCCGGAGAAATTACCTGCCAGCACTAAAAGTAGAATATAACACATCTGCACATCAGTCGTCATTCAGAATTCAGATTTATAGAATACAG caaaaacacacaacaaccaaatcgctttcaattatgtttttgttttttagCATGTAACACGTCTAACCCCTAGTGGCAATGATATGAGGATTTTGCAAACTCGCCTTATACCTGTGCGTAGAAACTATCTTCCAGCGCTAAAGATAGCATACAATACAATAGTACATCAGTGGACATTTCGGATTCAGATTTACAGGATTCAGgtaaagttgagaatggaatgaggacaagaatgacaccatgagtccttatc #### Vps13a_ID4109_14 --> 0 - 0 Original Alignment GAGTTGGAGAAAACTTTGGATGTTTTTAATATAACCATAGCTAGACAACAGGCAGAAGTTGAG ctaatattaggagggttttatctatgaaaactacttgatttttatttcagGAGTTGGAGAAAACTTTGGATGTTTTGAACATGCCTATAACTAGACAG---------------gtaagtccactctgtctcccccaacgcattcatttaaataaatcatgagc Alignment from CESAR GAGTTGGAGAAAACTTTGGATGTTTTTAATATAACCATAGCTAGACAACAGGCAGAAGTTGAG ctaatattaggagggttttatctatgaaaactacttgatttttatttcagGAGTTGGAGAAAACTTTGGATGTTTTGAACATGCCTATAACTAGACAG---------------gtaagtccactctgtctcccccaacgcattcattt Alignment from Spaln_aa2Genome GAGTTGGAGAAAACTTTGGATGTTTTTAATATAACCATAGCTAGACAA ctaatattaggagggttttatctatgaaaactacttgatttttatttcagGAGTTGGAGAAAACTTTGGATGTTTTGAACATGCCTATAACTAGACAGgtaagtccactctgtctcccccaacgcattcatttaaataaatcatgagc Alignment from Spaln_nt2Genome GAGTTGGAGAAAACTTTGGATGTTTTTAATATAACCATAGCTAGACAACAGG ctaatattaggagggttttatctatgaaaactacttgatttttatttcagGAGTTGGAGAAAACTTTGGATGTTTTGAACATGCCTATAACTAGACA----Ggtaagtccactctgtctcccccaacgcattcatttaaataaatcatgagc Alignment from Pairagon GAGTTGGAGAAAACTTTGGATGTTTTTAATATAACCATAGCTAGACAACAGGCAGAAGTTGAG ctaatattaggagggttttatctatgaaaactacttgatttttatttcagGAGTTGGAGAAAACTTTGGATGTTTTGAACATGCCTATAACTAGAC---------------AGgtaagtccactctgtctcccccaacgcattcatttaaataaatcatgagc Alignment from Exonerate_protein2genome GAGTTGGAGAAAACTTTGGATGTTTTTAATATAACCATAGCTAGACAA ctaatattaggagggttttatctatgaaaactacttgatttttatttcagGAGTTGGAGAAAACTTTGGATGTTTTGAACATGCCTATAACTAGACAGgtaagtccactctgtctcccccaacgcattcatttaaataaatcatgagc Alignment from Exonerate_coding2genome ctaatattaggagggttttatctatgaaaactacttgatttttatttcaggagttggagaaaactttggatgttttgaacatgcctataactagacaggtaagtccactctgtctcccccaacgcattcatttaaataaatcatgagc Alignment from GeneWise GAGTTGGAGAAAACTTTGGATGTTTTTAATATAACCATAGCTAGACAA ctaatattaggagggttttatctatgaaaactacttgatttttatttcagGAGTTGGAGAAAACTTTGGATGTTTTGAACATGCCTATAACTAGACAGgtaagtccactctgtctcccccaacgcattcatttaaataaatcatgagc #### Vps37c_ID2983_3 --> 2 - 0 Original Alignment agAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG gttctcagctttaattaaggcaatgtctctaccttgtactcacttcctagag---TTTTCCTCAGCCCTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGAGTCAGAGgtaggttaagcatcgctccttgctttggcttattccattaaactgtactg Alignment from CESAR agAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG taggttctcagctttaattaaggcatctctaccttgtactcacttcctagag---TTTTCCTCAGCCCTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGAGTCAGAGgtaggttaagcatcgctccttgctttggcttattccattaaactgtactg Alignment from Spaln_aa2Genome AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG gttctcagctttaattaaggcaatgtctctaccttgtactcacttcctagAG---TTTTCCTCAGCCCTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGAGTCAGAGgtaggttaagcatcgctccttgctttggcttattccattaaactgtactg Alignment from Spaln_nt2Genome AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG gttctcagctttaattaaggcaatgtctctaccttgtactcacttcctagAG---TTTTCCTCAGCCCTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGAGTCAGAGgtaggttaagcatcgctccttgctttggcttattccattaaactgtactg Alignment from Pairagon AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG gttctcagctttaattaaggcaatgtctctaccttgtactcacttcctagAG---TTTTCCTCAGCCCTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGAGTCAGAGgtaggttaagcatcgctccttgctttggcttattccattaaactgtactg Alignment from Exonerate_protein2genome AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG gttctcagctttaattaaggcaatgtctctaccttgtactcacttcctagAG---TTTTCCTCAGCCCTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGAGTCAGAGgtaggttaagcatcgctccttgctttggcttattccattaaactgtactg Alignment from Exonerate_coding2genome AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG gttctcagctttaattaaggcaatgtctctaccttgtactcacttcctagAG---TTTTCCTCAGCCCTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGAGTCAGAGgtaggttaagcatcgctccttgctttggcttattccattaaactgtactg Alignment from GeneWise AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG gttctcagctttaattaaggcaatgtctctaccttgtactcacttcctagAG---TTTTCCTCAGCCCTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGTATGAAGATTGAGGAGGAGTCAGAGgtaggttaagcatcgctccttgctttggcttattccattaaactgtactg #### Vwce_ID2964_18 --> 2 - 0 Original Alignment acTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG------ attacttcccagactcccctgcccttgcagcttctcacttcctttcacagacTGTAACTTTGAAGGGAGAAAGGTAGTCAATGGTCAGGTTTTCACCTTAGATGATGAGCCCTGTACCCGGTGCATCTGCCAGAGTAAAgtaacggggatagagaacctggagctaacggtttgccctcatggaaactt Alignment from CESAR acTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG------ attacttcccagactcccctgcccttgcagcttctcacttcctttcacagacTGTAACTTTGAAGGGAGAAAGGTAGTCAATGGTCAGGTTTTCACCTTAGATGATGAGCCCTGTACCCGGTGCATCTGCCAGAGTAAAgtaacggggatagagaacctggagctaacggtttgccctcatggaaactt Alignment from Spaln_aa2Genome ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG------ attacttcccagactcccctgcccttgcagcttctcacttcctttcacagACTGTAACTTTGAAGGGAGAAAGGTAGTCAATGGTCAGGTTTTCACCTTAGATGATGAGCCCTGTACCCGGTGCATCTGCCAGAGTAAAgtaacggggatagagaacctggagctaacggtttgccctcatggaaactt Alignment from Spaln_nt2Genome ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG- attacttcccagactcccctgcccttgcagcttctcacttcctttcacagACTGTAACTTTGAAGGGAGAAAGGTAGTCAATGGTCAGGTTTTCACCTTAGATGATGAGCCCTGTACCCGGTGCATCTGCCAGAgtaaagtaacggggatagagaacctggagctaacggtttgccctcatggaaactt Alignment from Pairagon ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG- attacttcccagactcccctgcccttgcagcttctcacttcctttcacagACTGTAACTTTGAAGGGAGAAAGGTAGTCAATGGTCAGGTTTTCACCTTAGATGATGAGCCCTGTACCCGGTGCATCTGCCAGAgtaaagtaacggggatagagaacctggagctaacggtttgccctcatggaaactt Alignment from Exonerate_protein2genome ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG attacttcccagactcccctgcccttgcagcttctcacttcctttcacagACTGTAACTTTGAAGGGAGAAAGGTAGTCAATGGTCAGGTTTTCACCTTAGATGATGAGCCCTGTACCCGGTGCATCTGCCAGagtaaagtaacggggatagagaacctggagctaacggtttgccctcatggaaactt Alignment from Exonerate_coding2genome attacttcccagactcccctgcccttgcagcttctcacttcctttcacagactgtaactttgaagggagaaaggtagtcaatggtcaggttttcaccttagatgatgagccctgtacccggtgcatctgccagagtaaagtaacggggatagagaacctggagctaacggtttgccctcatggaaactt Alignment from GeneWise ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG------ attacttcccagactcccctgcccttgcagcttctcacttcctttcacagACTGTAACTTTGAAGGGAGAAAGGTAGTCAATGGTCAGGTTTTCACCTTAGATGATGAGCCCTGTACCCGGTGCATCTGCCAGAGTAAAgtaacggggatagagaacctggagctaacggtttgccctcatggaaactt #### Wdr74_ID2319_9 --> 2 - 0 Original Alignment