#### 1700055N04Rik_ID226_4 --> 0 - 1 Original Alignment CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCA------g cagtcttactcctgcaaaactttgtgattttatttatttatttattttagCTCACCAAACTGAGCACGGCCTTCATCTGGAAGGAATCCTTTGGCCTGGTACTTATCATTGCACCATGGAATTCTCATGTTAACCTCATGATCATACCTTCGGTGGGAGCTATTGCTACAGTAACAggtgagcggtgtttcaagtcacaagcccgaccatctctatcttactatctg Alignment from CESAR CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCA------g cagtcttactcctgcaaaactttgtgattttatttatttatttattttagCTCACCAAACTGAGCACGGCCTTCATCTGGAAGGAATCCTTTGGCCTGGTACTTATCATTGCACCATGGAATTCTCATGTTAACCTCATGATCATACCTTCGGTGGGAGCTATTGCTACAGTAACAggtgagcggtgtttcaagtcacaagcccgaccatctctatcttactatctg Alignment from Spaln_aa2Genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCT------GCAG cagtcttactcctgcaaaactttgtgattttatttatttatttattttagCTCACCAAACTGAGCACGGCCTTCATCTGGAAGGAATCCTTTGGCCTGGTACTTATCATTGCACCATGGAATTCTCATGTTAACCTCATGATCATACCTTCGGTGGGAGCTATTGCTACAGTAACAGgtgagcggtgtttcaagtcacaagcccgaccatctctatcttactatctg Alignment from Spaln_nt2Genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG------ cagtcttactcctgcaaaactttgtgattttatttatttatttattttagCTCACCAAACTGAGCACGGCCTTCATCTGGAAGGAATCCTTTGGCCTGGTACTTATCATTGCACCATGGAATTCTCATGTTAACCTCATGATCATACCTTCGGTGGGAGCTATTGCTACAGTAACAGgtgagcggtgtttcaagtcacaagcccgaccatctctatcttactatctg Alignment from Pairagon CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG------ cagtcttactcctgcaaaactttgtgattttatttatttatttattttagCTCACCAAACTGAGCACGGCCTTCATCTGGAAGGAATCCTTTGGCCTGGTACTTATCATTGCACCATGGAATTCTCATGTTAACCTCATGATCATACCTTCGGTGGGAGCTATTGCTACAGTAACAGgtgagcggtgtttcaagtcacaagcccgaccatctctatcttactatctg Alignment from Exonerate_protein2genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCT------GCAG cagtcttactcctgcaaaactttgtgattttatttatttatttattttagCTCACCAAACTGAGCACGGCCTTCATCTGGAAGGAATCCTTTGGCCTGGTACTTATCATTGCACCATGGAATTCTCATGTTAACCTCATGATCATACCTTCGGTGGGAGCTATTGCTACAGTAACAGgtgagcggtgtttcaagtcacaagcccgaccatctctatcttactatctg Alignment from Exonerate_coding2genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCT------GCAG cagtcttactcctgcaaaactttgtgattttatttatttatttattttagCTCACCAAACTGAGCACGGCCTTCATCTGGAAGGAATCCTTTGGCCTGGTACTTATCATTGCACCATGGAATTCTCATGTTAACCTCATGATCATACCTTCGGTGGGAGCTATTGCTACAGTAACAGgtgagcggtgtttcaagtcacaagcccgaccatctctatcttactatctg Alignment from GeneWise CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCA------G cagtcttactcctgcaaaactttgtgattttatttatttatttattttagCTCACCAAACTGAGCACGGCCTTCATCTGGAAGGAATCCTTTGGCCTGGTACTTATCATTGCACCATGGAATTCTCATGTTAACCTCATGATCATACCTTCGGTGGGAGCTATTGCTACAGTAACAGgtgagcggtgtttcaagtcacaagcccgaccatctctatcttactatctg #### 1810009A15Rik_ID2454_3 --> 1 - 1 Original Alignment gTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAA------g actataattggctgagtgagcctttttcttttattttcttcccctttcagg---TGCTCCCGTGCAAACATTACACTATCTGGGAAGAAGCGTAGGAAACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCCATGAAATCTGTGggtatggcttgaaagtggcactggattttcccaactttcttttatgactta Alignment from CESAR gTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAA------g actataattggctgagtgagcctttttcttttattttcttcccctttcaggTGC---TCCCGTGCAAACATTACACTATCTGGGAAGAAGCGTAGGAAACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCCATGAAATCTGTGggtatggcttgaaagtggcactggattttcccaactttcttttatgactac Alignment from Spaln_aa2Genome GTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAA---GTGG actataattggctgagtgagcctttttcttttattttcttcccctttcagGTGCTCC---CGTGCAAACATTACACTATCTGGGAAGAAGCGTAGGAAACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCCATGAAATCTGTGGgtatggcttgaaagtggcactggattttcccaactttcttttatgactta Alignment from Spaln_nt2Genome GTGCTC--GTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAA---GTGG actataattggctgagtgagcctttttcttttattttcttcccctttcagGTGCTCCCGTGCAAACATTACACTATCTGGGAAGAAGCGTAGGAAACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCCATGAAATCTGTGGgtatggcttgaaagtggcactggattttcccaactttcttttatgactta Alignment from Pairagon GTCCAGTGCT--CGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGA---------------------------------------------------------- actataattggctgagtgagcctttttcttttattttcttcccctttcag-----GTGCTCCCGTGCAAACATTACACTATCTGGGAAGAAGCGTAGGAAACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCCATGAAATCTGTGGGTATGGCTTGAAAGTGGCACTGGATTTTCCCAACTTTCTTTTATGACTTA Alignment from Exonerate_protein2genome GTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAG actataattggctgagtgagcctttttcttttattttcttcccctttcagGTGCTCC---CGTGCAAACATTACACTATCTGGGAAGAAGCGTAGGAAACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCCATGAAATctgtgggtatggcttgaaagtggcactggattttcccaactttcttttatgactta Alignment from Exonerate_coding2genome GTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAG actataattggctgagtgagcctttttcttttattttcttcccctttcagGTGCTCC---CGTGCAAACATTACACTATCTGGGAAGAAGCGTAGGAAACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCCATGAAATctgtgggtatggcttgaaagtggcactggattttcccaactttcttttatgactta Alignment from GeneWise GTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAA---GTG- actataattggctgagtgagcctttttcttttattttcttcccctttcagGTGCTCC---CGTGCAAACATTACACTATCTGGGAAGAAGCGTAGGAAACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCCATGAAATCTGTGGgtatggcttgaaagtggcactggattttcccaactttcttttatgactta #### 2010012O05Rik_ID10004_3 --> 0 - 2 Original Alignment AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACca tgagctcacatcaagctctaccagtatgatttgtcccccttgtcctttagAGCTTGAGGAAGATGGCAATAATAACAACGCACTTA------cagtacctgctggcatgcttggccaagtgggcagtggatgaaggtagagggg Alignment from CESAR AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACca tgagctcacatcaagctctaccagtatgatttgtcccccttgtcctttagAGCTTGAGGAAGATGGCAATAATAACAACGCACTTACAGTACctgctggcatgcttggccaagtgggcagtggatgaaggtagagggg Alignment from Spaln_aa2Genome AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACCA tgagctcacatcaagctctaccagtatgatttgtcccccttgtcctttagAGCTTGAGGAAGATGGCAATAATAACAACGCACTTACAGTACCTgctggcatgcttggccaagtgggcagtggatgaaggtagagggg Alignment from Spaln_nt2Genome AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACCA tgagctcacatcaagctctaccagtatgatttgtcccccttgtcctttagAGCTTGAGGAAGATGGCAATAATAACAACGCACTTACAGTACCTgctggcatgcttggccaagtgggcagtggatgaaggtagagggg Alignment from Pairagon AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACCA tgagctcacatcaagctctaccagtatgatttgtcccccttgtcctttagAGCTTGAGGAAGATGGCAATAATAACAACGCACTTACAGTACCTgctggcatgcttggccaagtgggcagtggatgaaggtagagggg Alignment from Exonerate_protein2genome AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACCAGCAAGAAGCTATTCAGAAGAA tgagctcacatcaagctctaccagtatgatttgtcccccttgtcctttagAGCTTGAGGAAGATGGCAATAATAACAACGCACTTACAGTACCTGCTGGCATGCTTGGCCAAGTGggcagtggatgaaggtagagggg Alignment from Exonerate_coding2genome AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACCAGCAAGAAGCTATTCAGAAGAA tgagctcacatcaagctctaccagtatgatttgtcccccttgtcctttagAGCTTGAGGAAGATGGCAATAATAACAACGCACTTACAGTACCTGCTGGCATGCTTGGCCAAGTGggcagtggatgaaggtagagggg Alignment from GeneWise AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACCAGCAAGAAGCTATTCAGAA tgagctcacatcaagctctaccagtatgatttgtcccccttgtcctttagAGCTTGAGGAAGATGGCAATAATAACAACGCACTTACAGTACCTGCTGGCATGCTTGGCCAAgtgggcagtggatgaaggtagagggg #### 9130011E15Rik_ID9675_6 --> 0 - 0 Original Alignment GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG--------------------------- ctgacttatactagaaataaactaggagccactgtgtcttccttctccagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATATTTGAAGCCATTTTACAGCGCGAAAGTGGGGATATTGGTAGTGAAgtaagtttaactggcttatcctttatgtgtagtccttcattcaaaatttt Alignment from CESAR GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG--------------------------- ctgacttatactagaaataaactaggagccactgtgtcttccttctccagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATATTTGAAGCCATTTTACAGCGCGAAAGTGGGGATATTGGTAGTGAAgtaagtttaactggcttatcctttatgtgtagtccttcattcaaaatttt Alignment from Spaln_aa2Genome GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG--------------------------- ctgacttatactagaaataaactaggagccactgtgtcttccttctccagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATATTTGAAGCCATTTTACAGCGCGAAAGTGGGGATATTGGTAGTGAAgtaagtttaactggcttatcctttatgtgtagtccttcattcaaaatttt Alignment from Spaln_nt2Genome GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACA ctgacttatactagaaataaactaggagccactgtgtcttccttctccagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATATTTGAAGCCATTTTACAgcgcgaaagtggggatattggtagtgaagtaagtttaactggcttatcctttatgtgtagtccttcattcaaaatttt Alignment from Pairagon GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG--------------------------- ctgacttatactagaaataaactaggagccactgtgtcttccttctccagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATATTTGAAGCCATTTTACAGCGCGAAAGTGGGGATATTGGTAGTGAAgtaagtttaactggcttatcctttatgtgtagtccttcattcaaaatttt Alignment from Exonerate_protein2genome GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG--- ctgacttatactagaaataaactaggagccactgtgtcttccttctccagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATATTTGAAGCCATTTTACAGCGCgaaagtggggatattggtagtgaagtaagtttaactggcttatcctttatgtgtagtccttcattcaaaatttt Alignment from Exonerate_coding2genome GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG--- ctgacttatactagaaataaactaggagccactgtgtcttccttctccagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATATTTGAAGCCATTTTACAGCGCgaaagtggggatattggtagtgaagtaagtttaactggcttatcctttatgtgtagtccttcattcaaaatttt Alignment from GeneWise GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG--------------------------- ctgacttatactagaaataaactaggagccactgtgtcttccttctccagGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATATTTGAAGCCATTTTACAGCGCGAAAGTGGGGATATTGGTAGTGAAgtaagtttaactggcttatcctttatgtgtagtccttcattcaaaatttt #### AI846148_ID2143_3 --> 2 - 1 Original Alignment ag------------------------------TCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCg gagtagcaagcgctaaagactcccagtctactctgtcctccactttgcagaaAGGGATACTTATTGGTGGAGGGGGACAGCCTCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCGGTGAGGATGCCAGCAGAGATGATAGTGCTTTTAGATTCTCAAGGCAACCCATCTCTGCCCACTAGGCTACGGCCTAGAGGACTCCGACCT---GAATTGCCAagtaaggcaccaagagttcttgagtttggtaggacatcatatagtagggca Alignment from CESAR tcttaatggattgaccctacccaaggattcctgttgcaaaccctttgccag Alignment from Spaln_aa2Genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gagtagcaagcgctaaagactcccagtctactctgtcctccactttgcagaaagggatacttattggtggagggggacagCCTCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCGGTGAGGATGCCAGCAGAGATGATAGTGCTTTTAGATTCTCAAGGCAACCCATCTCTGCCCACTAGGCTACGGCCTAGAGGACTCCGACCT---GAATTGCCAAgtaaggcaccaagagttcttgagtttggtaggacatcatatagtagggca Alignment from Spaln_nt2Genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gagtagcaagcgctaaagactcccagtctactctgtcctccactttgcagaaagggatacttattggtggagggggacagCCTCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCGGTGAGGATGCCAGCAGAGATGATAGTGCTTTTAGATTCTCAAGGCAACCCATCTCTGCCCACTAGGCTACGGCCTAGAGGACTCCGACC---TGAATTGCCAAgtaaggcaccaagagttcttgagtttggtaggacatcatatagtagggca Alignment from Pairagon AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gagtagcaagcgctaaagactcccagtctactctgtcctccactttgcagaaagggatacttattggtggagggggacagCCTCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCGGTGAGGATGCCAGCAGAGATGATAGTGCTTTTAGATTCTCAAGGCAACCCATCTCTGCCCACTAGGCTACGGCCTAGAGGACTCCGACC---TGAATTGCCAAgtaaggcaccaagagttcttgagtttggtaggacatcatatagtagggca Alignment from Exonerate_protein2genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gagtagcaagcgctaaagactcccagtctactctgtcctccactttgcagaaagggatacttattggtggagggggacagCCTCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCGGTGAGGATGCCAGCAGAGATGATAGTGCTTTTAGATTCTCAAGGCAACCCATCTCTGCCCACTAGGCTACGGCCTAGAGGACTCCGACCT---GAATTGCCAAgtaaggcaccaagagttcttgagtttggtaggacatcatatagtagggca Alignment from Exonerate_coding2genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gagtagcaagcgctaaagactcccagtctactctgtcctccactttgcagaaagggatacttattggtggagggggacagCCTCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCGGTGAGGATGCCAGCAGAGATGATAGTGCTTTTAGATTCTCAAGGCAACCCATCTCTGCCCACTAGGCTACGGCCTAGAGGACTCCGACCT---GAATTGCCAAgtaaggcaccaagagttcttgagtttggtaggacatcatatagtagggca Alignment from GeneWise AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gagtagcaagcgctaaagactcccagtctactctgtcctccactttgcagaaagggatacttattggtggagggggacagCCTCTGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCGGTGAGGATGCCAGCAGAGATGATAGTGCTTTTAGATTCTCAAGGCAACCCATCTCTGCCCACTAGGCTACGGCCTAGAGGACTCCGACCT---GAATTGCCAAgtaaggcaccaagagttcttgagtttggtaggacatcatatagtagggca #### Abcc2_ID8838_22 --> 0 - 1 Original Alignment GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAg ttgtggacctatagtgcttgattatatttctcctctgcgtctgtccccag---AAGTTGTCTATTTACTTGAAGTATCTGCAGGCAGTGGGATGGTGGGCCCTGCTCTTCATTATCATCTTCTATGTACTGAACTATGTGGCCTTCATTGGCACTAATCTATGGTTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGGGATATGAGAATCAGAGTATTTGGGGCTCTGGGTATAGCACAAggtaggaatgtcaagaccacaactcttaaagctcagatacatcttgtcata Alignment from CESAR GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAg tcattgtggacctatagtgcttgatatttctcctctgcgtctgtccccag---AAGTTGTCTATTTACTTGAAGTATCTGCAGGCAGTGGGATGGTGGGCCCTGCTCTTCATTATCATCTTCTATGTACTGAACTATGTGGCCTTCATTGGCACTAATCTATGGTTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGGGATATGAGAATCAGAGTATTTGGGGCTCTGGGTATAGCACAAggtaggaatgtcaagaccacaactcttaaagctcagatacatcttgtcata Alignment from Spaln_aa2Genome GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG ttgtggacctatagtgcttgattatatttctcctctgcgtctgtccccag---AAGTTGTCTATTTACTTGAAGTATCTGCAGGCAGTGGGATGGTGGGCCCTGCTCTTCATTATCATCTTCTATGTACTGAACTATGTGGCCTTCATTGGCACTAATCTATGGTTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGGGATATGAGAATCAGAGTATTTGGGGCTCTGGGTATAGCACAAGgtaggaatgtcaagaccacaactcttaaagctcagatacatcttgtcata Alignment from Spaln_nt2Genome AAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG ttgtggacctatagtgcttgattatatttctcctctgcgtctgtccccagAAGTTGTCTATTTACTTGAAGTATCTGCAGGCAGTGGGATGGTGGGCCCTGCTCTTCATTATCATCTTCTATGTACTGAACTATGTGGCCTTCATTGGCACTAATCTATGGTTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGGGATATGAGAATCAGAGTATTTGGGGCTCTGGGTATAGCACAAGgtaggaatgtcaagaccacaactcttaaagctcagatacatcttgtcata Alignment from Pairagon GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG ttgtggacctatagtgcttgattatatttctcctctgcgtctgtccccag---AAGTTGTCTATTTACTTGAAGTATCTGCAGGCAGTGGGATGGTGGGCCCTGCTCTTCATTATCATCTTCTATGTACTGAACTATGTGGCCTTCATTGGCACTAATCTATGGTTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGGGATATGAGAATCAGAGTATTTGGGGCTCTGGGTATAGCACAAGgtaggaatgtcaagaccacaactcttaaagctcagatacatcttgtcata Alignment from Exonerate_protein2genome AAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG ttgtggacctatagtgcttgattatatttctcctctgcgtctgtccccagAAGTTGTCTATTTACTTGAAGTATCTGCAGGCAGTGGGATGGTGGGCCCTGCTCTTCATTATCATCTTCTATGTACTGAACTATGTGGCCTTCATTGGCACTAATCTATGGTTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGGGATATGAGAATCAGAGTATTTGGGGCTCTGGGTATAGCACAAGgtaggaatgtcaagaccacaactcttaaagctcagatacatcttgtcata Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ---GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTCTTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG ttgtggacctatagtgcttgattatatttctcctctgcgtctgtccccagAAGTTG------TCTATTTACTTGAAGTATCTGCAGGCAGTGGGATGGTGGGCCCTGCTCTTCATTATCATCTTCTATGTACTGAACTATGTGGCCTTCATTGGCACTAATCTATGGTTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATCCCAGAGGGATATGAGAATCAGAGTATTTGGGGCTCTGGGTATAGCACAAGgtaggaatgtcaagaccacaactcttaaagctcagatacatcttgtcata #### Acsl5_ID11602_7 --> 0 - 0 Original Alignment AATATAGGCAAAGAGAACTTCAAAAAACCAGTG--------- ttatccagctttaatgattctttttggtatgccctttccctcactcccagAATATAGGCAAAGAGAACTTCAAGAAACCAGTGAAACTGCTGgtaaggcatatttctgctaattatgagctgcttctgcctgtgtgattcac Alignment from CESAR AATATAGGCAAAGAGAACTTCAAAAAACCAGTG--------- ttatccagctttaatgattctttttggtatgccctttccctcactcccagAATATAGGCAAAGAGAACTTCAAGAAACCAGTGAAACTGCTGgtaaggcatatttctgctaattatgagctgcttctgcctgtgtgattcac Alignment from Spaln_aa2Genome AATATAGGCAAAGAGAACTTCAAAAAACCAGTG--------- ttatccagctttaatgattctttttggtatgccctttccctcactcccagAATATAGGCAAAGAGAACTTCAAGAAACCAGTGAAACTGCTGgtaaggcatatttctgctaattatgagctgcttctgcctgtgtgattcac Alignment from Spaln_nt2Genome AATATAGGCAAAGAGAACTTCAAAAAACCAGTG--------- ttatccagctttaatgattctttttggtatgccctttccctcactcccagAATATAGGCAAAGAGAACTTCAAGAAACCAGTGAAACTGCTGgtaaggcatatttctgctaattatgagctgcttctgcctgtgtgattcac Alignment from Pairagon AATATAGGCAAAGAGAACTTCAAAAAACCAGTG--------- ttatccagctttaatgattctttttggtatgccctttccctcactcccagAATATAGGCAAAGAGAACTTCAAGAAACCAGTGAAACTGCTGgtaaggcatatttctgctaattatgagctgcttctgcctgtgtgattcac Alignment from Exonerate_protein2genome AATATAGGCAAAGAGAACTTCAAAAAACCAGTG ttatccagctttaatgattctttttggtatgccctttccctcactcccagAATATAGGCAAAGAGAACTTCAAGAAACCAGTGaaactgctggtaaggcatatttctgctaattatgagctgcttctgcctgtgtgattcac Alignment from Exonerate_coding2genome ttatccagctttaatgattctttttggtatgccctttccctcactcccagaatataggcaaagagaacttcaagaaaccagtgaaactgctggtaaggcatatttctgctaattatgagctgcttctgcctgtgtgattcac Alignment from GeneWise ttatccagctttaatgattctttttggtatgccctttccctcactcccagaatataggcaaagagaacttcaagaaaccagtgaaactgctggtaaggcatatttctgctaattatgagctgcttctgcctgtgtgattcac #### Acsl5_ID11614_19 --> 0 - 0 Original Alignment TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aagttacaagccttgggtattgtctgttctgccctcctttctctgtccagTGCGTAAAAGAGGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAG------------------------gtaagcatgtggtatgctttttgcacacgaggatccgctatcccgaatag Alignment from CESAR TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aagttacaagccttgggtattgtctgttctgccctcctttctctgtccagTGCGTAAAAGAGGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAG------------------------gtaagcatgtggtatgctttttgcac Alignment from Spaln_aa2Genome TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAA aagttacaagccttgggtattgtctgttctgccctcctttctctgtccagTGCGTAAAAGAGGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAGGTAAGCATGTGgtatgctttttgcacacgaggatccgctatcccgaatag Alignment from Spaln_nt2Genome TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAG aagttacaagccttgggtattgtctgttctgccctcctttctctgtccagTGCGTAAAAGAGGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAGgtaagcatgtggtatgctttttgcacacgaggatccgctatcccgaatag Alignment from Pairagon TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAG aagttacaagccttgggtattgtctgttctgccctcctttctctgtccagTGCGTAAAAGAGGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAGgtaagcatgtggtatgctttttgcacacgaggatccgctatcccgaatag Alignment from Exonerate_protein2genome TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAA aagttacaagccttgggtattgtctgttctgccctcctttctctgtccagTGCGTAAAAGAGGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAGGTAAGCATGTGgtatgctttttgcacacgaggatccgctatcccgaatag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAG aagttacaagccttgggtattgtctgttctgccctcctttctctgtccagTGCGTAAAAGAGGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAGgtaagcatgtggtatgctttttgcacacgaggatccgctatcccgaatag #### Actn3_ID692_18 --> 0 - 0 Original Alignment ------CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGG caagttatgggtttagctctatatgaagctgagttgtccccctctggcagAGCTGCCACATTCGTGTGGGCTGGGAGCAACTACTTACCTCCATTGCCCACACCATCAATGAAGTGGATAACCAGGTACTTACTAGAGATGCCAAGGGCCTAAGCCAGGAGCAACTCAATGAATTCCGTGCCTCCTTCAATTACTTTGACCGGgtaaaggacttcacctgaattatgtggatctgctttctccacagAAGCGG Alignment from CESAR ------CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGG caagttatgggtttagctctatatgaagctgagttgtccccctctggcagAGCTGCCACATTCGTGTGGGCTGGGAGCAACTACTTACCTCCATTGCCCACACCATCAATGAAGTGGATAACCAGGTACTTACTAGAGATGCCAAGGGCCTAAGCCAGGAGCAACTCAATGAATTCCGTGCCTCCTTCAATTACTTTGACCGGgtaaaggacttcacctgaattaaaaatgttgtctgtgttttcagAAGCGG Alignment from Spaln_aa2Genome CACATTCGT------GTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGG caagttatgggtttagctctatatgaagctgagttgtccccctctggcagAGCTGCCACATTCGTGTGGGCTGGGAGCAACTACTTACCTCCATTGCCCACACCATCAATGAAGTGGATAACCAGGTACTTACTAGAGATGCCAAGGGCCTAAGCCAGGAGCAACTCAATGAATTCCGTGCCTCCTTCAATTACTTTGACCGGgtaaaggacttcacctgaattatgtggatctgctttctccacagAAGCGG Alignment from Spaln_nt2Genome CACATTCGT------GTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGG caagttatgggtttagctctatatgaagctgagttgtccccctctggcagAGCTGCCACATTCGTGTGGGCTGGGAGCAACTACTTACCTCCATTGCCCACACCATCAATGAAGTGGATAACCAGGTACTTACTAGAGATGCCAAGGGCCTAAGCCAGGAGCAACTCAATGAATTCCGTGCCTCCTTCAATTACTTTGACCGGgtaaaggacttcacctgaattatgtggatctgctttctccacagAAGCGG Alignment from Pairagon ------CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGG caagttatgggtttagctctatatgaagctgagttgtccccctctggcagAGCTGCCACATTCGTGTGGGCTGGGAGCAACTACTTACCTCCATTGCCCACACCATCAATGAAGTGGATAACCAGGTACTTACTAGAGATGCCAAGGGCCTAAGCCAGGAGCAACTCAATGAATTCCGTGCCTCCTTCAATTACTTTGACCGGgtaaaggacttcacctgaattatgtggatctgctttctccacagAAGCGG Alignment from Exonerate_protein2genome ------CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGG caagttatgggtttagctctatatgaagctgagttgtccccctctggcagAGCTGCCACATTCGTGTGGGCTGGGAGCAACTACTTACCTCCATTGCCCACACCATCAATGAAGTGGATAACCAGGTACTTACTAGAGATGCCAAGGGCCTAAGCCAGGAGCAACTCAATGAATTCCGTGCCTCCTTCAATTACTTTGACCGGgtaaaggacttcacctgaattatgtggatctgctttctccacagAAGCGG Alignment from Exonerate_coding2genome ------CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGG caagttatgggtttagctctatatgaagctgagttgtccccctctggcagAGCTGCCACATTCGTGTGGGCTGGGAGCAACTACTTACCTCCATTGCCCACACCATCAATGAAGTGGATAACCAGGTACTTACTAGAGATGCCAAGGGCCTAAGCCAGGAGCAACTCAATGAATTCCGTGCCTCCTTCAATTACTTTGACCGGgtaaaggacttcacctgaattatgtggatctgctttctccacagAAGCGG Alignment from GeneWise ------CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG AAGCGG caagttatgggtttagctctatatgaagctgagttgtccccctctggcagAGCTGCCACATTCGTGTGGGCTGGGAGCAACTACTTACCTCCATTGCCCACACCATCAATGAAGTGGATAACCAGGTACTTACTAGAGATGCCAAGGGCCTAAGCCAGGAGCAACTCAATGAATTCCGTGCCTCCTTCAATTACTTTGACCGGgtaaaggacttcacctgaattatgtggatctgctttctccacagAAGCGG #### Actn3_ID697_13 --> 1 - 0 Original Alignment tGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG------------------------------ cataacacagccacataccttgagtctgggctatgctttgctacccttagcGAGCTTGACTACCATGAGGCAACTTCTGTGAACAGTCGGTGCCAAGCTATATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCATTAGAGCAGCTTCAAAAGATGATCCATGATATTAAGgtaagcggtagtccaggaaggaggtaaggccaataatgtctgcagtctga Alignment from CESAR tGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG------------------------------ cataacacagccacataccttgagtctgggctatgctttgctacccttagcGAGCTTGACTACCATGAGGCAACTTCTGTGAACAGTCGGTGCCAAGCTATATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCATTAGAGCAGCTTCAAAAGATGATCCATGATATTAAGgtaagcggtagtccaggaaggaggtaaggccaataatgtctgcagtctga Alignment from Spaln_aa2Genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGAC cataacacagccacataccttgagtctgggctatgctttgctacccttagCGAGCTTGACTACCATGAGGCAACTTCTGTGAACAGTCGGTGCCAAGCTATATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATgcattagagcagcttcaaaagatgatccatgatattaaggtaagcggtagtccaggaaggaggtaaggccaataatgtctgcagtctga Alignment from Spaln_nt2Genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGA cataacacagccacataccttgagtctgggctatgctttgctacccttagCGAGCTTGACTACCATGAGGCAACTTCTGTGAACAGTCGGTGCCAAGCTATATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCATTAGAgcagcttcaaaagatgatccatgatattaaggtaagcggtagtccaggaaggaggtaaggccaataatgtctgcagtctga Alignment from Pairagon TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG------------------------------ cataacacagccacataccttgagtctgggctatgctttgctacccttagCGAGCTTGACTACCATGAGGCAACTTCTGTGAACAGTCGGTGCCAAGCTATATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCATTAGAGCAGCTTCAAAAGATGATCCATGATATTAAGgtaagcggtagtccaggaaggaggtaaggccaataatgtctgcagtctga Alignment from Exonerate_protein2genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataacacagccacataccttgagtctgggctatgctttgctacccttagCGAGCTTGACTACCATGAGGCAACTTCTGTGAACAGTCGGTGCCAAGCTATATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCATTAGAGcagcttcaaaagatgatccatgatattaaggtaagcggtagtccaggaaggaggtaaggccaataatgtctgcagtctga Alignment from Exonerate_coding2genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cataacacagccacataccttgagtctgggctatgctttgctacccttagCGAGCTTGACTACCATGAGGCAACTTCTGTGAACAGTCGGTGCCAAGCTATATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCATTAGAGcagcttcaaaagatgatccatgatattaaggtaagcggtagtccaggaaggaggtaaggccaataatgtctgcagtctga Alignment from GeneWise TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAGAGGATGGAGAAG------------------ cataacacagccacataccttgagtctgggctatgctttgctacccttagCGAGCTTGACTACCATGAGGCAACTTCTGTGAACAGTCGGTGCCAAGCTATATCTGACCAGTGGGATAACCTGGGTACACTTACCCAGAAGAGAAGAGATGCATTAGAGCAGCTTCAAAAGATGATCCATGATATTAAGgtaagcggtagtccaggaaggaggtaaggccaataatgtctgcagtctga #### Actn3_ID700_10 --> 0 - 0 Original Alignment CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG--------- tcagtataagtgaggtggggcttggaaatttttttttcttttccttcaagCTGTTAGAGTGGATTTGCCGGACAGTTCTATGGCTAGAAAACCGTGTAGCTGAACCTAGCATGAGTGCAACACAGCACAAGCTGGAAGACTTCCAAGACTATCAACACCTACAAAAGCCACCCTGTTTCCAGGAGACATGCCAGCTAGAGATCAACTTCAATACACTGCAGGCTAAGTCTCGTCTGAGCCACCAACCTGCATTCATGCCCTCTGAAGGCAAGTTAGTTTCCCCGCTGCTCgtgggtccaacaaggtatcccgcatgttccagctgtgcctacatgcccac Alignment from CESAR CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG--------- tcagtataagtgaggtggggcttggaaatttttttttcttttccttcaagCTGTTAGAGTGGATTTGCCGGACAGTTCTATGGCTAGAAAACCGTGTAGCTGAACCTAGCATGAGTGCAACACAGCACAAGCTGGAAGACTTCCAAGACTATCAACACCTACAAAAGCCACCCTGTTTCCAGGAGACATGCCAGCTAGAGATCAACTTCAATACACTGCAGGCTAAGTCTCGTCTGAGCCACCAACCTGCATTCATGCCCTCTGAAGGCAAGTTAGTTTCCCCGCTGCTCgtgggtccaacaaggtatcccgcatgttccagctgtgcctacatgcccac Alignment from Spaln_aa2Genome CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG--------- tcagtataagtgaggtggggcttggaaatttttttttcttttccttcaagCTGTTAGAGTGGATTTGCCGGACAGTTCTATGGCTAGAAAACCGTGTAGCTGAACCTAGCATGAGTGCAACACAGCACAAGCTGGAAGACTTCCAAGACTATCAACACCTACAAAAGCCACCCTGTTTCCAGGAGACATGCCAGCTAGAGATCAACTTCAATACACTGCAGGCTAAGTCTCGTCTGAGCCACCAACCTGCATTCATGCCCTCTGAAGGCAAGTTAGTTTCCCCGCTGCTCgtgggtccaacaaggtatcccgcatgttccagctgtgcctacatgcccac Alignment from Spaln_nt2Genome CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG----- tcagtataagtgaggtggggcttggaaatttttttttcttttccttcaagCTGTTAGAGTGGATTTGCCGGACAGTTCTATGGCTAGAAAACCGTGTAGCTGAACCTAGCATGAGTGCAACACAGCACAAGCTGGAAGACTTCCAAGACTATCAACACCTACAAAAGCCACCCTGTTTCCAGGAGACATGCCAGCTAGAGATCAACTTCAATACACTGCAGGCTAAGTCTCGTCTGAGCCACCAACCTGCATTCATGCCCTCTGAAGGCAAGTTAGTTTCCCCGCTgctcgtgggtccaacaaggtatcccgcatgttccagctgtgcctacatgcccac Alignment from Pairagon CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG--------- tcagtataagtgaggtggggcttggaaatttttttttcttttccttcaagCTGTTAGAGTGGATTTGCCGGACAGTTCTATGGCTAGAAAACCGTGTAGCTGAACCTAGCATGAGTGCAACACAGCACAAGCTGGAAGACTTCCAAGACTATCAACACCTACAAAAGCCACCCTGTTTCCAGGAGACATGCCAGCTAGAGATCAACTTCAATACACTGCAGGCTAAGTCTCGTCTGAGCCACCAACCTGCATTCATGCCCTCTGAAGGCAAGTTAGTTTCCCCGCTGCTCgtgggtccaacaaggtatcccgcatgttccagctgtgcctacatgcccac Alignment from Exonerate_protein2genome CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCGGAC tcagtataagtgaggtggggcttggaaatttttttttcttttccttcaagCTGTTAGAGTGGATTTGCCGGACAGTTCTATGGCTAGAAAACCGTGTAGCTGAACCTAGCATGAGTGCAACACAGCACAAGCTGGAAGACTTCCAAGACTATCAACACCTACAAAAGCCACCCTGTTTCCAGGAGACATGCCAGCTAGAGATCAACTTCAATACACTGCAGGCTAAGTCTCGTCTGAGCCACCAACCTGCATTCATGCCCTCTGAAGGCAAGTTAGTTTCCCCGctgctcgtgggtccaacaaggtatcccgcatgttccagctgtgcctacatgcccac Alignment from Exonerate_coding2genome CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCGGAC tcagtataagtgaggtggggcttggaaatttttttttcttttccttcaagCTGTTAGAGTGGATTTGCCGGACAGTTCTATGGCTAGAAAACCGTGTAGCTGAACCTAGCATGAGTGCAACACAGCACAAGCTGGAAGACTTCCAAGACTATCAACACCTACAAAAGCCACCCTGTTTCCAGGAGACATGCCAGCTAGAGATCAACTTCAATACACTGCAGGCTAAGTCTCGTCTGAGCCACCAACCTGCATTCATGCCCTCTGAAGGCAAGTTAGTTTCCCCGctgctcgtgggtccaacaaggtatcccgcatgttccagctgtgcctacatgcccac Alignment from GeneWise CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG--------- tcagtataagtgaggtggggcttggaaatttttttttcttttccttcaagCTGTTAGAGTGGATTTGCCGGACAGTTCTATGGCTAGAAAACCGTGTAGCTGAACCTAGCATGAGTGCAACACAGCACAAGCTGGAAGACTTCCAAGACTATCAACACCTACAAAAGCCACCCTGTTTCCAGGAGACATGCCAGCTAGAGATCAACTTCAATACACTGCAGGCTAAGTCTCGTCTGAGCCACCAACCTGCATTCATGCCCTCTGAAGGCAAGTTAGTTTCCCCGCTGCTCgtgggtccaacaaggtatcccgcatgttccagctgtgcctacatgcccac #### Actn3_ID707_3 --> 2 - 1 Original Alignment gaGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAA---------------g tattcttcaactcatgaccttcaacatgcctcattgtctccttgctgcaggtGCAAGACTGCCTAGGCCTGATAAAGGCAAGATGTGCTTTCACAAAATTGCTAATGTAAATAACGCCCTAGACTTCATAGCTACCAAAGGTGTGAAGCTGGTTGCGATTAGTGCTGAAATCTCCTATCATGCTggtatgcgagggtggttaaaggacaccagtggtggggaggcaagatgttac Alignment from CESAR gaGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAA---------------g tattcttcaactcatgaccttcaacatgcctcattgtctccttgctgcaggtGCAAGACTGCCTAGGCCTGATAAAGGCAAGATGTGCTTTCACAAAATTGCTAATGTAAATAACGCCCTAGACTTCATAGCTACCAAAGGTGTGAAGCTGGTTGCGATTAGTGCTGAAATCTCCTATCATGCTggtatgcgagggtggttaaaggacaccagtggtggggaggcaagatgttac Alignment from Spaln_aa2Genome GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAA---------------G tattcttcaactcatgaccttcaacatgcctcattgtctccttgctgcagGTGCAAGACTGCCTAGGCCTGATAAAGGCAAGATGTGCTTTCACAAAATTGCTAATGTAAATAACGCCCTAGACTTCATAGCTACCAAAGGTGTGAAGCTGGTTGCGATTAGTGCTGAAATCTCCTATCATGCTGgtatgcgagggtggttaaaggacaccagtggtggggaggcaagatgttac Alignment from Spaln_nt2Genome GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTA tattcttcaactcatgaccttcaacatgcctcattgtctccttgctgcagGTGCAAGACTGCCTAGGCCTGATAAAGGCAAGATGTGCTTTCACAAAATTGCTAATGTAAATAACGCCCTAGACTTCATAGCTACCAAAGGTGTGAAGCTGgttgcgattagtgctgaaatctcctatcatgctggtatgcgagggtggttaaaggacaccagtggtggggaggcaagatgttac Alignment from Pairagon GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAA---------------G tattcttcaactcatgaccttcaacatgcctcattgtctccttgctgcagGTGCAAGACTGCCTAGGCCTGATAAAGGCAAGATGTGCTTTCACAAAATTGCTAATGTAAATAACGCCCTAGACTTCATAGCTACCAAAGGTGTGAAGCTGGTTGCGATTAGTGCTGAAATCTCCTATCATGCTGgtatgcgagggtggttaaaggacaccagtggtggggaggcaagatgttac Alignment from Exonerate_protein2genome GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTG tattcttcaactcatgaccttcaacatgcctcattgtctccttgctgcagGTGCAAGACTGCCTAGGCCTGATAAAGGCAAGATGTGCTTTCACAAAATTGCTAATGTAAATAACGCCCTAGACTTCATAGCTACCAAAGGTGTGAAGCTGGTTgcgattagtgctgaaatctcctatcatgctggtatgcgagggtggttaaaggacaccagtggtggggaggcaagatgttac Alignment from Exonerate_coding2genome GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTG tattcttcaactcatgaccttcaacatgcctcattgtctccttgctgcagGTGCAAGACTGCCTAGGCCTGATAAAGGCAAGATGTGCTTTCACAAAATTGCTAATGTAAATAACGCCCTAGACTTCATAGCTACCAAAGGTGTGAAGCTGGTTgcgattagtgctgaaatctcctatcatgctggtatgcgagggtggttaaaggacaccagtggtggggaggcaagatgttac Alignment from GeneWise GAGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATC- tattcttcaactcatgaccttcaacatgcctcattgtctccttgctgcagGTGCAAGACTGCCTAGGCCTGATAAAGGCAAGATGTGCTTTCACAAAATTGCTAATGTAAATAACGCCCTAGACTTCATAGCTACCAAAGGTGTGAAGCTGGTTGCGATTAgtgctgaaatctcctatcatgctggtatgcgagggtggttaaaggacaccagtggtggggaggcaagatgttac #### Adrbk1_ID477_18 --> 2 - 0 Original Alignment acTATGCCCTGGGTAAGGACTGCATCGTGCATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCCAACCGGCTCGAGTGGAGGGGTGAAGGCGAGGCTCCG aaggcaagcatacagtgattttgtcatattccttactcttttttttctagacTATGCCTTAGATAAGGACTGCATAGTAGATGGTTATATGTCTGAGATGGGCAACCCTTTCCTGACCCAGTGGCAACAGAGATACTTCTACTTGTTCCCCAACCGGCTTGAATGGAGGGGTGAGGGTGAGGCT---gtgaggagtgaaaggacaggcagagcgttaatgaccatctatgtctctta Alignment from CESAR acTATGCCCTGGGTAAGGACTGCATCGTGCATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCCAACCGGCTCGAGTGGAGGGGTGAAGGCGAGGCTCCG aaggcaagcatacagtgattttgtcatattccttactcttttttttctagacTATGCCTTAGATAAGGACTGCATAGTAGATGGTTATATGTCTGAGATGGGCAACCCTTTCCTGACCCAGTGGCAACAGAGATACTTCTACTTGTTCCCCAACCGGCTTGAATGGAGGGGTGAGGGTGAGGCT---gtgaggagtgaaaggacaggcagagcgttaatgaccatctatgtctc Alignment from Spaln_aa2Genome ACTATGCCCTGGGTAAGGACTGCATCGTGCATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCCAACCGGCTCGAGTGGAGGGGTGAAGGCGAGGCT aaggcaagcatacagtgattttgtcatattccttactcttttttttctagACTATGCCTTAGATAAGGACTGCATAGTAGATGGTTATATGTCTGAGATGGGCAACCCTTTCCTGACCCAGTGGCAACAGAGATACTTCTACTTGTTCCCCAACCGGCTTGAATGGAGGGGTGAGGGTGAGGCTgtgaggagtgaaaggacaggcagagcgttaatgaccatctatgtctctta Alignment from Spaln_nt2Genome ACTATGCCCTGGGTAAGGACTGCATCGTGCATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCCAACCGGCTCGAGTGGAGGGGTGAAGGCGAGGCT aaggcaagcatacagtgattttgtcatattccttactcttttttttctagACTATGCCTTAGATAAGGACTGCATAGTAGATGGTTATATGTCTGAGATGGGCAACCCTTTCCTGACCCAGTGGCAACAGAGATACTTCTACTTGTTCCCCAACCGGCTTGAATGGAGGGGTGAGGGTGAGGCTgtgaggagtgaaaggacaggcagagcgttaatgaccatctatgtctctta Alignment from Pairagon ACTATGCCCTGGGTAAGGACTGCATCGTGCATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCCAACCGGCTCGAGTGGAGGGGTGAAGGCGAGGCT aaggcaagcatacagtgattttgtcatattccttactcttttttttctagACTATGCCTTAGATAAGGACTGCATAGTAGATGGTTATATGTCTGAGATGGGCAACCCTTTCCTGACCCAGTGGCAACAGAGATACTTCTACTTGTTCCCCAACCGGCTTGAATGGAGGGGTGAGGGTGAGGCTgtgaggagtgaaaggacaggcagagcgttaatgaccatctatgtctctta Alignment from Exonerate_protein2genome ACTATGCCCTGGGTAAGGACTGCATCGTGCATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCCAACCGGCTCGAGTGGAGGGGTGAAGGCGAGGCTCCG aaggcaagcatacagtgattttgtcatattccttactcttttttttctagACTATGCCTTAGATAAGGACTGCATAGTAGATGGTTATATGTCTGAGATGGGCAACCCTTTCCTGACCCAGTGGCAACAGAGATACTTCTACTTGTTCCCCAACCGGCTTGAATGGAGGGGTGAGGGTGAGGCTGTGaggagtgaaaggacaggcagagcgttaatgaccatctatgtctctta Alignment from