gg---------CGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaagccttacatgtgtttcttgtaggcACTGAAAATAGGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCATGTGGCCTGGACAGAATACTGAGGATGCACAGGATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca Alignment from CESAR gg---------CGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaagccttacatgtgtttcttgtaggcACTGAAAATAGGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCATGTGGCCTGGACAGAATACTGAGGATGCACAGGATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca Alignment from Spaln_aa2Genome TCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaagccttacatgtgtttcttgtaggcactgaaaatagGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCATGTGGCCTGGACAGAATACTGAGGATGCACAGGATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca Alignment from Spaln_nt2Genome TCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaagccttacatgtgtttcttgtaggcactgaaaatagGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCATGTGGCCTGGACAGAATACTGAGGATGCACAGGATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca Alignment from Pairagon GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaagccttacatgtgtttcttgtaggcactgaaaataggctag---------TCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCATGTGGCCTGGACAGAATACTGAGGATGCACAGGATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca Alignment from Exonerate_protein2genome TCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaagccttacatgtgtttcttgtaggcactgaaaatagGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCATGTGGCCTGGACAGAATACTGAGGATGCACAGGATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca Alignment from Exonerate_coding2genome TCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaagccttacatgtgtttcttgtaggcactgaaaatagGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCATGTGGCCTGGACAGAATACTGAGGATGCACAGGATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca Alignment from GeneWise TCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtattccgccaaagccttacatgtgtttcttgtaggcactgaaaatagGCTAGTCGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGTTGCATTGCCATCCTTCAAAGCCCCTATTGGCTTCATGTGGCCTGGACAGAATACTGAGGATGCACAGGATACGCAACCCTTGCGGTGTGGAGCACAAGgtgacttcgagcaaacgttacttagtagttctagtagtagggctatgaca #### Wdr96_ID10345_26 --> 0 - 0 Original Alignment ATCTCTGATGAACGGCAGAGAGGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG--- ctaagatgaaccatgcctgtatctatgttctccgcccctttttaaatcagATCCCTGATGAACGGCATAGAGGGTTGATGGATATGATGGGTGGTGTACTTGAAGTAAAGACAGAGGACATCTTGAGAATGTTAgtaagggtctttgaaagtctttactgttgagggagtagtaggttgtcttg Alignment from CESAR ATCTCTGATGAACGGCAGAGAGGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG--- ctaagatgaaccatgcctgtatctatgttctccgcccctttttaaatcagATCCCTGATGAACGGCATAGAGGGTTGATGGATATGATGGGTGGTGTACTTGAAGTAAAGACAGAGGACATCTTGAGAATGTTAgtaagggtctttgaaagtctttactgttgagggagtagtaggttgtcttg Alignment from Spaln_aa2Genome ATCTCTGATGAACGGCAGAGAGGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATGGTG ctaagatgaaccatgcctgtatctatgttctccgcccctttttaaatcagATCCCTGATGAACGGCATAGAGGGTTGATGGATATGATGGGTGGTGTACTTGAAGTAAAGACAGAGGACATCTTGAGAATGTTAgtaagggtctttgaaagtctttactgttgagggagtagtaggttgtcttg Alignment from Spaln_nt2Genome ATCTCTGATGAACGGCAGAGAGGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGAT ctaagatgaaccatgcctgtatctatgttctccgcccctttttaaatcagATCCCTGATGAACGGCATAGAGGGTTGATGGATATGATGGGTGGTGTACTTGAAGTAAAGACAGAGGACATCTTGAGAATgttagtaagggtctttgaaagtctttactgttgagggagtagtaggttgtcttg Alignment from Pairagon ATCTCTGATGAACGGCAGAGAGGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG--- ctaagatgaaccatgcctgtatctatgttctccgcccctttttaaatcagATCCCTGATGAACGGCATAGAGGGTTGATGGATATGATGGGTGGTGTACTTGAAGTAAAGACAGAGGACATCTTGAGAATGTTAgtaagggtctttgaaagtctttactgttgagggagtagtaggttgtcttg Alignment from Exonerate_protein2genome ATCTCTGATGAACGGCAGAGAGGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG ctaagatgaaccatgcctgtatctatgttctccgcccctttttaaatcagATCCCTGATGAACGGCATAGAGGGTTGATGGATATGATGGGTGGTGTACTTGAAGTAAAGACAGAGGACATCTTGAGAATGttagtaagggtctttgaaagtctttactgttgagggagtagtaggttgtcttg Alignment from Exonerate_coding2genome ATCTCTGATGAACGGCAGAGAGGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG ctaagatgaaccatgcctgtatctatgttctccgcccctttttaaatcagATCCCTGATGAACGGCATAGAGGGTTGATGGATATGATGGGTGGTGTACTTGAAGTAAAGACAGAGGACATCTTGAGAATGttagtaagggtctttgaaagtctttactgttgagggagtagtaggttgtcttg Alignment from GeneWise ATCTCTGATGAACGGCAGAGAGGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATGGTG ctaagatgaaccatgcctgtatctatgttctccgcccctttttaaatcagATCCCTGATGAACGGCATAGAGGGTTGATGGATATGATGGGTGGTGTACTTGAAGTAAAGACAGAGGACATCTTGAGAATGTTAgtaagggtctttgaaagtctttactgttgagggagtagtaggttgtcttg #### Wnt8b_ID9022_5 --> 2 - 0 Original Alignment ggGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggattcccatggcttatatacaacattgctgactgctttccagggGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCAC---gtaagttggccaataatggttgatggcatgcatcatgagacctgttaatg Alignment from CESAR ggGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggattcccatggcttatatacaacattgctgactgctttccagggGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCAC---gtaagttggccaataatggttgatggcatgcatcatgagacctgtta Alignment from Spaln_aa2Genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGC gaacacaggattcccatggcttatatacaacattgctgactgctttccagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCACgtaagttggccaataatggttgatggcatgcatcatgagacctgttaatg Alignment from Spaln_nt2Genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGC gaacacaggattcccatggcttatatacaacattgctgactgctttccagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCACgtaagttggccaataatggttgatggcatgcatcatgagacctgttaatg Alignment from Pairagon GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGC gaacacaggattcccatggcttatatacaacattgctgactgctttccagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCACgtaagttggccaataatggttgatggcatgcatcatgagacctgttaatg Alignment from Exonerate_protein2genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggattcccatggcttatatacaacattgctgactgctttccagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCAC---gtaagttggccaataatggttgatggcatgcatcatgagacctgtta Alignment from Exonerate_coding2genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggattcccatggcttatatacaacattgctgactgctttccagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCAC---gtaagttggccaataatggttgatggcatgcatcatgagacctgtta Alignment from GeneWise GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggattcccatggcttatatacaacattgctgactgctttccagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGTCAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGC---CACgtaagttggccaataatggttgatggcatgcatcatgagacctgttaatg #### Yif1a_ID830_2 --> 2 - 0 Original Alignment gtTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG CTGCACCGTTTTGTGTCCGT gacactgcagacactgaatttttaattgggctttcttctcttatccctaggcTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTGGGTATTCCAGCCAACTGGGAGGGTACCCAGCACCAGGAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAA---gtgaggaggtatgcacatccctgcatacagCTACACCGTTTTGTGTCTGT