Exonerate_coding2genome ACTATGCCCTGGGTAAGGACTGCATCGTGCATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCCAACCGGCTCGAGTGGAGGGGTGAAGGCGAGGCTCCG aaggcaagcatacagtgattttgtcatattccttactcttttttttctagACTATGCCTTAGATAAGGACTGCATAGTAGATGGTTATATGTCTGAGATGGGCAACCCTTTCCTGACCCAGTGGCAACAGAGATACTTCTACTTGTTCCCCAACCGGCTTGAATGGAGGGGTGAGGGTGAGGCTGTGaggagtgaaaggacaggcagagcgttaatgaccatctatgtctctta Alignment from GeneWise ACTATGCCCTGGGTAAGGACTGCATCGTGCATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCCAACCGGCTCGAGTGGAGGGGTGAAGGCGAGGCTCCG aaggcaagcatacagtgattttgtcatattccttactcttttttttctagACTATGCCTTAGATAAGGACTGCATAGTAGATGGTTATATGTCTGAGATGGGCAACCCTTTCCTGACCCAGTGGCAACAGAGATACTTCTACTTGTTCCCCAACCGGCTTGAATGGAGGGGTGAGGGTGAG---GCTgtgaggagtgaaaggacaggcagagcgttaatgaccatctatgtctctta #### Adrbk1_ID479_16 --> 0 - 0 Original Alignment TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG--------- tctctggtgccactctcttctacaatgaaattttgcttatgtatttgcagTACCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGGTTTATATGgtgggcaacccgcatagctcaggatcctgtttctggatcctgaagctgaa Alignment from CESAR TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG tctctggtgccactctcttctacaatgaaattttgcttatgtatttgcagTACCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGgtttatatggtgggcaacccgcatagctcaggatcctgtttctggatcctgaagctgaa Alignment from Spaln_aa2Genome TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG tctctggtgccactctcttctacaatgaaattttgcttatgtatttgcagTACCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGgtttatatggtgggcaacccgcatagctcaggatcctgtttctggatcctgaagctgaa Alignment from Spaln_nt2Genome TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG tctctggtgccactctcttctacaatgaaattttgcttatgtatttgcagTACCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGgtttatatggtgggcaacccgcatagctcaggatcctgtttctggatcctgaagctgaa Alignment from Pairagon TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG tctctggtgccactctcttctacaatgaaattttgcttatgtatttgcagTACCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGgtttatatggtgggcaacccgcatagctcaggatcctgtttctggatcctgaagctgaa Alignment from Exonerate_protein2genome TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG tctctggtgccactctcttctacaatgaaattttgcttatgtatttgcagTACCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGgtttatatggtgggcaacccgcatagctcaggatcctgtttctggatcctgaagctgaa Alignment from Exonerate_coding2genome TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG tctctggtgccactctcttctacaatgaaattttgcttatgtatttgcagTACCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGgtttatatggtgggcaacccgcatagctcaggatcctgtttctggatcctgaagctgaa Alignment from GeneWise TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG tctctggtgccactctcttctacaatgaaattttgcttatgtatttgcagTACCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGgtttatatggtgggcaacccgcatagctcaggatcctgtttctggatcctgaagctgaa #### Adrbk1_ID482_13 --> 1 - 0 Original Alignment aCACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG tcagtctagtcctgttcgcccatccaccttctttcaccatctctctccagc---AGTCACTTCCGGCAGCACAAGACAAAAGATACACATGACATTGACCGCATGACACTTACTATGgtaagactaataggagcattgagaactatgtcacacataatcgtaaatcc Alignment from CESAR aCACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG ctatcagtctagtcctgttcgcccaaccttctttcaccatctctctccagc---AGTCACTTCCGGCAGCACAAGACAAAAGATACACATGACATTGACCGCATGACACTTACTATGgtaagactaataggagcattgagaactatgtcacacataatcgtaaatcc Alignment from Spaln_aa2Genome ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG tcagtctagtcctgttcgcccatccaccttctttcaccatctctctccagcagTCAC------TTCCGGCAGCACAAGACAAAAGATACACATGACATTGACCGCATGACACTTACTATGgtaagactaataggagcattgagaactatgtcacacataatcgtaaatcc Alignment from Spaln_nt2Genome ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG tcagtctagtcctgttcgcccatccaccttctttcaccatctctctccag---CAGTCACTTCCGGCAGCACAAGACAAAAGATACACATGACATTGACCGCATGACACTTACTATGgtaagactaataggagcattgagaactatgtcacacataatcgtaaatcc Alignment from Pairagon ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG tcagtctagtcctgttcgcccatccaccttctttcaccatctctctccag---CAGTCACTTCCGGCAGCACAAGACAAAAGATACACATGACATTGACCGCATGACACTTACTATGgtaagactaataggagcattgagaactatgtcacacataatcgtaaatcc Alignment from Exonerate_protein2genome ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG tcagtctagtcctgttcgcccatccaccttctttcaccatctctctccagC---AGTCACTTCCGGCAGCACAAGACAAAAGATACACATGACATTGACCGCATGACACTTACTATGgtaagactaataggagcattgagaactatgtcacacataatcgtaaatcc Alignment from Exonerate_coding2genome ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG tcagtctagtcctgttcgcccatccaccttctttcaccatctctctccagC---AGTCACTTCCGGCAGCACAAGACAAAAGATACACATGACATTGACCGCATGACACTTACTATGgtaagactaataggagcattgagaactatgtcacacataatcgtaaatcc Alignment from GeneWise ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG tcagtctagtcctgttcgcccatccaccttctttcaccatctctctccagcagTCAC------TTCCGGCAGCACAAGACAAAAGATACACATGACATTGACCGCATGACACTTACTATGgtaagactaataggagcattgagaactatgtcacacataatcgtaaatcc #### Adrbk1_ID483_12 --> 1 - 2 Original Alignment GTgt gGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGgg GGgtgtaagtacattcacttcatgttgtaggtaacctctgttctcctcagg------CATGGGTACATAGCTCCCAAGGTACTCCAAAAAGGTGTAGCCTATGATAGCAGCGCTGACTGGTTCTCCTTGGGTTGCATGCTCTTCAAATTGTTGCGAgggtaagatggaacatgaggggggagccctgcacatctggctgtcagaggca Alignment from CESAR GTgt gGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGgg GGgtgtaagaacccacacattcacttgtaggtaacctctgttctcctcagg------CATGGGTACATAGCTCCCAAGGTACTCCAAAAAGGTGTAGCCTATGATAGCAGCGCTGACTGGTTCTCCTTGGGTTGCATGCTCTTCAAATTGTTGCGAgggtaagatggaacatgaggggggagccctgcacatctggctgtcagaggca Alignment from Spaln_aa2Genome GCAC ACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTgtaagtacattcacttcatgttgtaggtaacctctgttctcctcagGCATGGGTACATAGCTCCCAAGGTACTCCAAAAAGGTGTAGCCTATGATAGCAGCGCTGACTGGTTCTCCTTGGGTTGCATGCTCTTCAAATTGTTGCGAGGgtaagatggaacatgaggggggagccctgcacatctggctgtcagaggca Alignment from Spaln_nt2Genome GTGT GGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTgtaagtacattcacttcatgttgtaggtaacctctgttctcctcagG------CATGGGTACATAGCTCCCAAGGTACTCCAAAAAGGTGTAGCCTATGATAGCAGCGCTGACTGGTTCTCCTTGGGTTGCATGCTCTTCAAATTGTTGCGAGGgtaagatggaacatgaggggggagccctgcacatctggctgtcagaggca Alignment from Pairagon GTGT GGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTgtaagtacattcacttcatgttgtaggtaacctctgttctcctcagG------CATGGGTACATAGCTCCCAAGGTACTCCAAAAAGGTGTAGCCTATGATAGCAGCGCTGACTGGTTCTCCTTGGGTTGCATGCTCTTCAAATTGTTGCGAGGgtaagatggaacatgaggggggagccctgcacatctggctgtcagaggca Alignment from Exonerate_protein2genome GCAC ACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTgtaagtacattcacttcatgttgtaggtaacctctgttctcctcagGCATGGGTACATAGCTCCCAAGGTACTCCAAAAAGGTGTAGCCTATGATAGCAGCGCTGACTGGTTCTCCTTGGGTTGCATGCTCTTCAAATTGTTGCGAGGgtaagatggaacatgaggggggagccctgcacatctggctgtcagaggca Alignment from Exonerate_coding2genome GCAC ACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTgtaagtacattcacttcatgttgtaggtaacctctgttctcctcagGCATGGGTACATAGCTCCCAAGGTACTCCAAAAAGGTGTAGCCTATGATAGCAGCGCTGACTGGTTCTCCTTGGGTTGCATGCTCTTCAAATTGTTGCGAGGgtaagatggaacatgaggggggagccctgcacatctggctgtcagaggca Alignment from GeneWise GCAC ACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GGGTgtaagtacattcacttcatgttgtaggtaacctctgttctcctcagGCATGGGTACATAGCTCCCAAGGTACTCCAAAAAGGTGTAGCCTATGATAGCAGCGCTGACTGGTTCTCCTTGGGTTGCATGCTCTTCAAATTGTTGCGAGGgtaagatggaacatgaggggggagccctgcacatctggctgtcagaggca #### Adrbk1_ID484_11 --> 0 - 2 Original Alignment CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTgt gGGC cctctccacaggcagccagcatgatgacgcccgctcttctctgccttcagCCAGCTAACATTCTCCTAGATGTACATGGCCATGTGAGAATCTCCGACTTCAGCCTAGTATGTGACTTCTCCAAGAAGAGACCCCCT------gtgtaacttcttagacccacacattcaattctgattttgactttccaggGGC Alignment from CESAR CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTgt gGGC cctctccacaggcagccagcatgatgacgcccgctcttctctgccttcagCCAGCTAACATTCTCCTAGATGTACATGGCCATGTGAGAATCTCCGACTTCAGCCTAGTATGTGACTTCTCCAAGAAGAGACCCCCT------gtgtaacttcttagacccacacatcatgttgtaccacatcactgacaggGGC Alignment from Spaln_aa2Genome CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTGT GGGC cctctccacaggcagccagcatgatgacgcccgctcttctctgccttcagCCAGCTAACATTCTCCTAGATGTACATGGCCATGTGAGAATCTCCGACTTCAGCCTAGTATGTGACTTCTCCAAGAAGAGACCC------CCTGTgtaacttcttagacccacacattcaattctgattttgactttccagGGGC Alignment from Spaln_nt2Genome CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTGT GGGC cctctccacaggcagccagcatgatgacgcccgctcttctctgccttcagCCAGCTAACATTCTCCTAGATGTACATGGCCATGTGAGAATCTCCGACTTCAGCCTAGTATGTGACTTCTCCAAGAAGAGAC------CCCCTGTgtaacttcttagacccacacattcaattctgattttgactttccagGGGC Alignment from Pairagon CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTGT GGGC cctctccacaggcagccagcatgatgacgcccgctcttctctgccttcagCCAGCTAACATTCTCCTAGATGTACATGGCCATGTGAGAATCTCCGACTTCAGCCTAGTATGTGACTTCTCCAAGAAGAGACCCCC------TGTgtaacttcttagacccacacattcaattctgattttgactttccagGGGC Alignment from Exonerate_protein2genome CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGC CAGT cctctccacaggcagccagcatgatgacgcccgctcttctctgccttcagCCAGCTAACATTCTCCTAGATGTACATGGCCATGTGAGAATCTCCGACTTCAGCCTAGTATGTGACTTCTCCAAGAAGAGACCCCCTGTgtaacttcttagacccacacattcaattctgattttgactttccagG--- Alignment from Exonerate_coding2genome CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGC CAGT cctctccacaggcagccagcatgatgacgcccgctcttctctgccttcagCCAGCTAACATTCTCCTAGATGTACATGGCCATGTGAGAATCTCCGACTTCAGCCTAGTATGTGACTTCTCCAAGAAGAGACCCCCTGTgtaacttcttagacccacacattcaattctgattttgactttccagG--- Alignment from GeneWise CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTGT GGGC cctctccacaggcagccagcatgatgacgcccgctcttctctgccttcagCCAGCTAACATTCTCCTAGATGTACATGGCCATGTGAGAATCTCCGACTTCAGCCTAGTATGTGACTTCTCCAAGAAGAGACCC------CCTGTgtaacttcttagacccacacattcaattctgattttgactttccagGGGC #### Adrbk1_ID485_10 --> 2 - 0 Original Alignment CATGAACg gt---GGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATggtaacctagtttagagaatgattacccctttgaaaacctcaggtGAAGGGGAACTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCTGATATGCGTCTCTATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTAAAGgtattttgtagttgatagagcacactttgtctaccccccccctattcctc Alignment from CESAR CATGAACg gt---GGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATggtcagttagtttagagaatgattacccctttgaaaacctcaggtGAAGGGGAACTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCTGATATGCGTCTCTATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTAAAGgtattttgtagttgatagagcacactttgtctaccccccccctattcctc Alignment from Spaln_aa2Genome CATGAACG GTGGGGACCTGCAC---TACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtaacctagtttagagaatgattacccctttgaaaacctcagGTGAAGGGGAACTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCTGATATGCGTCTCTATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTAAAGgtattttgtagttgatagagcacactttgtctaccccccccctattcctc Alignment from Spaln_nt2Genome CATGAACG GTGGGGACCTGCA---CTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtaacctagtttagagaatgattacccctttgaaaacctcagGTGAAGGGGAACTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCTGATATGCGTCTCTATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTAAAGgtattttgtagttgatagagcacactttgtctaccccccccctattcctc Alignment from Pairagon CATGAACGGT---------------------------------------------GGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGGTAACCTAGTTTAGAGAATGATTACCCCTTTGAAAACCTCAGGTGAAGGGGAACTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCTGATATGCGTCTCTATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTAAAGgtattttgtagttgatagagcacactttgtctaccccccccctattcctc Alignment from Exonerate_protein2genome CATGAACG GT---GGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtaacctagtttagagaatgattacccctttgaaaacctcagGTGAAGGGGAACTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCTGATATGCGTCTCTATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTAAAGgtattttgtagttgatagagcacactttgtctaccccccccctattcctc Alignment from Exonerate_coding2genome CATGAACG GT---GGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtaacctagtttagagaatgattacccctttgaaaacctcagGTGAAGGGGAACTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCTGATATGCGTCTCTATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTAAAGgtattttgtagttgatagagcacactttgtctaccccccccctattcctc Alignment from GeneWise CATGAAC- --GGTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtaacctagtttagagaatgattacccctttgaaaacctcagGTGAAGGGGAACTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCTGATATGCGTCTCTATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTAAAGgtattttgtagttgatagagcacactttgtctaccccccccctattcctc #### Adrbk1_ID486_9 --> 0 - 1 Original Alignment GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAAC---g gtGGGGAC tcccacttagcttgccttccatgattcatttttttaatttgaaactgtagGACTGTTCTTTCACTGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCTGGACCTTATGAATAAAggtgagctagtttagagaatggacctggcttcttcctcccaaggtGGGGAA Alignment from CESAR GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAAC---g gtGGGGAC tcccacttagcttgccttccatgattcatttttttaatttgaaactgtagGACTGTTCTTTCACTGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCTGGACCTTATGAATAAAggtgagctagtttagagaatggtatcttcttcacattttacaggtGGGGAA Alignment from Spaln_aa2Genome GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAAC---G GTGGGGAC tcccacttagcttgccttccatgattcatttttttaatttgaaactgtagGACTGTTCTTTCACTGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCTGGACCTTATGAATAAAGgtgagctagtttagagaatggacctggcttcttcctcccaagGTGGGGAA Alignment from Spaln_nt2Genome GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAAC---G GTGGGGAC tcccacttagcttgccttccatgattcatttttttaatttgaaactgtagGACTGTTCTTTCACTGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCTGGACCTTATGAATAAAGgtgagctagtttagagaatggacctggcttcttcctcccaagGTGGGGAA Alignment from Pairagon GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAAC---------------------------------------------GGTGGGGAC tcccacttagcttgccttccatgattcatttttttaatttgaaactgtagGACTGTTCTTTCACTGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCTGGACCTTATGAATAAAGGTGAGCTAGTTTAGAGAATGGACCTGGCTTCTTCCTCCCAAGGTGGGGAA Alignment from Exonerate_protein2genome GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAAC---G GTGGGGAC tcccacttagcttgccttccatgattcatttttttaatttgaaactgtagGACTGTTCTTTCACTGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCTGGACCTTATGAATAAAGgtgagctagtttagagaatggacctggcttcttcctcccaagGTGGGGAA Alignment from Exonerate_coding2genome GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAAC---G GTGGGGAC tcccacttagcttgccttccatgattcatttttttaatttgaaactgtagGACTGTTCTTTCACTGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCTGGACCTTATGAATAAAGgtgagctagtttagagaatggacctggcttcttcctcccaagGTGGGGAA Alignment from GeneWise GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACGGT- --GGGGAC tcccacttagcttgccttccatgattcatttttttaatttgaaactgtagGACTGTTCTTTCACTGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCTGGACCTTATGAATAAAGgtgagctagtttagagaatggacctggcttcttcctcccaagGTGGGGAA #### Adrbk1_ID489_6 --> 1 - 0 Original Alignment t---------GACAAGTTCACACGGTTCTGCCAGTGGAAGAATGTTGAGCTCAACATCCAC gaattacagtctggtacctctactagtgaacactccctcccttttcaaagtCCTCCAACTGATCAGTTCACACATTTCTGTCAATGGAAGAATATTGAGCTCAACATTCATgtacggagcagtattccatgaatgcaactctaagtgcaatatcggtgggc Alignment from CESAR t---------GACAAGTTCACACGGTTCTGCCAGTGGAAGAATGTTGAGCTCAACATCCAC gaattacagtctggtacctctactagtgaacactccctcccttttcaaagtCCTCCAACTGATCAGTTCACACATTTCTGTCAATGGAAGAATATTGAGCTCAACATTCATgtacggagcagtattccatgaatgcaactctaagtgcaatatcggtgggc Alignment from Spaln_aa2Genome T---------GACAAGTTCACACGGTTCTGCCAGTGGAAGAATGTTGAGCTCAACATCCAC gaattacagtctggtacctctactagtgaacactccctcccttttcaaagTCCTCCAACTGATCAGTTCACACATTTCTGTCAATGGAAGAATATTGAGCTCAACATTCATgtacggagcagtattccatgaatgcaactctaagtgcaatatcggtgggc Alignment from Spaln_nt2Genome TGACAAGTTCACA---------CGGTTCTGCCAGTGGAAGAATGTTGAGCTCAACATCCAC gaattacagtctggtacctctactagtgaacactccctcccttttcaaagTCCTCCAACTGATCAGTTCACACATTTCTGTCAATGGAAGAATATTGAGCTCAACATTCATgtacggagcagtattccatgaatgcaactctaagtgcaatatcggtgggc Alignment from Pairagon ---------TGACAAGTTCACACGGTTCTGCCAGTGGAAGAATGTTGAGCTCAACATCCAC gaattacagtctggtacctctactagtgaacactccctcccttttcaaagTCCTCCAACTGATCAGTTCACACATTTCTGTCAATGGAAGAATATTGAGCTCAACATTCATgtacggagcagtattccatgaatgcaactctaagtgcaatatcggtgggc Alignment from Exonerate_protein2genome TGACAAGTTCACACGGTTCTGCCAGTGGAAGAATGTTGAGCTCAACATCCAC gaattacagtctggtacctctactagtgaacactccctcccttttcaaagtcctccaacTGATCAGTTCACACATTTCTGTCAATGGAAGAATATTGAGCTCAACATTCATgtacggagcagtattccatgaatgcaactctaagtgcaatatcggtgggc Alignment from Exonerate_coding2genome gaattacagtctggtacctctactagtgaacactccctcccttttcaaagtcctccaactgatcagttcacacatttctgtcaatggaagaatattgagctcaacattcatgtacggagcagtattccatgaatgcaactctaagtgcaatatcggtgggc Alignment from GeneWise -------AGTGACAAGTTCACACGGTTCTGCCAGTGGAAGAATGTTGAGCTCAACATCCAC gaattacagtctggtacctctactagtgaacactccctcccttttcaaagTCCTCCAACTGATCAGTTCACACATTTCTGTCAATGGAAGAATATTGAGCTCAACATTCATgtacggagcagtattccatgaatgcaactctaagtgcaatatcggtgggc #### Adrbk1_ID492_3 --> 0 - 0 Original Alignment ------ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT acccttcacagccagcttcatactgtggtttttttttcttctccctccagTGTCCTATTAAGAAATATGCGAAGCTGGAGACAGAGGAGGAATGTGTGGTCCGCAGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTCCTGGCATGCTCACATgtatgtgctgaatctacccattactcctagatatgtgggcttaaagagac Alignment from CESAR ------ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT acccttcacagccagcttcatactgtggtttttttttcttctccctccagTGTCCTATTAAGAAATATGCGAAGCTGGAGACAGAGGAGGAATGTGTGGTCCGCAGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTCCTGGCATGCTCACATgtatgtgctgaatctacccattactcctagatatgtgggcttaaagagac Alignment from Spaln_aa2Genome ATCAAGAAATAT------GAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT acccttcacagccagcttcatactgtggtttttttttcttctccctccagTGTCCTATTAAGAAATATGCGAAGCTGGAGACAGAGGAGGAATGTGTGGTCCGCAGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTCCTGGCATGCTCACATgtatgtgctgaatctacccattactcctagatatgtgggcttaaagagac Alignment from Spaln_nt2Genome GATCAAGAAATA-----TGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT acccttcacagccagcttcatactgtggtttttttttcttctccctccagTGTCCTATTAAGAAATATGCGAAGCTGGAGACAGAGGAGGAATGTGTGGTCCGCAGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTCCTGGCATGCTCACATgtatgtgctgaatctacccattactcctagatatgtgggcttaaagagac Alignment from Pairagon ------ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT acccttcacagccagcttcatactgtggtttttttttcttctccctccagTGTCCTATTAAGAAATATGCGAAGCTGGAGACAGAGGAGGAATGTGTGGTCCGCAGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTCCTGGCATGCTCACATgtatgtgctgaatctacccattactcctagatatgtgggcttaaagagac Alignment from Exonerate_protein2genome ------ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT acccttcacagccagcttcatactgtggtttttttttcttctccctccagTGTCCTATTAAGAAATATGCGAAGCTGGAGACAGAGGAGGAATGTGTGGTCCGCAGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTCCTGGCATGCTCACATgtatgtgctgaatctacccattactcctagatatgtgggcttaaagagac Alignment from Exonerate_coding2genome acccttcacagccagcttcatactgtggtttttttttcttctccctccagtgtcctattaagaaatatgcgaagctggagacagaggaggaatgtgtggtccgcagccgagagatctttgagtcctacattatgaaggagctcctggcatgctcacatgtatgtgctgaatctacccattactcctagatatgtgggcttaaagagac Alignment from GeneWise ------ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT acccttcacagccagcttcatactgtggtttttttttcttctccctccagTGTCCTATTAAGAAATATGCGAAGCTGGAGACAGAGGAGGAATGTGTGGTCCGCAGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTCCTGGCATGCTCACATgtatgtgctgaatctacccattactcctagatatgtgggcttaaagagac #### Afap1l2_ID12247_16 --> 0 - 1 Original Alignment AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAg cctgctctctaagcctgaagccaaacgtttttatttttttcactctaaagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCAACACCACGGAGCACTATGGTTAAGTTGCAGGCAGATCAGCAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACAATGGCTTCCACCCCCATTTCTGCCAGCTCGCCTGTGAAAGAGAAGTTAAGAGTTACTGGT---ggtgagaagtggactaagcttgtttgctctaagcttgtttgcttgtattgc Alignment from CESAR AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAg cctgctctctaagcctgaagccaaacgtttttatttttttcactctaaagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCAACACCACGGAGCACTATGGTTAAGTTGCAGGCAGATCAGCAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACAATGGCTTCCACCCCCATTTCTGCCAGCTCGCCTGTGAAAGAGAAGTTAAGAGTTACTGGT---ggtgagaagtggactaagcttgtttgctctaagcttgtttgcttgtattgc Alignment from Spaln_aa2Genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG cctgctctctaagcctgaagccaaacgtttttatttttttcactctaaagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCAACACCACGGAGCACTATGGTTAAGTTGCAGGCAGATCAGCAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACAATGGCTTCCACCCCCATTTCTGCCAGCTCGCCTGTGAAAGAGAAGTTAAGAGTTACT---GGTGgtgagaagtggactaagcttgtttgctctaagcttgtttgcttgtattgc Alignment from Spaln_nt2Genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTG cctgctctctaagcctgaagccaaacgtttttatttttttcactctaaagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCAACACCACGGAGCACTATGGTTAAGTTGCAGGCAGATCAGCAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACAATGGCTTCCACCCCCATTTCTGCCAGCTCGCCTGTGAAAGAGAAGTTAAGAGTTACTGGTGgtgagaagtggactaagcttgtttgctctaagcttgtttgcttgtattgc Alignment from Pairagon AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTG cctgctctctaagcctgaagccaaacgtttttatttttttcactctaaagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCAACACCACGGAGCACTATGGTTAAGTTGCAGGCAGATCAGCAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACAATGGCTTCCACCCCCATTTCTGCCAGCTCGCCTGTGAAAGAGAAGTTAAGAGTTACTGGTGgtgagaagtggactaagcttgtttgctctaagcttgtttgcttgtattgc Alignment from Exonerate_protein2genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTG cctgctctctaagcctgaagccaaacgtttttatttttttcactctaaagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCAACACCACGGAGCACTATGGTTAAGTTGCAGGCAGATCAGCAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACAATGGCTTCCACCCCCATTTCTGCCAGCTCGCCTGTGAAAGAGAAGTTAAGAGTTACTGGTGgtgagaagtggactaagcttgtttgctctaagcttgtttgcttgtattgc Alignment from Exonerate_coding2genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTG cctgctctctaagcctgaagccaaacgtttttatttttttcactctaaagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCAACACCACGGAGCACTATGGTTAAGTTGCAGGCAGATCAGCAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACAATGGCTTCCACCCCCATTTCTGCCAGCTCGCCTGTGAAAGAGAAGTTAAGAGTTACTGGTGgtgagaagtggactaagcttgtttgctctaagcttgtttgcttgtattgc Alignment from GeneWise AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG cctgctctctaagcctgaagccaaacgtttttatttttttcactctaaagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCAACACCACGGAGCACTATGGTTAAGTTGCAGGCAGATCAGCAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACAATGGCTTCCACCCCCATTTCTGCCAGCTCGCCTGTGAAAGAGAAGTTAAGAGTTACT---GGTGgtgagaagtggactaagcttgtttgctctaagcttgtttgcttgtattgc #### Aldh3b2_ID239_5 --> 2 - 0 Original Alignment ga------AACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCTTTGCTGTGATGTTG agtatacacaccctacccttttttcaccacaggtcctctctccctgccaggaAACGAAAATTGTGTGGTATTGAGGCCATCTGAAATCAGTAAGAACACAGAA---ATGCAGGCAGAGCTACTG---CAGCATCTGGATCAGgtgacaaatttatcatcctaatccaacagAGCTGTTTTGCTGTGATGCTG Alignment from CESAR gaAAC------TGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCTTTGCTGTGATGTTG agtatacacaccctacccttttttcaccacaggtcctctctccctgccaggaAACGAAAATTGTGTGGTATTGAGGCCATCTGAAATCAGTAAGAACACAGAA---ATGCAGGCAGAGCTACTG---CAGCATCTGGATCAGgtgaggactctcttttgtctgccctgcagAGCTGTTTTGCTGTGATGCTG Alignment from Spaln_aa2Genome GAAACTGTGTG------GTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCC CCAGTATCTGGACCAGAGC agtatacacaccctacccttttttcaccacaggtcctctctccctgccagGAAACGAAAATTGTGTGGTATTGAGGCCATCTGAAATCAGTAAGAACACAGAA---ATGCAGGCAGAGCTACTGCAgcatctggatcaggtgacaaatttatcatcctaatccaacagagC------------------ Alignment from Spaln_nt2Genome GAAACTGTGTGG------TGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG-------------------------------AGCTGCTTTGCTGTGATGT agtatacacaccctacccttttttcaccacaggtcctctctccctgccagGAAACGAAAATTGTGTGGTATTGAGGCCATCTGAAATCAGTAAGAACACAGAAA---TGCAGGCAGAGCTACTG---CAGCATCTGGATCAGGTGACAAATTTATCATCCTAATCCAACAGAG--CTGTTTTGCTGTGATGC Alignment from Pairagon GAAAC------TGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG-----------------------------AGCTGCTTTGCTGTGATGTTG agtatacacaccctacccttttttcaccacaggtcctctctccctgccagGAAACGAAAATTGTGTGGTATTGAGGCCATCTGAAATCAGTAAGAACACAGAAA---TGCAGGCAGAGCTACTG---CAGCATCTGGATCAGGTGACAAATTTATCATCCTAATCCAACAGAGCTGTTTTGCTGTGATGCTG Alignment from Exonerate_protein2genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTG----CTGGCAGAGCTGCTGCCCCAGTATCTGGACCAGAGCTGCTTTGCTGTGATGTTG agtatacacaccctacccttttttcaccacaggtcctctctccctgccaggaaacgaaaattgtgtggtattgagGCCATCTGAAATCAGTAAGAACACAGAAATGCAGGCAGAGCTACTGCAGCATCTGGATCAGGTGACAAATTTATCATCCTAATCCAACAGAGCTGTTTTGCTGTGATGCTG Alignment from Exonerate_coding2genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTG----CTGGCAGAGCTGCTGCCCCAGTATCTGGACCAGAGCTGCTTTGCTGTGATGTTG agtatacacaccctacccttttttcaccacaggtcctctctccctgccaggaaacgaaaattgtgtggtattgagGCCATCTGAAATCAGTAAGAACACAGAAATGCAGGCAGAGCTACTGCAGCATCTGGATCAGGTGACAAATTTATCATCCTAATCCAACAGAGCTGTTTTGCTGTGATGCTG Alignment from GeneWise -----GGAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCTTTGCTGTGATGTTG agtatacacaccctacccttttttcaccacaggtcctctctccctgccagGAAACGAAAATTGTGTGGTATTGAGGCCATCTGAAATCAGTAAGAACACAGAA---ATGCAGGCAGAGCTACTG---CAGCATCTGGATCAGgtgacaaatttatcatcctaatccaacagAGCTGTTTTGCTGTGATGCTG #### Ankrd13d_ID460_13 --> 2 - 0 Original Alignment ga------AGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG cccatctggctttctgttaagcctttgttgatgttcctcccccggggcaggaAGCTTTGGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTAGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTGCTTGAGGCGGGCATACAGGCAGAGCAGgtgagttgtgaaatagttagtatgacccttagtgcctcaggcccaagggg Alignment from CESAR gaAGC------CCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG cccatctggctttctgttaagcctttgttgatgttcctcccccggggcaggaAGCTTTGGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTAGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTGCTTGAGGCGGGCATACAGGCAGAGCAGgtgagttgtgaaatagttagtatgacccttagtgcctcaggcccaagggg Alignment from Spaln_aa2Genome GAAGC------CCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG cccatctggctttctgttaagcctttgttgatgttcctcccccggggcagGAAGCTTTGGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTAGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTGCTTGAGGCGGGCATACAGGCAGAGCAGgtgagttgtgaaatagttagtatgacccttagtgcctcaggcccaagggg Alignment from Spaln_nt2Genome GAAGC-----CCTTT-TCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG cccatctggctttctgttaagcctttgttgatgttcctcccccggggcagGAAGCTTTGGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTAGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTGCTTGAGGCGGGCATACAGGCAGAGCAGgtgagttgtgaaatagttagtatgacccttagtgcctcaggcccaagggg Alignment from Pairagon GAA------GCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG cccatctggctttctgttaagcctttgttgatgttcctcccccggggcagGAAGCTTTGGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTAGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTGCTTGAGGCGGGCATACAGGCAGAGCAGgtgagttgtgaaatagttagtatgacccttagtgcctcaggcccaagggg Alignment from Exonerate_protein2genome GAAGC------CCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG cccatctggctttctgttaagcctttgttgatgttcctcccccggggcagGAAGCTTTGGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTAGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTGCTTGAGGCGGGCATACAGGCAGAGCAGgtgagttgtgaaatagttagtatgacccttagtgcctcaggcccaagggg Alignment from Exonerate_coding2genome GAAGC------CCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG cccatctggctttctgttaagcctttgttgatgttcctcccccggggcagGAAGCTTTGGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTAGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTGCTTGAGGCGGGCATACAGGCAGAGCAGgtgagttgtgaaatagttagtatgacccttagtgcctcaggcccaagggg Alignment from GeneWise -----GGAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG cccatctggctttctgttaagcctttgttgatgttcctcccccggggcagGAAGCTTTGGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTAGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTGCTTGAGGCGGGCATACAGGCAGAGCAGgtgagttgtgaaatagttagtatgacccttagtgcctcaggcccaagggg #### Ankrd13d_ID464_9 --> 2 - 0 Original Alignment gg---GGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG actggcttacttatacataaatgggtctctgaatattcttttattttcaggaGGCGGAAAGACTCCATTCCAATCCTTCTTGGGTATGGCCCAGCAACATTCTTCACACACTTTGgtaattttgtttaaggtatgggttggtaaggctgggtaagtggggtttcc Alignment from CESAR gg---GGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG actggcttacttatacataaatgggtctctgaatattcttttattttcaggaGGCGGAAAGACTCCATTCCAATCCTTCTTGGGTATGGCCCAGCAACATTCTTCACACACTTTGgtaattttgtttaaggtatgggttggtaaggctgggtaagtggggtttcc Alignment from Spaln_aa2Genome GGGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG actggcttacttatacataaatgggtctctgaatattcttttattttcaggagGCGGAAAGACTCCATTCCAATCCTTCTTGGGTATGGCCCAGCAACATTCTTCACACACTTTGgtaattttgtttaaggtatgggttggtaaggctgggtaagtggggtttcc Alignment from Spaln_nt2Genome GGGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG actggcttacttatacataaatgggtctctgaatattcttttattttcaggagGCGGAAAGACTCCATTCCAATCCTTCTTGGGTATGGCCCAGCAACATTCTTCACACACTTTGgtaattttgtttaaggtatgggttggtaaggctgggtaagtggggtttcc Alignment from Pairagon GGGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG actggcttacttatacataaatgggtctctgaatattcttttattttcaggagGCGGAAAGACTCCATTCCAATCCTTCTTGGGTATGGCCCAGCAACATTCTTCACACACTTTGgtaattttgtttaaggtatgggttggtaaggctgggtaagtggggtttcc Alignment from Exonerate_protein2genome GGGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG actggcttacttatacataaatgggtctctgaatattcttttattttcaggagGCGGAAAGACTCCATTCCAATCCTTCTTGGGTATGGCCCAGCAACATTCTTCACACACTTTGgtaattttgtttaaggtatgggttggtaaggctgggtaagtggggtttcc Alignment from Exonerate_coding2genome GGGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG actggcttacttatacataaatgggtctctgaatattcttttattttcaggagGCGGAAAGACTCCATTCCAATCCTTCTTGGGTATGGCCCAGCAACATTCTTCACACACTTTGgtaattttgtttaaggtatgggttggtaaggctgggtaagtggggtttcc Alignment from GeneWise --GGGGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG actggcttacttatacataaatgggtctctgaatattcttttattttcagGAGGCGGAAAGACTCCATTCCAATCCTTCTTGGGTATGGCCCAGCAACATTCTTCACACACTTTGgtaattttgtttaaggtatgggttggtaaggctgggtaagtggggtttcc #### Ankrd13d_ID465_8 --> 0 - 1 Original Alignment ------GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAg cctcagtcccatgtgtatgtgttcttacgggctgcccaccttacccacagGATCAGGTATACAGTGCCACAAATGTTGAGCTGGTAACACGCACAAGAACAGAACATCTCTCTGACCAGGACAAGTTAAGGAACAAAggtaagtccacttgctacaggcttctggttaagctttctaggctatgtacc Alignment from CESAR GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAg tgcagccctcagtcccatgtgtatgtgttctctgcccaccttacccacaggatcagGTATACAGTGCCACAAATGTTGAGCTGGTAACACGCACAAGAACAGAACATCTCTCTGACCAGGACAAGTTAAGGAACAAAggtaagtccacttgctacaggcttctggttaagctttctaggctatgtacc Alignment from Spaln_aa2Genome GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cctcagtcccatgtgtatgtgttcttacgggctgcccaccttacccacaggatcagGTATACAGTGCCACAAATGTTGAGCTGGTAACACGCACAAGAACAGAACATCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtaagtccacttgctacaggcttctggttaagctttctaggctatgtacc Alignment from Spaln_nt2Genome GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cctcagtcccatgtgtatgtgttcttacgggctgcccaccttacccacaggatcagGTATACAGTGCCACAAATGTTGAGCTGGTAACACGCACAAGAACAGAACATCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtaagtccacttgctacaggcttctggttaagctttctaggctatgtacc Alignment from Pairagon GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cctcagtcccatgtgtatgtgttcttacgggctgcccaccttacccacaggatcagGTATACAGTGCCACAAATGTTGAGCTGGTAACACGCACAAGAACAGAACATCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtaagtccacttgctacaggcttctggttaagctttctaggctatgtacc Alignment from Exonerate_protein2genome GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cctcagtcccatgtgtatgtgttcttacgggctgcccaccttacccacaggatcagGTATACAGTGCCACAAATGTTGAGCTGGTAACACGCACAAGAACAGAACATCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtaagtccacttgctacaggcttctggttaagctttctaggctatgtacc Alignment from Exonerate_coding2genome GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cctcagtcccatgtgtatgtgttcttacgggctgcccaccttacccacaggatcagGTATACAGTGCCACAAATGTTGAGCTGGTAACACGCACAAGAACAGAACATCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtaagtccacttgctacaggcttctggttaagctttctaggctatgtacc Alignment from GeneWise GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG cctcagtcccatgtgtatgtgttcttacgggctgcccaccttacccacaggatcagGTATACAGTGCCACAAATGTTGAGCTGGTAACACGCACAAGAACAGAACATCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtaagtccacttgctacaggcttctggttaagctttctaggctatgtacc #### Anxa1_ID4766_4 --> 0 - 0 Original Alignment CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG aggccaggagaatgatacacacctaagtaacctgctggtttgcacttcagCCCTTAGACGAAGTATTGAGGAAAGCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCACAATTT---GCAGATGAACTACATGGTGCC------gtgaggattcgttgttcttaacagacttgctcctaaaacaggttcaagga Alignment from CESAR CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG aggccaggagaatgatacacacctaagtaacctgctggtttgcacttcagCCCTTAGACGAAGTATTGAGGAAAGCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCACAATTT---GCAGATGAACTACATGGTGCC------gtgaggattcgttgttcttaacagacttgctcctaaaacaggtt Alignment from Spaln_aa2Genome CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCC aggccaggagaatgatacacacctaagtaacctgctggtttgcacttcagCCCTTAGACGAAGTATTGAGGAAAGCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCACAATTT---GCAGATGAACTACATGGTGCCgtgaggattcgttgttcttaacagacttgctcctaaaacaggttcaagga Alignment from Spaln_nt2Genome CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG---- aggccaggagaatgatacacacctaagtaacctgctggtttgcacttcagCCCTTAGACGAAGTATTGAGGAAAGCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCACAATTTG---CAGATGAACTACATGGTGCCGTGAGGATTCgttgttcttaacagacttgctcctaaaacaggttcaagga Alignment from Pairagon CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCC aggccaggagaatgatacacacctaagtaacctgctggtttgcacttcagCCCTTAGACGAAGTATTGAGGAAAGCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCACAATT---TGCAGATGAACTACATGGTGCCgtgaggattcgttgttcttaacagacttgctcctaaaacaggttcaagga Alignment from Exonerate_protein2genome CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG aggccaggagaatgatacacacctaagtaacctgctggtttgcacttcagCCCTTAGACGAAGTATTGAGGAAAGCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCACAATTT---GCAGATGAACTACATGGTGCCGTGAGGattcgttgttcttaacagacttgctcctaaaacaggttcaagga Alignment from Exonerate_coding2genome CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG aggccaggagaatgatacacacctaagtaacctgctggtttgcacttcagCCCTTAGACGAAGTATTGAGGAAAGCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCACAATTT---GCAGATGAACTACATGGTGCCGTGAGGattcgttgttcttaacagacttgctcctaaaacaggttcaagga Alignment from GeneWise CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG aggccaggagaatgatacacacctaagtaacctgctggtttgcacttcagCCCTTAGACGAAGTATTGAGGAAAGCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCACAATTT---GCAGATGAACTACATGGT------GCCgtgaggattcgttgttcttaacagacttgctcctaaaacaggttcaagga #### Atg2a_ID1514_3 --> 2 - 1 Original Alignment ga---CCAGGGGCTGCGGACTCTCAGAGTTGGGCCTCATGCATGACCACAAGCTTGCAGCTGGCTCAAGAGTGCCTTCGGGAAGGGTTGCCAGAACCCTCAGAACCACCACAGCCCCTGGAGGGGCTGGAAATGTTTGCACAGACCATTGAGACTg tcataggagtctaatctctttggcactaggccttggctccaactctgcagggGACCCCGGAGCTGCGGATTCACAGAGTTGGGCTTCCTGT---ACCACTAGCTTACATCTGGCCCAGGATTGTCTCCAGGAAGGGCTCCCAGAACCCTCAGAACCACCACAGCCTTTAGAGGGGCTTGCCATGTTTGCACAGACCATAGAGACTggtaagtaggtccctactgatgtacccctcctcagtctccaggataggatc Alignment from CESAR ga---CCAGGGGCTGCGGACTCTCAGAGTTGGGCCTCATGCATGACCACAAGCTTGCAGCTGGCTCAAGAGTGCCTTCGGGAAGGGTTGCCAGAACCCTCAGAACCACCACAGCCCCTGGAGGGGCTGGAAATGTTTGCACAGACCATTGAGACTg tcataggagtctaatctctttggcactaggccttggctccaactctgcagggGACCCCGGAGCTGCGGATTCACAGAGTTGGGCTTCCTGT---ACCACTAGCTTACATCTGGCCCAGGATTGTCTCCAGGAAGGGCTCCCAGAACCCTCAGAACCACCACAGCCTTTAGAGGGGCTTGCCATGTTTGCACAGACCATAGAGACTggtaagtaggtccctactgatgtacccctcctcagtctccaggataggatc Alignment from Spaln_aa2Genome GACCAGGGGCTGCG---GACTCTCAGAGTTGGGCCTCATGCATGACCACAAGCTTGCAGCTGGCTCAAGAGTGCCTTCGGGAAGGGTTGCCAGAACCCTCAGAACCACCACAGCCCCTGGAGGGGCTGGAAATGTTTGCACAGACCATTGAGACTG tcataggagtctaatctctttggcactaggccttggctccaactctgcagGGGACCCCGGAGCTGCGGATTCACAGAGTTGGGCTTCCTGT---ACCACTAGCTTACATCTGGCCCAGGATTGTCTCCAGGAAGGGCTCCCAGAACCCTCAGAACCACCACAGCCTTTAGAGGGGCTTGCCATGTTTGCACAGACCATAGAGACTGgtaagtaggtccctactgatgtacccctcctcagtctccaggataggatc Alignment from Spaln_nt2Genome GA---CCAGGGGCTGCGGACTCTCAGAGTTGGGCCTCATGCATGACCACAAGCTTGCAGCTGGCTCAAGAGTGCCTTCGGGAAGGGTTGCCAGAACCCTCAGAACCACCACAGCCCCTGGAGGGGCTGGAAATGTTTGCACAGACCATTGAGACTG tcataggagtctaatctctttggcactaggccttggctccaactctgcagGGGACCCCGGAGCTGCGGATTCACAGAGTTGGGCTTCCTG---TACCACTAGCTTACATCTGGCCCAGGATTGTCTCCAGGAAGGGCTCCCAGAACCCTCAGAACCACCACAGCCTTTAGAGGGGCTTGCCATGTTTGCACAGACCATAGAGACTGgtaagtaggtccctactgatgtacccctcctcagtctccaggataggatc Alignment from Pairagon GA---CCAGGGGCTGCGGACTCTCAGAGTTGGGCCTCATGCATGACCACAAGCTTGCAGCTGGCTCAAGAGTGCCTTCGGGAAGGGTTGCCAGAACCCTCAGAACCACCACAGCCCCTGGAGGGGCTGGAAATGTTTGCACAGACCATTGAGACTG tcataggagtctaatctctttggcactaggccttggctccaactctgcagGGGACCCCGGAGCTGCGGATTCACAGAGTTGGGCTTCCTGT---ACCACTAGCTTACATCTGGCCCAGGATTGTCTCCAGGAAGGGCTCCCAGAACCCTCAGAACCACCACAGCCTTTAGAGGGGCTTGCCATGTTTGCACAGACCATAGAGACTGgtaagtaggtccctactgatgtacccctcctcagtctccaggataggatc Alignment from Exonerate_protein2genome tcataggagtctaatctctttggcactaggccttggctccaactctgcaggggaccccggagctgcggattcacagagttgggcttcctgtaccactagcttacatctggcccaggattgtctccaggaagggctcccagaaccctcagaaccaccacagcctttagaggggcttgccatgtttgcacagaccatagagactggtaagtaggtccctactgatgtacccctcctcagtctccaggataggatc Alignment from Exonerate_coding2genome tcataggagtctaatctctttggcactaggccttggctccaactctgcaggggaccccggagctgcggattcacagagttgggcttcctgtaccactagcttacatctggcccaggattgtctccaggaagggctcccagaaccctcagaaccaccacagcctttagaggggcttgccatgtttgcacagaccatagagactggtaagtaggtccctactgatgtacccctcctcagtctccaggataggatc Alignment from GeneWise --GGACCAGGGGCTGCGGACTCTCAGAGTTGGGCCTCATGCATGACCACAAGCTTGCAGCTGGCTCAAGAGTGCCTTCGGGAAGGGTTGCCAGAACCCTCAGAACCACCACAGCCCCTGGAGGGGCTGGAAATGTTTGCACAGACCATTGAGACTG tcataggagtctaatctctttggcactaggccttggctccaactctgcagGGGACCCCGGAGCTGCGGATTCACAGAGTTGGGCTTCCTGT---ACCACTAGCTTACATCTGGCCCAGGATTGTCTCCAGGAAGGGCTCCCAGAACCCTCAGAACCACCACAGCCTTTAGAGGGGCTTGCCATGTTTGCACAGACCATAGAGACTGgtaagtaggtccctactgatgtacccctcctcagtctccaggataggatc #### Atg2a_ID1515_4 --> 2 - 2 Original Alignment tgCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCGAGTGCAG------ag ctccaggataggatcctcagataaggtactcatgcttgcctacctcctagtcCTCAGGAGGACCAAGGTGACCCCCCTGAACATTGTTGTGAGGGTAGAGCAGTCATTGGGTGATGAA---GAGAGTATTGCTGTGGAAATCCGTGCACAGGACATGaggtaagattgagaggttcaagtgtcgttttagagcactggtgtaagatggg Alignment from CESAR tgCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCGAGTGCAG------ag ctccaggataggatcctcagataaggtactcatgcttgcctacctcctagtcCTCAGGAGGACCAAGGTGACCCCCCTGAACATTGTTGTGAGGGTAGAGCAGTCATTGGGTGATGAAGAG---AGTATTGCTGTGGAAATCCGTGCACAGGACATGaggtaagattgagaggttcaagtgtcgttttagagcactggtgtaagatggg Alignment from Spaln_aa2Genome TGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCGAGTGCAGAGA----- ctccaggataggatcctcagataaggtactcatgcttgcctacctcctagTCCTCAGGAGGACCAAGGTGACCCCCCTGAACATTGTTGTGAGGGTAGAGCAGTCATTGGGTGATGAAGAG---AGTATTGCTGTGGAAATCCGTGCACAGGACATGAGgtaagattgagaggttcaagtgtcgttttagagcactggtgtaagatggg Alignment from Spaln_nt2Genome TGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCGAGTGCAG------AG ctccaggataggatcctcagataaggtactcatgcttgcctacctcctagTCCTCAGGAGGACCAAGGTGACCCCCCTGAACATTGTTGTGAGGGTAGAGCAGTCATTGGGTGATGAAGA---GAGTATTGCTGTGGAAATCCGTGCACAGGACATGAGgtaagattgagaggttcaagtgtcgttttagagcactggtgtaagatggg Alignment from Pairagon TGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCGAGTGCA------GAG ctccaggataggatcctcagataaggtactcatgcttgcctacctcctagTCCTCAGGAGGACCAAGGTGACCCCCCTGAACATTGTTGTGAGGGTAGAGCAGTCATTGGGTGATGAAGA---GAGTATTGCTGTGGAAATCCGTGCACAGGACATGAGgtaagattgagaggttcaagtgtcgttttagagcactggtgtaagatggg Alignment from Exonerate_protein2genome ctccaggataggatcctcagataaggtactcatgcttgcctacctcctagtcctcaggaggaccaaggtgacccccctgaacattgttgtgagggtagagcagtcattgggtgatgaagagagtattgctgtggaaatccgtgcacaggacatgaggtaagattgagaggttcaagtgtcgttttagagcactggtgtaagatggg Alignment from Exonerate_coding2genome ctccaggataggatcctcagataaggtactcatgcttgcctacctcctagtcctcaggaggaccaaggtgacccccctgaacattgttgtgagggtagagcagtcattgggtgatgaagagagtattgctgtggaaatccgtgcacaggacatgaggtaagattgagaggttcaagtgtcgttttagagcactggtgtaagatggg Alignment from GeneWise TGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCGAGTGCAGAGACTG-- ctccaggataggatcctcagataaggtactcatgcttgcctacctcctagTCCTCAGGAGGACCAAGGTGACCCCCCTGAACATTGTTGTGAGGGTAGAGCAGTCATTGGGTGATGAAGAG---AGTATTGCTGTGGAAATCCGTGCACAGGACATGAGgtaagattgagaggttcaagtgtcgttttagagcactggtgtaagatggg #### Atg2a_ID1517_6 --> 0 - 1 Original Alignment TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCAg atataggtcaagaccatgcaaccactcaatttaatgtttatattttgtagCTGGAAGTATCAGGAAAGCTGGGCTCCCTACACTTGCTTCTGTCCCCACATCAC---CATCAACTCCAGAGTCTTCTTAGTGCTGTAAAC------ggtactgagcatgttgtgattagtagtgaaaccaagacatccagccttttg Alignment from CESAR TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCAg atataggtcaagaccatgcaaccactcaatttaatgtttatattttgtagCTGGAAGTATCAGGAAAGCTGGGCTCCCTACACTTGCTTCTGTCCCCACATCAC---CATCAACTCCAGAGTCTTCTTAGTGCTGTAAAC------ggtactgagcatgttgtgattagtagtgaaaccaagacataggtccccttt Alignment from Spaln_aa2Genome TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAAC- atataggtcaagaccatgcaaccactcaatttaatgtttatattttgtagCTGGAAGTATCAGGAAAGCTGGGCTCCCTACACTTGCTTCTGTCCCCACATCAC---CATCAACTCCAGAGTCTTCTTAGTGCTGTAAACGgtactgagcatgttgtgattagtagtgaaaccaagacatccagccttttg Alignment from Spaln_nt2Genome TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCAG atataggtcaagaccatgcaaccactcaatttaatgtttatattttgtagCTGGAAGTATCAGGAAAGCTGGGCTCCCTACACTTGCTTCTGTCCCCACATCA---CCATCAACTCCAGAGTCTTCTTAGTGCTGTAAAC------Ggtactgagcatgttgtgattagtagtgaaaccaagacatccagccttttg Alignment from Pairagon TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTT------------------------------------------------ atataggtcaagaccatgcaaccactcaatttaatgtttatattttgtagCTGGAAGTATCAGGAAAGCTGGGCTCCCTACACTTGCTTCTGTCCCCACATCA---CCATCAACTCCAGAGTCTTCTTAGTGCTGTAAACGGTACTGAGCATGTTGTGATTAGTAGTGAAACCAAGACATCCAGCCTTTTG Alignment from Exonerate_protein2genome atataggtcaagaccatgcaaccactcaatttaatgtttatattttgtagctggaagtatcaggaaagctgggctccctacacttgcttctgtccccacatcaccatcaactccagagtcttcttagtgctgtaaacggtactgagcatgttgtgattagtagtgaaaccaagacatccagccttttg Alignment from Exonerate_coding2genome atataggtcaagaccatgcaaccactcaatttaatgtttatattttgtagctggaagtatcaggaaagctgggctccctacacttgcttctgtccccacatcaccatcaactccagagtcttcttagtgctgtaaacggtactgagcatgttgtgattagtagtgaaaccaagacatccagccttttg Alignment from GeneWise TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAAC- ------- atataggtcaagaccatgcaaccactcaatttaatgtttatattttgtagCTGGAAGTATCAGGAAAGCTGGGCTCCCTACACTTGCTTCTGTCCCCACATCAC---CATCAACTCCAGAGTCTTCTTAGTGCTGTAAACGgtactgagcatgttgtgattagtagtgaaaccaagacatccagCCTTTTG #### Atg2a_ID1518_7 --> 2 - 1 Original Alignment acCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACG---------g agtagtgaaaccaagacatccaggcaggtcccctttgttctccactccagacCCCGCAGGCCTGGCTGACAAGCTGAACAAGAGCCGCCAACTGGGGGCTGAAGATTTGTGGCTCATTGAGCAAGACCTGAATCAGCAGCTGCAAGCAGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGACAGCACGCTACAAGATggtaagtcctaaccatttttattcagagggctatgcagtacaggagttaga Alignment from CESAR acCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACG---------g agtagtgaaaccaagacatccaggcaggtcccctttgttctccactccagacCCCGCAGGCCTGGCTGACAAGCTGAACAAGAGCCGCCAACTGGGGGCTGAAGATTTGTGGCTCATTGAGCAAGACCTGAATCAGCAGCTGCAAGCAGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGACAGCACGCTACAAGATggtaagtcctaaccatttttattcagagggctatgcagtacaggagttaga Alignment from Spaln_aa2Genome ACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACG---------G agtagtgaaaccaagacatccaggcaggtcccctttgttctccactccagACCCCGCAGGCCTGGCTGACAAGCTGAACAAGAGCCGCCAACTGGGGGCTGAAGATTTGTGGCTCATTGAGCAAGACCTGAATCAGCAGCTGCAAGCAGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGACAGCACGCTACAAGATGgtaagtcctaaccatttttattcagagggctatgcagtacaggagttaga Alignment from Spaln_nt2Genome ACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACG---------G agtagtgaaaccaagacatccaggcaggtcccctttgttctccactccagACCCCGCAGGCCTGGCTGACAAGCTGAACAAGAGCCGCCAACTGGGGGCTGAAGATTTGTGGCTCATTGAGCAAGACCTGAATCAGCAGCTGCAAGCAGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGACAGCACGCTACAAGATGgtaagtcctaaccatttttattcagagggctatgcagtacaggagttaga Alignment from Pairagon ACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACG---------G agtagtgaaaccaagacatccaggcaggtcccctttgttctccactccagACCCCGCAGGCCTGGCTGACAAGCTGAACAAGAGCCGCCAACTGGGGGCTGAAGATTTGTGGCTCATTGAGCAAGACCTGAATCAGCAGCTGCAAGCAGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGACAGCACGCTACAAGATGgtaagtcctaaccatttttattcagagggctatgcagtacaggagttaga Alignment from Exonerate_protein2genome agtagtgaaaccaagacatccaggcaggtcccctttgttctccactccagaccccgcaggcctggctgacaagctgaacaagagccgccaactgggggctgaagatttgtggctcattgagcaagacctgaatcagcagctgcaagcaggtgctgtggcagagtccctcagcttgtaccccacaaccaaccccctcaatttggacagcacgctacaagatggtaagtcctaaccatttttattcagagggctatgcagtacaggagttaga Alignment from Exonerate_coding2genome agtagtgaaaccaagacatccaggcaggtcccctttgttctccactccagaccccgcaggcctggctgacaagctgaacaagagccgccaactgggggctgaagatttgtggctcattgagcaagacctgaatcagcagctgcaagcaggtgctgtggcagagtccctcagcttgtaccccacaaccaaccccctcaatttggacagcacgctacaagatggtaagtcctaaccatttttattcagagggctatgcagtacaggagttaga Alignment from GeneWise ACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACG------GAC- agtagtgaaaccaagacatccaggcaggtcccctttgttctccactccagACCCCGCAGGCCTGGCTGACAAGCTGAACAAGAGCCGCCAACTGGGGGCTGAAGATTTGTGGCTCATTGAGCAAGACCTGAATCAGCAGCTGCAAGCAGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGACAGCACGCTACAAGATGgtaagtcctaaccatttttattcagagggctatgcagtacaggagttaga #### Atg2a_ID1519_8 --> 2 - 1 Original Alignment acCTCTTCTTCTCCATGGCCGGCCTCACAAGCAGTGTGACATCGGCTGTCTCTGAGCTCTCCGTGTACAGCGTAGACCTGGGCTCCTCTGTTCACAGCAACATGGCCTTCCACCGACCCTCAACCCCACCCCACTCGGGT------g gaaaagccaggcccatcattctcttttgctgctttgcctcctaccttcagacCTCTTTTTCTCAATGGCTAGTCTGATAAGCAGTGTGACATTAGCTGTCTCTGAGCTCTCTGTGTACAGTGTAGGCTTGGGTTCTTCTGTTCATAGCAATATGGCATTCCACCAACCCTCAACCCCACCCCATTCGGGCGGGTGGggtaagtcagtgacaaccaagccatgtctaccacagggagtttaatgcagg Alignment from CESAR acCTCTTCTTCTCCATGGCCGGCCTCACAAGCAGTGTGACATCGGCTGTCTCTGAGCTCTCCGTGTACAGCGTAGACCTGGGCTCCTCTGTTCACAGCAACATGGCCTTCCACCGACCCTCAACCCCACCCCACTCGGGT------g gaaaagccaggcccatcattctcttttgctgctttgcctcctaccttcagacCTCTTTTTCTCAATGGCTAGTCTGATAAGCAGTGTGACATTAGCTGTCTCTGAGCTCTCTGTGTACAGTGTAGGCTTGGGTTCTTCTGTTCATAGCAATATGGCATTCCACCAACCCTCAACCCCACCCCATTCGGGCGGGTGGggtaagtcagtgacaaccaagccatgtctaccacagggagtttaatgcagg Alignment from Spaln_aa2Genome ACCTCTTCTTCTCCATGGCCGGCCTCACAAGCAGTGTGACATCGGCTGTCTCTGAGCTCTCCGTGTACAGCGTAGACCTGGGCTCCTCTGTTCACAGCAACATGGCCTTCCACCGACCCTCAACCCCACCCCACTCGGGT------G gaaaagccaggcccatcattctcttttgctgctttgcctcctaccttcagACCTCTTTTTCTCAATGGCTAGTCTGATAAGCAGTGTGACATTAGCTGTCTCTGAGCTCTCTGTGTACAGTGTAGGCTTGGGTTCTTCTGTTCATAGCAATATGGCATTCCACCAACCCTCAACCCCACCCCATTCGGGCGGGTGGGgtaagtcagtgacaaccaagccatgtctaccacagggagtttaatgcagg Alignment from Spaln_nt2Genome ACCTCTTCTTCTCCATGGCCGGCCTCACAAGCAGTGTGACATCGGCTGTCTCTGAGCTCTCCGTGTACAGCGTAGACCTGGGCTCCTCTGTTCACAGCAACATGGCCTTCCACCGACCCTCAACCCCACCCCACTCGGGTG- gaaaagccaggcccatcattctcttttgctgctttgcctcctaccttcagACCTCTTTTTCTCAATGGCTAGTCTGATAAGCAGTGTGACATTAGCTGTCTCTGAGCTCTCTGTGTACAGTGTAGGCTTGGGTTCTTCTGTTCATAGCAATATGGCATTCCACCAACCCTCAACCCCACCCCATTCGGGCGGgtggggtaagtcagtgacaaccaagccatgtctaccacagggagtttaatgcagg Alignment from Pairagon ACCTCTTCTTCTCCATGGCCGGCCTCACAAGCAGTGTGACATCGGCTGTCTCTGAGCTCTCCGTGTACAGCGTAGACCTGGGCTCCTCTGTTCACAGCAACATGGCCTTCCACCGACCCTCAACCCCACCCCACTCGGGTG------ gaaaagccaggcccatcattctcttttgctgctttgcctcctaccttcagACCTCTTTTTCTCAATGGCTAGTCTGATAAGCAGTGTGACATTAGCTGTCTCTGAGCTCTCTGTGTACAGTGTAGGCTTGGGTTCTTCTGTTCATAGCAATATGGCATTCCACCAACCCTCAACCCCACCCCATTCGGGCGGGTGGGgtaagtcagtgacaaccaagccatgtctaccacagggagtttaatgcagg Alignment from Exonerate_protein2genome gaaaagccaggcccatcattctcttttgctgctttgcctcctaccttcagacctctttttctcaatggctagtctgataagcagtgtgacattagctgtctctgagctctctgtgtacagtgtaggcttgggttcttctgttcatagcaatatggcattccaccaaccctcaaccccaccccattcgggcgggtggggtaagtcagtgacaaccaagccatgtctaccacagggagtttaatgcagg Alignment from Exonerate_coding2genome ACCTCTTCTTCTCCATGGCCGGCCTCACAAGCAGTGTGACATCGGCTGTCTCTGAGCTCTCCGTGTACAGCGTAGACCTGGGCTCCTCTGTTCACAGCAACATGGCCTTCCACCGACCCTCAACCCCACCCCACTCGGGTG gaaaagccaggcccatcattctcttttgctgctttgcctcctaccttcagACCTCTTTTTCTCAATGGCTAGTCTGATAAGCAGTGTGACATTAGCTGTCTCTGAGCTCTCTGTGTACAGTGTAGGCTTGGGTTCTTCTGTTCATAGCAATATGGCATTCCACCAACCCTCAACCCCACCCCATTCGGGCGggtggggtaagtcagtgacaaccaagccatgtctaccacagggagtttaatgcagg Alignment from GeneWise ACCTCTTCTTCTCCATGGCCGGCCTCACAAGCAGTGTGACATCGGCTGTCTCTGAGCTCTCCGTGTACAGCGTAGACCTGGGCTCCTCTGTTCACAGCAACATGGCCTTCCACCGACCCTCAACCCCACCCCACTCGGGTGGCAAG- gaaaagccaggcccatcattctcttttgctgctttgcctcctaccttcagACCTCTTTTTCTCAATGGCTAGTCTGATAAGCAGTGTGACATTAGCTGTCTCTGAGCTCTCTGTGTACAGTGTAGGCTTGGGTTCTTCTGTTCATAGCAATATGGCATTCCACCAACCCTCAACCCCACCCCATTCGGGCGGGTGGGgtaagtcagtgacaaccaagccatgtctaccacagggagtttaatgcagg #### Atg2a_ID1524_13 --> 0 - 1 Original Alignment ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCAAg cattccagtactgaatcccagcctcatccatgtgtcccctgcctgtgcagATAGAACCACCCCAGGCAACTGAGCTGCAGACAGTCTTCCGCCTATCAGCACCCTGGGCTACTCTCAGGCTACACTTTCCTGTCCCAGACCTGCGACCTGACCGGGACCCCTGGGCAGGCCAGACTGTTCAGGCTAGGCAGCTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCGGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAACTTACTTGCTCAGACCTG---ggtgggtaggcttctttctagaaatagatggggtggcccatgacgggtctg Alignment from CESAR ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCAAg cattccagtactgaatcccagcctcatccatgtgtcccctgcctgtgcagATAGAACCACCCCAGGCAACTGAGCTGCAGACAGTCTTCCGCCTATCAGCACCCTGGGCTACTCTCAGGCTACACTTTCCTGTCCCAGACCTGCGACCTGACCGGGACCCCTGGGCAGGCCAGACTGTTCAGGCTAGGCAGCTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCGGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAACTTACTTGCTCAGACCTG---ggtgggtaggcttctttctagaaatagatggggtggcccatgacgggtctg Alignment from Spaln_aa2Genome ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCAAG cattccagtactgaatcccagcctcatccatgtgtcccctgcctgtgcagATAGAACCACCCCAGGCAACTGAGCTGCAGACAGTCTTCCGCCTATCAGCACCCTGGGCTACTCTCAGGCTACACTTTCCTGTCCCAGACCTGCGACCTGACCGGGACCCCTGGGCAGGCCAGACTGTTCAGGCTAGGCAGCTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCGGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAACTTACTTGCTCAGACCTG---Ggtgggtaggcttctttctagaaatagatggggtggcccatgacgggtctg Alignment from Spaln_nt2Genome ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCAAG cattccagtactgaatcccagcctcatccatgtgtcccctgcctgtgcagATAGAACCACCCCAGGCAACTGAGCTGCAGACAGTCTTCCGCCTATCAGCACCCTGGGCTACTCTCAGGCTACACTTTCCTGTCCCAGACCTGCGACCTGACCGGGACCCCTGGGCAGGCCAGACTGTTCAGGCTAGGCAGCTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCGGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAACTTACTTGCTCAGACCTG---Ggtgggtaggcttctttctagaaatagatggggtggcccatgacgggtctg Alignment from Pairagon ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCAAG cattccagtactgaatcccagcctcatccatgtgtcccctgcctgtgcagATAGAACCACCCCAGGCAACTGAGCTGCAGACAGTCTTCCGCCTATCAGCACCCTGGGCTACTCTCAGGCTACACTTTCCTGTCCCAGACCTGCGACCTGACCGGGACCCCTGGGCAGGCCAGACTGTTCAGGCTAGGCAGCTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCGGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAACTTACTTGCTCAGACCTG---Ggtgggtaggcttctttctagaaatagatggggtggcccatgacgggtctg Alignment from Exonerate_protein2genome ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCAAG cattccagtactgaatcccagcctcatccatgtgtcccctgcctgtgcagATAGAACCACCCCAGGCAACTGAGCTGCAGACAGTCTTCCGCCTATCAGCACCCTGGGCTACTCTCAGGCTACACTTTCCTGTCCCAGACCTGCGACCTGACCGGGACCCCTGGGCAGGCCAGACTGTTCAGGCTAGGCAGCTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCGGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAACTTACTTGCTCAGACCTGGGTGggtaggcttctttctagaaatagatggggtggcccatgacgggtctg Alignment from Exonerate_coding2genome ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCAAG cattccagtactgaatcccagcctcatccatgtgtcccctgcctgtgcagATAGAACCACCCCAGGCAACTGAGCTGCAGACAGTCTTCCGCCTATCAGCACCCTGGGCTACTCTCAGGCTACACTTTCCTGTCCCAGACCTGCGACCTGACCGGGACCCCTGGGCAGGCCAGACTGTTCAGGCTAGGCAGCTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCGGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAACTTACTTGCTCAGACCTGGGTGggtaggcttctttctagaaatagatggggtggcccatgacgggtctg Alignment from GeneWise ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGC cattccagtactgaatcccagcctcatccatgtgtcccctgcctgtgcagATAGAACCACCCCAGGCAACTGAGCTGCAGACAGTCTTCCGCCTATCAGCACCCTGGGCTACTCTCAGGCTACACTTTCCTGTCCCAGACCTGCGACCTGACCGGGACCCCTGGGCAGGCCAGACTGTTCAGGCTAGGCAGCTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCGGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAACTTACTTGCTCAGACCTGGgtgggtaggcttctttctagaaatagatggggtggcccatgacgggtctg #### Atg2a_ID1526_15 --> 1 - 0 Original Alignment gGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA--- tgcagaaggctaaacttctcagggcagcagtttggggctttgtctttcaggGTGGTCGTGACTCTGAATCCC---CCAAGTAGCACTCAACGGGAGACAGCTTACAAGAAAGGTCGGGATTTAGAACTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAGACTGAGGAATCTgtaagttgactttcccactcgccattggggacaacatggccgtaactcgt Alignment from CESAR gGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA--- tgcagaaggctaaacttctcagggcagcagtttggggctttgtctttcaggGTGGTCGTGACTCTGAATCCC---CCAAGTAGCACTCAACGGGAGACAGCTTACAAGAAAGGTCGGGATTTAGAACTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAGACTGAGGAATCTgtaagttgactttcccactcgccattggggacaacatggccgtaactcgt Alignment from Spaln_aa2Genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA--- tgcagaaggctaaacttctcagggcagcagtttggggctttgtctttcagGGTGGTCGTGACTCTGAATCCCCCAAGTAGC---ACTCAACGGGAGACAGCTTACAAGAAAGGTCGGGATTTAGAACTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAGACTGAGGAATCTgtaagttgactttcccactcgccattggggacaacatggccgtaactcgt Alignment from Spaln_nt2Genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA--- tgcagaaggctaaacttctcagggcagcagtttggggctttgtctttcagGGTGGTCGTGACTCTGAATCCCC---CAAGTAGCACTCAACGGGAGACAGCTTACAAGAAAGGTCGGGATTTAGAACTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAGACTGAGGAATCTgtaagttgactttcccactcgccattggggacaacatggccgtaactcgt Alignment from Pairagon GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA--- tgcagaaggctaaacttctcagggcagcagtttggggctttgtctttcagGGTGGTCGTGACTCTGAATCCCC---CAAGTAGCACTCAACGGGAGACAGCTTACAAGAAAGGTCGGGATTTAGAACTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAGACTGAGGAATCTgtaagttgactttcccactcgccattggggacaacatggccgtaactcgt Alignment from Exonerate_protein2genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA--- tgcagaaggctaaacttctcagggcagcagtttggggctttgtctttcagGGTGGTCGTGACTCTGAATCCCCCAAGTAGC---ACTCAACGGGAGACAGCTTACAAGAAAGGTCGGGATTTAGAACTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAGACTGAGGAATCTgtaagttgactttcccactcgccattggggacaacatggccgtaactcgt Alignment from Exonerate_coding2genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA--- tgcagaaggctaaacttctcagggcagcagtttggggctttgtctttcagGGTGGTCGTGACTCTGAATCCCCCAAGTAGC---ACTCAACGGGAGACAGCTTACAAGAAAGGTCGGGATTTAGAACTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAGACTGAGGAATCTgtaagttgactttcccactcgccattggggacaacatggccgtaactcgt Alignment from GeneWise ------------------------GTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAAATG tgcagaaggctaaacttctcagggcagCAGTTTGGGGCTTTGTCTTTCAGGGTGGTCGTGACTCTGAATCCCCCAAGTAGC---ACTCAACGGGAGACAGCTTACAAGAAAGGTCGGGATTTAGAACTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAGACTGAGGAATCTgtaagttgactttcccactcgccattggggacaacatggccgtaactcgt #### Atg2a_ID1528_17 --> 1 - 1 Original Alignment gATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAg caggacggatggaggtcctgactttaggttgtttttcctttctgccccagaATCAATAATGACTTACTTATGTGGGAGCCGGCAGATCTACTTCCCACACCAAGTGCTGCTGCTCGGCCACCTGGCTCATCAGGATTCAAGATGTGC------------------ggtaagagaggaacactagcaataagtctgagaaaagctagacagtatatt Alignment from CESAR gATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAg caggacggatggaggtcctgactttaggttgtttttcctttctgccccagaATCAATAATGACTTACTTATGTGGGAGCCGGCAGATCTACTTCCCACACCAAGTGCTGCTGCTCGGCCACCTGGCTCATCAGGATTCAAGATGTGC------------------ggtaagagaggaacactagcaataagtctgagaaaagctagacagtatatt Alignment from Spaln_aa2Genome GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGC------AAGTCAGCCTTCAAGCTAG caggacggatggaggtcctgactttaggttgtttttcctttctgccccagAATCAATAATGACTTACTTATGTGGGAGCCGGCAGATCTACTTCCCACACCAAGTGCTGCTGCTCGGCCACCTGGCTCATCAGGATTCAAGATGTGCGGTAAGAGAGGAACACTAGCAATAAgtctgagaaaagctagacagtatatt Alignment from Spaln_nt2Genome GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCA caggacggatggaggtcctgactttaggttgtttttcctttctgccccagAATCAATAATGACTTACTTATGTGGGAGCCGGCAGATCTACTTCCCACACCAAGTGCTGCTGCTCGGCCACCTGGCTCATCAGGATTCAAGATGTGCGgtaagagaggaacactagcaataagtctgagaaaagctagacagtatatt Alignment from Pairagon GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAG caggacggatggaggtcctgactttaggttgtttttcctttctgccccagAATCAATAATGACTTACTTATGTGGGAGCCGGCAGATCTACTTCCCACACCAAGTGCTGCTGCTCGGCCACCTGGCTCATCAGGATTCAAGATGTGC------------------Ggtaagagaggaacactagcaataagtctgagaaaagctagacagtatatt Alignment from Exonerate_protein2genome GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAG caggacggatggaggtcctgactttaggttgtttttcctttctgccccagAATCAATAATGACTTACTTATGTGGGAGCCGGCAGATCTACTTCCCACACCAAGTGCTGCTGCTCGGCCACCTGGCTCATCAGGATTCAAGATGTGCGGTAAGAGAGGAACACTAGcaataagtctgagaaaagctagacagtatatt Alignment from Exonerate_coding2genome GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAG caggacggatggaggtcctgactttaggttgtttttcctttctgccccagAATCAATAATGACTTACTTATGTGGGAGCCGGCAGATCTACTTCCCACACCAAGTGCTGCTGCTCGGCCACCTGGCTCATCAGGATTCAAGATGTGCGGTAAGAGAGGAACACTAGcaataagtctgagaaaagctagacagtatatt Alignment from GeneWise GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGC------AAGTCAGCCTTCAAGCTAG caggacggatggaggtcctgactttaggttgtttttcctttctgccccagAATCAATAATGACTTACTTATGTGGGAGCCGGCAGATCTACTTCCCACACCAAGTGCTGCTGCTCGGCCACCTGGCTCATCAGGATTCAAGATGTGCGGTAAGAGAGGAACACTAGCAATAAgtctgagaaaagctagacagtatatt #### Atg2a_ID1529_18 --> 2 - 0 Original Alignment acTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGTGAGGCTAAG--------- tgccaagctggcataaaatagtcttcctattttctgccttccatcctcagacTCAGAATCAGATGCAGAAGAAGCCCAGTTC---TCAATGGCATCAGGTGTGCCCCACACACCTGCCCCAGAACCTCCCCGTCGCCAATCCCAGAGTACTTTCTCCACACTTGTGACAGTACTCAAAGGTCGAATCACTGCGCTCCGTAAGGCTAAGAAGAAGAAGgtaaggtaacctagaagccataaaggcctgctgatgggacttactgctga Alignment from CESAR acTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGTGAGGCT---------AAG tgccaagctggcataaaatagtcttcctattttctgccttccatcctcagacTCAGAATCAGATGCAGAAGAAGCCCAG---TTCTCAATGGCATCAGGTGTGCCCCACACACCTGCCCCAGAACCTCCCCGTCGCCAATCCCAGAGTACTTTCTCCACACTTGTGACAGTACTCAAAGGTCGAATCACTGCGCTCCGTAAGGCTAAGAAGAAGAAGgtaaggtaacctagaagccataaaggcctgctgatgggacttactgctga Alignment from Spaln_aa2Genome ACTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGTGAGGCT---------AAG tgccaagctggcataaaatagtcttcctattttctgccttccatcctcagACTCAGAATCAGATGCAGAAGAAGCCCAG---TTCTCAATGGCATCAGGTGTGCCCCACACACCTGCCCCAGAACCTCCCCGTCGCCAATCCCAGAGTACTTTCTCCACACTTGTGACAGTACTCAAAGGTCGAATCACTGCGCTCCGTAAGGCTAAGAAGAAGAAGgtaaggtaacctagaagccataaaggcctgctgatgggacttactgctga Alignment from Spaln_nt2Genome ACTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGTGAGGCTAAG--------- tgccaagctggcataaaatagtcttcctattttctgccttccatcctcagACTCAGAATCAGATGCAGAAGAAGCCCAG---TTCTCAATGGCATCAGGTGTGCCCCACACACCTGCCCCAGAACCTCCCCGTCGCCAATCCCAGAGTACTTTCTCCACACTTGTGACAGTACTCAAAGGTCGAATCACTGCGCTCCGTAAGGCTAAGAAGAAGAAGgtaaggtaacctagaagccataaaggcctgctgatgggacttactgctga Alignment from Pairagon ACTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGTGAGGCTAAG--------- tgccaagctggcataaaatagtcttcctattttctgccttccatcctcagACTCAGAATCAGATGCAGAAGAAGCCCAG---TTCTCAATGGCATCAGGTGTGCCCCACACACCTGCCCCAGAACCTCCCCGTCGCCAATCCCAGAGTACTTTCTCCACACTTGTGACAGTACTCAAAGGTCGAATCACTGCGCTCCGTAAGGCTAAGAAGAAGAAGgtaaggtaacctagaagccataaaggcctgctgatgggacttactgctga Alignment from Exonerate_protein2genome ACTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGTGAGGCTAAG tgccaagctggcataaaatagtcttcctattttctgccttccatcctcagACTCAGAATCAGATGCAGAAGAAGCCCAG---TTCTCAATGGCATCAGGTGTGCCCCACACACCTGCCCCAGAACCTCCCCGTCGCCAATCCCAGAGTACTTTCTCCACACTTGTGACAGTACTCAAAGGTCGAATCACTGCGCTCCGTAAGGCTAAGaagaagaaggtaaggtaacctagaagccataaaggcctgctgatgggacttactgctga Alignment from Exonerate_coding2genome ACTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGTGAGGCTAAG tgccaagctggcataaaatagtcttcctattttctgccttccatcctcagACTCAGAATCAGATGCAGAAGAAGCCCAG---TTCTCAATGGCATCAGGTGTGCCCCACACACCTGCCCCAGAACCTCCCCGTCGCCAATCCCAGAGTACTTTCTCCACACTTGTGACAGTACTCAAAGGTCGAATCACTGCGCTCCGTAAGGCTAAGaagaagaaggtaaggtaacctagaagccataaaggcctgctgatgggacttactgctga Alignment from GeneWise ACTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGTGAGGCTAAGGATGAGACA tgccaagctggcataaaatagtcttcctattttctgccttccatcctcagACTCAGAATCAGATGCAGAAGAAGCCCAGTTC---TCAATGGCATCAGGTGTGCCCCACACACCTGCCCCAGAACCTCCCCGTCGCCAATCCCAGAGTACTTTCTCCACACTTGTGACAGTACTCAAAGGTCGAATCACTGCGCTCCGTAAGGCTAAGAAGAAGAAGgtaaggtaacctagaagccataaaggcctgctgatgggacttactgctga #### Atg2a_ID1530_19 --> 0 - 1 Original Alignment GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGA---g catagtccctaatcactaattctaacaatttcattctgttttcactgtagGACAAGACAGGGAAGCGGCTGGATGTCACCCATGGGGGACTGGCCCTAGATGTGAAGCAAGGTACAATCTTCAGTGTCGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCTAAACTCTATCATCAGATAggtgagtaagtcacttctttgacgcacaagggtcagaatagagcctctttg Alignment from CESAR GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGA---g catagtccctaatcactaattctaacaatttcattctgttttcactgtagGACAAGACAGGGAAGCGGCTGGATGTCACCCATGGGGGACTGGCCCTAGATGTGAAGCAAGGTACAATCTTCAGTGTCGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCTAAACTCTATCATCAGATAggtgagtaagtcacttctttgacgcacaagggtcagcaaccgtgccttttt Alignment from Spaln_aa2Genome GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAGCGG catagtccctaatcactaattctaacaatttcattctgttttcactgtagGACAAGACAGGGAAGCGGCTGGATGTCACCCATGGGGGACTGGCCCTAGATGTGAAGCAAGGTACAATCTTCAGTGTCGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCTAAACTCTATCATCAGATAGgtgagtaagtcacttctttgacgcacaagggtcagaatagagcctctttg Alignment from Spaln_nt2Genome GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCG---AG catagtccctaatcactaattctaacaatttcattctgttttcactgtagGACAAGACAGGGAAGCGGCTGGATGTCACCCATGGGGGACTGGCCCTAGATGTGAAGCAAGGTACAATCTTCAGTGTCGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCTAAACTCTATCATCAGATAGgtgagtaagtcacttctttgacgcacaagggtcagaatagagcctctttg Alignment from Pairagon GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCG------------------------------------------------------- catagtccctaatcactaattctaacaatttcattctgttttcactgtagGACAAGACAGGGAAGCGGCTGGATGTCACCCATGGGGGACTGGCCCTAGATGTGAAGCAAGGTACAATCTTCAGTGTCGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCTAAACTCTATCATCAGATAGGTGAGTAAGTCACTTCTTTGACGCACAAGGGTCAGAATAGAGCCTCTTTG Alignment from Exonerate_protein2genome GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAGCGG catagtccctaatcactaattctaacaatttcattctgttttcactgtagGACAAGACAGGGAAGCGGCTGGATGTCACCCATGGGGGACTGGCCCTAGATGTGAAGCAAGGTACAATCTTCAGTGTCGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCTAAACTCTATCATCAGATAGgtgagtaagtcacttctttgacgcacaagggtcagaatagagcctctttg Alignment from Exonerate_coding2genome GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAGCGG catagtccctaatcactaattctaacaatttcattctgttttcactgtagGACAAGACAGGGAAGCGGCTGGATGTCACCCATGGGGGACTGGCCCTAGATGTGAAGCAAGGTACAATCTTCAGTGTCGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCTAAACTCTATCATCAGATAGgtgagtaagtcacttctttgacgcacaagggtcagaatagagcctctttg Alignment from GeneWise GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAGCGG catagtccctaatcactaattctaacaatttcattctgttttcactgtagGACAAGACAGGGAAGCGGCTGGATGTCACCCATGGGGGACTGGCCCTAGATGTGAAGCAAGGTACAATCTTCAGTGTCGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCTAAACTCTATCATCAGATAGgtgagtaagtcacttctttgacgcacaagggtcagaatagagcctctttg #### Atg2a_ID1531_20 --> 2 - 0 Original Alignment cg------GCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG agtcacttctttgacgcacaagggtcagtcatctcttctctttcgcccagcaTGGAACGCCATTGAGGACTACCTGCGGCCCACCCATTTGCAGGTGCCCAGCTTTGCTCCACCTGCCCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGGGTTACTGAACGAGGAACTTTGGGCCGCAAGGGCCAGGGGCCACCCATGCTGTCTGCAGCTGTTCGTATCCACCTGGACCCACATGAGAATGTTATGgtgagtcacaaggcactgtgggtccctttgcacccgacctgtgccagtag Alignment from CESAR cg------GCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG agtcacttctttgacgcacaagggtcagtcatctcttctctttcgcccagcaTGGAACGCCATTGAGGACTACCTGCGGCCCACCCATTTGCAGGTGCCCAGCTTTGCTCCACCTGCCCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGGGTTACTGAACGAGGAACTTTGGGCCGCAAGGGCCAGGGGCCACCCATGCTGTCTGCAGCTGTTCGTATCCACCTGGACCCACATGAGAATGTTATGgtgagtcacaaggcactgtgggtccctttgcacccgacctgtgccagtag Alignment from Spaln_aa2Genome CG------GCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG agtcacttctttgacgcacaagggtcagtcatctcttctctttcgcccagCATGGAACGCCATTGAGGACTACCTGCGGCCCACCCATTTGCAGGTGCCCAGCTTTGCTCCACCTGCCCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGGGTTACTGAACGAGGAACTTTGGGCCGCAAGGGCCAGGGGCCACCCATGCTGTCTGCAGCTGTTCGTATCCACCTGGACCCACATGAGAATGTTATGgtgagtcacaaggcactgtgggtccctttgcacccgacctgtgccagtag Alignment from Spaln_nt2Genome CG------GCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG agtcacttctttgacgcacaagggtcagtcatctcttctctttcgcccagCATGGAACGCCATTGAGGACTACCTGCGGCCCACCCATTTGCAGGTGCCCAGCTTTGCTCCACCTGCCCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGGGTTACTGAACGAGGAACTTTGGGCCGCAAGGGCCAGGGGCCACCCATGCTGTCTGCAGCTGTTCGTATCCACCTGGACCCACATGAGAATGTTATGgtgagtcacaaggcactgtgggtccctttgcacccgacctgtgccagtag Alignment from Pairagon ----------------------------------------------------------GCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG AGTCACTTCTTTGACGCACAAGGGTCAGTCATCTCTTCTCTTTCGCCCAGCATGGAACGCCATTGAGGACTACCTGCGGCCCACCCATTTGCAGGTGCCCAGCTTTGCTCCACCTGCCCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGGGTTACTGAACGAGGAACTTTGGGCCGCAAGGGCCAGGGGCCACCCATGCTGTCTGCAGCTGTTCGTATCCACCTGGACCCACATGAGAATGTTATGgtgagtcacaaggcactgtgggtccctttgcacccgacctgtgccagtag Alignment from Exonerate_protein2genome CG------GCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG agtcacttctttgacgcacaagggtcagtcatctcttctctttcgcccagCATGGAACGCCATTGAGGACTACCTGCGGCCCACCCATTTGCAGGTGCCCAGCTTTGCTCCACCTGCCCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGGGTTACTGAACGAGGAACTTTGGGCCGCAAGGGCCAGGGGCCACCCATGCTGTCTGCAGCTGTTCGTATCCACCTGGACCCACATGAGAATGTTATGgtgagtcacaaggcactgtgggtccctttgcacccgacctgtgccagtag Alignment from Exonerate_coding2genome CG------GCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG agtcacttctttgacgcacaagggtcagtcatctcttctctttcgcccagCATGGAACGCCATTGAGGACTACCTGCGGCCCACCCATTTGCAGGTGCCCAGCTTTGCTCCACCTGCCCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGGGTTACTGAACGAGGAACTTTGGGCCGCAAGGGCCAGGGGCCACCCATGCTGTCTGCAGCTGTTCGTATCCACCTGGACCCACATGAGAATGTTATGgtgagtcacaaggcactgtgggtccctttgcacccgacctgtgccagtag Alignment from GeneWise ----------------------------------------------------------GCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG AGTCACTTCTTTGACGCACAAGGGTCAGTCATCTCTTCTCTTTCGCCCAGCATGGAACGCCATTGAGGACTACCTGCGGCCCACCCATTTGCAGGTGCCCAGCTTTGCTCCACCTGCCCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGGGTTACTGAACGAGGAACTTTGGGCCGCAAGGGCCAGGGGCCACCCATGCTGTCTGCAGCTGTTCGTATCCACCTGGACCCACATGAGAATGTTATGgtgagtcacaaggcactgtgggtccctttgcacccgacctgtgccagtag #### Atg2a_ID1532_21 --> 0 - 0 Original Alignment ---GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG tcgtctggcagcctgcttctgcttctgtattaccgtgttcatattttcagTCGGAATTTCTAGTGACGGTAAGATCACACAAGGCAACCCTTTGCCACTACATGGCTCCACCTGAACAGAGCTGGCATTCCCAGgtaaggtaagaccactgaagtcattgccctggcattacaatcataccctt Alignment from CESAR ---GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG tcgtctggcagcctgcttctgcttctgtattaccgtgttcatattttcagTCGGAATTTCTAGTGACGGTAAGATCACACAAGGCAACCCTTTGCCACTACATGGCTCCACCTGAACAGAGCTGGCATTCCCAGgtaaggtaagaccactgaagtcattgccctggcattacaatcataccctt Alignment from Spaln_aa2Genome AAGGAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG tcgtctggcagcctgcttctgcttctgtattaccgtgttcatattttcagTCGGAATTTCTAGTGACGGTAAGATCACACAAGGCAACCCTTTGCCACTACATGGCTCCACCTGAACAGAGCTGGCATTCCCAGgtaaggtaagaccactgaagtcattgccctggcattacaatcataccctt Alignment from Spaln_nt2Genome ---GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG tcgtctggcagcctgcttctgcttctgtattaccgtgttcatattttcagTCGGAATTTCTAGTGACGGTAAGATCACACAAGGCAACCCTTTGCCACTACATGGCTCCACCTGAACAGAGCTGGCATTCCCAGgtaaggtaagaccactgaagtcattgccctggcattacaatcataccctt Alignment from Pairagon ---GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG tcgtctggcagcctgcttctgcttctgtattaccgtgttcatattttcagTCGGAATTTCTAGTGACGGTAAGATCACACAAGGCAACCCTTTGCCACTACATGGCTCCACCTGAACAGAGCTGGCATTCCCAGgtaaggtaagaccactgaagtcattgccctggcattacaatcataccctt Alignment from Exonerate_protein2genome GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG tcgtctggcagcctgcttctgcttctgtattaccgtgttcatattttcagtcgGAATTTCTAGTGACGGTAAGATCACACAAGGCAACCCTTTGCCACTACATGGCTCCACCTGAACAGAGCTGGCATTCCCAGgtaaggtaagaccactgaagtcattgccctggcattacaatcataccctt Alignment from Exonerate_coding2genome GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG tcgtctggcagcctgcttctgcttctgtattaccgtgttcatattttcagtcgGAATTTCTAGTGACGGTAAGATCACACAAGGCAACCCTTTGCCACTACATGGCTCCACCTGAACAGAGCTGGCATTCCCAGgtaaggtaagaccactgaagtcattgccctggcattacaatcataccctt Alignment from GeneWise ---GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG tcgtctggcagcctgcttctgcttctgtattaccgtgttcatattttcagTCGGAATTTCTAGTGACGGTAAGATCACACAAGGCAACCCTTTGCCACTACATGGCTCCACCTGAACAGAGCTGGCATTCCCAGgtaaggtaagaccactgaagtcattgccctggcattacaatcataccctt #### Atg2a_ID1533_22 --> 0 - 2 Original Alignment CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTCCTGCGCTGTGGACTACag aaatgatcactctggtcttgctccacacctcattggccctgcacctccagCTTCTAGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGTTACTTACCGCCAACCATTATTACTGTGCTGCACACACATCTCTTC------------------aggtgtgtgtggggtccgatgctatagttctgtagtgttgcaggcgcatgga Alignment from CESAR CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTCCTGCGCTGTGGACTACag aaatgatcactctggtcttgctccacacctcattggccctgcacctccagCTTCTAGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGTTACTTACCGCCAACCATTATTACTGTGCTGCACACACATCTCTTCAGGTGT------------gtgtggggtccgatgctatagttctgtagtgttg Alignment from Spaln_aa2Genome CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTCCTGCGCTGTGGACTACAG aaatgatcactctggtcttgctccacacctcattggccctgcacctccagCTTCTAGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGTTACTTACCGCCAACCATTATTACTGTGCTGCACACACATCTCTTCAGGTGTGTGTGGGGTCCGATgctatagttctgtagtgttgcaggcgcatgga Alignment from Spaln_nt2Genome CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTCCTGCGCTGTGGACTACAG aaatgatcactctggtcttgctccacacctcattggccctgcacctccagCTTCTAGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGTTACTTACCGCCAACCATTATTACTGTGCTGCACACACATCTCTTCAGGTGTG-TGTGG------Ggtccgatgctatagttctgtagtgttgcaggc Alignment from Pairagon CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTCCTGCGCTGTGGACTACAG aaatgatcactctggtcttgctccacacctcattggccctgcacctccagCTTCTAGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGTTACTTACCGCCAACCATTATTACTGTGCTGCACACACATCTCTT------------------CAGgtgtgtgtggggtccgatgctatagttctgtagtgttgcaggcgcatgga Alignment from Exonerate_protein2genome CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTC aaatgatcactctggtcttgctccacacctcattggccctgcacctccagCTTCTAGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGTTACTTACCGCCAACCATTATTACTGTGCTGCACACACATCTCTTCAGgtgtgtgtggggtccgatgctatagttctgtagtgttgcaggcgcatgga Alignment from Exonerate_coding2genome CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTC aaatgatcactctggtcttgctccacacctcattggccctgcacctccagCTTCTAGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGTTACTTACCGCCAACCATTATTACTGTGCTGCACACACATCTCTTCAGgtgtgtgtggggtccgatgctatagttctgtagtgttgcaggcgcatgga Alignment from GeneWise CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTCCTGC GCTGTGGAC aaatgatcactctggtcttgctccacacctcattggccctgcacctccagCTTCTAGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGTTACTTACCGCCAACCATTATTACTGTGCTGCACACACATCTCTTCAGGTGTgtgtggggtccgatgctatagttctgtagtgttgcagGCGCATGGA #### Atg2a_ID1536_25 --> 2 - 0 Original Alignment atTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG------ tagcttgttatcaggacctggaagggcaccccctttgtaataaacaatagacTATGTATGTGTGCTGGATATT---GTTCTGGAGCTTGTTATCAGGACCTGGAAGGGCAGTACTGAAGGCAGATTGGGATTTgtgaggatggagccagaaaagggcacagtttgaggtgttagtaagctgac Alignment from CESAR atTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG------ tagcttgttatcaggacctggaagggcaccccctttgtaataaacaatagacTATGTATGTGTGCTGGATATT---GTTCTGGAGCTTGTTATCAGGACCTGGAAGGGCAGTACTGAAGGCAGATTGGGATTTgtgaggatggagccagaaaagggcacagtttgaggtgttagtaagctgac Alignment from Spaln_aa2Genome ATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTGAGCCAG tagcttgttatcaggacctggaagggcaccccctttgtaataaacaatagACTATGTATGTGTGCTGGATATT---GTTCTGGAGCTTGTTATCAGGACCTGGAAGGGCAGTACTGAAGGCAGATTGGGATTTgtgaggatggagccagaaaagggcacagtttgaggtgttagtaagctgac Alignment from Spaln_nt2Genome CTGGAA CTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG------ TAGCTTgttatcaggacctggaagggcaccccctttgtaataaacaatagactatgtatgtgtgctggatattgttctggagCTTGTTATCAGGACCTGGAAGGGCAGTACTGAAGGCAGATTGGGATTTgtgaggatggagccagaaaagggcacagtttgaggtgttagtaagctgac Alignment from Pairagon ATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG------ tagcttgttatcaggacctggaagggcaccccctttgtaataaacaatagACTATGTATGTGTGCTGGATATTG---TTCTGGAGCTTGTTATCAGGACCTGGAAGGGCAGTACTGAAGGCAGATTGGGATTTgtgaggatggagccagaaaagggcacagtttgaggtgttagtaagctgac Alignment from Exonerate_protein2genome ATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG tagcttgttatcaggacctggaagggcaccccctttgtaataaacaatagACTATGTATGTGTGCTGGATATT---GTTCTGGAGCTTGTTATCAGGACCTGGAAGGGCAGTACTGAAGGCAGATTGggatttgtgaggatggagccagaaaagggcacagtttgaggtgttagtaagctgac Alignment from Exonerate_coding2genome TCTGTACCTGTCTGACAAGTGTGAGGTGGAGAGCCTGGATCTGCGGCGAGATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG TAGCTTGTTATCAGGACCTGGAAGGGCACCCCCTTTGTAATAAACAATAGACTATGTATGTGTGCTGGATATT---GTTCTGGAGCTTGTTATCAGGACCTGGAAGGGCAGTACTGAAGGCAGATTGggatttgtgaggatggagccagaaaagggcacagtttgaggtgttagtaagctgac Alignment from GeneWise ATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTGAGCCAG tagcttgttatcaggacctggaagggcaccccctttgtaataaacaatagACTATGTATGTGTGCTGGATATT---GTTCTGGAGCTTGTTATCAGGACCTGGAAGGGCAGTACTGAAGGCAGATTGGGATTTgtgaggatggagccagaaaagggcacagtttgaggtgttagtaagctgac #### Atg2a_ID1539_28 --> 2 - 0 Original Alignment gtGGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG aaaccgaaagccagactttacactgaactttctcacttttgtcttcacaggt---ACACTTCCTCAGTCTTCCCCTATCTCAGCCTAT---TTCCCAGGTGGGCAGAGTGGAGTCCAGGCACCTTCACATCCTCCTGGGGCCTCCTCTCATACCTTGGGT---AAGGCAAGGGAGCATGAA------GAGGAAGGTGATGGAGACACTCTGGATAGTGATGAATTCTGCATCCTTGATGCCCCTGGCATAGGTATTGCGgtgagttgggactggagtgtttggtaagaactactgcttttattggagga Alignment from CESAR gtGGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG cagaaaccgaaagccagactttacaaactttctcacttttgtcttcacaggt---ACACTTCCTCAGTCTTCCCCTATCTCAGCCTAT---TTCCCAGGTGGGCAGAGTGGAGTCCAGGCACCTTCACATCCTCCTGGGGCCTCCTCTCATACCTTGGGT---AAGGCAAGGGAGCAT------GAAGAGGAAGGTGATGGAGACACTCTGGATAGTGATGAATTCTGCATCCTTGATGCCCCTGGCATAGGTATTGCGgtgagttgggactggagtgtttggtaagaactactgcttttattggagga Alignment from Spaln_aa2Genome GCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG aaaccgaaagccagactttacactgaactttctcacttttgtcttcacagGTACACTTCCTCAGTCTTCCCCTATCTCAGCCTAT---TTCCCAGGTGGGCAGAGTGGAGTCCAGGCACCTTCACATCCTCCTGGGGCCTCCTCTCATACCTTGGGT---AAGGCAAGGGAGCAT------GAAGAGGAAGGTGATGGAGACACTCTGGATAGTGATGAATTCTGCATCCTTGATGCCCCTGGCATAGGTATTGCGgtgagttgggactggagtgtttggtaagaactactgcttttattggagga Alignment from Spaln_nt2Genome GTGGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG aaaccgaaagccagactttacactgaactttctcacttttgtcttcacagGT---ACACTTCCTCAGTCTTCCCCTATCTCAGCCTAT---TTCCCAGGTGGGCAGAGTGGAGTCCAGGCACCTTCACATCCTCCTGGGGCCTCCTCTCATACCTTGGG---TAAGGCAAGGGAGCAT------GAAGAGGAAGGTGATGGAGACACTCTGGATAGTGATGAATTCTGCATCCTTGATGCCCCTGGCATAGGTATTGCGgtgagttgggactggagtgtttggtaagaactactgcttttattggagga Alignment from Pairagon -------------------------------------------------GGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG AAACCGAAAGCCAGACTTTACACTGAACTTTCTCACTTTTGTCTTCACAGGTACACTTCCTCAGTCTTCCCCTATCTCAGCCTAT---TTCCCAGGTGGGCAGAGTGGAGTCCAGGCACCTTCACATCCTCCTGGGGCCTCCTCTCATACCTTGGG---TAAGGCAAGGGAGCAT------GAAGAGGAAGGTGATGGAGACACTCTGGATAGTGATGAATTCTGCATCCTTGATGCCCCTGGCATAGGTATTGCGgtgagttgggactggagtgtttggtaagaactactgcttttattggagga Alignment from Exonerate_protein2genome GCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG aaaccgaaagccagactttacactgaactttctcacttttgtcttcacagGTACACTTCCTCAGTCTTCCCCTATCTCAGCCTAT---TTCCCAGGTGGGCAGAGTGGAGTCCAGGCACCTTCACATCCTCCTGGGGCCTCCTCTCATACCTTGGGT---AAGGCAAGGGAGCAT------GAAGAGGAAGGTGATGGAGACACTCTGGATAGTGATGAATTCTGCATCCTTGATGCCCCTGGCATAGGTATTGCGgtgagttgggactggagtgtttggtaagaactactgcttttattggagga Alignment from Exonerate_coding2genome GCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG aaaccgaaagccagactttacactgaactttctcacttttgtcttcacagGTACACTTCCTCAGTCTTCCCCTATCTCAGCCTAT---TTCCCAGGTGGGCAGAGTGGAGTCCAGGCACCTTCACATCCTCCTGGGGCCTCCTCTCATACCTTGGGT---AAGGCAAGGGAGCAT------GAAGAGGAAGGTGATGGAGACACTCTGGATAGTGATGAATTCTGCATCCTTGATGCCCCTGGCATAGGTATTGCGgtgagttgggactggagtgtttggtaagaactactgcttttattggagga Alignment from GeneWise GTGGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG aaaccgaaagccagactttacactgaactttctcacttttgtcttcacagGT---ACACTTCCTCAGTCTTCCCCTATCTCAGCCTAT---TTCCCAGGTGGGCAGAGTGGAGTCCAGGCACCTTCACATCCTCCTGGGGCCTCCTCTCATACCTTGGGT---AAGGCAAGGGAGCATGAA------GAGGAAGGTGATGGAGACACTCTGGATAGTGATGAATTCTGCATCCTTGATGCCCCTGGCATAGGTATTGCGgtgagttgggactggagtgtttggtaagaactactgcttttattggagga #### Atg2a_ID1540_29 --> 0 - 2 Original Alignment CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTACag gtacctgggtcgccacaccagtggctgcacccattttctgtgtcttgcagCCTCAAGATGGGGAACCCATTGTAACACAGCTCCACCCAGGACCTATTATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCAGCTGCTCACTTCCCTGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATTTGGCACCTCTGTGGTGGCAGAGACTTTGGCCTTCAC---------aggtaacggttaaaatctataccattttgctgatgctccagcattgctcaag Alignment from CESAR CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTACag gtacctgggtcgccacaccagtggctgcacccattttctgtgtcttgcagCCTCAAGATGGGGAACCCATTGTAACACAGCTCCACCCAGGACCTATTATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCAGCTGCTCACTTCCCTGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATTTGGCACCTCTGTGGTGGCAGAGACTTTGGCCTTCAC---------aggtaacggttaaaatctataccattttgctgatgctccagcattgctcaag Alignment from Spaln_aa2Genome CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCC gtacctgggtcgccacaccagtggctgcacccattttctgtgtcttgcagCCTCAAGATGGGGAACCCATTGTAACACAGCTCCACCCAGGACCTATTATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCAGCTGCTCACTTCCCTGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATTTGGCACCTCTGTGGTGGCAGAGACTTTGGCCTTCACAGgtaacggttaaaatctataccattttgctgatgctccagcattgctcaag Alignment from Spaln_nt2Genome CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCC gtacctgggtcgccacaccagtggctgcacccattttctgtgtcttgcagCCTCAAGATGGGGAACCCATTGTAACACAGCTCCACCCAGGACCTATTATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCAGCTGCTCACTTCCCTGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATTTGGCACCTCTGTGGTGGCAGAGACTTTGGCCTTCACAGgtaacggttaaaatctataccattttgctgatgctccagcattgctcaag Alignment from Pairagon CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTACAG gtacctgggtcgccacaccagtggctgcacccattttctgtgtcttgcagCCTCAAGATGGGGAACCCATTGTAACACAGCTCCACCCAGGACCTATTATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCAGCTGCTCACTTCCCTGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATTTGGCACCTCTGTGGTGGCAGAGACTTTGGCCTTC---------ACAGgtaacggttaaaatctataccattttgctgatgctccagcattgctcaag Alignment from Exonerate_protein2genome CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCC gtacctgggtcgccacaccagtggctgcacccattttctgtgtcttgcagCCTCAAGATGGGGAACCCATTGTAACACAGCTCCACCCAGGACCTATTATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCAGCTGCTCACTTCCCTGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATTTGGCACCTCTGTGGTGGCAGAGACTTTGGCCTTCACAGgtaacggttaaaatctataccattttgctgatgctccagcattgctcaag Alignment from Exonerate_coding2genome CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCC gtacctgggtcgccacaccagtggctgcacccattttctgtgtcttgcagCCTCAAGATGGGGAACCCATTGTAACACAGCTCCACCCAGGACCTATTATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCAGCTGCTCACTTCCCTGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATTTGGCACCTCTGTGGTGGCAGAGACTTTGGCCTTCACAGgtaacggttaaaatctataccattttgctgatgctccagcattgctcaag Alignment from GeneWise CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCC gtacctgggtcgccacaccagtggctgcacccattttctgtgtcttgcagCCTCAAGATGGGGAACCCATTGTAACACAGCTCCACCCAGGACCTATTATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCAGCTGCTCACTTCCCTGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATTTGGCACCTCTGTGGTGGCAGAGACTTTGGCCTTCACAGgtaacggttaaaatctataccattttgctgatgctccagcattgctcaag #### Atg2a_ID1543_32 --> 0 - 0 Original Alignment ------CTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG ctcacagcccgctatgcacatagtgcacttgttggtgtttgtcgttgtagATCGGAGTAACCATCAAGGCACTGCATGTGGCTCCCACCTGCAGTGTTGGG---CCAAAGTGTTGTCTTCTGGTGTCCATGATGCCTCTGAGGCTCAATGTAGACCAAgtaaagacattattaggagcagtggcaaatatgctcttctccacagcctt Alignment from CESAR CTT------ACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG ctcacagcccgctatgcacatagtgcacttgttggtgtttgtcgttgtagATCGGAGTAACCATCAAGGCACTGCATGTGGCTCCCACCTGCAGTGTT---GGGCCAAAGTGTTGTCTTCTGGTGTCCATGATGCCTCTGAGGCTCAATGTAGACCAAgtaaagacattattaggagcagtggcaaatatgctcttctccacagcctt Alignment from Spaln_aa2Genome CTT------ACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG ctcacagcccgctatgcacatagtgcacttgttggtgtttgtcgttgtagATCGGAGTAACCATCAAGGCACTGCATGTGGCTCCCACCTGCAGTGTT---GGGCCAAAGTGTTGTCTTCTGGTGTCCATGATGCCTCTGAGGCTCAATGTAGACCAAgtaaagacattattaggagcagtggcaaatatgctcttctccacagcctt Alignment from Spaln_nt2Genome CTT------ACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG ctcacagcccgctatgcacatagtgcacttgttggtgtttgtcgttgtagATCGGAGTAACCATCAAGGCACTGCATGTGGCTCCCACCTGCAGTGT---TGGGCCAAAGTGTTGTCTTCTGGTGTCCATGATGCCTCTGAGGCTCAATGTAGACCAAgtaaagacattattaggagcagtggcaaatatgctcttctccacagcctt Alignment from Pairagon CTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG ctcacagcccgctatgcacatagtgcacttgttggtgtttgtcgttgtagatcggag-TAACCATCAAGGCACTGCATGTGGCTCCCACCTGCAGTGTT---GGGCCAAAGTGTTGTCTTCTGGTGTCCATGATGCCTCTGAGGCTCAATGTAGACCAAgtaaagacattattaggagcagtggcaaatatgctcttctccacagcctt Alignment from Exonerate_protein2genome CTT------ACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG ctcacagcccgctatgcacatagtgcacttgttggtgtttgtcgttgtagATCGGAGTAACCATCAAGGCACTGCATGTGGCTCCCACCTGCAGTGTT---GGGCCAAAGTGTTGTCTTCTGGTGTCCATGATGCCTCTGAGGCTCAATGTAGACCAAgtaaagacattattaggagcagtggcaaatatgctcttctccacagcctt Alignment from Exonerate_coding2genome CTT------ACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG ctcacagcccgctatgcacatagtgcacttgttggtgtttgtcgttgtagATCGGAGTAACCATCAAGGCACTGCATGTGGCTCCCACCTGCAGTGTT---GGGCCAAAGTGTTGTCTTCTGGTGTCCATGATGCCTCTGAGGCTCAATGTAGACCAAgtaaagacattattaggagcagtggcaaatatgctcttctccacagcctt Alignment from GeneWise --ACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG ctcacagcccgctatgcacatagtgcacttgttggtgtttgtcgttgtagatcggagTAACCATCAAGGCACTGCATGTGGCTCCCACCTGCAGTGTTGGG---CCAAAGTGTTGTCTTCTGGTGTCCATGATGCCTCTGAGGCTCAATGTAGACCAAgtaaagacattattaggagcagtggcaaatatgctcttctccacagcctt #### Atg2a_ID1544_33 --> 0 - 1 Original Alignment GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAGg aatatgctcttctccacagccttaggtcacgtgtgtgtttctcctcccagGACGCCCTCTTTTTCCTAGAAGACTTTTTCACCAGCATAGCAGCTAGCACCAATCCTATGGTTCCGGGTGATACC------ggcaagtatttaccattttgtagaagagtactctgttccactgccacaatt Alignment from CESAR GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAGg aatatgctcttctccacagccttaggtcacgtgtgtgtttctcctcccagGACGCCCTCTTTTTCCTAGAAGACTTTTTCACCAGCATAGCAGCTAGCACCAATCCTATGGTTCCGGGTGATACC------ggcaagtatttaccattttgtagaagagtactctgttccactgccacaatt Alignment from Spaln_aa2Genome GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACT- aatatgctcttctccacagccttaggtcacgtgtgtgtttctcctcccagGACGCCCTCTTTTTCCTAGAAGACTTTTTCACCAGCATAGCAGCTAGCACCAATCCTATGGTTCCGGGTGATACCGgcaagtatttaccattttgtagaagagtactctgttccactgccacaatt Alignment from Spaln_nt2Genome GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAGG aatatgctcttctccacagccttaggtcacgtgtgtgtttctcctcccagGACGCCCTCTTTTTCCTAGAAGACTTTTTCACCAGCATAGCAGCTAGCACCAATCCTATGGTTCCGGGTGATAC--CGGCAAgtatttaccattttgtagaagagtactctgttccactgccacaatt Alignment from Pairagon GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAGG aatatgctcttctccacagccttaggtcacgtgtgtgtttctcctcccagGACGCCCTCTTTTTCCTAGAAGACTTTTTCACCAGCATAGCAGCTAGCACCAATCCTATGGTTCC---------------GGgtgataccggcaagtatttaccattttgtagaagagtactctgttccactgccacaatt Alignment from Exonerate_protein2genome GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGA aatatgctcttctccacagccttaggtcacgtgtgtgtttctcctcccagGACGCCCTCTTTTTCCTAGAAGACTTTTTCACCAGCATAGCAGCTAGCACCAATCCTATGGTTCCGGGTGATACCGGCAAgtatttaccattttgtagaagagtactctgttccactgccacaatt Alignment from Exonerate_coding2genome GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGA aatatgctcttctccacagccttaggtcacgtgtgtgtttctcctcccagGACGCCCTCTTTTTCCTAGAAGACTTTTTCACCAGCATAGCAGCTAGCACCAATCCTATGGTTCCGGGTGATACCGGCAAgtatttaccattttgtagaagagtactctgttccactgccacaatt Alignment from GeneWise GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAG------------G aatatgctcttctccacagccttaggtcacgtgtgtgtttctcctcccagGACGCCCTCTTTTTCCTAGAAGACTTTTTCACCAGCATAGCAGCTAGCACCAATCCTATGGTTCCGGGTGATACCGGCAAGTATTTACCATTTTgtagaagagtactctgttccactgccacaatt #### Atg2a_ID1545_34 --> 2 - 2 Original Alignment ctCCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCT------GACCAGCAGCCTATCTACTTCag acaattcctctgtgctaatcttaaacactccccatttttttatttgaaagccCCTCAAGAGACCCACAGCTGGCCAGATAGCCCCCAAGGAGGACAGTCTGAGGACACAGAGACAGCGAGTAACCCCCTAGAATCTCCAGGAAGTAGCCACAGTTCTTCTGACCAA---------------------aggtaggcgaaaggggcattgggtagtaatggggcgtacttggggcaggatg Alignment from CESAR ctCCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCTGACCAGCAGCCTATCTACTTCag acaattcctctgtgctaatcttaaacactccccatttttttatttgaaagccCCTCAAGAGACCCACAGCTGGCCAGATAGCCCCCAAGGAGGACAGTCTGAGGACACAGAGACAGCGAGTAACCCCCTAGAATCTCCAGGAAGTAGCCACAGTTCTTCTGACCAA---------------aggtaggcgaaaggggcattgggtagtaatggggcgtacttggggcaggatg Alignment from Spaln_aa2Genome CTCCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCTGACCAGCA acaattcctctgtgctaatcttaaacactccccatttttttatttgaaagCCCCTCAAGAGACCCACAGCTGGCCAGATAGCCCCCAAGGAGGACAGTCTGAGGACACAGAGACAGCGAGTAACCCCCTAGAATCTCCAGGAAGTAGCCACAGTTCTTCTGACCAAAGgtaggcgaaaggggcattgggtagtaatggggcgtacttggggcaggatg Alignment from Spaln_nt2Genome CTCCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCTGACCAGCAG CCTA acaattcctctgtgctaatcttaaacactccccatttttttatttgaaagCCCCTCAAGAGACCCACAGCTGGCCAGATAGCCCCCAAGGAGGACAGTCTGAGGACACAGAGACAGCGAGTAACCCCCTAGAATCTCCAGGAAGTAGCCACAGTTCTTCTGACCA-AAGgtaggcgaaaggggcattgggtagtaatggggcgtacttggggcagGATG Alignment from Pairagon CTCCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCTGACCAGCAGCCTATCTACTTCAG acaattcctctgtgctaatcttaaacactccccatttttttatttgaaagCCCCTCAAGAGACCCACAGCTGGCCAGATAGCCCCCAAGGAGGACAGTCTGAGGACACAGAGACAGCGAGTAACCCCCTAGAATCTCCAGGAAGTAGCCACAGTTCTTCTGACCAA---------------AGgtaggcgaaaggggcattgggtagtaatggggcgtacttggggcaggatg Alignment from Exonerate_protein2genome CTCCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCTGACCAGCA acaattcctctgtgctaatcttaaacactccccatttttttatttgaaagCCCCTCAAGAGACCCACAGCTGGCCAGATAGCCCCCAAGGAGGACAGTCTGAGGACACAGAGACAGCGAGTAACCCCCTAGAATCTCCAGGAAGTAGCCACAGTTCTTCTGACCAAAGgtaggcgaaaggggcattgggtagtaatggggcgtacttggggcaggatg Alignment from Exonerate_coding2genome CTCCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCTGACCAGCA acaattcctctgtgctaatcttaaacactccccatttttttatttgaaagCCCCTCAAGAGACCCACAGCTGGCCAGATAGCCCCCAAGGAGGACAGTCTGAGGACACAGAGACAGCGAGTAACCCCCTAGAATCTCCAGGAAGTAGCCACAGTTCTTCTGACCAAAGgtaggcgaaaggggcattgggtagtaatggggcgtacttggggcaggatg Alignment from GeneWise CTCCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCTGACCAG-- acaattcctctgtgctaatcttaaacactccccatttttttatttgaaagCCCCTCAAGAGACCCACAGCTGGCCAGATAGCCCCCAAGGAGGACAGTCTGAGGACACAGAGACAGCGAGTAACCCCCTAGAATCTCCAGGAAGTAGCCACAGTTCTTCTGACCAAAGgtaggcgaaaggggcattgggtagtaatggggcgtacttggggcaggatg #### Atg2a_ID1546_35 --> 1 - 0 Original Alignment g---GAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG gagttagaggttagaggccaagtgatcctaggcattgtctctgtccccaggTTGGAGTTCCGGTTCACATCTGAGGTCCCCATTTGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGgtatcttccacagggcaggctttgttagctgttttcaatatttagcatta Alignment from CESAR g---GAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG gagttagaggttagaggccaagtgatcctaggcattgtctctgtccccaggTTGGAGTTCCGGTTCACATCTGAGGTCCCCATTTGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGgtatcttccacagggcaggctttgttagctgttttcaatatttagcatta Alignment from Spaln_aa2Genome G----GAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG gagttagaggttagaggccaagtgatcctaggcattgtctctgtccccagGTTGGAGTTCCGGTTCACATCTGAGGTCCCCATTTGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGgtatcttccacagggcaggctttgttagctgttttcaatatttagcatta Alignment from Spaln_nt2Genome G---GAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG gagttagaggttagaggccaagtgatcctaggcattgtctctgtccccagGTTGGAGTTCCGGTTCACATCTGAGGTCCCCATTTGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGgtatcttccacagggcaggctttgttagctgttttcaatatttagcatta Alignment from Pairagon ---GGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG gagttagaggttagaggccaagtgatcctaggcattgtctctgtccccagGTTGGAGTTCCGGTTCACATCTGAGGTCCCCATTTGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGgtatcttccacagggcaggctttgttagctgttttcaatatttagcatta Alignment from Exonerate_protein2genome G---GAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG gagttagaggttagaggccaagtgatcctaggcattgtctctgtccccagGTTGGAGTTCCGGTTCACATCTGAGGTCCCCATTTGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGgtatcttccacagggcaggctttgttagctgttttcaatatttagcatta Alignment from Exonerate_coding2genome G---GAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG gagttagaggttagaggccaagtgatcctaggcattgtctctgtccccagGTTGGAGTTCCGGTTCACATCTGAGGTCCCCATTTGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGgtatcttccacagggcaggctttgttagctgttttcaatatttagcatta Alignment from GeneWise -AGGGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG gagttagaggttagaggccaagtgatcctaggcattgtctctgtccccagGTTGGAGTTCCGGTTCACATCTGAGGTCCCCATTTGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGgtatcttccacagggcaggctttgttagctgttttcaatatttagcatta #### B3gat3_ID2492_4 --> 0 - 0 Original Alignment ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG aaccttctcgacgaacacttttcttcttataatgatgcacctttttccag---------ACTCGTGGTGTCTCAGTGTGGCCTGTTGGTCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTTCTAAGTCACCTTGTAGATCCGACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtgagagaacagtaatcagatcagaggaagggggggattctgggctaagc Alignment from CESAR ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG attcagaccaaccttctcgacgaaccttataatgatgcacctttttccag---------ACTCGTGGTGTCTCAGTGTGGCCTGTTGGTCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTTCTAAGTCACCTTGTAGATCCGACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtgagagaacagtaatcagatcagaggaagggggggattctgggctaagc Alignment from Spaln_aa2Genome ACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG aaccttctcgacgaacacttttcttcttataatgatgcacctttttccagACTCGTGGTGTCTCAGTGTGGCCTGTTGGTCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTTCTAAGTCACCTTGTAGATCCGACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtgagagaacagtaatcagatcagaggaagggggggattctgggctaagc Alignment from Spaln_nt2Genome ACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG aaccttctcgacgaacacttttcttcttataatgatgcacctttttccagACTCGTGGTGTCTCAGTGTGGCCTGTTGGTCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTTCTAAGTCACCTTGTAGATCCGACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtgagagaacagtaatcagatcagaggaagggggggattctgggctaagc Alignment from Pairagon ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG aaccttctcgacgaacacttttcttcttataatgatgcacctttttccag---------ACTCGTGGTGTCTCAGTGTGGCCTGTTGGTCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTTCTAAGTCACCTTGTAGATCCGACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtgagagaacagtaatcagatcagaggaagggggggattctgggctaagc Alignment from Exonerate_protein2genome ACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG aaccttctcgacgaacacttttcttcttataatgatgcacctttttccagACTCGTGGTGTCTCAGTGTGGCCTGTTGGTCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTTCTAAGTCACCTTGTAGATCCGACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtgagagaacagtaatcagatcagaggaagggggggattctgggctaagc Alignment from Exonerate_coding2genome ACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG aaccttctcgacgaacacttttcttcttataatgatgcacctttttccagACTCGTGGTGTCTCAGTGTGGCCTGTTGGTCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTTCTAAGTCACCTTGTAGATCCGACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtgagagaacagtaatcagatcagaggaagggggggattctgggctaagc Alignment from GeneWise ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG aaccttctcgacgaacacttttcttcttataatgatgcacctttttccagACTCGT---------GGTGTCTCAGTGTGGCCTGTTGGTCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTTCTAAGTCACCTTGTAGATCCGACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtgagagaacagtaatcagatcagaggaagggggggattctgggctaagc #### Bbs1_ID728_6 --> 1 - 2 Original Alignment g------GAAAAGGCAGACGTGCCTTTGTCTGTGCAGTCACTCag ggtggccctcttcccgtggttccttgtcctgcaccatcttcctcctctaggGTAACAGAAAAGGCAGATTTACCCTTGTCTGTTCAGTCACTTaggtttcaatttattgcaaagagggtgggtgggagtcccgtagagctaacta Alignment from CESAR g------GAAAAGGCAGACGTGCCTTTGTCTGTGCAGTCACTCag ggtggccctcttcccgtggttccttgtcctgcaccatcttcctcctctaggGTAACAGAAAAGGCAGATTTACCCTTGTCTGTTCAGTCACTTaggtttcaatttattgcaaagagggtgggtgggagtcccgtagagctaacta Alignment from Spaln_aa2Genome G-------GAAAAGGCAGACGTGCCTTTGTCTGTGCAGTCACTCAG ggtggccctcttcccgtggttccttgtcctgcaccatcttcctcctctagGGTAACAGAAAAGGCAGATTTACCCTTGTCTGTTCAGTCACTTAGgtttcaatttattgcaaagagggtgggtgggagtcccgtagagctaacta Alignment from Spaln_nt2Genome GG------AAAAGGCAGACGTGCCTTTGTCTGTGCAGTCACTCAG ggtggccctcttcccgtggttccttgtcctgcaccatcttcctcctctagGGTAACAGAAAAGGCAGATTTACCCTTGTCTGTTCAGTCACTTAGgtttcaatttattgcaaagagggtgggtgggagtcccgtagagctaacta Alignment from Pairagon ---------------------------------------------------------GAAAAGGCAGACGTGCCTTTGTCTGTGCAGTCACTCAGGTTTC--------------------------------------------- GGTGGCCCTCTTCCCGTGGTTCCTTGTCCTGCACCATCTTCCTCCTCTAGGGTAACAGAAAAGGCAGATTTACCCTTGTCTGTTCAGTCACTTAGGTTTCAATTTATTGCAAAGAGGGTGGGTGGGAGTCCCGTAGAGCTAACTA Alignment from Exonerate_protein2genome G------GAAAAGGCAGACGTGCCTTTGTCTGTGCAGTCACTCAG ggtggccctcttcccgtggttccttgtcctgcaccatcttcctcctctagGGTAACAGAAAAGGCAGATTTACCCTTGTCTGTTCAGTCACTTAGgtttcaatttattgcaaagagggtgggtgggagtcccgtagagctaacta Alignment from Exonerate_coding2genome ggtggccctcttcccgtggttccttgtcctgcaccatcttcctcctctagggtaacagaaaaggcagatttacccttgtctgttcagtcacttaggtttcaatttattgcaaagagggtgggtgggagtcccgtagagctaacta Alignment from GeneWise ggtggccctcttcccgtggttccttgtcctgcaccatcttcctcctctagggtaacagaaaaggcagatttacccttgtctgttcagtcacttaggtttcaatttattgcaaagagggtgggtgggagtcccgtagagctaacta #### Bbs1_ID729_5 --> 0 - 2 Original Alignment GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATC------ag atgactaccggcagtgatccctaccacaacttagtttcaatttgttttagGATCAT---GACCCGTTGACCTTGAAAGATATGCTGGAACATATCCTCTATaggtaagtgttcaccttttcttcttggtggccctcttcccgtggttccttgt Alignment from CESAR GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATC------ag atgactaccggcagtgatccctaccacaacttagtttcaatttgttttagGATCAT---GACCCGTTGACCTTGAAAGATATGCTGGAACATATCCTCTATaggtaagtgttcaccttttcttcttggtggccctcttcccgtggttccttgt Alignment from Spaln_aa2Genome GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAGG----- atgactaccggcagtgatccctaccacaacttagtttcaatttgttttagGATCAT---GACCCGTTGACCTTGAAAGATATGCTGGAACATATCCTCTATAGgtaagtgttcaccttttcttcttggtggccctcttcccgtggttccttgt Alignment from Spaln_nt2Genome GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATC------AG atgactaccggcagtgatccctaccacaacttagtttcaatttgttttagGATCA---TGACCCGTTGACCTTGAAAGATATGCTGGAACATATCCTCTATAGgtaagtgttcaccttttcttcttggtggccctcttcccgtggttccttgt Alignment from Pairagon GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACA------------------------------------------------------------ atgactaccggcagtgatccctaccacaacttagtttcaatttgttttagGATCA---TGACCCGTTGACCTTGAAAGATATGCTGGAACATATCCTCTATAGGTAAGTGTTCACCTTTTCTTCTTGGTGGCCCTCTTCCCGTGGTTCCTTGT Alignment from Exonerate_protein2genome GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATC------AG atgactaccggcagtgatccctaccacaacttagtttcaatttgttttagGATCAT---GACCCGTTGACCTTGAAAGATATGCTGGAACATATCCTCTATAGgtaagtgttcaccttttcttcttggtggccctcttcccgtggttccttgt Alignment from Exonerate_coding2genome GACCAGATTGACCCCTTAACCCTG atgactaccggcagtgatccctaccacaacttagtttcaatttgttttaggatcatgacccgttgaccttgaaagatatgctggaacatatcctctataggtaagtgttcaccttttcttcttggtGGCCCTCTTCCCGTGGTTCCTTGT Alignment from GeneWise atgactaccggcagtgatccctaccacaacttagtttcaatttgttttaggatcatgacccgttgaccttgaaagatatgctggaacatatcctctataggtaagtgttcaccttttcttcttggtggccctcttcccgtggttccttgt #### Bscl2_ID2423_6 --> 0 - 2 Original Alignment TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCag aatgtagccagaatcatatgtaaacaatgtcacttttccttttcattcag------CCAACAACTGGAGCAATTATTGAAATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTTACGGGGCTCaggtacaaaaattatagaaggaacagttttcctacaatgtgtcccaaatagt Alignment from CESAR TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCag atcctcaatgtagccagaatcatataatgtcacttttccttttcattcag------CCAACAACTGGAGCAATTATTGAAATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTTACGGGGCTCaggtacaaaaattatagaaggaacagttttcctacaatgtgtcccaaatagt Alignment from Spaln_aa2Genome TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCAG aatgtagccagaatcatatgtaaacaatgtcacttttccttttcattcag------CCAACAACTGGAGCAATTATTGAAATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTTACGGGGCTCAGgtacaaaaattatagaaggaacagttttcctacaatgtgtcccaaatagt Alignment from Spaln_nt2Genome CCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCAG aatgtagccagaatcatatgtaaacaatgtcacttttccttttcattcagCCAACAACTGGAGCAATTATTGAAATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTTACGGGGCTCAGgtacaaaaattatagaaggaacagttttcctacaatgtgtcccaaatagt Alignment from Pairagon TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCAG aatgtagccagaatcatatgtaaacaatgtcacttttccttttcattcag------CCAACAACTGGAGCAATTATTGAAATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTTACGGGGCTCAGgtacaaaaattatagaaggaacagttttcctacaatgtgtcccaaatagt Alignment from Exonerate_protein2genome TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCAG aatgtagccagaatcatatgtaaacaatgtcacttttccttttcATTCAGCCAACAACTGGAGCAATTATTGAAATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTTACGGGGCTCAGgtacaaaaattatagaaggaacagttttcctacaatgtgtcccaaatagt Alignment from Exonerate_coding2genome TATGTGCCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCAG aatgtagccagaatcatatgtaaacaatgtcacttttccttttcATTCAGCCAACAACTGGAGCAATTATTGAAATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTTACGGGGCTCAGgtacaaaaattatagaaggaacagttttcctacaatgtgtcccaaatagt