Alignment from CESAR gtTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG CTGCACCGTTTTGTGTC gacactgcagacactgaatttttaattgggctttcttctcttatccctaggcTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTGGGTATTCCAGCCAACTGGGAGGGTACCCAGCACCAGGAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAA---gtgagctgtctcaccatctcccgtccacagCTACACCGTTTTGTGTC Alignment from Spaln_aa2Genome GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAA---------------------------GAGCTGCACCGTTTTGTGTCCGT gacactgcagacactgaatttttaattgggctttcttctcttatccctagGCTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTGGGTATTCCAGCCAACTGGGAGGGTACCCAGCACCAGGAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAAGTGAGGAGGTATGCACATCCCTGCATACAGCTACACCGTTTTGTGTCTGT Alignment from Spaln_nt2Genome GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAG---------------------------AGCTGCACCGTTTTGTGTCCGT gacactgcagacactgaatttttaattgggctttcttctcttatccctagGCTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTGGGTATTCCAGCCAACTGGGAGGGTACCCAGCACCAGGAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAAGTGAGGAGGTATGCACATCCCTGCATACAGCTACACCGTTTTGTGTCTGT Alignment from Pairagon GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAG---------------------------AGCTGCACCGTTTTGTGTCCGT gacactgcagacactgaatttttaattgggctttcttctcttatccctagGCTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTGGGTATTCCAGCCAACTGGGAGGGTACCCAGCACCAGGAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAAGTGAGGAGGTATGCACATCCCTGCATACAGCTACACCGTTTTGTGTCTGT Alignment from Exonerate_protein2genome GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG CTGCACCGTTTTGTGTC gacactgcagacactgaatttttaattgggctttcttctcttatccctagGCTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTGGGTATTCCAGCCAACTGGGAGGGTACCCAGCACCAGGAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAA---gtgaggaggtatgcacatccctgcatacagCTACACCGTTTTGTGTC Alignment from Exonerate_coding2genome GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG CTGCACCGTTTTGTGTC gacactgcagacactgaatttttaattgggctttcttctcttatccctagGCTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTGGGTATTCCAGCCAACTGGGAGGGTACCCAGCACCAGGAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAA---gtgaggaggtatgcacatccctgcatacagCTACACCGTTTTGTGTC Alignment from GeneWise GGTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAA---------------------------GAGCTGCACCGTTTTGTGTCCGT gacactgcagacactgaatttttaattgggctttcttctcttatccctaGGCTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTGGGTATTCCAGCCAACTGGGAGGGTACCCAGCACCAGGAGCTGATGTGGCTTTCAGTGTCAATAACCTACTTGGAGACCCATTGGCTAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAGGGGAAGGACATTGTGCACAAAGTGAGGAGGTATGCACATCCCTGCATACAGCTACACCGTTTTGTGTCTGT #### Yif1a_ID833_5 --> 2 - 2 Original Alignment ccATGGCCTTCATCACATACGTGCTGCTGGCTGGAATGGCGCTAGGCATTCAGCAAag gtgggaggtcctctggtggggagacacatcctttcgccatctcttcccagccATGGCTTTTGTCACGGATGTGCTAAGG---------------------------aggtaccaatccagcagctcttacctgttttaatgtagtttggaacggaaat Alignment from CESAR ccATGGCCTTCATCACATACGTGCTGCTGGCTGGAATGGCGCTAGGCATTCAGCAAag gtgggaggtcctctggtggggagacacatcctttcgccatctcttcccagccATGGCTTTTGTCACGGATGTGCTA---------------------------AGGaggtaccaatccagcagctcttacctgttttaatgtagtttggaacggaaat Alignment from Spaln_aa2Genome CCATGGCCTTCATCACATACGTGCTG------CTGGCTGGAA gtgggaggtcctctggtggggagacacatcctttcgccatctcttcccagCCATGGCTTTTGTCACGGATGTGCTAAGGAGGTACCAATCCAgcagctcttacctgttttaatgtagtttggaacggaaat Alignment from Spaln_nt2Genome CCATGGCCTTCATCACATACGTGCT--GCTG GCTGGAATGGCGCT gtgggaggtcctctggtggggagacacatcctttcgccatctcttcccagCCATGGCTTTTGTCACGGATGTGCTAAGGAGgtaccaatccagcagctcttacctgttttaatgtagTTTGGAACGGAAAT Alignment from Pairagon CCATGGCCTTCATCACATACGTGCTGCTGGCTGGAATGGCGCTAGGCATTCAGCAAAGG---------------------------------------------------- gtgggaggtcctctggtggggagacacatcctttcgccatctcttcccagCCATGGCTTTTGTCACGGATGTGCT------------------------------AAGGAGGTACCAATCCAGCAGCTCTTACCTGTTTTAATGTAGTTTGGAACGGAAAT Alignment from Exonerate_protein2genome gtgggaggtcctctggtggggagacacatcctttcgccatctcttcccagccatggcttttgtcacggatgtgctaaggaggtaccaatccagcagctcttacctgttttaatgtagtttggaacggaaat Alignment from Exonerate_coding2genome gtgggaggtcctctggtggggagacacatcctttcgccatctcttcccagccatggcttttgtcacggatgtgctaaggaggtaccaatccagcagctcttacctgttttaatgtagtttggaacggaaat Alignment from GeneWise gtgggaggtcctctggtggggagacacatcctttcgccatctcttcccagccatggcttttgtcacggatgtgctaaggaggtaccaatccagcagctcttacctgttttaatgtagtttggaacggaaat #### Yif1a_ID835_7 --> 1 - 0 Original Alignment gATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT--------- gatcacattctttgattcattcattcaggtttttcttttatttttttcaggATGAATTTGAGCGTACTTACAGCACTACTTTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTACTTCATTACGCCTGAAgtgagtgtgggatagttccatcctcccttccatgactgactcttgtcctc Alignment from CESAR gATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT--------- gatcacattctttgattcattcattcaggtttttcttttatttttttcaggATGAATTTGAGCGTACTTACAGCACTACTTTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTACTTCATTACGCCTGAAgtgagtgtgggatagttccatcctcccttccatgaatgattttttttttt Alignment from Spaln_aa2Genome GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT--------- gatcacattctttgattcattcattcaggtttttcttttatttttttcagGATGAATTTGAGCGTACTTACAGCACTACTTTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTACTTCATTACGCCTGAAgtgagtgtgggatagttccatcctcccttccatgactgactcttgtcctc Alignment from Spaln_nt2Genome GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT--------- gatcacattctttgattcattcattcaggtttttcttttatttttttcagGATGAATTTGAGCGTACTTACAGCACTACTTTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTACTTCATTACGCCTGAAgtgagtgtgggatagttccatcctcccttccatgactgactcttgtcctc Alignment from Pairagon GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT----------------------------------------------------------- gatcacattctttgattcattcattcaggtttttcttttatttttttcagGATGAATTTGAGCGTACTTACAGCACTACTTTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTACTTCATTACGCCTGAAGTGAGTGTGGGATAGTTCCATCCTCCCTTCCATGACTGACTCTTGTCCTC Alignment from Exonerate_protein2genome GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT gatcacattctttgattcattcattcaggtttttcttttatttttttcagGATGAATTTGAGCGTACTTACAGCACTACTTTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTACTTCATTacgcctgaagtgagtgtgggatagttccatcctcccttccatgactgactcttgtcctc Alignment from Exonerate_coding2genome GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT gatcacattctttgattcattcattcaggtttttcttttatttttttcagGATGAATTTGAGCGTACTTACAGCACTACTTTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTACTTCATTacgcctgaagtgagtgtgggatagttccatcctcccttccatgactgactcttgtcctc Alignment from GeneWise GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT--------- gatcacattctttgattcattcattcaggtttttcttttatttttttcagGATGAATTTGAGCGTACTTACAGCACTACTTTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTACTTCATTACGCCTGAAgtgagtgtgggatagttccatcctcccttccatgactgactcttgtcctc #### Zdhhc16_ID8345_2 --> 0 - 0 Original Alignment GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTCCTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCATTGCT------------------------gtaagtactccacagtgcaagtttcaacgctcaccagccgcgagttcgca Alignment from CESAR GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTCCTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCATTGCT------------------------gtaagtactccacagtgcaagtttca Alignment from Spaln_aa2Genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAGGGCAG atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTCCTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCATTGCTGTAAGT---------ACTCCACAGTGCAAgtttcaacgctcaccagccgc Alignment from Spaln_nt2Genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGA--TACCCACCC atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTCCTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCAT---------TGCTGTAAGTACTCCACAgtgcaagtttcaacgctcaccagccgcgagttcgca Alignment from Pairagon GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACC atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTCCTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCATTGCTgtaagtactccacagtgcaagtttcaacgctcaccagccgcgagttcgca Alignment from Exonerate_protein2genome atgggatatacctactctgacaactgtccaaacactggctgatttttcaggtgttcgtagtgctagtgattgtgctgcctggttcaattgtagccattgcttatctatgtgttctgccactcctccttcgaacttactcagtaccccaactctgctggcattttctttatagtcactggaatctcattctcattgtctcccactattatcaagccattgctgtaagtactccacagtgcaagtttcaacgctcaccagccgcgagttcgca Alignment from Exonerate_coding2genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACC atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTCCTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCATTGCTGTAAGTACTCCACAGTGCAAgtttcaacgctcaccagccgcgagttcgca Alignment from GeneWise GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACC atgggatatacctactctgacaactgtccaaacactggctgatttttcagGTGTTCGTAGTGCTAGTGATTGTGCTGCCTGGTTCAATTGTAGCCATTGCTTATCTATGTGTTCTGCCACTCCTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGGCATTTTCTTTATAGTCACTGGAATCTCATTCTCATTGTCTCCCACTATTATCAAGCCATTGCTgtaagtactccacagtgcaagtttcaacgctcaccagccgcgagttcgca #### Zdhhc6_ID11621_8 --> 0 - 2 Original Alignment GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGcg tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcagGTTCACTATAAGTTTATAGATGACTACAATGGTGCTAGCTGCCCATTGAATAGAGGAGTGAGAACCTTCTTTACAAGCCCCTGTACA---GAGCCCCGAGTCCGGCTACAGCAAGGTGAATTCATACTAGCAATGAGGGGG---aggtaagccgaggagggggttctttatcaagaaactggcagcctttggctct Alignment from CESAR GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGcg tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcagGTTCACTATAAGTTTATAGATGACTACAATGGTGCTAGCTGCCCATTGAATAGAGGAGTGAGAACCTTCTTTACAAGCCCCTGTACA---GAGCCCCGAGTCCGGCTACAGCAAGGTGAATTCATACTAGCAATGAGGGGG---aggtaagccgaggagggggttctttatcaagaaaaaactttgtgcttttgtt Alignment from Spaln_aa2Genome GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCT tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcagGTTCACTATAAGTTTATAGATGACTACAATGGTGCTAGCTGCCCATTGAATAGAGGAGTGAGAACCTTCTTTACAAGCCCCTGTACAGAG---CCCCGAGTCCGGCTACAGCAAGGTGAATTCATACTAGCAATGAGGGGGAGgtaagccgaggagggggttctttatcaagaaactggcagcctttggctct Alignment from Spaln_nt2Genome GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcagGTTCACTATAAGTTTATAGATGACTACAATGGTGCTAGCTGCCCATTGAATAGAGGAGTGAGAACCTTCTTTACAAGCCCCTGTAC---AGAGCCCCGAGTCCGGCTACAGCAAGGTGAATTCATACTAGCAATGAGGGG---GAGgtaagccgaggagggggttctttatcaagaaactggcagcctttggctct Alignment from Pairagon GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcagGTTCACTATAAGTTTATAGATGACTACAATGGTGCTAGCTGCCCATTGAATAGAGGAGTGAGAACCTTCTTTACAAGCCCCTGTAC---AGAGCCCCGAGTCCGGCTACAGCAAGGTGAATTCATACTAGCAATGAGGGG---GAGgtaagccgaggagggggttctttatcaagaaactggcagcctttggctct Alignment from Exonerate_protein2genome GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGGCTGCG tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcagGTTCACTATAAGTTTATAGATGACTACAATGGTGCTAGCTGCCCATTGAATAGAGGAGTGAGAACCTTCTTTACAAGCCCCTGTACA---GAGCCCCGAGTCCGGCTACAGCAAGGTGAATTCATACTAGCAATGAGGGGG---AGgtaagccgaggagggggttctttatcaagaaactggcagcctttggctct Alignment from Exonerate_coding2genome tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcaggttcactataagtttatagatgactacaatggtgctagctgcccattgaatagaggagtgagaaccttctttacaagcccctgtacagagccccgagtccggctacagcaaggtgaattcatactagcaatgagggggaggtaagccgaggagggggttctttatcaagaaactggcagcctttggctct Alignment from GeneWise GTTCGCTATAAAGTCATAGAAGATTACAATGGTGCCTGCTGCCCTTTGAATAGAGGAGTGAGAACCTTCTTTACGAGCCCCTGCACTGAGGAGCCTCGGATCCGGCTGCAGAAAGGAGAGTTCATCTTAGCAACGAGAGGG-- ----------- tggggtgtcaaaggggtccaccatggtgagaacaccttatttcactgcagGTTCACTATAAGTTTATAGATGACTACAATGGTGCTAGCTGCCCATTGAATAGAGGAGTGAGAACCTTCTTTACAAGCCCCTGTACAGAG---CCCCGAGTCCGGCTACAGCAAGGTGAATTCATACTAGCAATGAGGGGGAGgtaagccgaggagggggttctttatcaagaaactggcagCCTTTGGCTCT #### Zfp91_ID3462_4 --> 2 - 2 Original Alignment atGTTCCAGAAGAACATCAGTCTCCCGGTGGCATT---------ag atagaggttgaatttttggcagtgtatggatgtcttgatgccccctgtagacGTTCCTGAAGAGCAACGAACCCCTGGTGGGATCTTCCTATATaggtaactggttgctcgctatacacccaatgtttcatattgcagagtgttac Alignment from CESAR atGTTCCAGAAGAACATCAGTCTCCCGGTGGCATT---------ag atagaggttgaatttttggcagtgtatggatgtcttgatgccccctgtagacGTTCCTGAAGAGCAACGAACCCCTGGTGGGATCTTCCTATATaggtaactggttgctcgctatacacccaatgtttcatattgcagagtgttac Alignment from Spaln_aa2Genome ATGTTCCAGAAGAACATCAGTCTCCCGGTGGCATTAGT-------- atagaggttgaatttttggcagtgtatggatgtcttgatgccccctgtagACGTTCCTGAAGAGCAACGAACCCCTGGTGGGATCTTCCTATATAGgtaactggttgctcgctatacacccaatgtttcatattgcagagtgttac Alignment from Spaln_nt2Genome ATGTTCCAGAAGAACATCAGTCTCCCGGTGGCAT---------TAG atagaggttgaatttttggcagtgtatggatgtcttgatgccccctgtagACGTTCCTGAAGAGCAACGAACCCCTGGTGGGATCTTCCTATATAGgtaactggttgctcgctatacacccaatgtttcatattgcagagtgttac Alignment from Pairagon ATGTTCCAGAAGAACATCAGTCTCCCGGTGGCAT---------TAG atagaggttgaatttttggcagtgtatggatgtcttgatgccccctgtagACGTTCCTGAAGAGCAACGAACCCCTGGTGGGATCTTCCTATATAGgtaactggttgctcgctatacacccaatgtttcatattgcagagtgttac Alignment from Exonerate_protein2genome atagaggttgaatttttggcagtgtatggatgtcttgatgccccctgtagacgttcctgaagagcaacgaacccctggtgggatcttcctatataggtaactggttgctcgctatacacccaatgtttcatattgcagagtgttac Alignment from Exonerate_coding2genome atagaggttgaatttttggcagtgtatggatgtcttgatgccccctgtagacgttcctgaagagcaacgaacccctggtgggatcttcctatataggtaactggttgctcgctatacacccaatgtttcatattgcagagtgttac Alignment from GeneWise atagaggttgaatttttggcagtgtatggatgtcttgatgccccctgtagacgttcctgaagagcaacgaacccctggtgggatcttcctatataggtaactggttgctcgctatacacccaatgtttcatattgcagagtgttac #### Zfyve27_ID8429_11 --> 0 - 1 Original Alignment ------CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAg atttatatggtccaaaggtcgcactcctctgtttctcattctcttttcagGTCTTTCGAAGCTGCACCAACTGTGCAAATAGCTTCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAggtgaggagggagaattgtagataggctcagacaaagaaagctcccaggac Alignment from CESAR ------CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAg atttatatggtccaaaggtcgcactcctctgtttctcattctcttttcagGTCTTTCGAAGCTGCACCAACTGTGCAAATAGCTTCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAggtgaggagggagaattgtagataggctcagacaaagaaagctcccaggac Alignment from Spaln_aa2Genome ------CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG atttatatggtccaaaggtcgcactcctctgtttctcattctcttttcagGTCTTTCGAAGCTGCACCAACTGTGCAAATAGCTTCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAGgtgaggagggagaattgtagataggctcagacaaagaaagctcccaggac Alignment from Spaln_nt2Genome GCGGAGCTGCAGCA-----ACTGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG atttatatggtccaaaggtcgcactcctctgtttctcattctcttttcagGTCTTTCGAAGCTGCACCAACTGTGCAAATAGCTTCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAGgtgaggagggagaattgtagataggctcagacaaagaaagctcccaggac Alignment from Pairagon ------CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG atttatatggtccaaaggtcgcactcctctgtttctcattctcttttcagGTCTTTCGAAGCTGCACCAACTGTGCAAATAGCTTCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAGgtgaggagggagaattgtagataggctcagacaaagaaagctcccaggac Alignment from Exonerate_protein2genome ------CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG atttatatggtccaaaggtcgcactcctctgtttctcattctcttttcagGTCTTTCGAAGCTGCACCAACTGTGCAAATAGCTTCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAGgtgaggagggagaattgtagataggctcagacaaagaaagctcccaggac Alignment from Exonerate_coding2genome ------CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG atttatatggtccaaaggtcgcactcctctgtttctcattctcttttcagGTCTTTCGAAGCTGCACCAACTGTGCAAATAGCTTCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAGgtgaggagggagaattgtagataggctcagacaaagaaagctcccaggac Alignment from GeneWise ------CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG atttatatggtccaaaggtcgcactcctctgtttctcattctcttttcagGTCTTTCGAAGCTGCACCAACTGTGCAAATAGCTTCTGCTCTCATTGCTGCTCATTCAAGGTACCCCGCTCCTCCATGGGTGCCACAGgtgaggagggagaattgtagataggctcagacaaagaaagctcccaggac #### Zp1_ID3063_9 --> 1 - 0 Original Alignment g---------TGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCCTTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG acgacactgggcagcctgtgaaagggctatccactcattgtgtttctcagaTCGACCTTATGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGATCGGGAAGCAATTCCCTTCTGGTCCCATTCTCAGCATTTCACAATTACCACCTTCATGCTTTTTGATGCCAGCTCCCAGAATGCTCTCAGGGGTCAAgtgagtaactacctacctatgtgccatcgaagatcagcattgagatctct Alignment from CESAR g---------TGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCCTTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG acgacactgggcagcctgtgaaagggctatccactcattgtgtttctcagaTCGACCTTATGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGATCGGGAAGCAATTCCCTTCTGGTCCCATTCTCAGCATTTCACAATTACCACCTTCATGCTTTTTGATGCCAGCTCCCAGAATGCTCTCAGGGGTCAAgtgagtaactacctacctatgtgccatcgaagatcagcattgagatctct Alignment from Spaln_aa2Genome GTCAGATGGGTGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCCTTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG acgacactgggcagcctgtgaaagggctatccactcattgtgtttctcagATCGACCTTATGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGATCGGGAAGCAATTCCCTTCTGGTCCCATTCTCAGCATTTCACAATTACCACCTTCATGCTTTTTGATGCCAGCTCCCAGAATGCTCTCAGGGGTCAAgtgagtaactacctacctatgtgccatcgaagatcagcattgagatctct Alignment from Spaln_nt2Genome GT---------GTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCCTTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG acgacactgggcagcctgtgaaagggctatccactcattgtgtttctcagATCGACCTTATGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGATCGGGAAGCAATTCCCTTCTGGTCCCATTCTCAGCATTTCACAATTACCACCTTCATGCTTTTTGATGCCAGCTCCCAGAATGCTCTCAGGGGTCAAgtgagtaactacctacctatgtgccatcgaagatcagcattgagatctct Alignment from Pairagon ------------------------------------------------------------TGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCCTTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG ACGACACTGGGCAGCCTGTGAAAGGGCTATCCACTCATTGTGTTTCTCAGATCGACCTTATGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGATCGGGAAGCAATTCCCTTCTGGTCCCATTCTCAGCATTTCACAATTACCACCTTCATGCTTTTTGATGCCAGCTCCCAGAATGCTCTCAGGGGTCAAgtgagtaactacctacctatgtgccatcgaagatcagcattgagatctct Alignment from Exonerate_protein2genome GTCAGATGGGTGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCCTTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG acgacactgggcagcctgtgaaagggctatccactcattgtgtttctcagATCGACCTTATGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGATCGGGAAGCAATTCCCTTCTGGTCCCATTCTCAGCATTTCACAATTACCACCTTCATGCTTTTTGATGCCAGCTCCCAGAATGCTCTCAGGGGTCAAgtgagtaactacctacctatgtgccatcgaagatcagcattgagatctct Alignment from Exonerate_coding2genome GTCAGATGGGTGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCCTTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG acgacactgggcagcctgtgaaagggctatccactcattgtgtttctcagATCGACCTTATGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGATCGGGAAGCAATTCCCTTCTGGTCCCATTCTCAGCATTTCACAATTACCACCTTCATGCTTTTTGATGCCAGCTCCCAGAATGCTCTCAGGGGTCAAgtgagtaactacctacctatgtgccatcgaagatcagcattgagatctct Alignment from GeneWise -------GGGTGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCCTTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG acgacactgggcagcctgtgaaagggctatccactcattgtgtttctcagATCGACCTTATGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGATCGGGAAGCAATTCCCTTCTGGTCCCATTCTCAGCATTTCACAATTACCACCTTCATGCTTTTTGATGCCAGCTCCCAGAATGCTCTCAGGGGTCAAgtgagtaactacctacctatgtgccatcgaagatcagcattgagatctct #### Zp1_ID3064_8 --> 2 - 2 Original Alignment atAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATgg gccgcttgaaatgcagcctggcattagacatcgcccctcctccctccaagatAAAACTTTCAGCTCCTTCTATCAAGGAGGCGAATACCCCCTCTTAAGACTGCTGCAGAAACCAGCCTATGTGCAGGTGCGGCTCCTGCAGAAAACT---GCTGGTCTAGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTAGATCAGCCTCAATGGCCAATTCTGTCA---gcgtaagaagtcgtaaacggagaatgtcccacatacagggtttgcatgcttt Alignment from CESAR atAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATgg gccgcttgaaatgcagcctggcattagacatcgcccctcctccctccaagatAAAACTTTCAGCTCCTTCTATCAAGGAGGCGAATACCCCCTCTTAAGACTGCTGCAGAAACCAGCCTATGTGCAGGTGCGGCTCCTGCAGAAAACT---GCTGGTCTAGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTAGATCAGCCTCAATGGCCAATTCTGTCA---gcgtaagaagtcgtaaacggagaatgtcccacatacagggtttgcatgcttt Alignment from Spaln_aa2Genome ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGA gccgcttgaaatgcagcctggcattagacatcgcccctcctccctccaagATAAAACTTTCAGCTCCTTCTATCAAGGAGGCGAATACCCCCTCTTAAGACTGCTGCAGAAACCAGCCTATGTGCAGGTGCGGCTCCTGCAGAAAACT---GCTGGTCTAGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTAGATCAGCCTCAATGGCCAATTCTGTCAGCgtaagaagtcgtaaacggagaatgtcccacatacagggtttgcatgcttt Alignment from Spaln_nt2Genome ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGA gccgcttgaaatgcagcctggcattagacatcgcccctcctccctccaagATAAAACTTTCAGCTCCTTCTATCAAGGAGGCGAATACCCCCTCTTAAGACTGCTGCAGAAACCAGCCTATGTGCAGGTGCGGCTCCTGCAGAAAACTG---CTGGTCTAGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAG---CTTAGATCAGCCTCAATGGCCAATTCTGTCAGCgtaagaagtcgtaaacggagaatgtcccacatacagggtttgcatgcttt Alignment from Pairagon ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGA gccgcttgaaatgcagcctggcattagacatcgcccctcctccctccaagATAAAACTTTCAGCTCCTTCTATCAAGGAGGCGAATACCCCCTCTTAAGACTGCTGCAGAAACCAGCCTATGTGCAGGTGCGGCTCCTGCAGAAAACTG---CTGGTCTAGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAG---CTTAGATCAGCCTCAATGGCCAATTCTGTCAGCgtaagaagtcgtaaacggagaatgtcccacatacagggtttgcatgcttt Alignment from Exonerate_protein2genome ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG gccgcttgaaatgcagcctggcattagacatcgcccctcctccctccaagATAAAACTTTCAGCTCCTTCTATCAAGGAGGCGAATACCCCCTCTTAAGACTGCTGCAGAAACCAGCCTATGTGCAGGTGCGGCTCCTGCAGAAAACT---GCTGGTCTAGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTAGATCAGCCTCAATGGCCAATTCTGTCA---GCgtaagaagtcgtaaacggagaatgtcccacatacagggtttgcatgcttt Alignment from Exonerate_coding2genome ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG gccgcttgaaatgcagcctggcattagacatcgcccctcctccctccaagATAAAACTTTCAGCTCCTTCTATCAAGGAGGCGAATACCCCCTCTTAAGACTGCTGCAGAAACCAGCCTATGTGCAGGTGCGGCTCCTGCAGAAAACT---GCTGGTCTAGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTAGATCAGCCTCAATGGCCAATTCTGTCA---GCgtaagaagtcgtaaacggagaatgtcccacatacagggtttgcatgcttt Alignment from GeneWise -------------------------------------------------GATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGA GCCGCTTGAAATGCAGCCTGGCATTAGACATCGCCCCTCCTCCCTCCAAGATAAAACTTTCAGCTCCTTCTATCAAGGAGGCGAATACCCCCTCTTAAGACTGCTGCAGAAACCAGCCTATGTGCAGGTGCGGCTCCTGCAGAAAACT---GCTGGTCTAGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTAGATCAGCCTCAATGGCCAATTCTGTCAGCgtaagaagtcgtaaacggagaatgtcccacatacagggtttgcatgcttt #### Zp1_ID3065_7 --> 1 - 1 Original Alignment gCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGg ggtgcatgcaaaacagaatgactgaaaatcttctccctgtctccctacagaCTTCATGTTCACTGCATCTTCAATTCTACTGATTTCCTCCCACTACAAGCATCTATCTCT---CCTGACCCACCTGCCCCTGTAGCACAATCTGGAGCCCTTAGGCTGCAATTGAAGATTGCC---ggtagagagtggctccagtttggacggtgctttccaaccttgccgcttgaa Alignment from CESAR gCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGg ggtgcatgcaaaacagaatgactgaaaatcttctccctgtctccctacagaCTTCATGTTCACTGCATCTTCAATTCTACTGATTTCCTCCCACTACAAGCATCTATC---TCTCCTGACCCACCTGCCCCTGTAGCACAATCTGGAGCCCTTAGGCTGCAATTGAAGATTGCC---ggtagagagtggctccagtttggacggtgctttccaaccttgccgcttgaa Alignment from Spaln_aa2Genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCC- ggtgcatgcaaaacagaatgactgaaaatcttctccctgtctccctacagACTTCATGTTCACTGCATCTTCAATTCTACTGATTTCCTCCCACTACAAGCATCTATC---TCTCCTGACCCACCTGCCCCTGTAGCACAATCTGGAGCCCTTAGGCTGCAATTGAAGATTGCCGgtagagagtggctccagtttggacggtgctttccaaccttgccgcttgaa Alignment from Spaln_nt2Genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG ggtgcatgcaaaacagaatgactgaaaatcttctccctgtctccctacagACTTCATGTTCACTGCATCTTCAATTCTACTGATTTCCTCCCACTACAAGCATCTA---TCTCTCCTGACCCACCTGCCCCTGTAGCACAATCTGGAGCCCTTAGGCTGCAATTGAAGATTGCC---Ggtagagagtggctccagtttggacggtgctttccaaccttgccgcttgaa Alignment from Pairagon GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCC--------------------------------------------------- ggtgcatgcaaaacagaatgactgaaaatcttctccctgtctccctacagACTTCATGTTCACTGCATCTTCAATTCTACTGATTTCCTCCCACTACAAGCATCTA---TCTCTCCTGACCCACCTGCCCCTGTAGCACAATCTGGAGCCCTTAGGCTGCAATTGAAGATTGCCGGTAGAGAGTGGCTCCAGTTTGGACGGTGCTTTCCAACCTTGCCGCTTGAA Alignment from Exonerate_protein2genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG ggtgcatgcaaaacagaatgactgaaaatcttctccctgtctccctacagACTTCATGTTCACTGCATCTTCAATTCTACTGATTTCCTCCCACTACAAGCATCTATC---TCTCCTGACCCACCTGCCCCTGTAGCACAATCTGGAGCCCTTAGGCTGCAATTGAAGATTGCCGGTAgagagtggctccagtttggacggtgctttccaaccttgccgcttgaa Alignment from Exonerate_coding2genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG ggtgcatgcaaaacagaatgactgaaaatcttctccctgtctccctacagACTTCATGTTCACTGCATCTTCAATTCTACTGATTTCCTCCCACTACAAGCATCTATC---TCTCCTGACCCACCTGCCCCTGTAGCACAATCTGGAGCCCTTAGGCTGCAATTGAAGATTGCCGGTAgagagtggctccagtttggacggtgctttccaaccttgccgcttgaa Alignment from GeneWise GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCC--------------------------------------------------- ggtgcatgcaaaacagaatgactgaaaatcttctccctgtctccctacagACTTCATGTTCACTGCATCTTCAATTCTACTGATTTCCTCCCACTACAAGCATCTATC---TCTCCTGACCCACCTGCCCCTGTAGCACAATCTGGAGCCCTTAGGCTGCAATTGAAGATTGCCGGTAGAGAGTGGCTCCAGTTTGGACGGTGCTTTCCAACCTTGCCGCTTGAA #### Zp1_ID3066_6 --> 0 - 2 Original Alignment GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCACTCGGGACAGTGCCTTCcg atggcatgtcacatcatcttccagagatgactgcttgtcctcgtcttcagGTGGTTGGCAAACAACTCATTTATGAGAACCAACTGGTGTCTGATATTGATGTTCAAAAGGGGCCACAAGGTTCTATCACACATGACAGC------cggtgagaaacgatactaactaggcaggcctatgttgtcaacatgcatgtgg Alignment from CESAR GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCACTCGGGACAGTGCCTTCcg atggcatgtcacatcatcttccagagatgactgcttgtcctcgtcttcagGTGGTTGGCAAACAACTCATTTATGAGAACCAACTGGTGTCTGATATTGATGTTCAAAAGGGGCCACAAGGTTCTATCACACATGACAGC------cggtgagaaacgatactaactaggcaggcctatgttgtcaacatgcatgtgg Alignment from Spaln_aa2Genome GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCACTCGGGACAGTGC atggcatgtcacatcatcttccagagatgactgcttgtcctcgtcttcagGTGGTTGGCAAACAACTCATTTATGAGAACCAACTGGTGTCTGATATTGATGTTCAAAAGGGGCCACAAGGTTCTATCACACATGACAGCCGgtgagaaacgatactaactaggcaggcctatgttgtcaacatgcatgtgg Alignment from Spaln_nt2Genome GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCACTCGGGACAGTGCCTTCCG atggcatgtcacatcatcttccagagatgactgcttgtcctcgtcttcagGTGGTTGGCAAACAACTCATTTATGAGAACCAACTGGTGTCTGATATTGATGTTCAAAAGGGGCCACAAGGTTCTATCACACATGACAG------CCGgtgagaaacgatactaactaggcaggcctatgttgtcaacatgcatgtgg Alignment from Pairagon GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCACTCGGGACAGTGCCTTCCG atggcatgtcacatcatcttccagagatgactgcttgtcctcgtcttcagGTGGTTGGCAAACAACTCATTTATGAGAACCAACTGGTGTCTGATATTGATGTTCAAAAGGGGCCACAAGGTTCTATCACACATGACAG------CCGgtgagaaacgatactaactaggcaggcctatgttgtcaacatgcatgtgg Alignment from Exonerate_protein2genome GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCACTCGGGACAGTGC atggcatgtcacatcatcttccagagatgactgcttgtcctcgtcttcagGTGGTTGGCAAACAACTCATTTATGAGAACCAACTGGTGTCTGATATTGATGTTCAAAAGGGGCCACAAGGTTCTATCACACATGACAGCCGgtgagaaacgatactaactaggcaggcctatgttgtcaacatgcatgtgg Alignment from Exonerate_coding2genome GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCACTCGGGACAGTGC atggcatgtcacatcatcttccagagatgactgcttgtcctcgtcttcagGTGGTTGGCAAACAACTCATTTATGAGAACCAACTGGTGTCTGATATTGATGTTCAAAAGGGGCCACAAGGTTCTATCACACATGACAGCCGgtgagaaacgatactaactaggcaggcctatgttgtcaacatgcatgtgg