Alignment from GeneWise CCAACAACTGGAGCAATTATTGAGATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTCACTGGGCTCAG aatgtagccagaatcatatgtaaacaatgtcacttttccttttcattcagCCAACAACTGGAGCAATTATTGAAATCCACAGCAAGCGCATCCAGATGTATGGAGCCTACCTCCGGATCCATGCCCACTTTACGGGGCTCAGgtacaaaaattatagaaggaacagttttcctacaatgtgtcccaaatagt #### Btaf1_ID7248_27 --> 0 - 2 Original Alignment GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAGag attttatcttaatttctttgccttgctctaataacttatctcaatttcagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGT---aggtgaggagtgaggcacaaacttgaaaatgattgcttaaaacctgatcaat Alignment from CESAR GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAGag attttatcttaatttctttgccttgctctaataacttatctcaatttcagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGT---aggtgaggagtgaggcacaaacttgaaaatgattgcttaaaacctgatcaat Alignment from Spaln_aa2Genome GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCA attttatcttaatttctttgccttgctctaataacttatctcaatttcagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGTAGgtgaggagtgaggcacaaacttgaaaatgattgcttaaaacctgatcaat Alignment from Spaln_nt2Genome GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAGAG attttatcttaatttctttgccttgctctaataacttatctcaatttcagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGT---AGgtgaggagtgaggcacaaacttgaaaatgattgcttaaaacctgatcaat Alignment from Pairagon GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAGAG attttatcttaatttctttgccttgctctaataacttatctcaatttcagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGT---AGgtgaggagtgaggcacaaacttgaaaatgattgcttaaaacctgatcaat Alignment from Exonerate_protein2genome GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCA attttatcttaatttctttgccttgctctaataacttatctcaatttcagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGTAGgtgaggagtgaggcacaaacttgaaaatgattgcttaaaacctgatcaat Alignment from Exonerate_coding2genome GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCA attttatcttaatttctttgccttgctctaataacttatctcaatttcagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGTAGgtgaggagtgaggcacaaacttgaaaatgattgcttaaaacctgatcaat Alignment from GeneWise GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGT-- attttatcttaatttctttgccttgctctaataacttatctcaatttcagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGTAGgtgaggagtgaggcacaaacttgaaaatgattgcttaaaacctgatcaat #### C030046E11Rik_ID6307_21 --> 0 - 2 Original Alignment GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAag gctagcttctttgattggaatttgtcattatgtgggttgaacacccccag------AGCTCAAGTGGTGGGTTTGAGTTCTTCAGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGATTACAAAAAACATTAAGTATGCCAACTGGTCCTTCTGGGAAAcggtacctaaccagattctaaggagtaatgtaaaatgtttattgtgtggagg Alignment from CESAR GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAag caaagagctagcttctttgattggacattatgtgggttgaacacccccag------AGCTCAAGTGGTGGGTTTGAGTTCTTCAGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGATTACAAAAAACATTAAGTATGCCAACTGGTCCTTCTGGGAAAcggtacctaaccagattctaaggagtaatgtaaaatgtttattgtgtggagg Alignment from Spaln_aa2Genome GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG gctagcttctttgattggaatttgtcattatgtgggttgaacacccccag------AGCTCAAGTGGTGGGTTTGAGTTCTTCAGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGATTACAAAAAACATTAAGTATGCCAACTGGTCCTTCTGGGAAACGgtacctaaccagattctaaggagtaatgtaaaatgtttattgtgtggagg Alignment from Spaln_nt2Genome GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG gctagcttctttgattggaatttgtcattatgtgggttgaacacccccag------AGCTCAAGTGGTGGGTTTGAGTTCTTCAGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGATTACAAAAAACATTAAGTATGCCAACTGGTCCTTCTGGGAAACGgtacctaaccagattctaaggagtaatgtaaaatgtttattgtgtggagg Alignment from Pairagon GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG gctagcttctttgattggaatttgtcattatgtgggttgaacacccccag------AGCTCAAGTGGTGGGTTTGAGTTCTTCAGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGATTACAAAAAACATTAAGTATGCCAACTGGTCCTTCTGGGAAACGgtacctaaccagattctaaggagtaatgtaaaatgtttattgtgtggagg Alignment from Exonerate_protein2genome GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG gctagcttctttgattggaatttgtcattatgtgggttgaacacCCCCAGAGCTCAAGTGGTGGGTTTGAGTTCTTCAGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGATTACAAAAAACATTAAGTATGCCAACTGGTCCTTCTGGGAAACGgtacctaaccagattctaaggagtaatgtaaaatgtttattgtgtggagg Alignment from Exonerate_coding2genome GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG gctagcttctttgattggaatttgtcattatgtgggttgaacacCCCCAGAGCTCAAGTGGTGGGTTTGAGTTCTTCAGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGATTACAAAAAACATTAAGTATGCCAACTGGTCCTTCTGGGAAACGgtacctaaccagattctaaggagtaatgtaaaatgtttattgtgtggagg Alignment from GeneWise GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAA-- gctagcttctttgattggaatttgtcattatgtgggttgaacacccccagAGC------TCAAGTGGTGGGTTTGAGTTCTTCAGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGATTACAAAAAACATTAAGTATGCCAACTGGTCCTTCTGGGAAACGgtacctaaccagattctaaggagtaatgtaaaatgtttattgtgtggagg #### Cabp2_ID287_2 --> 0 - 0 Original Alignment GAACGCTGGCAGTGGCCTGGATCCCCCCTAGGGGGCTCCCGCCCCAGCCCTGGTCCCAGAACTGAGGAGCAGGAGGGGACACAGGGCTACTCAGTGCTCGGCAGCCTGGTGGGGCCAGCATGCATCTTCCTTCGACCCAGCATCGCGGCTACCCAGCTC catactgacaaatgtatgtgggcattgctaaaatgatttgtctttttaagGTCCGCTGGCAATGGCCTGGATCCCCCTTAGGGGGCTCACGCCCCAGCCCGGGTCCAAGAACTGAGGAACAGGAGGGGACACAGGGCTACTCAGTGCTTGGTAGCCTTGTAGGACCTGCATGCATTTTCCTGCGACCTAGCATAGCTGCTACCCAG---gtgagtaggacataatcccttgcacactggcatcttagggctgatggccg Alignment from CESAR GAACGCTGGCAGTGGCCTGGATCCCCCCTAGGGGGCTCCCGCCCCAGCCCTGGTCCCAGAACTGAGGAGCAGGAGGGGACACAGGGCTACTCAGTGCTCGGCAGCCTGGTGGGGCCAGCATGCATCTTCCTTCGACCCAGCATCGCGGCTACCCAGCTC catactgacaaatgtatgtgggcattgctaaaatgatttgtctttttaagGTCCGCTGGCAATGGCCTGGATCCCCCTTAGGGGGCTCACGCCCCAGCCCGGGTCCAAGAACTGAGGAACAGGAGGGGACACAGGGCTACTCAGTGCTTGGTAGCCTTGTAGGACCTGCATGCATTTTCCTGCGACCTAGCATAGCTGCTACCCAG---gtgagtaggacataatcccttgcacactggcatcttagggctgatgg Alignment from Spaln_aa2Genome GAACGCTGGCAGTGGCCTGGATCCCCCCTAGGGGGCTCCCGCCCCAGCCCTGGTCCCAGAACTGAGGAGCAGGAGGGGACACAGGGCTACTCAGTGCTCGGCAGCCTGGTGGGGCCAGCATGCATCTTCCTTCGACCCAGCATCGCGGCTACCCAG catactgacaaatgtatgtgggcattgctaaaatgatttgtctttttaagGTCCGCTGGCAATGGCCTGGATCCCCCTTAGGGGGCTCACGCCCCAGCCCGGGTCCAAGAACTGAGGAACAGGAGGGGACACAGGGCTACTCAGTGCTTGGTAGCCTTGTAGGACCTGCATGCATTTTCCTGCGACCTAGCATAGCTGCTACCCAGgtgagtaggacataatcccttgcacactggcatcttagggctgatggccg Alignment from Spaln_nt2Genome GAACGCTGGCAGTGGCCTGGATCCCCCCTAGGGGGCTCCCGCCCCAGCCCTGGTCCCAGAACTGAGGAGCAGGAGGGGACACAGGGCTACTCAGTGCTCGGCAGCCTGGTGGGGCCAGCATGCATCTTCCTTCGACCCAGCATCGCGGCTACCCAG catactgacaaatgtatgtgggcattgctaaaatgatttgtctttttaagGTCCGCTGGCAATGGCCTGGATCCCCCTTAGGGGGCTCACGCCCCAGCCCGGGTCCAAGAACTGAGGAACAGGAGGGGACACAGGGCTACTCAGTGCTTGGTAGCCTTGTAGGACCTGCATGCATTTTCCTGCGACCTAGCATAGCTGCTACCCAGgtgagtaggacataatcccttgcacactggcatcttagggctgatggccg Alignment from Pairagon GAACGCTGGCAGTGGCCTGGATCCCCCCTAGGGGGCTCCCGCCCCAGCCCTGGTCCCAGAACTGAGGAGCAGGAGGGGACACAGGGCTACTCAGTGCTCGGCAGCCTGGTGGGGCCAGCATGCATCTTCCTTCGACCCAGCATCGCGGCTACCCAG catactgacaaatgtatgtgggcattgctaaaatgatttgtctttttaagGTCCGCTGGCAATGGCCTGGATCCCCCTTAGGGGGCTCACGCCCCAGCCCGGGTCCAAGAACTGAGGAACAGGAGGGGACACAGGGCTACTCAGTGCTTGGTAGCCTTGTAGGACCTGCATGCATTTTCCTGCGACCTAGCATAGCTGCTACCCAGgtgagtaggacataatcccttgcacactggcatcttagggctgatggccg Alignment from Exonerate_protein2genome GAACGCTGGCAGTGGCCTGGATCCCCCCTAGGGGGCTCCCGCCCCAGCCCTGGTCCCAGAACTGAGGAGCAGGAGGGGACACAGGGCTACTCAGTGCTCGGCAGCCTGGTGGGGCCAGCATGCATCTTCCTTCGACCCAGCATCGCGGCTACCCAGCTCGATCGAGAGCTGAGACCAGAAGAGATCGAAG catactgacaaatgtatgtgggcattgctaaaatgatttgtctttttaagGTCCGCTGGCAATGGCCTGGATCCCCCTTAGGGGGCTCACGCCCCAGCCCGGGTCCAAGAACTGAGGAACAGGAGGGGACACAGGGCTACTCAGTGCTTGGTAGCCTTGTAGGACCTGCATGCATTTTCCTGCGACCTAGCATAGCTGCTACCCAGGTGAGTAGGACATAATCCCTTGCACACTGGCATCttagggctgatggccg Alignment from Exonerate_coding2genome GAACGCTGGCAGTGGCCTGGATCCCCCCTAGGGGGCTCCCGCCCCAGCCCTGGTCCCAGAACTGAGGAGCAGGAGGGGACACAGGGCTACTCAGTGCTCGGCAGCCTGGTGGGGCCAGCATGCATCTTCCTTCGACCCAGCATCGCGGCTACCCAGCTCGATCGAGAGCTGAGACCAGAAGAGATCGAAG catactgacaaatgtatgtgggcattgctaaaatgatttgtctttttaagGTCCGCTGGCAATGGCCTGGATCCCCCTTAGGGGGCTCACGCCCCAGCCCGGGTCCAAGAACTGAGGAACAGGAGGGGACACAGGGCTACTCAGTGCTTGGTAGCCTTGTAGGACCTGCATGCATTTTCCTGCGACCTAGCATAGCTGCTACCCAGGTGAGTAGGACATAATCCCTTGCACACTGGCATCttagggctgatggccg Alignment from GeneWise GAACGCTGGCAGTGGCCTGGATCCCCCCTAGGGGGCTCCCGCCCCAGCCCTGGTCCCAGAACTGAGGAGCAGGAGGGGACACAGGGCTACTCAGTGCTCGGCAGCCTGGTGGGGCCAGCATGCATCTTCCTTCGACCCAGCATCGCGGCTACCCAGCTCG catactgacaaatgtatgtgggcattgctaaaatgatttgtctttttaagGTCCGCTGGCAATGGCCTGGATCCCCCTTAGGGGGCTCACGCCCCAGCCCGGGTCCAAGAACTGAGGAACAGGAGGGGACACAGGGCTACTCAGTGCTTGGTAGCCTTGTAGGACCTGCATGCATTTTCCTGCGACCTAGCATAGCTGCTACCCAGGTGAgtaggacataatcccttgcacactggcatcttagggctgatggccg #### Cabp2_ID290_5 --> 2 - 0 Original Alignment gtGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG--- gttagccatgcaccaacccaagccctctcagcctggtctctgtgccttaggtGGTGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGCGGACATGATTGGGGAAAGAGAACTTAAAGATGCTTTTAGGGAGGATgtgagtcttaggtagtgggtggcagtggttgaaggatttatggttcagta Alignment from CESAR gtGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG--- gttagccatgcaccaacccaagccctctcagcctggtctctgtgccttaggtGGTGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGCGGACATGATTGGGGAAAGAGAACTTAAAGATGCTTTTAGGGAGGATgtgagtcttaggtagtgggtggcagtggttgaaggatttatggttcagta Alignment from Spaln_aa2Genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG--- gttagccatgcaccaacccaagccctctcagcctggtctctgtgccttagGTGGTGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGCGGACATGATTGGGGAAAGAGAACTTAAAGATGCTTTTAGGGAGGATgtgagtcttaggtagtgggtggcagtggttgaaggatttatggttcagta Alignment from Spaln_nt2Genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG--- gttagccatgcaccaacccaagccctctcagcctggtctctgtgccttagGTGGTGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGCGGACATGATTGGGGAAAGAGAACTTAAAGATGCTTTTAGGGAGGATgtgagtcttaggtagtgggtggcagtggttgaaggatttatggttcagta Alignment from Pairagon GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG--- gttagccatgcaccaacccaagccctctcagcctggtctctgtgccttagGTGGTGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGCGGACATGATTGGGGAAAGAGAACTTAAAGATGCTTTTAGGGAGGATgtgagtcttaggtagtgggtggcagtggttgaaggatttatggttcagta Alignment from Exonerate_protein2genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG--- gttagccatgcaccaacccaagccctctcagcctggtctctgtgccttagGTGGTGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGCGGACATGATTGGGGAAAGAGAACTTAAAGATGCTTTTAGGGAGGATgtgagtcttaggtagtgggtggcagtggttgaaggatttatggttcagta Alignment from Exonerate_coding2genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG--- gttagccatgcaccaacccaagccctctcagcctggtctctgtgccttagGTGGTGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGCGGACATGATTGGGGAAAGAGAACTTAAAGATGCTTTTAGGGAGGATgtgagtcttaggtagtgggtggcagtggttgaaggatttatggttcagta Alignment from GeneWise GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAGTTC gttagccatgcaccaacccaagccctctcagcctggtctctgtgccttagGTGGTGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGCGGACATGATTGGGGAAAGAGAACTTAAAGATGCTTTTAGGGAGGATgtgagtcttaggtagtgggtggcagtggttgaaggatttatggttcagta #### Cabp2_ID291_6 --> 0 - 1 Original Alignment TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAA---g gaatggatccacggctcagtcactgatctctttcttccctttctggatagTTTGACACCAATGGCGATGGTTGCATCAGTGTTGGGGAACTCCAAGCCGCACTTAAAGCCCTGCTGGGTGTACGTCTCAGCCAACAGGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTCGAATTCggtatgtctccacctgctttgtccctttatcttgtgcatagaactatggca Alignment from CESAR TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAA---g gaatggatccacggctcagtcactgatctctttcttccctttctggatagTTTGACACCAATGGCGATGGTTGCATCAGTGTTGGGGAACTCCAAGCCGCACTTAAAGCCCTGCTGGGTGTACGTCTCAGCCAACAGGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTCGAATTCggtatgtctccacctgctttgtccctttatcttgtgcatagaactatggca Alignment from Spaln_aa2Genome TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAA---G gaatggatccacggctcagtcactgatctctttcttccctttctggatagTTTGACACCAATGGCGATGGTTGCATCAGTGTTGGGGAACTCCAAGCCGCACTTAAAGCCCTGCTGGGTGTACGTCTCAGCCAACAGGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTCGAATTCGgtatgtctccacctgctttgtccctttatcttgtgcatagaactatggca Alignment from Spaln_nt2Genome TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAA---G gaatggatccacggctcagtcactgatctctttcttccctttctggatagTTTGACACCAATGGCGATGGTTGCATCAGTGTTGGGGAACTCCAAGCCGCACTTAAAGCCCTGCTGGGTGTACGTCTCAGCCAACAGGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTCGAATTCGgtatgtctccacctgctttgtccctttatcttgtgcatagaactatggca Alignment from Pairagon TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAA---G gaatggatccacggctcagtcactgatctctttcttccctttctggatagTTTGACACCAATGGCGATGGTTGCATCAGTGTTGGGGAACTCCAAGCCGCACTTAAAGCCCTGCTGGGTGTACGTCTCAGCCAACAGGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTCGAATTCGgtatgtctccacctgctttgtccctttatcttgtgcatagaactatggca Alignment from Exonerate_protein2genome TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAA---G gaatggatccacggctcagtcactgatctctttcttccctttctggatagTTTGACACCAATGGCGATGGTTGCATCAGTGTTGGGGAACTCCAAGCCGCACTTAAAGCCCTGCTGGGTGTACGTCTCAGCCAACAGGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTCGAATTCGgtatgtctccacctgctttgtccctttatcttgtgcatagaactatggca Alignment from Exonerate_coding2genome TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAA gaatggatccacggctcagtcactgatctctttcttccctttctggatagTTTGACACCAATGGCGATGGTTGCATCAGTGTTGGGGAACTCCAAGCCGCACTTAAAGCCCTGCTGGGTGTACGTCTCAGCCAACAGGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTCGAAttcggtatgtctccacctgctttgtccctttatcttgtgcatagaactatggca Alignment from GeneWise TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAGAATTTGTTCGGATGATGTCTCGG gaatggatccacggctcagtcactgatctctttcttccctttctggatagTTTGACACCAATGGCGATGGTTGCATCAGTGTTGGGGAACTCCAAGCCGCACTTAAAGCCCTGCTGGGTGTACGTCTCAGCCAACAGGAAGTAGATGAAATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTCGAATTCGGTATGTCTCCACCTGCTTTGtccctttatcttgtgcatagaactatggca #### Cabp4_ID339_5 --> 0 - 1 Original Alignment TTTGACAAG---GACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATA---GACTTTGACg gaagatactgcaaggggcactgtttggacatctcctcatctttcctccagTTTGATAAGGAGGACAGGGATGGATGGATCATGGTAGTGGAGTTGCGCCAGGCTGTTCCAGCTCTGCAAGGG------GTAGACGGCACTGAAGTGGATGAAATGTTGCGCAAAATGGACCTCAATGGGGATGGGACCATAGAA---------ggtaaataacctaacacgacctacatccccatcatgcatacatgtataatg Alignment from CESAR TTTGACAAG---GACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATAGACTTTGACg gaagatactgcaaggggcactgtttggacatctcctcatctttcctccagTTTGATAAGGAGGACAGGGATGGATGGATCATGGTAGTGGAGTTGCGCCAGGCTGTTCCAGCTCTGCAAGGG------GTAGACGGCACTGAAGTGGATGAAATGTTGCGCAAAATGGACCTCAATGGGGATGGGACCATA------GAAggtaaataacctaacacgacctacatccccatcatgcatacatgtataatg Alignment from Spaln_aa2Genome TTTGACAAG---GACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATAGAC- gaagatactgcaaggggcactgtttggacatctcctcatctttcctccagTTTGATAAGGAGGACAGGGATGGATGGATCATGGTAGTGGAGTTGCGCCAGGCTGTTCCAGCTCTGCAAGGG------GTAGACGGCACTGAAGTGGATGAAATGTTGCGCAAAATGGACCTCAATGGGGATGGGACCATAGAAGgtaaataacctaacacgacctacatccccatcatgcatacatgtataatg Alignment from Spaln_nt2Genome TTTGACAAGGA---CAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATAGACTTTGACG gaagatactgcaaggggcactgtttggacatctcctcatctttcctccagTTTGATAAGGAGGACAGGGATGGATGGATCATGGTAGTGGAGTTGCGCCAGGCTGTTCCAGCTCTGCAAGGGG------TAGACGGCACTGAAGTGGATGAAATGTTGCGCAAAATGGACCTCAATGGGGATGGGACCATA------GAAGgtaaataacctaacacgacctacatccccatcatgcatacatgtataatg Alignment from Pairagon TTTGACA---AGGACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATAGACTTTGACG gaagatactgcaaggggcactgtttggacatctcctcatctttcctccagTTTGATAAGGAGGACAGGGATGGATGGATCATGGTAGTGGAGTTGCGCCAGGCTGTTCCAGCTCTGCAAGGGG------TAGACGGCACTGAAGTGGATGAAATGTTGCGCAAAATGGACCTCAATGGGGATGGGACCATA------GAAGgtaaataacctaacacgacctacatccccatcatgcatacatgtataatg Alignment from Exonerate_protein2genome TTTGACAAG---GACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATAGACT gaagatactgcaaggggcactgtttggacatctcctcatctttcctccagTTTGATAAGGAGGACAGGGATGGATGGATCATGGTAGTGGAGTTGCGCCAGGCTGTTCCAGCTCTGCAAGGG------GTAGACGGCACTGAAGTGGATGAAATGTTGCGCAAAATGGACCTCAATGGGGATGGGACCATAGAAGgtaaataacctaacacgacctacatccccatcatgcatacatgtataatg Alignment from Exonerate_coding2genome TTTGACAAG---GACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATAGAC gaagatactgcaaggggcactgtttggacatctcctcatctttcctccagTTTGATAAGGAGGACAGGGATGGATGGATCATGGTAGTGGAGTTGCGCCAGGCTGTTCCAGCTCTGCAAGGG------GTAGACGGCACTGAAGTGGATGAAATGTTGCGCAAAATGGACCTCAATGGGGATGGGACCATAGAAggtaaataacctaacacgacctacatccccatcatgcatacatgtataatg Alignment from GeneWise TTTGACAAG---GACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATAGAC gaagatactgcaaggggcactgtttggacatctcctcatctttcctccagTTTGATAAGGAGGACAGGGATGGATGGATCATGGTAGTGGAGTTGCGCCAGGCTGTTCCAGCTCTGCAAGGG------GTAGACGGCACTGAAGTGGATGAAATGTTGCGCAAAATGGACCTCAATGGGGATGGGACCATAGAAggtaaataacctaacacgacctacatccccatcatgcatacatgtataatg #### Capn1_ID1356_20 --> 2 - 0 Original Alignment gg------TTTTTCAAACTTCTGGACACAGACCTGGATGGTGTTGTGACCTTTGATCTATTTAAG cctctgcctttatgtgtggttcgctgcctttcactgtgtcgttctggcagggATATTTTTTTCTAAACTACTAGACCGAGGCCTAGACGGTGTTGTTACCTTTGATCTCTTTAGGgtagctgagtactccaccccacttgactagctatccgggggtgctgctac Alignment from CESAR gg---TTTTTC---AAACTTCTGGACACAGACCTGGATGGTGTTGTGACCTTTGATCTATTTAAG cctctgcctttatgtgtggttcgctgcctttcactgtgtcgttctggcagggATATTTTTTTCTAAACTACTAGACCGAGGCCTAGACGGTGTTGTTACCTTTGATCTCTTTAGGgtagctgagtactccaccccacttgactagctatccgggggtgctgctac Alignment from Spaln_aa2Genome GGTTTTTC------AAACTTCTGGACACAGACCTGGATGGTGTTGTGACCTTTGATCTATTTAAG cctctgcctttatgtgtggttcgctgcctttcactgtgtcgttctggcagGGATATTTTTTTCTAAACTACTAGACCGAGGCCTAGACGGTGTTGTTACCTTTGATCTCTTTAGGgtagctgagtactccaccccacttgactagctatccgggggtgctgctac Alignment from Spaln_nt2Genome GG-----TTTTTC-AAACTTCTGGACACAGACCTGGATGGTGTTGTGACCTTTGATCTATTTAAG cctctgcctttatgtgtggttcgctgcctttcactgtgtcgttctggcagGGATATTTTTTTCTAAACTACTAGACCGAGGCCTAGACGGTGTTGTTACCTTTGATCTCTTTAGGgtagctgagtactccaccccacttgactagctatccgggggtgctgctac Alignment from Pairagon GG------TTTTTCAAACTTCTGGACACAGACCTGGATGGTGTTGTGACCTTTGATCTATTTAAG cctctgcctttatgtgtggttcgctgcctttcactgtgtcgttctggcagGGATATTTTTTTCTAAACTACTAGACCGAGGCCTAGACGGTGTTGTTACCTTTGATCTCTTTAGGgtagctgagtactccaccccacttgactagctatccgggggtgctgctac Alignment from Exonerate_protein2genome GGTTTTTC------AAACTTCTGGACACAGACCTGGATGGTGTTGTGACCTTTGATCTATTTAAG cctctgcctttatgtgtggttcgctgcctttcactgtgtcgttctggcagGGATATTTTTTTCTAAACTACTAGACCGAGGCCTAGACGGTGTTGTTACCTTTGATCTCTTTAGGgtagctgagtactccaccccacttgactagctatccgggggtgctgctac Alignment from Exonerate_coding2genome cctctgcctttatgtgtggttcgctgcctttcactgtgtcgttctggcagggatatttttttctaaactactagaccgaggcctagacggtgttgttacctttgatctctttagggtagctgagtactccaccccacttgactagctatccgggggtgctgctac Alignment from GeneWise -----CGGTTTTTCAAACTTCTGGACACAGACCTGGATGGTGTTGTGACCTTTGATCTATTTAAGTGGCTCCAGCTGACTATGTTTGCC cctctgcctttatgtgtggttcgctgcctttcactgtgtcgttctggcagGGATATTTTTTTCTAAACTACTAGACCGAGGCCTAGACGGTGTTGTTACCTTTGATCTCTTTAGGGTAGCTGAGTACTCCACCCCACTTgactagctatccgggggtgctgctac #### Capn1_ID1368_8 --> 1 - 2 Original Alignment c------TCCTATGAGTGGAACAAAGTGGACCCCTATGAACGAGAGCAGCTGAGGGTCAAGATGGAGGATGGGGAGTTCtg gttagaattgcttatgttgttttatgtctaaatgttatttttgatttcagcCGAGATCCTTATGAGTGGAACAAAGTGGACCCTTATGAACAAGAGCAACCAAGAGTCAAGATGGAAGATGGAGAATTTtggtgaggaatgggttttccctccctgtccacatcccattgtggaagaattt Alignment from CESAR c------TCCTATGAGTGGAACAAAGTGGACCCCTATGAACGAGAGCAGCTGAGGGTCAAGATGGAGGATGGGGAGTTCtg gttagaattgcttatgttgttttatgtctaaatgttatttttgatttcagcCGAGATCCTTATGAGTGGAACAAAGTGGACCCTTATGAACAAGAGCAACCAAGAGTCAAGATGGAAGATGGAGAATTTtggtgaggaatgggttttccctccctgtccacatcccattgtggaagtaaat Alignment from Spaln_aa2Genome C-------TCCTATGAGTGGAACAAAGTGGACCCCTATGAACGAGAGCAGCTGAGGGTCAAGATGGAGGATGGGGAGTTCTG gttagaattgcttatgttgttttatgtctaaatgttatttttgatttcagCCGAGATCCTTATGAGTGGAACAAAGTGGACCCTTATGAACAAGAGCAACCAAGAGTCAAGATGGAAGATGGAGAATTTTGgtgaggaatgggttttccctccctgtccacatcccattgtggaagaattt Alignment from Spaln_nt2Genome CTCCT-ATGAGTGGAACAAAGTGGACCCCTATGAACGAGAGCAGCTGAGGGTCAAGATGGAGGATGGGGAGTTCTG gttagaattgcttatgttgttttatgtctaaatgttatttttgatttcagccgagATCCTTATGAGTGGAACAAAGTGGACCCTTATGAACAAGAGCAACCAAGAGTCAAGATGGAAGATGGAGAATTTTGgtgaggaatgggttttccctccctgtccacatcccattgtggaagaattt Alignment from Pairagon C------TCCTATGAGTGGAACAAAGTGGACCCCTATGAACGAGAGCAGCTGAGGGTCAAGATGGAGGATGGGGAGTTCTG gttagaattgcttatgttgttttatgtctaaatgttatttttgatttcagCCGAGATCCTTATGAGTGGAACAAAGTGGACCCTTATGAACAAGAGCAACCAAGAGTCAAGATGGAAGATGGAGAATTTTGgtgaggaatgggttttccctccctgtccacatcccattgtggaagaattt Alignment from Exonerate_protein2genome C------TCCTATGAGTGGAACAAAGTGGACCCCTATGAACGAGAGCAGCTGAGGGTCAAGATGGAGGATGGGGAGTTCTG gttagaattgcttatgttgttttatgtctaaatgttatttttgatttcagCCGAGATCCTTATGAGTGGAACAAAGTGGACCCTTATGAACAAGAGCAACCAAGAGTCAAGATGGAAGATGGAGAATTTTGgtgaggaatgggttttccctccctgtccacatcccattgtggaagaattt Alignment from Exonerate_coding2genome C------TCCTATGAGTGGAACAAAGTGGACCCCTATGAACGAGAGCAGCTGAGGGTCAAGATGGAGGATGGGGAGTTCTG gttagaattgcttatgttgttttatgtctaaatgttatttttgatttcagCCGAGATCCTTATGAGTGGAACAAAGTGGACCCTTATGAACAAGAGCAACCAAGAGTCAAGATGGAAGATGGAGAATTTTGgtgaggaatgggttttccctccctgtccacatcccattgtggaagaattt Alignment from GeneWise ----AGCTCCTATGAGTGGAACAAAGTGGACCCCTATGAACGAGAGCAGCTGAGGGTCAAGATGGAGGATGGGGAGTTCTG gttagaattgcttatgttgttttatgtctaaatgttatttttgatttcagCCGAGATCCTTATGAGTGGAACAAAGTGGACCCTTATGAACAAGAGCAACCAAGAGTCAAGATGGAAGATGGAGAATTTTGgtgaggaatgggttttccctccctgtccacatcccattgtggaagaattt #### Capn1_ID1369_7 --> 0 - 2 Original Alignment GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACag gggagtgtgtcctgactctgatgccttctaaacatatctccttgtgtcag---ACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGGGTCCAGTGGAGTGGAAAGGTCCTTGGAGTGACaggtgggcgaatgcaggcagttttttggagatggttttacaatcaagctcct Alignment from CESAR GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACag ggggggagtgtgtcctgactctgatttctaaacatatctccttgtgtcag---ACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGGGTCCAGTGGAGTGGAAAGGTCCTTGGAGTGACaggtgggcgaatgcaggcagttttttggagatggttttacaatcaagctcct Alignment from Spaln_aa2Genome GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG gggagtgtgtcctgactctgatgccttctaaacatatctccttgtgtcag---ACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGGGTCCAGTGGAGTGGAAAGGTCCTTGGAGTGACAGgtgggcgaatgcaggcagttttttggagatggttttacaatcaagctcct Alignment from Spaln_nt2Genome GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG gggagtgtgtcctgactctgatgccttctaaacatatctccttgtgtcag---ACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGGGTCCAGTGGAGTGGAAAGGTCCTTGGAGTGACAGgtgggcgaatgcaggcagttttttggagatggttttacaatcaagctcct Alignment from Pairagon GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG gggagtgtgtcctgactctgatgccttctaaacatatctccttgtgtcag---ACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGGGTCCAGTGGAGTGGAAAGGTCCTTGGAGTGACAGgtgggcgaatgcaggcagttttttggagatggttttacaatcaagctcct Alignment from Exonerate_protein2genome ACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG gggagtgtgtcctgactctgatgccttctaaacatatctccttgtgtcagACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGGGTCCAGTGGAGTGGAAAGGTCCTTGGAGTGACAGgtgggcgaatgcaggcagttttttggagatggttttacaatcaagctcct Alignment from Exonerate_coding2genome ACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG gggagtgtgtcctgactctgatgccttctaaacatatctccttgtgtcagACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGGGTCCAGTGGAGTGGAAAGGTCCTTGGAGTGACAGgtgggcgaatgcaggcagttttttggagatggttttacaatcaagctcct Alignment from GeneWise GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG gggagtgtgtcctgactctgatgccttctaaacatatctccttgtgtcagACC---TATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGGGTCCAGTGGAGTGGAAAGGTCCTTGGAGTGACAGgtgggcgaatgcaggcagttttttggagatggttttacaatcaagctcct #### Carns1_ID387_5 --> 0 - 1 Original Alignment ---GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAg gcGGTCCTGCACCTGG gtgtacatgtagtagtaattgtgtaaagttggttcctttgttggtctcagGTTGTGGCAGCAAGACTCAGTGGCTGTCACTGGCATGGTCAACAGGCATTGCCTCTACATCTACAGGTAAAACCATCCACAGTGGTGACAATGGTGCTAGGATTGTTAAAGAAGCTGGAAGAGGAGGAGAGTGTCCTTGTGGAGCCAATTTGTCCGCCTGTCCGCCTGCCCTTGCCAggtgggttgtaatttctcaatatgttaaatcttaggaGGTCCTCCACCTGG Alignment from CESAR ---GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAg gcGGTCCTGCACCTGG gtgtacatgtagtagtaattgtgtaaagttggttcctttgttggtctcagGTTGTGGCAGCAAGACTCAGTGGCTGTCACTGGCATGGTCAACAGGCATTGCCTCTACATCTACAGGTAAAACCATCCACAGTGGTGACAATGGTGCTAGGATTGTTAAAGAAGCTGGAAGAGGAGGAGAGTGTCCTTGTGGAGCCAATTTGTCCGCCTGTCCGCCTGCCCTTGCCAggtgggttgtaatccctccacccctccttgtgcaggaGGTCCTCCACCTGG Alignment from Spaln_aa2Genome ---GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG GCGGTCCTGCACCTGG gtgtacatgtagtagtaattgtgtaaagttggttcctttgttggtctcagGTTGTGGCAGCAAGACTCAGTGGCTGTCACTGGCATGGTCAACAGGCATTGCCTCTACATCTACAGGTAAAACCATCCACAGTGGTGACAATGGTGCTAGGATTGTTAAAGAAGCTGGAAGAGGAGGAGAGTGTCCTTGTGGAGCCAATTTGTCCGCCTGTCCGCCTGCCCTTGCCAGgtgggttgtaatttctcaatatgttaaatcttagGAGGTCCTCCACCTGG Alignment from Spaln_nt2Genome GT---GGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG GCGGTCCTGCACCTGG gtgtacatgtagtagtaattgtgtaaagttggttcctttgttggtctcagGTTGTGGCAGCAAGACTCAGTGGCTGTCACTGGCATGGTCAACAGGCATTGCCTCTACATCTACAGGTAAAACCATCCACAGTGGTGACAATGGTGCTAGGATTGTTAAAGAAGCTGGAAGAGGAGGAGAGTGTCCTTGTGGAGCCAATTTGTCCGCCTGTCCGCCTGCCCTTGCCAGgtgggttgtaatttctcaatatgttaaatcttagGAGGTCCTCCACCTGG Alignment from Pairagon ---GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG GCGGTCCTGCACCTGG gtgtacatgtagtagtaattgtgtaaagttggttcctttgttggtctcagGTTGTGGCAGCAAGACTCAGTGGCTGTCACTGGCATGGTCAACAGGCATTGCCTCTACATCTACAGGTAAAACCATCCACAGTGGTGACAATGGTGCTAGGATTGTTAAAGAAGCTGGAAGAGGAGGAGAGTGTCCTTGTGGAGCCAATTTGTCCGCCTGTCCGCCTGCCCTTGCCAGgtgggttgtaatttctcaatatgttaaatcttagGAGGTCCTCCACCTGG Alignment from Exonerate_protein2genome ---GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG GCGGTCCTGCACCTGG gtgtacatgtagtagtaattgtgtaaagttggttcctttgttggtctcagGTTGTGGCAGCAAGACTCAGTGGCTGTCACTGGCATGGTCAACAGGCATTGCCTCTACATCTACAGGTAAAACCATCCACAGTGGTGACAATGGTGCTAGGATTGTTAAAGAAGCTGGAAGAGGAGGAGAGTGTCCTTGTGGAGCCAATTTGTCCGCCTGTCCGCCTGCCCTTGCCAGgtgggttgtaatttctcaatatgttaaatcttagGAGGTCCTCCACCTGG Alignment from Exonerate_coding2genome ---GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG GCGGTCCTGCACCTGG gtgtacatgtagtagtaattgtgtaaagttggttcctttgttggtctcagGTTGTGGCAGCAAGACTCAGTGGCTGTCACTGGCATGGTCAACAGGCATTGCCTCTACATCTACAGGTAAAACCATCCACAGTGGTGACAATGGTGCTAGGATTGTTAAAGAAGCTGGAAGAGGAGGAGAGTGTCCTTGTGGAGCCAATTTGTCCGCCTGTCCGCCTGCCCTTGCCAGgtgggttgtaatttctcaatatgttaaatcttagGAGGTCCTCCACCTGG Alignment from GeneWise ---GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG GCGGTCCTGCACCTGG gtgtacatgtagtagtaattgtgtaaagttggttcctttgttggtctcagGTTGTGGCAGCAAGACTCAGTGGCTGTCACTGGCATGGTCAACAGGCATTGCCTCTACATCTACAGGTAAAACCATCCACAGTGGTGACAATGGTGCTAGGATTGTTAAAGAAGCTGGAAGAGGAGGAGAGTGTCCTTGTGGAGCCAATTTGTCCGCCTGTCCGCCTGCCCTTGCCAGgtgggttgtaatttctcaatatgttaaatcttagGAGGTCCTCCACCTGG #### Carns1_ID388_4 --> 2 - 0 Original Alignment gaAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tgctggttgacttcattggtttgcctgatatgggatttatccttctacaggaAATATGCTCCTCTGCCTGTCT---GCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTAAAGCTGTGAGCTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGTAAGGAGGCAGCAGAGCTGGCCCGGAATCTCACTTGCCCTACGGGAACCTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGTTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCT------gtgagagaggcagcaacctcccatgagaaagtatgcctaactgtttatac Alignment from CESAR gaAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tgctggttgacttcattggtttgcctgatatgggatttatccttctacaggaAATATGCTCCTCTGCCTGTCT---GCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTAAAGCTGTGAGCTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGTAAGGAGGCAGCAGAGCTGGCCCGGAATCTCACTTGCCCTACGGGAACCTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGTTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCT------gtgagagaggcagcaacctcccatgagaaagtatgcctaactgt Alignment from Spaln_aa2Genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCT---TCACAG tgctggttgacttcattggtttgcctgatatgggatttatccttctacagGAAATATGCTCCTCTGCCTGTCT---GCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTAAAGCTGTGAGCTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGTAAGGAGGCAGCAGAGCTGGCCCGGAATCTCACTTGCCCTACGGGAACCTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGTTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCTGTGAGAGAGgcagcaacctcccatgagaaagtatgcctaactgtttatac Alignment from Spaln_nt2Genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTC---ACAG tgctggttgacttcattggtttgcctgatatgggatttatccttctacagGAAATATGCTCCTCTGCCTGT---CTGCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTAAAGCTGTGAGCTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGTAAGGAGGCAGCAGAGCTGGCCCGGAATCTCACTTGCCCTACGGGAACCTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGTTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCTGTGAGAGAGgcagcaacctcccatgagaaagtatgcctaactgtttatac Alignment from Pairagon GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCT tgctggttgacttcattggtttgcctgatatgggatttatccttctacagGAAATATGCTCCTCTGCCTGT---CTGCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTAAAGCTGTGAGCTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGTAAGGAGGCAGCAGAGCTGGCCCGGAATCTCACTTGCCCTACGGGAACCTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGTTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCTgtgagagaggcagcaacctcccatgagaaagtatgcctaactgtttatac Alignment from Exonerate_protein2genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tgctggttgacttcattggtttgcctgatatgggatttatccttctacagGAAATATGCTCCTCTGCCTGTCT---GCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTAAAGCTGTGAGCTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGTAAGGAGGCAGCAGAGCTGGCCCGGAATCTCACTTGCCCTACGGGAACCTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGTTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCTGTGAGAgaggcagcaacctcccatgagaaagtatgcctaactgtttatac Alignment from Exonerate_coding2genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tgctggttgacttcattggtttgcctgatatgggatttatccttctacagGAAATATGCTCCTCTGCCTGTCT---GCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTAAAGCTGTGAGCTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGTAAGGAGGCAGCAGAGCTGGCCCGGAATCTCACTTGCCCTACGGGAACCTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGTTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCTGTGAGAgaggcagcaacctcccatgagaaagtatgcctaactgtttatac Alignment from GeneWise GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tgctggttgacttcattggtttgcctgatatgggatttatccttctacagGAAATATGCTCCTCTGCCTGTCT---GCCTGGCTAATGAAGGTGGCAACTCCAGGGCAAGAGGGTGAGGCAGTTTTGCTGGTTTCTAAAGCTGTGAGCTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGTAAGGAGGCAGCAGAGCTGGCCCGGAATCTCACTTGCCCTACGGGAACCTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGCGGTGGTTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAGCTTAGTGGGAAGGAAGGCCAGGAAACACTTGTTAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGAT------GCTgtgagagaggcagcaacctcccatgagaaagtatgcctaactgtttatac #### Carns1_ID389_3 --> 2 - 1 Original Alignment gc---------TGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTg caaatatagacatggaggacaggacaggatccccgctcttctccttacaggcTCTAGAACCTGCCCTGGGGCAGAGGTCACCTTGTGTGTTCTAGGTTCTCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTTCAAAGCCCTggtaagattgtgcttctgtaataccctaccttctcctacaaaatgggaaca Alignment from CESAR gc---------TGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTg caaatatagacatggaggacaggacaggatccccgctcttctccttacaggcTCTAGAACCTGCCCTGGGGCAGAGGTCACCTTGTGTGTTCTAGGTTCTCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTTCAAAGCCCTggtaagattgtgcttctgtaataccctaccttctcctacaaaatgggaaca Alignment from Spaln_aa2Genome GCTGCCCTGGG---------GCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG caaatatagacatggaggacaggacaggatccccgctcttctccttacagGCTCTAGAACCTGCCCTGGGGCAGAGGTCACCTTGTGTGTTCTAGGTTCTCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTTCAAAGCCCTGgtaagattgtgcttctgtaataccctaccttctcctacaaaatgggaaca Alignment from Spaln_nt2Genome GCTGCCCTGG---------GGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG caaatatagacatggaggacaggacaggatccccgctcttctccttacagGCTCTAGAACCTGCCCTGGGGCAGAGGTCACCTTGTGTGTTCTAGGTTCTCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTTCAAAGCCCTGgtaagattgtgcttctgtaataccctaccttctcctacaaaatgggaaca Alignment from Pairagon G---------CTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG caaatatagacatggaggacaggacaggatccccgctcttctccttacagGCTCTAGAACCTGCCCTGGGGCAGAGGTCACCTTGTGTGTTCTAGGTTCTCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTTCAAAGCCCTGgtaagattgtgcttctgtaataccctaccttctcctacaaaatgggaaca Alignment from Exonerate_protein2genome GC---------TGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG caaatatagacatggaggacaggacaggatccccgctcttctccttacagGCTCTAGAACCTGCCCTGGGGCAGAGGTCACCTTGTGTGTTCTAGGTTCTCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTTCAAAGCCCTGgtaagattgtgcttctgtaataccctaccttctcctacaaaatgggaaca Alignment from Exonerate_coding2genome GC---------TGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG caaatatagacatggaggacaggacaggatccccgctcttctccttacagGCTCTAGAACCTGCCCTGGGGCAGAGGTCACCTTGTGTGTTCTAGGTTCTCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTTCAAAGCCCTGgtaagattgtgcttctgtaataccctaccttctcctacaaaatgggaaca Alignment from GeneWise --------GGCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG caaatatagacatggaggacaggacaggatccccgctcttctccttacagGCTCTAGAACCTGCCCTGGGGCAGAGGTCACCTTGTGTGTTCTAGGTTCTCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTTCAAAGCCCTGgtaagattgtgcttctgtaataccctaccttctcctacaaaatgggaaca #### Cbwd1_ID5353_14 --> 0 - 1 Original Alignment GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTg aattatgtcgccctaagttgacaactgaccttcttttccctgtcctccagGGCCTGGTATCTATCAAAGTCAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAAAGCCTTGTGAACTGGAAGGATGATGCAGAAAGAGCATGTCAG------------ggtaaacaacactgcacacgattgaaatgtactactgggttgctgtgtcta Alignment from CESAR GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTg aattatgtcgccctaagttgacaactgaccttcttttccctgtcctccagGGCCTGGTATCTATCAAAGTCAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAAAGCCTTGTGAACTGGAAGGATGATGCAGAAAGAGCATGTCAG------------ggtaaacaacactgcacacgattgaaatgtactactgggttgctgtgtcta Alignment from Spaln_aa2Genome GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTG aattatgtcgccctaagttgacaactgaccttcttttccctgtcctccagGGCCTGGTATCTATCAAAGTCAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAAAGCCTTGTGAACTGGAAGGATGATGCAGAAAGAGCATGTCAGGGTAAACAACACTgcacacgattgaaatgtactactgggttgctgtgtcta Alignment from Spaln_nt2Genome GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGC aattatgtcgccctaagttgacaactgaccttcttttccctgtcctccagGGCCTGGTATCTATCAAAGTCAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAAAGCCTTGTGAACTGGAAGGATGATGCAGAAAGAGCATGTCAGGgtaaacaacactgcacacgattgaaatgtactactgggttgctgtgtcta Alignment from Pairagon GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTG aattatgtcgccctaagttgacaactgaccttcttttccctgtcctccagGGCCTGGTATCTATCAAAGTCAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAAAGCCTTGTGAACTGGAAGGATGATGCAGAAAGAGCATGTCAG------------Ggtaaacaacactgcacacgattgaaatgtactactgggttgctgtgtcta Alignment from Exonerate_protein2genome GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGC aattatgtcgccctaagttgacaactgaccttcttttccctgtcctccagGGCCTGGTATCTATCAAAGTCAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAAAGCCTTGTGAACTGGAAGGATGATGCAGAAAGAGCATGTCAGGgtaaacaacactgcacacgattgaaatgtactactgggttgctgtgtcta Alignment from Exonerate_coding2genome GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGC aattatgtcgccctaagttgacaactgaccttcttttccctgtcctccagGGCCTGGTATCTATCAAAGTCAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAAAGCCTTGTGAACTGGAAGGATGATGCAGAAAGAGCATGTCAGGgtaaacaacactgcacacgattgaaatgtactactgggttgctgtgtcta Alignment from GeneWise GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAG- aattatgtcgccctaagttgacaactgaccttcttttccctgtcctccagGGCCTGGTATCTATCAAAGTCAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAAAGCCTTGTGAACTGGAAGGATGATGCAGAAAGAGCATGTCAGGgtaaacaacactgcacacgattgaaatgtactactgggttgctgtgtcta #### Ccdc88b_ID1824_25 --> 2 - 1 Original Alignment ggTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAA---------g gttgtgatgacccctcctgatccatacaatcatggccttgtttcttacagggTCATCATCACCAGCACCCATGCACCAAATCGAGAGCTCTCTTTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGAAGTCTCAGTTCTCAGTTCCCTGTTGGTCGAAGTCCAGCATCATTCAGTCCAAGTGACACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTATAGCAAAGACAAGCACggtgagccatattttcctaagattggagttgccattgttttaagtggttgg Alignment from CESAR ggTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAA---------g gttgtgatgacccctcctgatccatacaatcatggccttgtttcttacagggTCATCATCACCAGCACCCATGCACCAAATCGAGAGCTCTCTTTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGAAGTCTCAGTTCTCAGTTCCCTGTTGGTCGAAGTCCAGCATCATTCAGTCCAAGTGACACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTATAGCAAAGACAAGCACggtgagccatattttcctaagattggagttgccattgttttaagtggttgg Alignment from Spaln_aa2Genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAA---------G gttgtgatgacccctcctgatccatacaatcatggccttgtttcttacagGGTCATCATCACCAGCACCCATGCACCAAATCGAGAGCTCTCTTTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGAAGTCTCAGTTCTCAGTTCCCTGTTGGTCGAAGTCCAGCATCATTCAGTCCAAGTGACACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTATAGCAAAGACAAGCACGgtgagccatattttcctaagattggagttgccattgttttaagtggttgg Alignment from Spaln_nt2Genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG--------- gttgtgatgacccctcctgatccatacaatcatggccttgtttcttacagGGTCATCATCACCAGCACCCATGCACCAAATCGAGAGCTCTCTTTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGAAGTCTCAGTTCTCAGTTCCCTGTTGGTCGAAGTCCAGCATCATTCAGTCCAAGTGACACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTATAGCAAAGACAAGCACGgtgagccatattttcctaagattggagttgccattgttttaagtggttgg Alignment from Pairagon GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG--------- gttgtgatgacccctcctgatccatacaatcatggccttgtttcttacagGGTCATCATCACCAGCACCCATGCACCAAATCGAGAGCTCTCTTTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGAAGTCTCAGTTCTCAGTTCCCTGTTGGTCGAAGTCCAGCATCATTCAGTCCAAGTGACACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTATAGCAAAGACAAGCACGgtgagccatattttcctaagattggagttgccattgttttaagtggttgg Alignment from Exonerate_protein2genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG gttgtgatgacccctcctgatccatacaatcatggccttgtttcttacagGGTCATCATCACCAGCACCCATGCACCAAATCGAGAGCTCTCTTTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGAAGTCTCAGTTCTCAGTTCCCTGTTGGTCGAAGTCCAGCATCATTCAGTCCAAGTGACACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTATAGCAAAGacaagcacggtgagccatattttcctaagattggagttgccattgttttaagtggttgg Alignment from Exonerate_coding2genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG gttgtgatgacccctcctgatccatacaatcatggccttgtttcttacagGGTCATCATCACCAGCACCCATGCACCAAATCGAGAGCTCTCTTTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGAAGTCTCAGTTCTCAGTTCCCTGTTGGTCGAAGTCCAGCATCATTCAGTCCAAGTGACACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTATAGCAAAGacaagcacggtgagccatattttcctaagattggagttgccattgttttaagtggttgg Alignment from GeneWise GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAA---------G gttgtgatgacccctcctgatccatacaatcatggccttgtttcttacagGGTCATCATCACCAGCACCCATGCACCAAATCGAGAGCTCTCTTTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGAAGTCTCAGTTCTCAGTTCCCTGTTGGTCGAAGTCCAGCATCATTCAGTCCAAGTGACACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTATAGCAAAGACAAGCACGgtgagccatattttcctaagattggagttgccattgttttaagtggttgg #### Ccdc88b_ID1825_24 --> 1 - 1 Original Alignment gAAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAg tgtctctttgtttggagcttttacactgatgtctgtcctgactcctgcagg------AGCTGGTTGGCAGACAAGGTGAGAAGGCTCATTCGGCCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTCGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGACTGAGCTGCCTGAAGGCAGGGAGGTTGATGGGACAggtaaggttaaccgtctaacagtcagaatacccctggctgagatttaatgc Alignment from CESAR gAAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAg ctcagctgtctctttgtttggagctctgatgtctgtcctgactcctgcagg------AGCTGGTTGGCAGACAAGGTGAGAAGGCTCATTCGGCCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTCGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGACTGAGCTGCCTGAAGGCAGGGAGGTTGATGGGACAggtaaggttaaccgtctaacagtcagaatacccctggctgagatttaatgc Alignment from Spaln_aa2Genome GAAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAG tgtctctttgtttggagcttttacactgatgtctgtcctgactcctgcagG------AGCTGGTTGGCAGACAAGGTGAGAAGGCTCATTCGGCCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTCGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGACTGAGCTGCCTGAAGGCAGGGAGGTTGATGGGACAGgtaaggttaaccgtctaacagtcagaatacccctggctgagatttaatgc Alignment from Spaln_nt2Genome GAAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAG tgtctctttgtttggagcttttacactgatgtctgtcctgactcctgcagG------AGCTGGTTGGCAGACAAGGTGAGAAGGCTCATTCGGCCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTCGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGACTGAGCTGCCTGAAGGCAGGGAGGTTGATGGGACAGgtaaggttaaccgtctaacagtcagaatacccctggctgagatttaatgc Alignment from Pairagon GAAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAG tgtctctttgtttggagcttttacactgatgtctgtcctgactcctgcagG------AGCTGGTTGGCAGACAAGGTGAGAAGGCTCATTCGGCCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTCGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGACTGAGCTGCCTGAAGGCAGGGAGGTTGATGGGACAGgtaaggttaaccgtctaacagtcagaatacccctggctgagatttaatgc Alignment from Exonerate_protein2genome CAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAG tgtctctttgtttggagcttttacactgatgtctgtcctgactcctgcagGAGCTGGTTGGCAGACAAGGTGAGAAGGCTCATTCGGCCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTCGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGACTGAGCTGCCTGAAGGCAGGGAGGTTGATGGGACAGgtaaggttaaccgtctaacagtcagaatacccctggctgagatttaatgc Alignment from Exonerate_coding2genome CAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAG tgtctctttgtttggagcttttacactgatgtctgtcctgactcctgcagGAGCTGGTTGGCAGACAAGGTGAGAAGGCTCATTCGGCCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTCGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGACTGAGCTGCCTGAAGGCAGGGAGGTTGATGGGACAGgtaaggttaaccgtctaacagtcagaatacccctggctgagatttaatgc Alignment from GeneWise GAAGGGCAGCTGGCTGGCAGACAAGGTGAAGAGGCTCATTCGGCCCCGGCGGGAGGGGGCCCTCCATGGGGGGCCACGCCTGGGGGCCGATGGGGCTGGCAGCACGGAAAGCTTGGGGGGCCCCCTGGAGACGGAGCTCCCTGAGGGCAGGGAGGCAGATGGGACAG tgtctctttgtttggagcttttacactgatgtctgtcctgactcctgcagG------AGCTGGTTGGCAGACAAGGTGAGAAGGCTCATTCGGCCCCGGCGTGAGGGGGCCCTCCATGGGGGGCCTCGCCTCGGGGCTGATGGGGCTGGCAGTACTGAAAGTTTGGGAGGCCCTCTAGAGACTGAGCTGCCTGAAGGCAGGGAGGTTGATGGGACAGgtaaggttaaccgtctaacagtcagaatacccctggctgagatttaatgc #### Ccdc88b_ID1826_23 --> 1 - 2 Original Alignment ct gGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACC------aa ctgtaagtacacttagggtcaggttaagcctggccttctccttgccccaggGACCAACTCAATGGCTTGCGCCAGCAGAAACAGAAGCTGGTGGAT---ATCATGGACCAGTACCGCGTAGTACAGCCTGGGCCGCTACCCCATACTAACGAAaagtagggtagtaccttatggatcctgttagtatttcgccctgtcccacggc Alignment from CESAR ct gGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACC------aa ctgtgagaacacttagggtcaggttaagcctggccttctccttgccccaggGACCAACTCAATGGCTTGCGCCAGCAGAAACAGAAGCTGGTGGAT---ATCATGGACCAGTACCGCGTAGTACAGCCTGGGCCGCTACCCCATACTAACGAAaagtagggtagtaccttatggatcctgttagtatttcgccctgtcccacggc Alignment from Spaln_aa2Genome CT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAAG----- CTgtaagtacacttagggtcaggttaagcctggccttctccttgccccagGGACCAACTCAATGGCTTGCGCCAGCAGAAACAGAAGCTGGTGGAT---ATCATGGACCAGTACCGCGTAGTACAGCCTGGGCCGCTACCCCATACTAACGAAAAgtagggtagtaccttatggatcctgttagtatttcgccctgtcccacggc Alignment from Spaln_nt2Genome CT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA------ CTgtaagtacacttagggtcaggttaagcctggccttctccttgccccagGGACCAACTCAATGGCTTGCGCCAGCAGAAACAGAAGCTGGTGGAT---ATCATGGACCAGTACCGCGTAGTACAGCCTGGGCCGCTACCCCATACTAACGAAAAgtagggtagtaccttatggatcctgttagtatttcgccctgtcccacggc Alignment from Pairagon CT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA------ CTgtaagtacacttagggtcaggttaagcctggccttctccttgccccagGGACCAACTCAATGGCTTGCGCCAGCAGAAACAGAAGCTGGTGG---ATATCATGGACCAGTACCGCGTAGTACAGCCTGGGCCGCTACCCCATACTAACGAAAAgtagggtagtaccttatggatcctgttagtatttcgccctgtcccacggc Alignment from Exonerate_protein2genome CT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA CTgtaagtacacttagggtcaggttaagcctggccttctccttgccccagGGACCAACTCAATGGCTTGCGCCAGCAGAAACAGAAGCTGGTGGAT---ATCATGGACCAGTACCGCGTAGTACAGCCTGGGCCGCTACCCCATACTAAcgaaaagtagggtagtaccttatggatcctgttagtatttcgccctgtcccacggc Alignment from Exonerate_coding2genome CT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA CTgtaagtacacttagggtcaggttaagcctggccttctccttgccccagGGACCAACTCAATGGCTTGCGCCAGCAGAAACAGAAGCTGGTGGAT---ATCATGGACCAGTACCGCGTAGTACAGCCTGGGCCGCTACCCCATACTAAcgaaaagtagggtagtaccttatggatcctgttagtatttcgccctgtcccacggc Alignment from GeneWise CT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAAGAAG-- CTgtaagtacacttagggtcaggttaagcctggccttctccttgccccagGGACCAACTCAATGGCTTGCGCCAGCAGAAACAGAAGCTGGTGGAT---ATCATGGACCAGTACCGCGTAGTACAGCCTGGGCCGCTACCCCATACTAACGAAAAgtagggtagtaccttatggatcctgttagtatttcgccctgtcccacggc #### Ccdc88b_ID1829_20 --> 1 - 2 Original Alignment gCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGag ctcaaaaagctggtgggccaatgctcccgggtggatgggctgtgttgcaggCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCAGTGGCAGTGTGGTCTGGATGAGGAGCTG------------------------aggtgagtctgttagctcaggcctatgccaacgttgcgttctagcatacatc Alignment from CESAR gCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGag ctcaaaaagctggtgggccaatgctcccgggtggatgggctgtgttgcaggCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCAGTGGCAGTGTGGTCTGGATGAGGAGCTG------------------------aggtgagtctgttagctcaggcctatgccaacgttgcgttctagcatacatc Alignment from Spaln_aa2Genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCG ctcaaaaagctggtgggccaatgctcccgggtggatgggctgtgttgcagGCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCAGTGGCAGTGTGGTCTGGATGAGGAGCTGAGgtgagtctgttagctcaggcctatgccaacgttgcgttctagcatacatc Alignment from Spaln_nt2Genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCG ctcaaaaagctggtgggccaatgctcccgggtggatgggctgtgttgcagGCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCAGTGGCAGTGTGGTCTGGATGAGGAGCTGAGgtgagtctgttagctcaggcctatgccaacgttgcgttctagcatacatc Alignment from Pairagon GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctggtgggccaatgctcccgggtggatgggctgtgttgcagGCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCAGTGGCAGTGTGGTCTGGATGAGGAGCT------------------------GAGgtgagtctgttagctcaggcctatgccaacgttgcgttctagcatacatc Alignment from Exonerate_protein2genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCG ctcaaaaagctggtgggccaatgctcccgggtggatgggctgtgttgcagGCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCAGTGGCAGTGTGGTCTGGATGAGGAGCTGAGgtgagtctgttagctcaggcctatgccaacgttgcgttctagcatacatc Alignment from Exonerate_coding2genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCG ctcaaaaagctggtgggccaatgctcccgggtggatgggctgtgttgcagGCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCAGTGGCAGTGTGGTCTGGATGAGGAGCTGAGgtgagtctgttagctcaggcctatgccaacgttgcgttctagcatacatc Alignment from GeneWise GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCG ctcaaaaagctggtgggccaatgctcccgggtggatgggctgtgttgcagGCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCAGTGGCAGTGTGGTCTGGATGAGGAGCTGAGgtgagtctgttagctcaggcctatgccaacgttgcgttctagcatacatc #### Ccdc88b_ID1831_18 --> 0 - 0 Original Alignment AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gaggtaatagggctcacaacattaacatgtgggttctctctctctgtcagAATGCCACATTGGTGGCAGAGAAAGCGGCTCTCCAGGGGCAGTTGCAGCATCTTGAGGGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGCTTCTACAGAGTCAACGG---------------------------gtaagtatgggctgtggtgtgtacactgaacaagcgcacgcttgactcta Alignment from CESAR AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG gaggtaatagggctcacaacattaacatgtgggttctctctctctgtcagAATGCCACATTGGTGGCAGAGAAAGCGGCTCTCCAGGGGCAGTTGCAGCATCTTGAGGGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGCTTCTACAGAGTCAACGG---------------------------gtaagtatgggctgtggtgtgta Alignment from Spaln_aa2Genome AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTG------CAG gaggtaatagggctcacaacattaacatgtgggttctctctctctgtcagAATGCCACATTGGTGGCAGAGAAAGCGGCTCTCCAGGGGCAGTTGCAGCATCTTGAGGGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGTAAGTATGGGCTGTGGTGTGTACACTGAACAAgcgcacgcttgactcta Alignment from Spaln_nt2Genome AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGG gaggtaatagggctcacaacattaacatgtgggttctctctctctgtcagAATGCCACATTGGTGGCAGAGAAAGCGGCTCTCCAGGGGCAGTTGCAGCATCTTGAGGGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGCTTCTACAGAGTCAACGGgtaagtatgggctgtggtgtgtacactgaacaagcgcacgcttgactcta Alignment from Pairagon AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGG gaggtaatagggctcacaacattaacatgtgggttctctctctctgtcagAATGCCACATTGGTGGCAGAGAAAGCGGCTCTCCAGGGGCAGTTGCAGCATCTTGAGGGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGCTTCTACAGAGTCAACGGgtaagtatgggctgtggtgtgtacactgaacaagcgcacgcttgactcta Alignment from Exonerate_protein2genome AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGG gaggtaatagggctcacaacattaacatgtgggttctctctctctgtcagAATGCCACATTGGTGGCAGAGAAAGCGGCTCTCCAGGGGCAGTTGCAGCATCTTGAGGGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGCTTCTACAGAGTCAACGGgtaagtatgggctgtggtgtgtacactgaacaagcgcacgcttgactcta Alignment from Exonerate_coding2genome AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGG gaggtaatagggctcacaacattaacatgtgggttctctctctctgtcagAATGCCACATTGGTGGCAGAGAAAGCGGCTCTCCAGGGGCAGTTGCAGCATCTTGAGGGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGCTTCTACAGAGTCAACGGgtaagtatgggctgtggtgtgtacactgaacaagcgcacgcttgactcta Alignment from GeneWise --------------------------------------------------AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG GAGGTAATAGGGCTCACAACATTAACATGTGGGTTCTCTCTCTCTGTCAGAATGCCACATTGGTGGCAGAGAAAGCGGCTCTCCAGGGGCAGTTGCAGCATCTTGAGGGACAGCTGGGGAGCCTACATGGCCGTGCACAGGAATTGCTTCTACAGAGTCAACGGGTA---------AGTATGGGCTGTGGTgtgtacactgaacaagcgcacgc #### Ccdc88b_ID1836_13 --> 2 - 0 Original Alignment cc------TCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtgggggaacatgaacagacagaacccccctgccctttgtctgcagcgAGACTTTCCCTTCCTGGGCCAGCACCTTCATTGCAAGATGAGGTGAGGAAAGCAGAGGGTGGCAGACTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---CATATG------GCACAGCTTGGCAGCCAGgtaagttcctctgctggtattcttgttccttgtaagtcctgtttgcaaca Alignment from CESAR cc------TCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtgggggaacatgaacagacagaacccccctgccctttgtctgcagcgAGACTTTCCCTTCCTGGGCCAGCACCTTCATTGCAAGATGAGGTGAGGAAAGCAGAGGGTGGCAGACTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---CATATG------GCACAGCTTGGCAGCCAGgtaagttcctctgctggtattcttgttccttgtaagtcctgtttgcaaca Alignment from Spaln_aa2Genome CC------TCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtgggggaacatgaacagacagaacccccctgccctttgtctgcagCGAGACTTTCCCTTCCTGGGCCAGCACCTTCATTGCAAGATGAGGTGAGGAAAGCAGAGGGTGGCAGACTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---CATATG------GCACAGCTTGGCAGCCAGgtaagttcctctgctggtattcttgttccttgtaagtcctgtttgcaaca Alignment from Spaln_nt2Genome CC------TCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtgggggaacatgaacagacagaacccccctgccctttgtctgcagCGAGACTTTCCCTTCCTGGGCCAGCACCTTCATTGCAAGATGAGGTGAGGAAAGCAGAGGGTGGCAGACTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCA---ACATAT------GGCACAGCTTGGCAGCCAGgtaagttcctctgctggtattcttgttccttgtaagtcctgtttgcaaca Alignment from Pairagon C------CTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtgggggaacatgaacagacagaacccccctgccctttgtctgcagCGAGACTTTCCCTTCCTGGGCCAGCACCTTCATTGCAAGATGAGGTGAGGAAAGCAGAGGGTGGCAGACTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---------CATATGGCACAGCTTGGCAGCCAGgtaagttcctctgctggtattcttgttccttgtaagtcctgtttgcaaca Alignment from Exonerate_protein2genome CC------TCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtgggggaacatgaacagacagaacccccctgccctttgtctgcagCGAGACTTTCCCTTCCTGGGCCAGCACCTTCATTGCAAGATGAGGTGAGGAAAGCAGAGGGTGGCAGACTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---------CATATGGCACAGCTTGGCAGCCAGgtaagttcctctgctggtattcttgttccttgtaagtcctgtttgcaaca Alignment from Exonerate_coding2genome CC------TCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtgggggaacatgaacagacagaacccccctgccctttgtctgcagCGAGACTTTCCCTTCCTGGGCCAGCACCTTCATTGCAAGATGAGGTGAGGAAAGCAGAGGGTGGCAGACTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---------CATATGGCACAGCTTGGCAGCCAGgtaagttcctctgctggtattcttgttccttgtaagtcctgtttgcaaca Alignment from GeneWise ----TCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtgggggaacatgaacagacagaacccccctgccctttgtctgcagcgagACTTTCCCTTCCTGGGCCAGCACCTTCATTGCAAGATGAGGTGAGGAAAGCAGAGGGTGGCAGACTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAACATATG---------GCACAGCTTGGCAGCCAGgtaagttcctctgctggtattcttgttccttgtaagtcctgtttgcaaca #### Ccdc88b_ID1840_9 --> 1 - 0 Original Alignment gGAGGAGAAGGCTGAGCAACTGCTGGACTCCCAGGCCGAGGTGCAGGGCTTGGAGGCTGAAATTCGAAGGCTCCGCCAGGAG------ ggacaggctctaccagttggaggaactcatcggttttcacccttgtccagaGAAGAGAGGGCTGAACAGCTACTAGACTCCCATGCAGAGGTCCAG---TTGGATGCTGAAATTCATAGACTTCGCCAGGAGCTTCAGgtagggtccatcttccttcactaatccagctcccacaacactccatattg Alignment from CESAR gGAGGAGAAGGCTGAGCAACTGCTGGACTCCCAGGCCGAGGTGCAGGGCTTGGAGGCTGAAATTCGAAGGCTCCGCCAGGAG------ ggacaggctctaccagttggaggaactcatcggttttcacccttgtccagaGAAGAGAGGGCTGAACAGCTACTAGACTCCCATGCAGAGGTCCAG---TTGGATGCTGAAATTCATAGACTTCGCCAGGAGCTTCAGgtagggtccatcttccttcactaatccagctcccacaacactccatattg Alignment from Spaln_aa2Genome GGAGGAGAAGGCTGAGCAACTGCTGGACTCCCAGGCCGAGGTGCAGGGCTTGGAGGCTGAAATTCGAAGGCTCCGCCAGGAGACTCAG ggacaggctctaccagttggaggaactcatcggttttcacccttgtccagAGAAGAGAGGGCTGAACAGCTACTAGACTCCCATGCAGAGGTCCAG---TTGGATGCTGAAATTCATAGACTTCGCCAGGAGCTTCAGgtagggtccatcttccttcactaatccagctcccacaacactccatattg Alignment from Spaln_nt2Genome GGAGGAGAAGGCTGAGCAACTGCTGGACTCCCAGGCCGAGGTGCAGGGCTTGGAGGCTGAAATTCGAAGGCTCCGCCAGGAG------ ggacaggctctaccagttggaggaactcatcggttttcacccttgtccagAGAAGAGAGGGCTGAACAGCTACTAGACTCCCATGCAGAGGTCCAG---TTGGATGCTGAAATTCATAGACTTCGCCAGGAGCTTCAGgtagggtccatcttccttcactaatccagctcccacaacactccatattg Alignment from Pairagon GGAGGAGAAGGCTGAGCAACTGCTGGACTCCCAGGCCGAGGTGCAGGGCTTGGAGGCTGAAATTCGAAGGCTCCGCCAGGAG------ ggacaggctctaccagttggaggaactcatcggttttcacccttgtccagAGAAGAGAGGGCTGAACAGCTACTAGACTCCCATGCAGAGGTCCAG---TTGGATGCTGAAATTCATAGACTTCGCCAGGAGCTTCAGgtagggtccatcttccttcactaatccagctcccacaacactccatattg Alignment from Exonerate_protein2genome GGAGGAGAAGGCTGAGCAACTGCTGGACTCCCAGGCCGAGGTGCAGGGCTTGGAGGCTGAAATTCGAAGGCTCCGCCAGGAGACTCAG ggacaggctctaccagttggaggaactcatcggttttcacccttgtccagAGAAGAGAGGGCTGAACAGCTACTAGACTCCCATGCAGAGGTCCAG---TTGGATGCTGAAATTCATAGACTTCGCCAGGAGCTTCAGgtagggtccatcttccttcactaatccagctcccacaacactccatattg Alignment from Exonerate_coding2genome ggacaggctctaccagttggaggaactcatcggttttcacccttgtccagagaagagagggctgaacagctactagactcccatgcagaggtccagttggatgctgaaattcatagacttcgccaggagcttcaggtagggtccatcttccttcactaatccagctcccacaacactccatattg Alignment from GeneWise GGAGGAGAAGGCTGAGCAACTGCTGGACTCCCAGGCCGAGGTGCAGGGCTTGGAGGCTGAAATTCGAAGGCTCCGCCAGGAGACTCAG ggacaggctctaccagttggaggaactcatcggttttcacccttgtccagAGAAGAGAGGGCTGAACAGCTACTAGACTCCCATGCAGAGGTCCAG---TTGGATGCTGAAATTCATAGACTTCGCCAGGAGCTTCAGgtagggtccatcttccttcactaatccagctcccacaacactccatattg #### Ccdc88b_ID1844_5 --> 2 - 0 Original Alignment aa------GAGGCAGTGGAC------------------------------------------------------GAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG tatatcctcatcttgttctttttgctcaccaattggaatctctttttcagagACAGAAGAGGCAGTGGATGAGCTAGAGAGCATCCTGTGGTTGTTATTGGGGGCTTCAATACAGGTGAAAAGGAAGCTTGAAAGCATTCTTAGGTTGCTGTTAGGGGCTTCAGTACGGgtacagtggggaaaaagactggagttcagacagaaagtgggacccctatg Alignment from CESAR aaGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG ctcttatatatcctcatcttgttctttttgcattggaatctctttttcagagacagaaGAGGCAGTGGATGAGCTAGAGAGCATCCTGTGGTTGTTATTGGGGGCTTCAATACAGgtgaaaaggaagcttgaaagcattcttaggttgctgttaggggcttcagtacgggtacagtggggaaaaagactggagttcagacagaaagtgggacccctatg Alignment from Spaln_aa2Genome AAGAGGCAGTGGACGAGCTGGAAAGC----- -ATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG tatatcctcatcttgttctttttgctcaccaattggaatctctttttcagagacagAAGAGGCAGTGGATGAGCTAGAGAGCATCCTgtggttgttattgggggcttcaatacaggtgaaaaggaagcttgaaagCATTCTTAGGTTGCTGTTAGGGGCTTCAGTACGGgtacagtggggaaaaagactggagttcagacagaaagtgggacccctatg Alignment from Spaln_nt2Genome AAGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG tatatcctcatcttgttctttttgctcaccaattggaatctctttttcagagacagAAGAGGCAGTGGATGAGCTAGAGAGCATCCTGTGGTTGTTATTGGGGGCTTCAATACAGgtgaaaaggaagcttgaaagcattcttaggttgctgttaggggcttcagtacgggtacagtggggaaaaagactggagttcagacagaaagtgggacccctatg Alignment from Pairagon AAGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG tatatcctcatcttgttctttttgctcaccaattggaatctctttttcagagacagAAGAGGCAGTGGATGAGCTAGAGAGCATCCTGTGGTTGTTATTGGGGGCTTCAATACAGgtgaaaaggaagcttgaaagcattcttaggttgctgttaggggcttcagtacgggtacagtggggaaaaagactggagttcagacagaaagtgggacccctatg Alignment from Exonerate_protein2genome AAGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG tatatcctcatcttgttctttttgctcaccaattggaatctctttttcagagacagAAGAGGCAGTGGATGAGCTAGAGAGCATCCTGTGGTTGTTATTGGGGGCTTCAATACAGgtgaaaaggaagcttgaaagcattcttaggttgctgttaggggcttcagtacgggtacagtggggaaaaagactggagttcagacagaaagtgggacccctatg Alignment from Exonerate_coding2genome tatatcctcatcttgttctttttgctcaccaattggaatctctttttcagagacagaagaggcagtggatgagctagagagcatcctgtggttgttattgggggcttcaatacaggtgaaaaggaagcttgaaagcattcttaggttgctgttaggggcttcagtacgggtacagtggggaaaaagactggagttcagacagaaagtgggacccctatg Alignment from GeneWise AAGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG tatatcctcatcttgttctttttgctcaccaattggaatctctttttcagagacagAAGAGGCAGTGGATGAGCTAGAGAGCATCCTGTGGTTGTTATTGGGGGCTTCAATACAGgtgaaaaggaagcttgaaagcattcttaggttgctgttaggggcttcagtacgggtacagtggggaaaaagactggagttcagacagaaagtgggacccctatg #### Ccdc88b_ID1847_2 --> 0 - 2 Original Alignment ---GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCat gcctggtattgtgcgcctgcctcccttcatactttttttttaatttgtagAGCGCTTTAGGTTTGGCTGGCCTTGTGGGGGAGGCAGAAAAGTCAGCAGGGGGAACTGAAGAGGACGAGGAGGAGGAGGAGGAAGAAGGAGCTCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGACGGAGCCTTACTCCTTCGGGTTTTGGACATTatgtaggagatacagggaaatttagttatggatgttggccatgaatggtagg Alignment from CESAR ---GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCat gcctggtattgtgcgcctgcctcccttcatactttttttttaatttgtagAGCGCTTTAGGTTTGGCTGGCCTTGTGGGGGAGGCAGAAAAGTCAGCAGGGGGAACTGAAGAGGACGAGGAGGAGGAGGAGGAAGAAGGAGCTCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGACGGAGCCTTACTCCTTCGGGTTTTGGACATTatgtaggagatacagggaaatttagttatggatgttggccatgaatggtagg Alignment from Spaln_aa2Genome GCACTGGGACTG---GCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT gcctggtattgtgcgcctgcctcccttcatactttttttttaatttgtagAGCGCTTTAGGTTTGGCTGGCCTTGTGGGGGAGGCAGAAAAGTCAGCAGGGGGAACTGAAGAGGACGAGGAGGAGGAGGAGGAAGAAGGAGCTCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGACGGAGCCTTACTCCTTCGGGTTTTGGACATTATgtaggagatacagggaaatttagttatggatgttggccatgaatggtagg Alignment from Spaln_nt2Genome ---GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT gcctggtattgtgcgcctgcctcccttcatactttttttttaatttgtagAGCGCTTTAGGTTTGGCTGGCCTTGTGGGGGAGGCAGAAAAGTCAGCAGGGGGAACTGAAGAGGACGAGGAGGAGGAGGAGGAAGAAGGAGCTCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGACGGAGCCTTACTCCTTCGGGTTTTGGACATTATgtaggagatacagggaaatttagttatggatgttggccatgaatggtagg Alignment from Pairagon GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT gcctggtattgtgcgcctgcctcccttcatactttttttttaatttgtagagcgctttag-------GTTTGGCTGGCCTTGTGGGGGAGGCAGAAAAGTCAGCAGGGGGAACTGAAGAGGACGAGGAGGAGGAGGAGGAAGAAGGAGCTCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGACGGAGCCTTACTCCTTCGGGTTTTGGACATTATgtaggagatacagggaaatttagttatggatgttggccatgaatggtagg Alignment from Exonerate_protein2genome ---GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT gcctggtattgtgcgcctgcctcccttcatactttttttttaatttgtagAGCGCTTTAGGTTTGGCTGGCCTTGTGGGGGAGGCAGAAAAGTCAGCAGGGGGAACTGAAGAGGACGAGGAGGAGGAGGAGGAAGAAGGAGCTCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGACGGAGCCTTACTCCTTCGGGTTTTGGACATTATgtaggagatacagggaaatttagttatggatgttggccatgaatggtagg Alignment from Exonerate_coding2genome gcctggtattgtgcgcctgcctcccttcatactttttttttaatttgtagagcgctttaggtttggctggccttgtgggggaggcagaaaagtcagcagggggaactgaagaggacgaggaggaggaggaggaagaaggagctctttgtacagaaaaaagatccctacggttgattgacggagccttactccttcgggttttggacattatgtaggagatacagggaaatttagttatggatgttggccatgaatggtagg Alignment from GeneWise ---GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT gcctggtattgtgcgcctgcctcccttcatactttttttttaatttgtagAGCGCTTTAGGTTTGGCTGGCCTTGTGGGGGAGGCAGAAAAGTCAGCAGGGGGAACTGAAGAGGACGAGGAGGAGGAGGAGGAAGAAGGAGCTCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGACGGAGCCTTACTCCTTCGGGTTTTGGACATTATgtaggagatacagggaaatttagttatggatgttggccatgaatggtagg #### Ccs_ID661_7 --> 0 - 2 Original Alignment GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGag gcagatacacaaggctgatggtactgacaacttctttcaatatgcataagGTTTGGGATGTGATTGCCCGCACCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCCAAGATCACAGGGAATTCGGAG---aggtgctcggacatataacccccaacggagccattttcatccttttctttta Alignment from CESAR GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGag gcagatacacaaggctgatggtactgacaacttctttcaatatgcataagGTTTGGGATGTGATTGCCCGCACCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCCAAGATCACAGGGAATTCGGAG---aggtgctcggacatataacccccaacggcagactttggctcacccacatcca Alignment from Spaln_aa2Genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG gcagatacacaaggctgatggtactgacaacttctttcaatatgcataagGTTTGGGATGTGATTGCCCGCACCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCCAAGATCACAGGGAATTCG---GAGAGgtgctcggacatataacccccaacggagccattttcatccttttctttta Alignment from Spaln_nt2Genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG gcagatacacaaggctgatggtactgacaacttctttcaatatgcataagGTTTGGGATGTGATTGCCCGCACCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCCAAGATCACAGGGAATTC---GGAGAGgtgctcggacatataacccccaacggagccattttcatccttttctttta Alignment from Pairagon -----------------------------------------------------TGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAGGT------------------------------------------------ GCAGATACACAAGGCTGATGGTACTGACAACTTCTTTCAATATGCATAAGGTTTGGGATGTGATTGCCCGCACCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCCAAGATCACAGGGAATTC---GGAGAGGTGCTCGGACATATAACCCCCAACGGAGCCATTTTCATCCTTTTCTTTTA Alignment from Exonerate_protein2genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG gcagatacacaaggctgatggtactgacaacttctttcaatatgcataagGTTTGGGATGTGATTGCCCGCACCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCCAAGATCACAGGGAATTCGGAGAGGTGctcggacatataacccccaacggagccattttcatccttttctttta Alignment from Exonerate_coding2genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG gcagatacacaaggctgatggtactgacaacttctttcaatatgcataagGTTTGGGATGTGATTGCCCGCACCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCCAAGATCACAGGGAATTCGGAGAGGTGctcggacatataacccccaacggagccattttcatccttttctttta Alignment from GeneWise GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG gcagatacacaaggctgatggtactgacaacttctttcaatatgcataagGTTTGGGATGTGATTGCCCGCACCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCCAAGATCACAGGGAATTCG---GAGAGgtgctcggacatataacccccaacggagccattttcatccttttctttta #### Cdc42bpg_ID1574_4 --> 0 - 0 Original Alignment ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG gtcacaaaaatgcaaaatctagcctcaggaatttttgttttttctttcag---ACCTGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaagaagtcctatgtcatagaggggttaccctgacagtgctgttttttt Alignment from CESAR ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG ggtggcacaaaaatgcaaaatctagcaggaatttttgttttttctttcagACC---TGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaagaagtcctatgtcatagaggggttaccctgacagtgctgttttttt Alignment from Spaln_aa2Genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG gtcacaaaaatgcaaaatctagcctcaggaatttttgttttttctttcagACC---TGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaagaagtcctatgtcatagaggggttaccctgacagtgctgttttttt Alignment from Spaln_nt2Genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG gtcacaaaaatgcaaaatctagcctcaggaatttttgttttttctttcagA---CCTGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaagaagtcctatgtcatagaggggttaccctgacagtgctgttttttt Alignment from Pairagon ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG gtcacaaaaatgcaaaatctagcctcaggaatttttgttttttctttcagA---CCTGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaagaagtcctatgtcatagaggggttaccctgacagtgctgttttttt Alignment from Exonerate_protein2genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG gtcacaaaaatgcaaaatctagcctcaggaatttttgttttttctttcagACC---TGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaagaagtcctatgtcatagaggggttaccctgacagtgctgttttttt Alignment from Exonerate_coding2genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG gtcacaaaaatgcaaaatctagcctcaggaatttttgttttttctttcagACC---TGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaagaagtcctatgtcatagaggggttaccctgacagtgctgttttttt Alignment from GeneWise CC---------------------------------------------------TGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG GTCACAAAAATGCAAAATCTAGCCTCAGGAATTTTTGTTTTTTCTTTCAGACCTGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaagaagtcctatgtcatagaggggttaccctgacagtgctgttttttt #### Cdc42bpg_ID1581_11 --> 2 - 1 Original Alignment agCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAg tgggagaaacaacgcaccccacatgagtcgagcctgtcctcttcccgcagag---------------------CCACAGGAGCTTGTGCATCTTCATAAAGAGGTTCAGGTTCTTCAGGAGAAACTGACAggtttgtctggtaagctattagagttggccaggttccttgccatgtcctag Alignment from CESAR agCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAg tggttctgggtgctaaagtcgtgggagtcgagcctgtcctcttcccgcagag---------------------CCACAGGAGCTTGTGCATCTTCATAAAGAGGTTCAGGTTCTTCAGGAGAAACTGACAggtttgtctggtaagctattagagttggccaggttccttgccatgtcctag Alignment from Spaln_aa2Genome AGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG tgggagaaacaacgcaccccacatgagtcgagcctgtcctcttcccgcagAGCCACAGGAGCTTGTGCATCTTCATAAAGAGGTTCAGGTTCTTCAGGAGAAACTGACAGgtttgtctggtaagctattagagttggccaggttccttgccatgtcctag Alignment from Spaln_nt2Genome AGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG tgggagaaacaacgcaccccacatgagtcgagcctgtcctcttcccgcagAGCCACAGGAGCTTGTGCATCTTCATAAAGAGGTTCAGGTTCTTCAGGAGAAACTGACAGgtttgtctggtaagctattagagttggccaggttccttgccatgtcctag Alignment from Pairagon AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG tgggagaaacaacgcaccccacatgagtcgagcctgtcctcttcccgcag---------------------AGCCACAGGAGCTTGTGCATCTTCATAAAGAGGTTCAGGTTCTTCAGGAGAAACTGACAGgtttgtctggtaagctattagagttggccaggttccttgccatgtcctag Alignment from Exonerate_protein2genome AGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG tgggagaaacaacgcaccccacatgagtcgagcctgtcctcttcccgcagAGCCACAGGAGCTTGTGCATCTTCATAAAGAGGTTCAGGTTCTTCAGGAGAAACTGACAGgtttgtctggtaagctattagagttggccaggttccttgccatgtcctag Alignment from Exonerate_coding2genome AGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG tgggagaaacaacgcaccccacatgagtcgagcctgtcctcttcccgcagAGCCACAGGAGCTTGTGCATCTTCATAAAGAGGTTCAGGTTCTTCAGGAGAAACTGACAGgtttgtctggtaagctattagagttggccaggttccttgccatgtcctag Alignment from GeneWise --GAGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG aaacaacgcaccccacatgagtcgagCCTGTCCTCTT------CCCGCAGAGCCACAGGAGCTTGTGCATCTTCATAAAGAGGTTCAGGTTCTTCAGGAGAAACTGACAGgtttgtctggtaagctattagagttggccaggttccttgccatgtcctag #### Cdc42bpg_ID1582_12 --> 2 - 0 Original Alignment agACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG tgcttacagaggggggaattatcacagcgaaatgcttcctcatgctgcagagACCTTGAAGGACAGCAAGGCTTCCCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGCCCCAAACATCCAGTTACAGCAGGAGAAGGACCGC---------gtaaggatctaaactctcgtgatgggaattatacagtgtgttgtttggca Alignment from CESAR agACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG tgcttacagaggggggaattatcacagcgaaatgcttcctcatgctgcagagACCTTGAAGGACAGCAAGGCTTCCCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGCCCCAAACATCCAGTTACAGCAGGAGAAGGACCGC---------gtaaggatctaaactctcgtgatgggaattatacagtgtgt Alignment from Spaln_aa2Genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGC tgcttacagaggggggaattatcacagcgaaatgcttcctcatgctgcagAGACCTTGAAGGACAGCAAGGCTTCCCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGCCCCAAACATCCAGTTACAGCAGGAGAAGGACCGCgtaaggatctaaactctcgtgatgggaattatacagtgtgttgtttggca Alignment from Spaln_nt2Genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGC tgcttacagaggggggaattatcacagcgaaatgcttcctcatgctgcagAGACCTTGAAGGACAGCAAGGCTTCCCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGCCCCAAACATCCAGTTACAGCAGGAGAAGGACCGCgtaaggatctaaactctcgtgatgggaattatacagtgtgttgtttggca Alignment from Pairagon AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGC tgcttacagaggggggaattatcacagcgaaatgcttcctcatgctgcagAGACCTTGAAGGACAGCAAGGCTTCCCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGCCCCAAACATCCAGTTACAGCAGGAGAAGGACCGCgtaaggatctaaactctcgtgatgggaattatacagtgtgttgtttggca Alignment from Exonerate_protein2genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGC tgcttacagaggggggaattatcacagcgaaatgcttcctcatgctgcagAGACCTTGAAGGACAGCAAGGCTTCCCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGCCCCAAACATCCAGTTACAGCAGGAGAAGGACCGCgtaaggatctaaactctcgtgatgggaattatacagtgtgttgtttggca Alignment from Exonerate_coding2genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGC tgcttacagaggggggaattatcacagcgaaatgcttcctcatgctgcagAGACCTTGAAGGACAGCAAGGCTTCCCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGCCCCAAACATCCAGTTACAGCAGGAGAAGGACCGCgtaaggatctaaactctcgtgatgggaattatacagtgtgttgtttggca Alignment from GeneWise AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG tgcttacagaggggggaattatcacagcgaaatgcttcctcatgctgcagAGACCTTGAAGGACAGCAAGGCTTCCCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGCCCCAAACATCCAGTTACAGCAGGAGAAGGAC---------CGCgtaaggatctaaactctcgtgatgggaattatacagtgtgttgtttggca #### Cdc42bpg_ID1585_15 --> 0 - 2 Original Alignment ---------ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAgg taggccctgacttctcaaaccagacccttcagtatcccgtctacttccagATTCGTAGAACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGTCTCCTGAGGGTCAGTCTCAAGAGACCCAACTGAGGAAGGAAGTAGTAGCCCTAAGGGAGCAACTGGTACATGCCTGCAGCCAAgggtaaatgcatggtagttgctgccaggaaggggcaaaataacatcacgctg Alignment from CESAR ---------ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAgg taggccctgacttctcaaaccagacccttcagtatcccgtctacttccagATTCGTAGAACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGTCTCCTGAGGGTCAGTCTCAAGAGACCCAACTGAGGAAGGAAGTAGTAGCCCTAAGGGAGCAACTGGTACATGCCTGCAGCCAAgggtaaatgcatggtagttgctgccaggaaggggcaaaataacatcacgctg Alignment from Spaln_aa2Genome CAGGCCAAGACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG taggccctgacttctcaaaccagacccttcagtatcccgtctacttccagATTCGTAGAACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGTCTCCTGAGGGTCAGTCTCAAGAGACCCAACTGAGGAAGGAAGTAGTAGCCCTAAGGGAGCAACTGGTACATGCCTGCAGCCAAGGgtaaatgcatggtagttgctgccaggaaggggcaaaataacatcacgctg Alignment from Spaln_nt2Genome ACC-GTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG taggccctgacttctcaaaccagacccttcagtatcccgtctacttccagattcgtagAACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGTCTCCTGAGGGTCAGTCTCAAGAGACCCAACTGAGGAAGGAAGTAGTAGCCCTAAGGGAGCAACTGGTACATGCCTGCAGCCAAGGgtaaatgcatggtagttgctgccaggaaggggcaaaataacatcacgctg Alignment from Pairagon ---------ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG taggccctgacttctcaaaccagacccttcagtatcccgtctacttccagATTCGTAGAACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGTCTCCTGAGGGTCAGTCTCAAGAGACCCAACTGAGGAAGGAAGTAGTAGCCCTAAGGGAGCAACTGGTACATGCCTGCAGCCAAGGgtaaatgcatggtagttgctgccaggaaggggcaaaataacatcacgctg Alignment from Exonerate_protein2genome CAGGCCAAGACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG taggccctgacttctcaaaccagacccttcagtatcccgtctacttccagATTCGTAGAACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGTCTCCTGAGGGTCAGTCTCAAGAGACCCAACTGAGGAAGGAAGTAGTAGCCCTAAGGGAGCAACTGGTACATGCCTGCAGCCAAGGgtaaatgcatggtagttgctgccaggaaggggcaaaataacatcacgctg Alignment from Exonerate_coding2genome CAGGCCAAGACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG taggccctgacttctcaaaccagacccttcagtatcccgtctacttccagATTCGTAGAACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGTCTCCTGAGGGTCAGTCTCAAGAGACCCAACTGAGGAAGGAAGTAGTAGCCCTAAGGGAGCAACTGGTACATGCCTGCAGCCAAGGgtaaatgcatggtagttgctgccaggaaggggcaaaataacatcacgctg Alignment from GeneWise ------AAGACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG taggccctgacttctcaaaccagacccttcagtatcccgtctacttccagATTCGTAGAACTGTCCATGCAGCCCCTGAGATGAATGGGATAGGGTCTCCTGAGGGTCAGTCTCAAGAGACCCAACTGAGGAAGGAAGTAGTAGCCCTAAGGGAGCAACTGGTACATGCCTGCAGCCAAGGgtaaatgcatggtagttgctgccaggaaggggcaaaataacatcacgctg #### Cdc42bpg_ID1590_20 --> 1 - 1 Original Alignment cCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTGCAG---CAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGg cactgcaaggtgtgagccctcctgggtgccactggtgttctgcctcacagcCGCCTGCAGGAAGCTGAGACACAAAGTGAGGCACTCCAGCAGCAGGAGGTGGCTGTGCTAAAGGAAGAGCTTCAAGCTCGA---------ggtaagtaccttacattcgtacttggatccaaccacaaggcctaacttatg Alignment from CESAR cCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTGCAG---CAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGg cactgcaaggtgtgagccctcctgggtgccactggtgttctgcctcacagcCGCCTGCAGGAAGCTGAGACACAAAGTGAGGCACTCCAGCAGCAGGAGGTGGCTGTGCTAAAGGAAGAGCTTCAAGCTCGA---------ggtaagtaccttacattcgtacttggatccaaccacaaggcctaacttatg Alignment from Spaln_aa2Genome CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTG---CAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAG cactgcaaggtgtgagccctcctgggtgccactggtgttctgcctcacagCCGCCTGCAGGAAGCTGAGACACAAAGTGAGGCACTCCAGCAGCAGGAGGTGGCTGTGCTAAAGGAAGAGCTTCAAGCTCGAGgtaagtaccttacattcgtacttggatccaaccacaaggcctaacttatg Alignment from Spaln_nt2Genome CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCT---GCAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAG cactgcaaggtgtgagccctcctgggtgccactggtgttctgcctcacagCCGCCTGCAGGAAGCTGAGACACAAAGTGAGGCACTCCAGCAGCAGGAGGTGGCTGTGCTAAAGGAAGAGCTTCAAGCTCGAGgtaagtaccttacattcgtacttggatccaaccacaaggcctaacttatg Alignment from Pairagon CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGC---CCTGCAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAG cactgcaaggtgtgagccctcctgggtgccactggtgttctgcctcacagCCGCCTGCAGGAAGCTGAGACACAAAGTGAGGCACTCCAGCAGCAGGAGGTGGCTGTGCTAAAGGAAGAGCTTCAAGCTCGAGgtaagtaccttacattcgtacttggatccaaccacaaggcctaacttatg Alignment from Exonerate_protein2genome CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTG---CAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAG cactgcaaggtgtgagccctcctgggtgccactggtgttctgcctcacagCCGCCTGCAGGAAGCTGAGACACAAAGTGAGGCACTCCAGCAGCAGGAGGTGGCTGTGCTAAAGGAAGAGCTTCAAGCTCGAGgtaagtaccttacattcgtacttggatccaaccacaaggcctaacttatg Alignment from Exonerate_coding2genome CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTG---CAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAG cactgcaaggtgtgagccctcctgggtgccactggtgttctgcctcacagCCGCCTGCAGGAAGCTGAGACACAAAGTGAGGCACTCCAGCAGCAGGAGGTGGCTGTGCTAAAGGAAGAGCTTCAAGCTCGAGgtaagtaccttacattcgtacttggatccaaccacaaggcctaacttatg Alignment from GeneWise CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTGCAGCAG---GAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGA-- cactgcaaggtgtgagccctcctgggtgccactggtgttctgcctcacagCCGCCTGCAGGAAGCTGAGACACAAAGTGAGGCACTCCAGCAGCAGGAGGTGGCTGTGCTAAAGGAAGAGCTTCAAGCTCGAGGTAAgtaccttacattcgtacttggatccaaccacaaggcctaacttatg #### Cdc42bpg_ID1591_21 --> 2 - 0 Original Alignment atGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAG agtgctccagcaggacagtggtttcaagcccttactctgaaccttttcagatGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAAC------gtacgtaattaatggacacagtgggtcaagcaagtccaaacagctgacga Alignment from CESAR atGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAG agtgctccagcaggacagtggtttcaagcccttactctgaaccttttcagatGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAAC------gtacgtaattaatggacacagtgggtcaagcaagtccaaacagc Alignment from Spaln_aa2Genome ATGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAAC agtgctccagcaggacagtggtttcaagcccttactctgaaccttttcagATGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACgtacgtaattaatggacacagtgggtcaagcaagtccaaacagctgacga Alignment from Spaln_nt2Genome ATGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAAC agtgctccagcaggacagtggtttcaagcccttactctgaaccttttcagATGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACgtacgtaattaatggacacagtgggtcaagcaagtccaaacagctgacga Alignment from Pairagon ATGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAAC agtgctccagcaggacagtggtttcaagcccttactctgaaccttttcagATGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACgtacgtaattaatggacacagtgggtcaagcaagtccaaacagctgacga Alignment from Exonerate_protein2genome ATGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAAC agtgctccagcaggacagtggtttcaagcccttactctgaaccttttcagATGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACgtacgtaattaatggacacagtgggtcaagcaagtccaaacagctgacga Alignment from Exonerate_coding2genome ATGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAAC agtgctccagcaggacagtggtttcaagcccttactctgaaccttttcagATGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACgtacgtaattaatggacacagtgggtcaagcaagtccaaacagctgacga Alignment from GeneWise ATGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAAC agtgctccagcaggacagtggtttcaagcccttactctgaaccttttcagATGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACgtacgtaattaatggacacagtgggtcaagcaagtccaaacagctgacga #### Cdc42bpg_ID1595_25 --> 2 - 0 Original Alignment cc---TGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGCC tatacttgtgagtggacttctgttctctattactatattactttgcacagccCAATGTGGTTATTTCTGTCATTCAGCCTGTGCATCACAAACCCCTCCTTGCCCTGTGCCCCCTGAACTCCTCCGTACAGCCTTGGGGGTGCACCCTGAAAAAGGCACAGGGACAGCCTATGAGGGCTTTTTGTCAgtaggatgagggggctgtgatttgaggttttcatcacagGTACGACAGCC Alignment from CESAR cc---TGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGCC tatacttgtgagtggacttctgttctctattactatattactttgcacagccCAATGTGGTTATTTCTGTCATTCAGCCTGTGCATCACAAACCCCTCCTTGCCCTGTGCCCCCTGAACTCCTCCGTACAGCCTTGGGGGTGCACCCTGAAAAAGGCACAGGGACAGCCTATGAGGGCTTTTTGTCAgtaggatgagggggctgtttgatttgattttattcttagGTACGACAGCC Alignment from Spaln_aa2Genome CCTGTGGCTAC---TTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGCC tatacttgtgagtggacttctgttctctattactatattactttgcacagCCCAATGTGGTTATTTCTGTCATTCAGCCTGTGCATCACAAACCCCTCCTTGCCCTGTGCCCCCTGAACTCCTCCGTACAGCCTTGGGGGTGCACCCTGAAAAAGGCACAGGGACAGCCTATGAGGGCTTTTTGTCAgtaggatgagggggctgtgatttgaggttttcatcacagGTACGACAGCC Alignment from Spaln_nt2Genome CC---TGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGCC tatacttgtgagtggacttctgttctctattactatattactttgcacagCCCAATGTGGTTATTTCTGTCATTCAGCCTGTGCATCACAAACCCCTCCTTGCCCTGTGCCCCCTGAACTCCTCCGTACAGCCTTGGGGGTGCACCCTGAAAAAGGCACAGGGACAGCCTATGAGGGCTTTTTGTCAgtaggatgagggggctgtgatttgaggttttcatcacagGTACGACAGCC Alignment from Pairagon CC---TGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTC---------------------------------------GGTGCCGCGGCC tatacttgtgagtggacttctgttctctattactatattactttgcacagCCCAATGTGGTTATTTCTGTCATTCAGCCTGTGCATCACAAACCCCTCCTTGCCCTGTGCCCCCTGAACTCCTCCGTACAGCCTTGGGGGTGCACCCTGAAAAAGGCACAGGGACAGCCTATGAGGGCTTTTTGTCAGTAGGATGAGGGGGCTGTGATTTGAGGTTTTCATCACAGGTACGACAGCC Alignment from Exonerate_protein2genome CC---TGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGCC tatacttgtgagtggacttctgttctctattactatattactttgcacagCCCAATGTGGTTATTTCTGTCATTCAGCCTGTGCATCACAAACCCCTCCTTGCCCTGTGCCCCCTGAACTCCTCCGTACAGCCTTGGGGGTGCACCCTGAAAAAGGCACAGGGACAGCCTATGAGGGCTTTTTGTCAgtaggatgagggggctgtgatttgaggttttcatcacagGTACGACAGCC Alignment from Exonerate_coding2genome CC---TGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGCC tatacttgtgagtggacttctgttctctattactatattactttgcacagCCCAATGTGGTTATTTCTGTCATTCAGCCTGTGCATCACAAACCCCTCCTTGCCCTGTGCCCCCTGAACTCCTCCGTACAGCCTTGGGGGTGCACCCTGAAAAAGGCACAGGGACAGCCTATGAGGGCTTTTTGTCAgtaggatgagggggctgtgatttgaggttttcatcacagGTACGACAGCC Alignment from GeneWise --ACCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGCC tatacttgtgagtggacttctgttctctattactatattactttgcacagCCCAATGTGGTTATTTCTGTCATTCAGCCTGTGCATCACAAACCCCTCCTTGCCCTGTGCCCCCTGAACTCCTCCGTACAGCCTTGGGGGTGCACCCTGAAAAAGGCACAGGGACAGCCTATGAGGGCTTTTTGTCAgtaggatgagggggctgtgatttgaggttttcatcacagGTACGACAGCC #### Cdc42bpg_ID1597_27 --> 1 - 0 Original Alignment gGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG gtccacaccagggtggtctgtctggaggccccatgtacttgtcattccagg------CAGTTTTCAGCGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtgagtagaccgggtgatatagcctctccacacatgcatgagcttgtgtc Alignment from CESAR gGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tagggagtccacaccagggtggtctaggccccatgtacttgtcattccagg------CAGTTTTCAGCGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtgagtagaccgggtgatatagcctctccacacatgcatgagcttgtgtc Alignment from Spaln_aa2Genome GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG gtccacaccagggtggtctgtctggaggccccatgtacttgtcattccagG------CAGTTTTCAGCGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtgagtagaccgggtgatatagcctctccacacatgcatgagcttgtgtc Alignment from Spaln_nt2Genome GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG gtccacaccagggtggtctgtctggaggccccatgtacttgtcattccagG------CAGTTTTCAGCGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtgagtagaccgggtgatatagcctctccacacatgcatgagcttgtgtc Alignment from Pairagon GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG gtccacaccagggtggtctgtctggaggccccatgtacttgtcattccagG------CAGTTTTCAGCGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtgagtagaccgggtgatatagcctctccacacatgcatgagcttgtgtc Alignment from Exonerate_protein2genome GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG gtccacaccagggtggtctgtctggaggccccatgtacttgtcattccagG------CAGTTTTCAGCGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtgagtagaccgggtgatatagcctctccacacatgcatgagcttgtgtc Alignment from Exonerate_coding2genome GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG gtccacaccagggtggtctgtctggaggccccatgtacttgtcattccagG------CAGTTTTCAGCGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtgagtagaccgggtgatatagcctctccacacatgcatgagcttgtgtc Alignment from GeneWise GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG gtccacaccagggtggtctgtctggaggccccatgtacttgtcattccagG------CAGTTTTCAGCGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtgagtagaccgggtgatatagcctctccacacatgcatgagcttgtgtc #### Cdc42bpg_ID1601_31 --> 2 - 0 Original Alignment gtTACACAGCACCCTACCTAACAGTGTTCAGTGAAAACGCCCTTGATGTGTTTGACGTGAGGAGAGCAGAATGGGTACAGACTGTGCCGCTCAAGAAG actcacttgtgcagtactatacactcccccctgcctctgtgaatatacaggt---ACAGCGCCCTACCTAACTGTGTTCAGTGAAAACACCCTTGATGTGTTTGACGTGAGGAGAGCAGAATGGGTCCAGACTGTACCACTCAAGAAGgtaagggttagtgccggttgtcaaattggtacattgagtgggtaaaataa Alignment from CESAR gtTACACAGCACCCTACCTAACAGTGTTCAGTGAAAACGCCCTTGATGTGTTTGACGTGAGGAGAGCAGAATGGGTACAGACTGTGCCGCTCAAGAAG ggaactcacttgtgcagtactataccccccctgcctctgtgaatatacaggt---ACAGCGCCCTACCTAACTGTGTTCAGTGAAAACACCCTTGATGTGTTTGACGTGAGGAGAGCAGAATGGGTCCAGACTGTACCACTCAAGAAGgtaagggttagtgccggttgtcaaattggtacattgagtgggtctcttgc Alignment from Spaln_aa2Genome GTTACACAGCACCCTACCTAACAGTGTTCAGTGAAAACGCCCTTGATGTGTTTGACGTGAGGAGAGCAGAATGGGTACAGACTGTGCCGCTCAAGAAG actcacttgtgcagtactatacactcccccctgcctctgtgaatatacagGT---ACAGCGCCCTACCTAACTGTGTTCAGTGAAAACACCCTTGATGTGTTTGACGTGAGGAGAGCAGAATGGGTCCAGACTGTACCACTCAAGAAGgtaagggttagtgccggttgtcaaattggtacattgagtgggtaaaataa Alignment from Spaln_nt2Genome GTTACACAGCACCCTACCTAACAGTGTTCAGTGAAAACGCCCTTGATGTGTTTGACGTGAGGAGAGCAGAATGGGTACAGACTGTGCCGCTCAAGAAG actcacttgtgcagtactatacactcccccctgcctctgtgaatatacagGT---ACAGCGCCCTACCTAACTGTGTTCAGTGAAAACACCCTTGATGTGTTTGACGTGAGGAGAGCAGAATGGGTCCAGACTGTACCACTCAAGAAGgtaagggttagtgccggttgtcaaattggtacattgagtgggtaaaataa Alignment from Pairagon GTTACACAGCACCCTACCTAACAGTGTTCAGTGAAAACGCCCTTGATGTGTTTGACGTGAGGAGAGCAGAATGGGTACAGACTGTGCCGCTCAAGAAG actcacttgtgcagtactatacactcccccctgcctctgtgaatatacagGT---ACAGCGCCCTACCTAACTGTGTTCAGTGAAAACACCCTTGATGTGTTTGACGTGAGGAGAGCAGAATGGGTCCAGACTGTACCACTCAAGAAGgtaagggttagtgccggttgtcaaattggtacattgagtgggtaaaataa Alignment from Exonerate_protein2genome GTTACACAGCACCCTACCTAACAGTGTTCAGTGAAAACGCCCTTGATGTGTTTGACGTGAGGAGAGCAGAATGGGTACAGACTGTGCCGCTCAAGAAG actcacttgtgcagtactatacactcccccctgcctctgtgaatatacagGT---ACAGCGCCCTACCTAACTGTGTTCAGTGAAAACACCCTTGATGTGTTTGACGTGAGGAGAGCAGAATGGGTCCAGACTGTACCACTCAAGAAGgtaagggttagtgccggttgtcaaattggtacattgagtgggtaaaataa Alignment from Exonerate_coding2genome GTTACACAGCACCCTACCTAACAGTGTTCAGTGAAAACGCCCTTGATGTGTTTGACGTGAGGAGAGCAGAATGGGTACAGACTGTGCCGCTCAAGAAG actcacttgtgcagtactatacactcccccctgcctctgtgaatatacagGT---ACAGCGCCCTACCTAACTGTGTTCAGTGAAAACACCCTTGATGTGTTTGACGTGAGGAGAGCAGAATGGGTCCAGACTGTACCACTCAAGAAGgtaagggttagtgccggttgtcaaattggtacattgagtgggtaaaataa Alignment from GeneWise GTTACACAGCACCCTACCTAACAGTGTTCAGTGAAAACGCCCTTGATGTGTTTGACGTGAGGAGAGCAGAATGGGTACAGACTGTGCCGCTCAAGAAG actcacttgtgcagtactatacactcccccctgcctctgtgaatatacagGT---ACAGCGCCCTACCTAACTGTGTTCAGTGAAAACACCCTTGATGTGTTTGACGTGAGGAGAGCAGAATGGGTCCAGACTGTACCACTCAAGAAGgtaagggttagtgccggttgtcaaattggtacattgagtgggtaaaataa #### Cdc42bpg_ID1603_33 --> 2 - 2 Original Alignment agAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGCag gctagtacagctataagtgaacagctacaaatttccctttatttcaacagaa---------------------------------------------CAGCTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTCTTCCGTGTGTCTGATGAGCTGCAACAGCAACAGCGTaggtaagagactatatggcaggcctggctactggctcggggactttccattc Alignment from CESAR agAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGCag gcccttacagctataagtgaacagctacaaatttccctttatttcaacagaa---------------------------------------------CAGCTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTCTTCCGTGTGTCTGATGAGCTGCAACAGCAACAGCGTaggtaagagactatatggcaggcctggctactggctcggggactttccattc Alignment from Spaln_aa2Genome ACGGACAACAGCCGGC GCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGCAG GCTAGTACAGCTATAAgtgaacagctacaaatttccctttatttcaacagAACAGCTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTCTTCCGTGTGTCTGATGAGCTGCAACAGCAACAGCGTAGgtaagagactatatggcaggcctggctactggctcggggactttccattc Alignment from Spaln_nt2Genome --AGAAG-GACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGCAG agtacagCTATAAGTGAACAGCTACAAATTTC---CCTTTATTTCAACAG-----AACAGCTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTCTTCCGTGTGTCTGATGAGCTGCAACAGCAACAGCGTAGgtaagagactatatggcaggcctggctactggctcggggactttccattc Alignment from Pairagon ------------------------------------------------AGAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGCAG GCTAGTACAGCTATAAGTGAACAGCTACAAATTTCCCTTTATTTCAACAGAA-------------------------------------------CAGCTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTCTTCCGTGTGTCTGATGAGCTGCAACAGCAACAGCGTAGgtaagagactatatggcaggcctggctactggctcggggactttccattc Alignment from Exonerate_protein2genome GACCTCACGGACAACA GCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGCAG GCTAGTACAGCTATAAgtgaacagctacaaatttccctttatttcaaCAGAACAGCTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTC---TTCCGTGTGTCTGATGAGCTGCAACAGCAACAGCGTAGgtaagagactatatggcaggcctggctactggctcggggactttccattc Alignment from Exonerate_coding2genome GACCTCACGGACAACA GCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGCAG GCTAGTACAGCTATAAgtgaacagctacaaatttccctttatttcaaCAGAACAGCTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTC---TTCCGTGTGTCTGATGAGCTGCAACAGCAACAGCGTAGgtaagagactatatggcaggcctggctactggctcggggactttccattc Alignment from GeneWise ---------------------------GACCTCACG-GACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGCAG GCTAGTACAGCTATAAGTGAACAGCTACAAATTTCCCTTTATTTCAACAGAACAGCTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTCTTCCGTGTGTCTGATGAGCTGCAACAGCAACAGCGTAGgtaagagactatatggcaggcctggctactggctcggggactttccattc #### Cdc42bpg_ID1604_34 --> 1 - 0 Original Alignment gGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG ataactcattgtcagctatttatcaacatactcagttcatgttttcttagaGAGATGCTGAAGGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCCACCAACTTCATTCACCTGGTTCATGTGGGACATACAGAGGGGAGGTCCAACACTAGGGATGGGACC---gtacagtgtcttgtgcaggggattgctagacctgtcacaaagcttcaatc Alignment from CESAR gGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG ataactcattgtcagctatttatcaacatactcagttcatgttttcttagaGAGATGCTGAAGGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCCACCAACTTCATTCACCTGGTTCATGTGGGACATACAGAGGGGAGGTCCAACACTAGGGATGGGACC---gtacagtgtcttgtgcaggggattgctagacctgtcacaaagcttca Alignment from Spaln_aa2Genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACC ataactcattgtcagctatttatcaacatactcagttcatgttttcttagAGAGATGCTGAAGGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCCACCAACTTCATTCACCTGGTTCATGTGGGACATACAGAGGGGAGGTCCAACACTAGGGATGGGACCgtacagtgtcttgtgcaggggattgctagacctgtcacaaagcttcaatc Alignment from Spaln_nt2Genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACC ataactcattgtcagctatttatcaacatactcagttcatgttttcttagAGAGATGCTGAAGGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCCACCAACTTCATTCACCTGGTTCATGTGGGACATACAGAGGGGAGGTCCAACACTAGGGATGGGACCgtacagtgtcttgtgcaggggattgctagacctgtcacaaagcttcaatc Alignment from Pairagon GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACC ataactcattgtcagctatttatcaacatactcagttcatgttttcttagAGAGATGCTGAAGGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCCACCAACTTCATTCACCTGGTTCATGTGGGACATACAGAGGGGAGGTCCAACACTAGGGATGGGACCgtacagtgtcttgtgcaggggattgctagacctgtcacaaagcttcaatc Alignment from Exonerate_protein2genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG ataactcattgtcagctatttatcaacatactcagttcatgttttcttagAGAGATGCTGAAGGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCCACCAACTTCATTCACCTGGTTCATGTGGGACATACAGAGGGGAGGTCCAACACTAGGGATGGGACCGTAcagtgtcttgtgcaggggattgctagacctgtcacaaagcttcaatc Alignment from Exonerate_coding2genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG ataactcattgtcagctatttatcaacatactcagttcatgttttcttagAGAGATGCTGAAGGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCCACCAACTTCATTCACCTGGTTCATGTGGGACATACAGAGGGGAGGTCCAACACTAGGGATGGGACCGTAcagtgtcttgtgcaggggattgctagacctgtcacaaagcttcaatc Alignment from GeneWise GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACC ataactcattgtcagctatttatcaacatactcagttcatgttttcttagAGAGATGCTGAAGGACCCCTTCGTGCGGTTCAAATTCATTTCACCACCCACCAACTTCATTCACCTGGTTCATGTGGGACATACAGAGGGGAGGTCCAACACTAGGGATGGGACCgtacagtgtcttgtgcaggggattgctagacctgtcacaaagcttcaatc #### Cdc42bpg_ID1605_35 --> 0 - 1 Original Alignment ---GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAt tggtctttaatagagatgcagtcccatgacaatattttcattatttttagGTAGCCCAAGAACAAAAGAGCAGTGGTGCCCGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAGGCATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCTCCCAGGCCGAACAGACCCAtgtacgtatagggatagctctcagtggcaagttcctgcttgctttcccttt Alignment from CESAR ---GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAt tggtctttaatagagatgcagtcccatgacaatattttcattatttttagGTAGCCCAAGAACAAAAGAGCAGTGGTGCCCGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAGGCATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCTCCCAGGCCGAACAGACCCAtgtacgtatagggatagctctcagtggcaagttcctgcttgctttcccttt Alignment from Spaln_aa2Genome GCTCAGGAACAG---AAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT tggtctttaatagagatgcagtcccatgacaatattttcattatttttagGTAGCCCAAGAACAAAAGAGCAGTGGTGCCCGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAGGCATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCTCCCAGGCCGAACAGACCCATgtacgtatagggatagctctcagtggcaagttcctgcttgctttcccttt Alignment from Spaln_nt2Genome G---CTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT tggtctttaatagagatgcagtcccatgacaatattttcattatttttagGTAGCCCAAGAACAAAAGAGCAGTGGTGCCCGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAGGCATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCTCCCAGGCCGAACAGACCCATgtacgtatagggatagctctcagtggcaagttcctgcttgctttcccttt Alignment from Pairagon ---GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT tggtctttaatagagatgcagtcccatgacaatattttcattatttttagGTAGCCCAAGAACAAAAGAGCAGTGGTGCCCGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAGGCATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCTCCCAGGCCGAACAGACCCATgtacgtatagggatagctctcagtggcaagttcctgcttgctttcccttt Alignment from Exonerate_protein2genome CTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT tggtctttaatagagatgcagtcccatgacaatattttcattatttttaggtagCCCAAGAACAAAAGAGCAGTGGTGCCCGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAGGCATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCTCCCAGGCCGAACAGACCCATgtacgtatagggatagctctcagtggcaagttcctgcttgctttcccttt Alignment from Exonerate_coding2genome CTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT tggtctttaatagagatgcagtcccatgacaatattttcattatttttaggtagCCCAAGAACAAAAGAGCAGTGGTGCCCGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAGGCATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCTCCCAGGCCGAACAGACCCATgtacgtatagggatagctctcagtggcaagttcctgcttgctttcccttt Alignment from GeneWise ---GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT tggtctttaatagagatgcagtcccatgacaatattttcattatttttagGTAGCCCAAGAACAAAAGAGCAGTGGTGCCCGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAGGCATTGCGGCGGCCAGTGTCAACAGACAGTGATCGTCTCCCAGGCCGAACAGACCCATgtacgtatagggatagctctcagtggcaagttcctgcttgctttcccttt #### Cdca5_ID1428_2 --> 2 - 0 Original Alignment ggCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG accttgcgatgtttgtttgtaaccttcccctgatcggttgtctgtttcaggg---AGGACTTTGCTAACTCAGCCTTCAGAGTCATCAAAACGCAAGTCAGGTTCAGACCTCACAAACTCATTCTCTGAAACCTGGCAAAGGgtgcgaacttggccccccaggtccaaaagtggttgcacaaaccaagattt Alignment from CESAR ggCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG agcaccttgcgatgtttgtttgtaatcccctgatcggttgtctgtttcaggg---AGGACTTTGCTAACTCAGCCTTCAGAGTCATCAAAACGCAAGTCAGGTTCAGACCTCACAAACTCATTCTCTGAAACCTGGCAAAGGgtgcgaacttggccccccaggtccaaaagtggttgcacaaaccaagattt Alignment from Spaln_aa2Genome GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG accttgcgatgtttgtttgtaaccttcccctgatcggttgtctgtttcagGG---AGGACTTTGCTAACTCAGCCTTCAGAGTCATCAAAACGCAAGTCAGGTTCAGACCTCACAAACTCATTCTCTGAAACCTGGCAAAGGgtgcgaacttggccccccaggtccaaaagtggttgcacaaaccaagattt Alignment from Spaln_nt2Genome GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG accttgcgatgtttgtttgtaaccttcccctgatcggttgtctgtttcagGG---AGGACTTTGCTAACTCAGCCTTCAGAGTCATCAAAACGCAAGTCAGGTTCAGACCTCACAAACTCATTCTCTGAAACCTGGCAAAGGgtgcgaacttggccccccaggtccaaaagtggttgcacaaaccaagattt Alignment from Pairagon GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG accttgcgatgtttgtttgtaaccttcccctgatcggttgtctgtttcagGG---AGGACTTTGCTAACTCAGCCTTCAGAGTCATCAAAACGCAAGTCAGGTTCAGACCTCACAAACTCATTCTCTGAAACCTGGCAAAGGgtgcgaacttggccccccaggtccaaaagtggttgcacaaaccaagattt Alignment from Exonerate_protein2genome GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG accttgcgatgtttgtttgtaaccttcccctgatcggttgtctgtttcagGG---AGGACTTTGCTAACTCAGCCTTCAGAGTCATCAAAACGCAAGTCAGGTTCAGACCTCACAAACTCATTCTCTGAAACCTGGCAAAGGgtgcgaacttggccccccaggtccaaaagtggttgcacaaaccaagattt Alignment from Exonerate_coding2genome accttgcgatgtttgtttgtaaccttcccctgatcggttgtctgtttcagggaggactttgctaactcagccttcagagtcatcaaaacgcaagtcaggttcagacctcacaaactcattctctgaaacctggcaaagggtgcgaacttggccccccaggtccaaaagtggttgcacaaaccaagattt Alignment from GeneWise AGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG accttgcgatgtttgtttgtaaccttcccctgatcggttgtctgtttcagggAGGACTTTGCTAACTCAGCCTTCAGAGTCATCAAAACGCAAGTCAGGTTCAGACCTCACAAACTCATTCTCTGAAACCTGGCAAAGGgtgcgaacttggccccccaggtccaaaagtggttgcacaaaccaagattt #### Cdk2ap2_ID298_2 --> 2 - 0 Original Alignment ccGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG agatctaaaagtctgtgatgagcccctcgtgaatgtctttcatatttcagctGGTAGTGTCCCATTGCCATCGGGCTCGGTACCAGGGGCTGCTGCACCTTTCAGACCA---TTTAATGACTTTGGTCCACCCACCATGGGT---------gtcagattgactgactccaccaagggcttactcaaggatggagggacaag Alignment from CESAR ccGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG agatctaaaagtctgtgatgagcccctcgtgaatgtctttcatatttcagctGGTAGTGTCCCATTGCCATCGGGCTCGGTACCAGGGGCTGCTGCACCTTTCAGACCA---TTTAATGACTTTGGTCCACCCACCATGGGT---------gtcagattgactgactccaccaagggcttactcaaggatgg Alignment from Spaln_aa2Genome CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGG agatctaaaagtctgtgatgagcccctcgtgaatgtctttcatatttcagCTGGTAGTGTCCCATTGCCATCGGGCTCGGTACCAGGGGCTGCTGCACCTTTCAGACCA---TTTAATGACTTTGGTCCACCCACCATGGGTgtcagattgactgactccaccaagggcttactcaaggatggagggacaag Alignment from Spaln_nt2Genome CGGG-AGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGG agatctaaaagtctgtgatgagcccctcgtgaatgtctttcatatttcagCTGGTAGTGTCCCATTGCCATCGGGCTCGGTACCAGGGGCTGCTGCACCTTTCAGACC---ATTTAATGACTTTGGTCCACCCACCATGGGTgtcagattgactgactccaccaagggcttactcaaggatggagggacaag Alignment from Pairagon CCCTACAGCCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGG--------------------------------------------------- agatctaaaagtctgtgatgagcccctcgtgaatgtctttcatatttcag--------CTGGTAGTGTCCCATTGCCATCGGGCTCGGTACCAGGGGCTGCTGCACCTTTCAGACC---ATTTAATGACTTTGGTCCACCCACCATGGGTGTCAGATTGACTGACTCCACCAAGGGCTTACTCAAGGATGGAGGGACAAG Alignment from Exonerate_protein2genome CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG agatctaaaagtctgtgatgagcccctcgtgaatgtctttcatatttcagCTGGTAGTGTCCCATTGCCATCGGGCTCGGTACCAGGGGCTGCTGCACCTTTCAGACCA---TTTAATGACTTTGGTCCACCCACCATGGGT---GTCAGAttgactgactccaccaagggcttactcaaggatggagggac Alignment from Exonerate_coding2genome ACAGCCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG agatctaaaagtctgtgatgagcccctcgtgaatgtctttcatattTCAGCTGGTAGTGTCCCATTGCCATCGGGCTCGGTACCAGGGGCTGCTGCACCTTTCAGACCA---TTTAATGACTTTGGTCCACCCACCATGGGT---GTCAGAttgactgactccaccaagggcttactcaaggatggagggac Alignment from GeneWise CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGG agatctaaaagtctgtgatgagcccctcgtgaatgtctttcatatttcagCTGGTAGTGTCCCATTGCCATCGGGCTCGGTACCAGGGGCTGCTGCACCTTTCAGACCA---TTTAATGACTTTGGTCCACCCACCATGGGTgtcagattgactgactccaccaagggcttactcaaggatggagggacaag #### Cdk2ap2_ID299_3 --> 0 - 1 Original Alignment GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGA---g gacaaggcccctattgggggtacttgagtcctctctatgactgataccagGCAATGAAGCCACCCGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGACAAggtaggagcaaccatggctaaactgtgacaaaacagtgtagtcaggaaagt Alignment from CESAR GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGA---g gacaaggcccctattgggggtacttgagtcctctctatgactgataccagGCAATGAAGCCACCCGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGACAAggtaggagcaaccatggctaaactgtgacaaaacagtgtagtcaggaaagt Alignment from Spaln_aa2Genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGA---G gacaaggcccctattgggggtacttgagtcctctctatgactgataccagGCAATGAAGCCACCCGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGACAAGgtaggagcaaccatggctaaactgtgacaaaacagtgtagtcaggaaagt Alignment from Spaln_nt2Genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGA---G gacaaggcccctattgggggtacttgagtcctctctatgactgataccagGCAATGAAGCCACCCGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGACAAGgtaggagcaaccatggctaaactgtgacaaaacagtgtagtcaggaaagt Alignment from Pairagon GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAG---AG gacaaggcccctattgggggtacttgagtcctctctatgactgataccagGCAATGAAGCCACCCGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGACAAGgtaggagcaaccatggctaaactgtgacaaaacagtgtagtcaggaaagt Alignment from Exonerate_protein2genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGA---G gacaaggcccctattgggggtacttgagtcctctctatgactgataccagGCAATGAAGCCACCCGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGACAAGgtaggagcaaccatggctaaactgtgacaaaacagtgtagtcaggaaagt Alignment from Exonerate_coding2genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGA---G