Alignment from GeneWise GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCACTCGGGACAGTGC atggcatgtcacatcatcttccagagatgactgcttgtcctcgtcttcagGTGGTTGGCAAACAACTCATTTATGAGAACCAACTGGTGTCTGATATTGATGTTCAAAAGGGGCCACAAGGTTCTATCACACATGACAGCCGgtgagaaacgatactaactaggcaggcctatgttgtcaacatgcatgtgg #### Zp1_ID3067_5 --> 2 - 0 Original Alignment tc---ACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaatgctgcggggatggtttgcagtcTTGACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCTGTTAGACAAT------GTGGCCTATATACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt Alignment from CESAR tc---ACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaatgctgcggggatggtttgcagtcTTGACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCTGTTAGACAATGTG------GCCTATATACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt Alignment from Spaln_aa2Genome TC---ACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaatgctgcggggatggtttgcagTCTTGACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCTGTTAGACAATGTG------GCCTATATACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt Alignment from Spaln_nt2Genome TC---ACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaatgctgcggggatggtttgcagTCTTGACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCTGTTAGACAATG------TGGCCTATATACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt Alignment from Pairagon TC---ACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaatgctgcggggatggtttgcagTCTTGACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCTGTTAGACAATG------TGGCCTATATACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt Alignment from Exonerate_protein2genome TCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaatgctgcggggatggtttgcagtcttgacacTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCTGTTAGACAATGTG------GCCTATATACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt Alignment from Exonerate_coding2genome TCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaatgctgcggggatggtttgcagtcttgacacTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCTGTTAGACAATGTG------GCCTATATACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt Alignment from GeneWise --GTCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG acaccctaaggcagggagacttgattaaatgctgcggggatggtttgcagTCTTGACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACTCAAGGTGTCCTGTTAGACAATGTG------GCCTATATACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTCGCTTTCCATGTCCCTCTTGCCCTTTGTGGGACAGCAATCCAGgtacagatgtcctcttgttagtgtacagcattaccaaggtcctaagactt #### Zp1_ID3068_4 --> 2 - 1 Original Alignment gt---------ACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATGGTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCAACACAg ctgagttttatggccctgtgatcatctttcatgtgccgcttcccctgcagggTATGGGCAGACTCATCTGACTCATGAGTGGTGCCAAGCAGCTTCTGGACATGTACCATGCATGGTTAATGGAAGTCCAAGAGAT------CAGCAGGCTGGTTGTTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGCAACACCagtgggtctatttatgccaggcctgaagtgagactagctagacgccaatct Alignment from CESAR gt---------ACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATGGTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCAACACAg ctgagttttatggccctgtgatcatctttcatgtgccgcttcccctgcagggTATGGGCAGACTCATCTGACTCATGAGTGGTGCCAAGCAGCTTCTGGACATGTACCATGCATGGTTAATGGAAGTCCAAGAGAT------CAGCAGGCTGGTTGTTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGCAACACCagtgggtctatttatgccaggcctgaagtgagactagctagacgccaatct Alignment from Spaln_aa2Genome GT---------ACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATGGTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCAACACAG ctgagttttatggccctgtgatcatctttcatgtgccgcttcccctgcagGGTATGGGCAGACTCATCTGACTCATGAGTGGTGCCAAGCAGCTTCTGGACATGTACCATGCATGGTTAATGGAAGTCCAAGAGAT------CAGCAGGCTGGTTGTTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGCAACACCAgtgggtctatttatgccaggcctgaagtgagactagctagacgccaatct Alignment from Spaln_nt2Genome G---TAGGTA--CCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATGGTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCAACACAG ctgagttttatggccctgtgatcatctttcatgtgccgcttcccctgcagGGTATGGGCAGACTCATCTGACTCATGAGTGGTGCCAAGCAGCTTCTGGACATGTACCATGCATGGTTAATGGAAG-TCCAAGAGA-----TCAGCAGGCTGGTTGTTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGCAACACCAgtgggtctatttatgccaggcctgaagtgagactagctagacgccaatct Alignment from Pairagon -------------------------------------------------------------ACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATGGTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCAACACAG CTGAGTTTTATGGCCCTGTGATCATCTTTCATGTGCCGCTTCCCCTGCAGGGTATGGGCAGACTCATCTGACTCATGAGTGGTGCCAAGCAGCTTCTGGACATGTACCATGCATGGTTAATGGAAGTCCAAGAGA------TCAGCAGGCTGGTTGTTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGCAACACCAgtgggtctatttatgccaggcctgaagtgagactagctagacgccaatct Alignment from Exonerate_protein2genome GT---------ACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATGGTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCAACACAG ctgagttttatggccctgtgatcatctttcatgtgccgcttcccctgcagGGTATGGGCAGACTCATCTGACTCATGAGTGGTGCCAAGCAGCTTCTGGACATGTACCATGCATGGTTAATGGAAGTCCAAGAGAT------CAGCAGGCTGGTTGTTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGCAACACCAgtgggtctatttatgccaggcctgaagtgagactagctagacgccaatct Alignment from Exonerate_coding2genome GT---------ACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATGGTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCAACACAG ctgagttttatggccctgtgatcatctttcatgtgccgcttcccctgcagGGTATGGGCAGACTCATCTGACTCATGAGTGGTGCCAAGCAGCTTCTGGACATGTACCATGCATGGTTAATGGAAGTCCAAGAGAT------CAGCAGGCTGGTTGTTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGCAACACCAgtgggtctatttatgccaggcctgaagtgagactagctagacgccaatct Alignment from GeneWise ACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATGGTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCAACACAG ctgagttttatggccctgtgatcatctttcatgtgccgcttcccctgcagggtatgggcagACTCATCTGACTCATGAGTGGTGCCAAGCAGCTTCTGGACATGTACCATGCATGGTTAATGGAAGTCCAAGAGAT------CAGCAGGCTGGTTGTTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGCAACACCAgtgggtctatttatgccaggcctgaagtgagactagctagacgccaatct #### Zp1_ID3069_3 --> 0 - 1 Original Alignment ---------GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAg ctcagcagaagcattatccagtagatcagatgtatgcatttttctttcagCTCATGTTTGATGGACGTTTCCACCTGAGGGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATCGCACAAGATGTTACACTGATCTGCCCCAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTTCACCCTATCCCTGAG---------GCTGGGGCTGGACAT------ATTACTATGTTGTACCCAGAACAAAGCTTCAAGCATCAAACTCCTGCACCACCCTCACTAGGACTTGGGCCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCGGACTGAGTTAGACTCTGTGggtgaggcagtctaaaattttgtgtaaactgagttttatggccctgtgatc Alignment from CESAR ---------GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAg ctcagcagaagcattatccagtagatcagatgtatgcatttttctttcagCTCATGTTTGATGGACGTTTCCACCTGAGGGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATCGCACAAGATGTTACACTGATCTGCCCCAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTTCACCCTATCCCTGAG---------GCTGGGGCTGGACAT------ATTACTATGTTGTACCCAGAACAAAGCTTCAAGCATCAAACTCCTGCACCACCCTCACTAGGACTTGGGCCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCGGACTGAGTTAGACTCTGTGggtgaggcagtctaaaattttgtgtaaactgagttttatggccctgtgatc Alignment from Spaln_aa2Genome GATGGGCGGTTC---------CACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG ctcagcagaagcattatccagtagatcagatgtatgcatttttctttcagCTCATGTTTGATGGACGTTTCCACCTGAGGGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATCGCACAAGATGTTACACTGATCTGCCCCAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTTCACCCTATCCCTGAG---------GCTGGGGCTGGACAT------ATTACTATGTTGTACCCAGAACAAAGCTTCAAGCATCAAACTCCTGCACCACCCTCACTAGGACTTGGGCCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCGGACTGAGTTAGACTCTGTGGgtgaggcagtctaaaattttgtgtaaactgagttttatggccctgtgatc Alignment from Spaln_nt2Genome ---------GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG ctcagcagaagcattatccagtagatcagatgtatgcatttttctttcagCTCATGTTTGATGGACGTTTCCACCTGAGGGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATCGCACAAGATGTTACACTGATCTGCCCCAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTTCACCCTATCCCTGA---------GGCTGGGGCTGGACA------TATTACTATGTTGTACCCAGAACAAAGCTTCAAGCATCAAACTCCTGCACCACCCTCACTAGGACTTGGGCCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCGGACTGAGTTAGACTCTGTGGgtgaggcagtctaaaattttgtgtaaactgagttttatggccctgtgatc Alignment from Pairagon ---------GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG ctcagcagaagcattatccagtagatcagatgtatgcatttttctttcagCTCATGTTTGATGGACGTTTCCACCTGAGGGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATCGCACAAGATGTTACACTGATCTGCCCCAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTTCACCCTATCCCTGA---------GGCTGGGGCTGGACATA------TTACTATGTTGTACCCAGAACAAAGCTTCAAGCATCAAACTCCTGCACCACCCTCACTAGGACTTGGGCCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCGGACTGAGTTAGACTCTGTGGgtgaggcagtctaaaattttgtgtaaactgagttttatggccctgtgatc Alignment from Exonerate_protein2genome GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG ctcagcagaagcattatccagtagatcagatgtatgcatttttctttcagctcatgtttGATGGACGTTTCCACCTGAGGGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATCGCACAAGATGTTACACTGATCTGCCCCAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTTCACCCTATCCCTGAG---------GCTGGGGCTGGACAT------ATTACTATGTTGTACCCAGAACAAAGCTTCAAGCATCAAACTCCTGCACCACCCTCACTAGGACTTGGGCCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCGGACTGAGTTAGACTCTGTGGgtgaggcagtctaaaattttgtgtaaactgagttttatggccctgtgatc Alignment from Exonerate_coding2genome GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG ctcagcagaagcattatccagtagatcagatgtatgcatttttctttcagctcatgtttGATGGACGTTTCCACCTGAGGGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATCGCACAAGATGTTACACTGATCTGCCCCAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTTCACCCTATCCCTGAG---------GCTGGGGCTGGACAT------ATTACTATGTTGTACCCAGAACAAAGCTTCAAGCATCAAACTCCTGCACCACCCTCACTAGGACTTGGGCCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCGGACTGAGTTAGACTCTGTGGgtgaggcagtctaaaattttgtgtaaactgagttttatggccctgtgatc Alignment from GeneWise ---------GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG ctcagcagaagcattatccagtagatcagatgtatgcatttttctttcagCTCATGTTTGATGGACGTTTCCACCTGAGGGTTTTTGTACAAGCTGTCTTGACAAATAGCCCTGTAGACATCGCACAAGATGTTACACTGATCTGCCCCAAACCAGATCACACCGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTTCACCCTATCCCTGAG---------GCTGGGGCTGGACAT------ATTACTATGTTGTACCCAGAACAAAGCTTCAAGCATCAAACTCCTGCACCACCCTCACTAGGACTTGGGCCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGCGGACTGAGTTAGACTCTGTGGgtgaggcagtctaaaattttgtgtaaactgagttttatggccctgtgatc #### Zp1_ID3070_2 --> 2 - 0 Original Alignment atGAATTTGGGAACCGGTTTGAGGTGAATAACTGCTCTATCTGCTACCACTGGGTGACCAGTGAGGCCCAGGAGCACACAGTATTCTCAGCTGATTACAAAGGCTGCCACGTTCTAGAGAAG aagatacaccaatggagtggattcccccctgcctccgtttaaatctgcagatGAGTTCGGGAAGTGGTTTGAGGTGAATAACTGCTCTATCTGCTACCATTGGGTGACTAGTGAGGCCCAAGAGCACACAGTATTCTCT---GATTACAAAGGCTGTCATCTTCTAGAG---gtgagtattaggtgatgcagagtcattcttgctatctcctgtacaggttg Alignment from CESAR atGAATTTGGGAACCGGTTTGAGGTGAATAACTGCTCTATCTGCTACCACTGGGTGACCAGTGAGGCCCAGGAGCACACAGTATTCTCAGCTGATTACAAAGGCTGCCACGTTCTAGAGAAG aagatacaccaatggagtggattcccccctgcctccgtttaaatctgcagatGAGTTCGGGAAGTGGTTTGAGGTGAATAACTGCTCTATCTGCTACCATTGGGTGACTAGTGAGGCCCAAGAGCACACAGTATTCTCT---GATTACAAAGGCTGTCATCTTCTAGAG---gtgagtattaggtgatgcagagtcattcttgctatctcctgtacagg Alignment from Spaln_aa2Genome ATGAATTTGGGAACCGGTTTGAGGTGAATAACTGCTCTATCTGCTACCACTGGGTGACCAGTGAGGCCCAGGAGCACACAGTATTCTCAGCTGATTACAAAGGCTGCCACGTTCTAGAG aagatacaccaatggagtggattcccccctgcctccgtttaaatctgcagATGAGTTCGGGAAGTGGTTTGAGGTGAATAACTGCTCTATCTGCTACCATTGGGTGACTAGTGAGGCCCAAGAGCACACAGTATTCTCT---GATTACAAAGGCTGTCATCTTCTAGAGgtgagtattaggtgatgcagagtcattcttgctatctcctgtacaggttg Alignment from Spaln_nt2Genome ATGAATTTGGGAACCGGTTTGAGGTGAATAACTGCTCTATCTGCTACCACTGGGTGACCAGTGAGGCCCAGGAGCACACAGTATTCTCAGCTGATTACAAAGGCTGCCACGTTCTAGAG aagatacaccaatggagtggattcccccctgcctccgtttaaatctgcagATGAGTTCGGGAAGTGGTTTGAGGTGAATAACTGCTCTATCTGCTACCATTGGGTGACTAGTGAGGCCCAAGAGCACACAGTATTCTC---TGATTACAAAGGCTGTCATCTTCTAGAGgtgagtattaggtgatgcagagtcattcttgctatctcctgtacaggttg Alignment from Pairagon ATGAATTTGGGAACCGGTTTGAGGTGAATAACTGCTCTATCTGCTACCACTGGGTGACCAGTGAGGCCCAGGAGCACACAGTATTCTCAGCTGATTACAAAGGCTGCCACGTTCTAGAG aagatacaccaatggagtggattcccccctgcctccgtttaaatctgcagATGAGTTCGGGAAGTGGTTTGAGGTGAATAACTGCTCTATCTGCTACCATTGGGTGACTAGTGAGGCCCAAGAGCACACAGTATTCT---CTGATTACAAAGGCTGTCATCTTCTAGAGgtgagtattaggtgatgcagagtcattcttgctatctcctgtacaggttg Alignment from Exonerate_protein2genome ATGAATTTGGGAACCGGTTTGAGGTGAATAACTGCTCTATCTGCTACCACTGGGTGACCAGTGAGGCCCAGGAGCACACAGTATTCTCAGCTGATTACAAAGGCTGCCACGTTCTAGAGAAG aagatacaccaatggagtggattcccccctgcctccgtttaaatctgcagATGAGTTCGGGAAGTGGTTTGAGGTGAATAACTGCTCTATCTGCTACCATTGGGTGACTAGTGAGGCCCAAGAGCACACAGTATTCTCT---GATTACAAAGGCTGTCATCTTCTAGAG---gtgagtattaggtgatgcagagtcattcttgctatctcctgtacagg Alignment from Exonerate_coding2genome ATGAATTTGGGAACCGGTTTGAGGTGAATAACTGCTCTATCTGCTACCACTGGGTGACCAGTGAGGCCCAGGAGCACACAGTATTCTCAGCTGATTACAAAGGCTGCCACGTTCTAGAGAAG aagatacaccaatggagtggattcccccctgcctccgtttaaatctgcagATGAGTTCGGGAAGTGGTTTGAGGTGAATAACTGCTCTATCTGCTACCATTGGGTGACTAGTGAGGCCCAAGAGCACACAGTATTCTCT---GATTACAAAGGCTGTCATCTTCTAGAG---gtgagtattaggtgatgcagagtcattcttgctatctcctgtacagg Alignment from GeneWise ---GGGAACCGGTTTGAGGTGAATAACTGCTCTATCTGCTACCACTGGGTGACCAGTGAGGCCCAGGAGCACACAGTATTCTCAGCTGATTACAAAGGCTGCCACGTTCTAGAGAAG aagatacaccaatggagtggattcccccctgcctccgtttaaatctgcagatgagTTCGGGAAGTGGTTTGAGGTGAATAACTGCTCTATCTGCTACCATTGGGTGACTAGTGAGGCCCAAGAGCACACAGTATTCTCT---GATTACAAAGGCTGTCATCTTCTA---GAGgtgagtattaggtgatgcagagtcattcttgctatctcctgtacaggttg ####