gacaaggcccctattgggggtacttgagtcctctctatgactgataccagGCAATGAAGCCACCCGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGACAAGgtaggagcaaccatggctaaactgtgacaaaacagtgtagtcaggaaagt Alignment from GeneWise GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAGGC- gacaaggcccctattgggggtacttgagtcctctctatgactgataccagGCAATGAAGCCACCCGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGACAAGgtaggagcaaccatggctaaactgtgacaaaacagtgtagtcaggaaagt #### Chuk_ID8920_8 --> 1 - 2 Original Alignment gCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTag gagaagtacttgcatgcatcaggctgtggaattatttcttctttttgtaggCATGAGGAGATTAAGAAGAAAGATCCAAAGTGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTA---------------------aggtaagtgatggtcagagtctttaaattaccgaacacgtcgggtgggagta Alignment from CESAR gCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTag gagaagtacttgcatgcatcaggctgtggaattatttcttctttttgtaggCATGAGGAGATTAAGAAGAAAGATCCAAAGTGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTA---------------------aggtaagtgatggtcagagtctttaaattaccgaacacgtcgggtgggagta Alignment from Spaln_aa2Genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACC gagaagtacttgcatgcatcaggctgtggaattatttcttctttttgtagGCATGAGGAGATTAAGAAGAAAGATCCAAAGTGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTAAGgtaagtgatggtcagagtctttaaattaccgaacacgtcgggtgggagta Alignment from Spaln_nt2Genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAG gagaagtacttgcatgcatcaggctgtggaattatttcttctttttgtagGCATGAGGAGATTAAGAAGAAAGATCCAAAGTGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTA----AGgtaagtgatggtcagagtctttaaattaccgaacacgtcgggtgggagta Alignment from Pairagon GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAG gagaagtacttgcatgcatcaggctgtggaattatttcttctttttgtagGCATGAGGAGATTAAGAAGAAAGATCCAAAGTGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTA---------------------AGgtaagtgatggtcagagtctttaaattaccgaacacgtcgggtgggagta Alignment from Exonerate_protein2genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACC gagaagtacttgcatgcatcaggctgtggaattatttcttctttttgtagGCATGAGGAGATTAAGAAGAAAGATCCAAAGTGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTAAGgtaagtgatggtcagagtctttaaattaccgaacacgtcgggtgggagta Alignment from Exonerate_coding2genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACC gagaagtacttgcatgcatcaggctgtggaattatttcttctttttgtagGCATGAGGAGATTAAGAAGAAAGATCCAAAGTGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTAAGgtaagtgatggtcagagtctttaaattaccgaacacgtcgggtgggagta Alignment from GeneWise GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTA-- gagaagtacttgcatgcatcaggctgtggaattatttcttctttttgtagGCATGAGGAGATTAAGAAGAAAGATCCAAAGTGCATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTAAGgtaagtgatggtcagagtctttaaattaccgaacacgtcgggtgggagta #### Chuk_ID8921_7 --> 0 - 2 Original Alignment GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCtg taaaaaatctcaattttatagctccagaagaaatcttctttgtctggcagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAG---------tggtagagcagaattcgtggtgttgttcacggttgtggaagcatcctgctta Alignment from CESAR GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCtg taaaaaatctcaattttatagctccagaagaaatcttctttgtctggcagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAG---------tggtagagcagaattcgtggtgttgttcacggttgtggaagcatcctgctta Alignment from Spaln_aa2Genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCA taaaaaatctcaattttatagctccagaagaaatcttctttgtctggcagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAgtggtagagcagaattcgtggtgttgttcacggttgtggaagcatcctgctta Alignment from Spaln_nt2Genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG taaaaaatctcaattttatagctccagaagaaatcttctttgtctggcagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAG---------TGgtagagcagaattcgtggtgttgttcacggttgtggaagcatcctgctta Alignment from Pairagon GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG taaaaaatctcaattttatagctccagaagaaatcttctttgtctggcagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAG---------TGgtagagcagaattcgtggtgttgttcacggttgtggaagcatcctgctta Alignment from Exonerate_protein2genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCC taaaaaatctcaattttatagctccagaagaaatcttctttgtctggcagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGTGgtagagcagaattcgtggtgttgttcacggttgtggaagcatcctgctta Alignment from Exonerate_coding2genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCC taaaaaatctcaattttatagctccagaagaaatcttctttgtctggcagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGTGgtagagcagaattcgtggtgttgttcacggttgtggaagcatcctgctta Alignment from GeneWise GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCC taaaaaatctcaattttatagctccagaagaaatcttctttgtctggcagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGTGgtagagcagaattcgtggtgttgttcacggttgtggaagcatcctgctta #### Chuk_ID8922_6 --> 0 - 0 Original Alignment ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG ttttgtggaatttgatgacatagttgcactcacccagcctttccttgcagACGGTACATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTGGGAACATTGCAA------gtaacagccatgcaatattatgttaaccttgattatgttacattcttggt Alignment from CESAR ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG ttttgtggaatttgatgacatagttgcactcacccagcctttccttgcagACGGTACATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTGGGAACATTGCAA------gtaacagccatgcaatattatgttaaccttgattatgttacatt Alignment from Spaln_aa2Genome ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG ttttgtggaatttgatgacatagttgcactcacccagcctttccttgcagACGGTACATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTGGGAACATTGCAAGTAACAgccatgcaatattatgttaaccttgattatgttacattcttggt Alignment from Spaln_nt2Genome ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAG ttttgtggaatttgatgacatagttgcactcacccagcctttccttgcagACGGTACATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTGGGAACATTGCAAgtaacagccatgcaatattatgttaaccttgattatgttacattcttggt Alignment from Pairagon ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAG ttttgtggaatttgatgacatagttgcactcacccagcctttccttgcagACGGTACATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTGGGAACATTGCAAgtaacagccatgcaatattatgttaaccttgattatgttacattcttggt Alignment from Exonerate_protein2genome ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG ttttgtggaatttgatgacatagttgcactcacccagcctttccttgcagACGGTACATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTGGGAACATTGCAAGTAACAgccatgcaatattatgttaaccttgattatgttacattcttggt Alignment from Exonerate_coding2genome ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG ttttgtggaatttgatgacatagttgcactcacccagcctttccttgcagACGGTACATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTGGGAACATTGCAAGTAACAgccatgcaatattatgttaaccttgattatgttacattcttggt Alignment from GeneWise ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAG---------------TATTTG ttttgtggaatttgatgacatagttgcactcacccagcctttccttgcagACGGTACATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTGGGAACATTGCAAGTAACAGCCATGCAATATTATgttaaccttgattatgttacattcttggt #### Col17a1_ID10271_51 --> 2 - 1 Original Alignment gtGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAA---------g ttttgcctcttactcatccataggtgtaatctcttactctttattttcaggtGACAGGGACCCAGCTAGGCCACAAGGCCCACCAGGGCAACCTGGTCCCAGAGGGAACAAAGAAGAAAAAGGGGATAAAAAATCTGCAggtgactagtggaagtgtgatggggtgccggggcttaggttgtgaaaacta Alignment from CESAR gtGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAA---------g ttttgcctcttactcatccataggtgtaatctcttactctttattttcaggtGACAGGGACCCAGCTAGGCCACAAGGCCCACCAGGGCAACCTGGTCCCAGAGGGAACAAAGAAGAAAAAGGGGATAAAAAATCTGCAggtgactagtggaagtgtgatggggtgccggggcttaggttgtgaaaacta Alignment from Spaln_aa2Genome GTGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAA---------G ttttgcctcttactcatccataggtgtaatctcttactctttattttcagGTGACAGGGACCCAGCTAGGCCACAAGGCCCACCAGGGCAACCTGGTCCCAGAGGGAACAAAGAAGAAAAAGGGGATAAAAAATCTGCAGgtgactagtggaagtgtgatggggtgccggggcttaggttgtgaaaacta Alignment from Spaln_nt2Genome GTGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAA---------G ttttgcctcttactcatccataggtgtaatctcttactctttattttcagGTGACAGGGACCCAGCTAGGCCACAAGGCCCACCAGGGCAACCTGGTCCCAGAGGGAACAAAGAAGAAAAAGGGGATAAAAAATCTGCAGgtgactagtggaagtgtgatggggtgccggggcttaggttgtgaaaacta Alignment from Pairagon GTGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAA---------AG ttttgcctcttactcatccataggtgtaatctcttactctttattttcagGTGACAGGGACCCAGCTAGGCCACAAGGCCCACCAGGGCAACCTGGTCCCAGAGGGAACAAAGAAGAAAAAGGGGATAAAAAATCTGCAGgtgactagtggaagtgtgatggggtgccggggcttaggttgtgaaaacta Alignment from Exonerate_protein2genome GTGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACA ttttgcctcttactcatccataggtgtaatctcttactctttattttcagGTGACAGGGACCCAGCTAGGCCACAAGGCCCACCAGGGCAACCTGGTCCCAGAGGGAACAAAGAAGAAAAAGGGGATAaaaaatctgcaggtgactagtggaagtgtgatggggtgccggggcttaggttgtgaaaacta Alignment from Exonerate_coding2genome GTGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACA ttttgcctcttactcatccataggtgtaatctcttactctttattttcagGTGACAGGGACCCAGCTAGGCCACAAGGCCCACCAGGGCAACCTGGTCCCAGAGGGAACAAAGAAGAAAAAGGGGATAaaaaatctgcaggtgactagtggaagtgtgatggggtgccggggcttaggttgtgaaaacta Alignment from GeneWise GTGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAA---------G ttttgcctcttactcatccataggtgtaatctcttactctttattttcagGTGACAGGGACCCAGCTAGGCCACAAGGCCCACCAGGGCAACCTGGTCCCAGAGGGAACAAAGAAGAAAAAGGGGATAAAAAATCTGCAGgtgactagtggaagtgtgatggggtgccggggcttaggttgtgaaaacta #### Col17a1_ID10276_46 --> 2 - 1 Original Alignment gtTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGA---g accagagttctctggaaattcttcttgcgtttgtattctttcgctttcaggtGCTGGCATTAGCTTTGGACATCCTGGCCCACCT---------------GCTGGAACATCTTATGAAAAGTTACTGTCCATGCTTAAACAAggtaatgcaaaacccaaaattgtccattaactcaggatggtgcatgctggc Alignment from CESAR gtTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGA---g accagagttctctggaaattcttcttgcgtttgtattctttcgctttcaggtGCTGGCATTAGCTTTGGACATCCTGGCCCACCT---------------GCTGGAACATCTTATGAAAAGTTACTGTCCATGCTTAAACAAggtaatgcaaaacccaaaattgtccattaactcaggatggtgcatgctggc Alignment from Spaln_aa2Genome GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGA---G accagagttctctggaaattcttcttgcgtttgtattctttcgctttcagGTGCTGGCATTAGCTTTGGACATCCTGGCCCACCT---------------GCTGGAACATCTTATGAAAAGTTACTGTCCATGCTTAAACAAGgtaatgcaaaacccaaaattgtccattaactcaggatggtgcatgctggc Alignment from Spaln_nt2Genome GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTC---CGAG accagagttctctggaaattcttcttgcgtttgtattctttcgctttcagGTGCTGGCATTAGCTTTGGACATCCTGGCCCACCTG---------------CTGGAACATCTTATGAAAAGTTACTGTCCATGCTTAAACAAGgtaatgcaaaacccaaaattgtccattaactcaggatggtgcatgctggc Alignment from Pairagon GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTC---CGAG accagagttctctggaaattcttcttgcgtttgtattctttcgctttcagGTGCTGGCATTAGCTTTGGACATCCTGGCCCACCTG---------------CTGGAACATCTTATGAAAAGTTACTGTCCATGCTTAAACAAGgtaatgcaaaacccaaaattgtccattaactcaggatggtgcatgctggc Alignment from Exonerate_protein2genome GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGA---G accagagttctctggaaattcttcttgcgtttgtattctttcgctttcagGTGCTGGCATTAGCTTTGGACATCCTGGCCCACCTGCT---------------GGAACATCTTATGAAAAGTTACTGTCCATGCTTAAACAAGgtaatgcaaaacccaaaattgtccattaactcaggatggtgcatgctggc Alignment from Exonerate_coding2genome GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGA---G accagagttctctggaaattcttcttgcgtttgtattctttcgctttcagGTGCTGGCATTAGCTTTGGACATCCTGGCCCACCTGCT---------------GGAACATCTTATGAAAAGTTACTGTCCATGCTTAAACAAGgtaatgcaaaacccaaaattgtccattaactcaggatggtgcatgctggc Alignment from GeneWise GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAGCC- accagagttctctggaaattcttcttgcgtttgtattctttcgctttcagGTGCTGGCATTAGCTTTGGACATCCTGGCCCACCTGCT---------------GGAACATCTTATGAAAAGTTACTGTCCATGCTTAAACAAGgtaatgcaaaacccaaaattgtccattaactcaggatggtgcatgctggc #### Col17a1_ID10277_45 --> 2 - 1 Original Alignment gg---------AACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAa acatagattgggctcagtgactctaagttagctgtggtgtgttcttacaggaATACCGCCAAACGATGTGTGGCAAGACCTGCGTCAAAATCTAGTAGGTCCTCCAAGTCCTTCAGGGCCATTAGGCATCAGTGGAGAAGGGTCGCTACTGTCT---------GGAGAGCTGAGCAAGCACATTCTCAACTATATGTCAagtaagtaggcaggagtactcacctcactgaggttgcgggggttgcctctt Alignment from CESAR gg---------AACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAa acatagattgggctcagtgactctaagttagctgtggtgtgttcttacaggaATACCGCCAAACGATGTGTGGCAAGACCTGCGTCAAAATCTAGTAGGTCCTCCAAGTCCTTCAGGGCCATTAGGCATCAGTGGAGAAGGGTCGCTACTGTCT---------GGAGAGCTGAGCAAGCACATTCTCAACTATATGTCAagtaagtaggcaggagtactcacctcactgaggttgcgggggttgcctctt Alignment from Spaln_aa2Genome GGAACGATGTGTGG---------CAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA acatagattgggctcagtgactctaagttagctgtggtgtgttcttacagGAATACCGCCAAACGATGTGTGGCAAGACCTGCGTCAAAATCTAGTAGGTCCTCCAAGTCCTTCAGGGCCATTAGGCATCAGT---------GGAGAAGGGTCGCTACTGTCTGGAGAGCTGAGCAAGCACATTCTCAACTATATGTCAAgtaagtaggcaggagtactcacctcactgaggttgcgggggttgcctctt Alignment from Spaln_nt2Genome GGAACGATGTG---------TGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA acatagattgggctcagtgactctaagttagctgtggtgtgttcttacagGAATACCGCCAAACGATGTGTGGCAAGACCTGCGTCAAAATCTAGTAGGTCCTCCAAGTCCTTCAGGGCCATTAGGCATCAGTGGAGAAGGGTCGCTACTGTC---------TGGAGAGCTGAGCAAGCACATTCTCAACTATATGTCAAgtaagtaggcaggagtactcacctcactgaggttgcgggggttgcctctt Alignment from Pairagon G---------GAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA acatagattgggctcagtgactctaagttagctgtggtgtgttcttacagGAATACCGCCAAACGATGTGTGGCAAGACCTGCGTCAAAATCTAGTAGGTCCTCCAAGTCCTTCAGGGCCATTAGGCATCAGTGGAGAAGGGTCGCTACTGTC---------TGGAGAGCTGAGCAAGCACATTCTCAACTATATGTCAAgtaagtaggcaggagtactcacctcactgaggttgcgggggttgcctctt Alignment from Exonerate_protein2genome GG---------AACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA acatagattgggctcagtgactctaagttagctgtggtgtgttcttacagGAATACCGCCAAACGATGTGTGGCAAGACCTGCGTCAAAATCTAGTAGGTCCTCCAAGTCCTTCAGGGCCATTAGGCATCAGTGGAGAAGGGTCGCTACTGTCT---------GGAGAGCTGAGCAAGCACATTCTCAACTATATGTCAAgtaagtaggcaggagtactcacctcactgaggttgcgggggttgcctctt Alignment from Exonerate_coding2genome GG---------AACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA acatagattgggctcagtgactctaagttagctgtggtgtgttcttacagGAATACCGCCAAACGATGTGTGGCAAGACCTGCGTCAAAATCTAGTAGGTCCTCCAAGTCCTTCAGGGCCATTAGGCATCAGTGGAGAAGGGTCGCTACTGTCT---------GGAGAGCTGAGCAAGCACATTCTCAACTATATGTCAAgtaagtaggcaggagtactcacctcactgaggttgcgggggttgcctctt Alignment from GeneWise --------CGGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA acatagattgggctcagtgactctaagttagctgtggtgtgttcttacagGAATACCGCCAAACGATGTGTGGCAAGACCTGCGTCAAAATCTAGTAGGTCCTCCAAGTCCTTCAGGGCCATTAGGCATCAGTGGAGAAGGGTCGCTACTGTCT---------GGAGAGCTGAGCAAGCACATTCTCAACTATATGTCAAgtaagtaggcaggagtactcacctcactgaggttgcgggggttgcctctt #### Col17a1_ID10279_43 --> 2 - 1 Original Alignment gt------GACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGt gtgttgacttggaatgcagccgtgatcattactgctgtgttactttgcaggtGTCTACGGTAACATCAGGACATATCTGCTAGGAGTTCAGGGGCCCCCTGGA------------CCTGGATCTGTCATCACCATCAAGGGAGAGACTTTTGATTATTCCCAACTGGCAAGTCACGAAGTTAGCTACCTACGAtgtcagtccttaaaaacttctgggtttttcccttctatctttattccaatt Alignment from CESAR gt------GACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGt gtgttgacttggaatgcagccgtgatcattactgctgtgttactttgcaggtGTCTACGGTAACATCAGGACATATCTGCTAGGAGTTCAGGGGCCCCCTGGA------------CCTGGATCTGTCATCACCATCAAGGGAGAGACTTTTGATTATTCCCAACTGGCAAGTCACGAAGTTAGCTACCTACGAtgtcagtccttaaaaacttctgggtttttcccttctatctttattccaatt Alignment from Spaln_aa2Genome GT------GACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT gtgttgacttggaatgcagccgtgatcattactgctgtgttactttgcagGTGTCTACGGTAACATCAGGACATATCTGCTAGGAGTTCAGGGGCCCCCTGGA------------CCTGGATCTGTCATCACCATCAAGGGAGAGACTTTTGATTATTCCCAACTGGCAAGTCACGAAGTTAGCTACCTACGATgtcagtccttaaaaacttctgggtttttcccttctatctttattccaatt Alignment from Spaln_nt2Genome GTGACAACATCAGG------ACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT gtgttgacttggaatgcagccgtgatcattactgctgtgttactttgcagGTGTCTACGGTAACATCAGGACATATCTGCTAGGAGTTCAGGGGCCCCCTGG------------ACCTGGATCTGTCATCACCATCAAGGGAGAGACTTTTGATTATTCCCAACTGGCAAGTCACGAAGTTAGCTACCTACGATgtcagtccttaaaaacttctgggtttttcccttctatctttattccaatt Alignment from Pairagon GTGAC------AACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT gtgttgacttggaatgcagccgtgatcattactgctgtgttactttgcagGTGTCTACGGTAACATCAGGACATATCTGCTAGGAGTTCAGGGGCCCCCTGG------------ACCTGGATCTGTCATCACCATCAAGGGAGAGACTTTTGATTATTCCCAACTGGCAAGTCACGAAGTTAGCTACCTACGATgtcagtccttaaaaacttctgggtttttcccttctatctttattccaatt Alignment from Exonerate_protein2genome GT------GACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT gtgttgacttggaatgcagccgtgatcattactgctgtgttactttgcagGTGTCTACGGTAACATCAGGACATATCTGCTAGGAGTTCAGGGGCCCCCTGGA------------CCTGGATCTGTCATCACCATCAAGGGAGAGACTTTTGATTATTCCCAACTGGCAAGTCACGAAGTTAGCTACCTACGATgtcagtccttaaaaacttctgggtttttcccttctatctttattccaatt Alignment from Exonerate_coding2genome GT------GACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT gtgttgacttggaatgcagccgtgatcattactgctgtgttactttgcagGTGTCTACGGTAACATCAGGACATATCTGCTAGGAGTTCAGGGGCCCCCTGGA------------CCTGGATCTGTCATCACCATCAAGGGAGAGACTTTTGATTATTCCCAACTGGCAAGTCACGAAGTTAGCTACCTACGATgtcagtccttaaaaacttctgggtttttcccttctatctttattccaatt Alignment from GeneWise -----AGTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT gtgttgacttggaatgcagccgtgatcattactgctgtgttactttgcagGTGTCTACGGTAACATCAGGACATATCTGCTAGGAGTTCAGGGGCCCCCTGGA------------CCTGGATCTGTCATCACCATCAAGGGAGAGACTTTTGATTATTCCCAACTGGCAAGTCACGAAGTTAGCTACCTACGATgtcagtccttaaaaacttctgggtttttcccttctatctttattccaatt #### Col17a1_ID10282_40 --> 2 - 1 Original Alignment aa---------------------ACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAg gagggggaaacatcccatcatttgcagcgtcaactggtgcctcatttcagtaTACGAAATTCCACCTGAAAATACATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAggtaagagcagtaacctgaaagctcttaaccaagtgtgaagcttcactgat Alignment from CESAR aa---------------------ACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAg gagggggaaacatcccatcatttgcagcgtcaactggtgcctcatttcagtaTACGAAATTCCACCTGAAAATACATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAggtaagagcagtaacctgaaagctcttaaccaagtgtgaagcttcactgat Alignment from Spaln_aa2Genome CTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAG gagggggaaacatcccatcatttgcagcgtcaactggtgcctcatttcagtatacgaaattccacctgaaaatacATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAGgtaagagcagtaacctgaaagctcttaaccaagtgtgaagcttcactgat Alignment from Spaln_nt2Genome CTTCTTCAC TGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAG gagggggaaacatcccatcatttgcagCGTCAACTGgtgcctcatttcagtatacgaaattccacctgaaaatacattctttagGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAGgtaagagcagtaacctgaaagctcttaaccaagtgtgaagcttcactgat Alignment from Pairagon ---------------------AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAG gagggggaaacatcccatcatttgcagcgtcaactggtgcctcatttcagTATACGAAATTCCACCTGAAAATACATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAGgtaagagcagtaacctgaaagctcttaaccaagtgtgaagcttcactgat Alignment from Exonerate_protein2genome AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAG gagggggaaacatcccatcatttgcagcgtcaactggtgcctcatttcagtatacgaaattccacctgaaaATACATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAGgtaagagcagtaacctgaaagctcttaaccaagtgtgaagcttcactgat Alignment from Exonerate_coding2genome AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAG gagggggaaacatcccatcatttgcagcgtcaactggtgcctcatttcagtatacgaaattccacctgaaaATACATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAGgtaagagcagtaacctgaaagctcttaaccaagtgtgaagcttcactgat Alignment from GeneWise --------------------GAAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAG gagggggaaacatcccatcatttgcagcgtcaactggtgcctcatttcagTATACGAAATTCCACCTGAAAATACATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAGgtaagagcagtaacctgaaagctcttaaccaagtgtgaagcttcactgat #### Col17a1_ID10284_38 --> 2 - 1 Original Alignment gg---CCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAg ctgcaatcttaatggggggagaatcacattgaaatcaatttgttctgtaggtCTTCCTTCTACTCCAGGCCCACCAGGACCCCGAAGTCCACCAggtgtgtgttaaattttgttaacagaggtgggggctatggccagggtaaac Alignment from CESAR gg---CCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAg ctgcaatcttaatggggggagaatcacattgaaatcaatttgttctgtaggtCTTCCTTCTACTCCAGGCCCACCAGGACCCCGAAGTCCACCAggtgtgtgttaaattttgttaacagaggtgggggctatggccagggtaaac Alignment from Spaln_aa2Genome GG---CCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG ctgcaatcttaatggggggagaatcacattgaaatcaatttgttctgtagGTCTTCCTTCTACTCCAGGCCCACCAGGACCCCGAAGTCCACCAGgtgtgtgttaaattttgttaacagaggtgggggctatggccagggtaaac Alignment from Spaln_nt2Genome GGCCTTCCATCCCAGGC---CCGCCAGGACCCAGAGGTCCACCAG ctgcaatcttaatggggggagaatcacattgaaatcaatttgttctgtagGTCTTCCTTCTACTCCAGGCCCACCAGGACCCCGAAGTCCACCAGgtgtgtgttaaattttgttaacagaggtgggggctatggccagggtaaac Alignment from Pairagon ------------------------------------------------------GCCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG CTGCAATCTTAATGGGGGGAGAATCACATTGAAATCAATTTGTTCTGTAGGTCTTCCTTCTACTCCAGGCCCACCAGGACCCCGAAGTCCACCAGgtgtgtgttaaattttgttaacagaggtgggggctatggccagggtaaac Alignment from Exonerate_protein2genome GG---CCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG ctgcaatcttaatggggggagaatcacattgaaatcaatttgttctgtagGTCTTCCTTCTACTCCAGGCCCACCAGGACCCCGAAGTCCACCAGgtgtgtgttaaattttgttaacagaggtgggggctatggccagggtaaac Alignment from Exonerate_coding2genome GG---CCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG ctgcaatcttaatggggggagaatcacattgaaatcaatttgttctgtagGTCTTCCTTCTACTCCAGGCCCACCAGGACCCCGAAGTCCACCAGgtgtgtgttaaattttgttaacagaggtgggggctatggccagggtaaac Alignment from GeneWise ctgcaatcttaatggggggagaatcacattgaaatcaatttgttctgtaggtcttccttctactccaggcccaccaggaccccgaagtccaccaggtgtgtgttaaattttgttaacagaggtgggggctatggccagggtaaac #### Col17a1_ID10293_29 --> 2 - 1 Original Alignment gtCCGGCTGGCGCTGATGGACAGCAAGGTTCCAGAg agagctcatttcttagctatactcctacgtcttggccttttctttttcaggt---------GCTGATGGACAGCAAGGTTCACGAggtgaggcaatccttattgactagattgtagtcttattgatgactggttgc Alignment from CESAR gtCCGGCTGGCGCTGATGGACAGCAAGGTTCCAGAg agcaatcagagagctcatttcttagtacgtcttggccttttctttttcaggt---------GCTGATGGACAGCAAGGTTCACGAggtgaggcaatccttattgactagattgtagtcttattgatgactggttgc Alignment from Spaln_aa2Genome GGTCCGGCTGGCGCTGATGGACAGCAAGGTTCCAGAG ttcttagctatactcctacgtcttggccttttctttttca gGTGCTGATGGACAGCAAGGTTCACGAGgtgaggcaatccttattgactagattgtagtcttattgatgactggttgc Alignment from Spaln_nt2Genome GGCGCTGATGGACAGCAAGGTTCCAGAG agagctcatttcttagctatactcctacgtcttggccttttctttttcag-GTGCTGATGGACAGCAAGGTTCACGAGgtgaggcaatccttattgactagattgtagtcttattgatgactggttgc Alignment from Pairagon GTCCGGCTGGCGCTGATGGACAGCAAGGTTCCAGAG agagctcatttcttagctatactcctacgtcttggccttttctttttcagGT---------GCTGATGGACAGCAAGGTTCACGAGgtgaggcaatccttattgactagattgtagtcttattgatgactggttgc Alignment from Exonerate_protein2genome GCGCTGATGGACAGCAAGGTTCCAGAG agagctcatttcttagctatactcctacgtcttggccttttctttttcagGTGCTGATGGACAGCAAGGTTCACGAGgtgaggcaatccttattgactagattgtagtcttattgatgactggttgc Alignment from Exonerate_coding2genome GCGCTGATGGACAGCAAGGTTCCAGAG agagctcatttcttagctatactcctacgtcttggccttttctttttcagGTGCTGATGGACAGCAAGGTTCACGAGgtgaggcaatccttattgactagattgtagtcttattgatgactggttgc Alignment from GeneWise agagctcatttcttagctatactcctacgtcttggccttttctttttcaggtgctgatggacagcaaggttcacgaggtgaggcaatccttattgactagattgtagtcttattgatgactggttgc #### Col17a1_ID10297_25 --> 2 - 1 Original Alignment gtGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAg tgtgttgcatgatggggatgtaggatagacttatgggtgctaccccacaggtGCTGTGGGGACCCAGGGACTTCGGGGTGATGTGGGACTGCCT---------ggtaagttagtgtcttattggagggaggggcaattaaatgttgaggggacg Alignment from CESAR gtGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAg tgtgttgcatgatggggatgtaggatagacttatgggtgctaccccacaggtGCTGTGGGGACCCAGGGACTTCGGGGTGATGTGGGACTGCCT---------ggtaagttagtgtcttattggagggaggggcaattaaatgttgaggggacg Alignment from Spaln_aa2Genome GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCT- tgtgttgcatgatggggatgtaggatagacttatgggtgctaccccacagGTGCTGTGGGGACCCAGGGACTTCGGGGTGATGTGGGACTGCCTGgtaagttagtgtcttattggagggaggggcaattaaatgttgaggggacg Alignment from Spaln_nt2Genome GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCA tgtgttgcatgatggggatgtaggatagacttatgggtgctaccccacagGTGCTGTGGGGACCCAGGGACTTCGGGGTGATGTGGGACTGCCTG--GTAAgttagtgtcttattggagggaggggcaattaaatgttgagggga Alignment from Pairagon GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTG tgtgttgcatgatggggatgtaggatagacttatgggtgctaccccacagGTGCTGTGGGGACCCAGGGACTTCGGGGTGATGTGGGACTGCCTGgtaagttagtgtcttattggagggaggggcaattaaatgttgaggggacg Alignment from Exonerate_protein2genome GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGT tgtgttgcatgatggggatgtaggatagacttatgggtgctaccccacagGTGCTGTGGGGACCCAGGGACTTCGGGGTGATGTGGGACTGCCTGGTAAgttagtgtcttattggagggaggggcaattaaatgttgaggggacg Alignment from Exonerate_coding2genome GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAGGTGACAAAGGACTCATGGGACCACCAGGACCCAAAGGTGAC tgtgttgcatgatggggatgtaggatagacttatgggtgctaccccacagGTGCTGTGGGGACCCAGGGACTTCGGGGTGATGTGGGACTGCCTGGTAAGTTAGTGTCTTATTGGAGGGAGGGGCAATTAAATGTTGAGGGGACG Alignment from GeneWise GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGT tgtgttgcatgatggggatgtaggatagacttatgggtgctaccccacagGTGCTGTGGGGACCCAGGGACTTCGGGGTGATGTGGGACTGCCTGGTAAgttagtgtcttattggagggaggggcaattaaatgttgaggggacg #### Col17a1_ID10300_22 --> 2 - 1 Original Alignment gaGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAg ctattctgtgctcttgcatctttcttgatgacactgcttccatttctcaggaGATCCTGGCATGGAGGCACCGATAGGCCAGAGAGGGTTAGCAGGTCCCATGGGACCCAGTGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGA------ggtaaagcatttagtcactatcaacaccataatggtgacctgcatccgttc Alignment from CESAR gaGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAg ctattctgtgctcttgcatctttcttgatgacactgcttccatttctcaggaGATCCTGGCATGGAGGCACCGATAGGCCAGAGAGGGTTAGCAGGTCCCATGGGACCCAGTGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGA------ggtaaagcatttagtcactatcaacaccataatggtgacctgcatccgttc Alignment from Spaln_aa2Genome GAGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACA ctattctgtgctcttgcatctttcttgatgacactgcttccatttctcagGAGATCCTGGCATGGAGGCACCGATAGGCCAGAGAGGGTTAGCAGGTCCCATGGGACCCAGTGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGA---Ggtaaagcatttagtcactatcaacaccataatggtgacctgcatccgttc Alignment from Spaln_nt2Genome GAGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAG ctattctgtgctcttgcatctttcttgatgacactgcttccatttctcagGAGATCCTGGCATGGAGGCACCGATAGGCCAGAGAGGGTTAGCAGGTCCCATGGGACCCAGTGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGgtaaagcatttagtcactatcaacaccataatggtgacctgcatccgttc Alignment from Pairagon GAGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAG ctattctgtgctcttgcatctttcttgatgacactgcttccatttctcagGAGATCCTGGCATGGAGGCACCGATAGGCCAGAGAGGGTTAGCAGGTCCCATGGGACCCAGTGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGgtaaagcatttagtcactatcaacaccataatggtgacctgcatccgttc Alignment from Exonerate_protein2genome GAGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAG ctattctgtgctcttgcatctttcttgatgacactgcttccatttctcagGAGATCCTGGCATGGAGGCACCGATAGGCCAGAGAGGGTTAGCAGGTCCCATGGGACCCAGTGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGgtaaagcatttagtcactatcaacaccataatggtgacctgcatccgttc Alignment from Exonerate_coding2genome GAGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAG ctattctgtgctcttgcatctttcttgatgacactgcttccatttctcagGAGATCCTGGCATGGAGGCACCGATAGGCCAGAGAGGGTTAGCAGGTCCCATGGGACCCAGTGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGgtaaagcatttagtcactatcaacaccataatggtgacctgcatccgttc Alignment from GeneWise GAGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAGGGATT- ctattctgtgctcttgcatctttcttgatgacactgcttccatttctcagGAGATCCTGGCATGGAGGCACCGATAGGCCAGAGAGGGTTAGCAGGTCCCATGGGACCCAGTGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGGTAAAGCATTTAgtcactatcaacaccataatggtgacctgcatccgttc #### Col17a1_ID10301_21 --> 2 - 1 Original Alignment gtATCCCTGGGCCCCTGGGCCACCCTGGCCCGGAAGGACCAAAGGGACAAAAAGGCAGCATT---------------g atgcaacatcaagaggaaatcagagtggctgtccttctccccctccacaggtATCCCTGGGCCATTAGGCCACCCTGGCCCAGAAGGGCCAAAGGGACAGAAAGGCAGCATTGTGCCCCCTCTACCCggtaaaagcttttttccatatatacatgttcctttgtgtttcccttccaaa Alignment from CESAR gtATCCCTGGGCCCCTGGGCCACCCTGGCCCGGAAGGACCAAAGGGACAAAAAGGCAGCATT---------------g atgcaacatcaagaggaaatcagagtggctgtccttctccccctccacaggtATCCCTGGGCCATTAGGCCACCCTGGCCCAGAAGGGCCAAAGGGACAGAAAGGCAGCATTGTGCCCCCTCTACCCggtaaaagcttttttccatatatacatgttcctttgtgtttcccttccaaa Alignment from Spaln_aa2Genome GTATCCCTGGGCCCCTGGGCCACCCTGGCCCGGAAGGACCAAAGGGACAAAAAGGCAGCATT---------------G atgcaacatcaagaggaaatcagagtggctgtccttctccccctccacagGTATCCCTGGGCCATTAGGCCACCCTGGCCCAGAAGGGCCAAAGGGACAGAAAGGCAGCATTGTGCCCCCTCTACCCGgtaaaagcttttttccatatatacatgttcctttgtgtttcccttccaaa Alignment from Spaln_nt2Genome GTATCCCTGGGCCCCTGGGCCACCCTGGCCCGGAAGGACCAAAGGGACAAAAAGGCAGCATT atgcaacatcaagaggaaatcagagtggctgtccttctccccctccacagGTATCCCTGGGCCATTAGGCCACCCTGGCCCAGAAGGGCCAAAGGGACAGAAAGGCAGCATTgtgccccctctacccggtaaaagcttttttccatatatacatgttcctttgtgtttcccttccaaa Alignment from Pairagon GTATCCCTGGGCCCCTGGGCCACCCTGGCCCGGAAGGACCAAAGGGACAAAAAGGCAGCATTG--------------- atgcaacatcaagaggaaatcagagtggctgtccttctccccctccacagGTATCCCTGGGCCATTAGGCCACCCTGGCCCAGAAGGGCCAAAGGGACAGAAAGGCAGCATTGTGCCCCCTCTACCCGgtaaaagcttttttccatatatacatgttcctttgtgtttcccttccaaa Alignment from Exonerate_protein2genome GTATCCCTGGGCCCCTGGGCCACCCTGGCCCGGAAGGACCAAAGGGACAAAAAGGCAGCATT atgcaacatcaagaggaaatcagagtggctgtccttctccccctccacagGTATCCCTGGGCCATTAGGCCACCCTGGCCCAGAAGGGCCAAAGGGACAGAAAGGCAGCATTgtgccccctctacccggtaaaagcttttttccatatatacatgttcctttgtgtttcccttccaaa Alignment from Exonerate_coding2genome GTATCCCTGGGCCCCTGGGCCACCCTGGCCCGGAAGGACCAAAGGGACAAAAAGGCAGCATT atgcaacatcaagaggaaatcagagtggctgtccttctccccctccacagGTATCCCTGGGCCATTAGGCCACCCTGGCCCAGAAGGGCCAAAGGGACAGAAAGGCAGCATTgtgccccctctacccggtaaaagcttttttccatatatacatgttcctttgtgtttcccttccaaa Alignment from GeneWise AGGAGACCGAGGCCTTCCTGGGACCCCA------GGTATCCCTGGGCCCCTGGGCCACCCTGGCCCGGAAGGACCAAAGGGACAAAAAGGCAGCATT---------------G atgcaacatcaagagGAAATCAGAGTGGCTGTCCTTCTCCCCCTCCACAGGTATCCCTGGGCCATTAGGCCACCCTGGCCCAGAAGGGCCAAAGGGACAGAAAGGCAGCATTGTGCCCCCTCTACCCGgtaaaagcttttttccatatatacatgttcctttgtgtttcccttccaaa #### Col17a1_ID10308_14 --> 2 - 1 Original Alignment ctTCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAAT---------------------------g agacaggtatacagacagtgcacttaagcatttcttctttgtgttcccagctTCTTTCTCAGAAGAGACACTGAAAAAGGAGAAGCAGGCGGCGTATGCTGCTGACACCTGTCTGAAGGCAGATGTGAATGAAAAGGCAACCGACGTCAGTGTACTTggtaacccaatagcagccactgagtgcacaaacctgcaccttatttttctt Alignment from CESAR ctTCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAAT------------------g agacaggtatacagacagtgcacttaagcatttcttctttgtgttcccagctTCTTTCTCAGAAGAGACACTGAAAAAGGAGAAGCAGGCGGCGTATGCTGCTGACACCTGTCTGAAGGCAGATGTGAATGAAAAGGCAACCGACGTCagtgtacttggtaacccaatagcagccactgagtgcacaaacctgcaccttatttttctt Alignment from Spaln_aa2Genome CTTCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATGGA---------------- agacaggtatacagacagtgcacttaagcatttcttctttgtgttcccagCTTCTTTCTCAGAAGAGACACTGAAAAAGGAGAAGCAGGCGGCGTATGCTGCTGACACCTGTCTGAAGGCAGATGTGAATGAAAAGGCAACCGACGTCAgtgtacttggtaacccaatagcagccactgagtgcacaaacctgcaccttatttttctt Alignment from Spaln_nt2Genome CTTCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATG----- agacaggtatacagacagtgcacttaagcatttcttctttgtgttcccagCTTCTTTCTCAGAAGAGACACTGAAAAAGGAGAAGCAGGCGGCGTATGCTGCTGACACCTGTCTGAAGGCAGATGTGAATGAAAAGgcaaccgacgtcagtgtacttggtaacccaatagcagccactgagtgcacaaacctgcaccttatttttctt Alignment from Pairagon CTTCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATG-------------- agacaggtatacagacagtgcacttaagcatttcttctttgtgttcccagCTTCTTTCTCAGAAGAGACACTGAAAAAGGAGAAGCAGGCGGCGTATGCTGCTGACACCTGTCTGAAGGCAGATGTGAATGAAAAGGCAACCGACgtcagtgtacttggtaacccaatagcagccactgagtgcacaaacctgcaccttatttttctt Alignment from Exonerate_protein2genome CTTCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATG agacaggtatacagacagtgcacttaagcatttcttctttgtgttcccagCTTCTTTCTCAGAAGAGACACTGAAAAAGGAGAAGCAGGCGGCGTATGCTGCTGACACCTGTCTGAAGGCAGATGTGAATGaaaaggcaaccgacgtcagtgtacttggtaacccaatagcagccactgagtgcacaaacctgcaccttatttttctt Alignment from Exonerate_coding2genome CTTCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATG agacaggtatacagacagtgcacttaagcatttcttctttgtgttcccagCTTCTTTCTCAGAAGAGACACTGAAAAAGGAGAAGCAGGCGGCGTATGCTGCTGACACCTGTCTGAAGGCAGATGTGAATGaaaaggcaaccgacgtcagtgtacttggtaacccaatagcagccactgagtgcacaaacctgcaccttatttttctt Alignment from GeneWise CTTCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATGGAGACCTAAATACCGTGTCCACAAAGAGCAAGATGACCTCGGCAG agacaggtatacagacagtgcacttaagcatttcttctttgtgttcccagCTTCTTTCTCAGAAGAGACACTGAAAAAGGAGAAGCAGGCGGCGTATGCTGCTGACACCTGTCTGAAGGCAGATGTGAAT---------------------------GAAAAGGCAACCGACGTCAgtgtacttggtaacccaatagcagccactgagtgcacaaacctgcaccttatttttctt #### Coro1b_ID352_2 --> 0 - 0 Original Alignment ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gatgagtcaaaaagtcttaggttagctgaaatagatgtgtgttctctcag---GGCCACGTTGACAAGGCATTCCCAACAGTATGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTATGgtgagcaaaaacctgttcaggttttattgtatcaaagtcaagtaacttct Alignment from CESAR ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gtagatgagtcaaaaagtcttaggtctgaaatagatgtgtgttctctcag---GGCCACGTTGACAAGGCATTCCCAACAGTATGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTATGgtgagcaaaaacctgttcaggttttattgtatcaaagtcaagtaacttct Alignment from Spaln_aa2Genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gatgagtcaaaaagtcttaggttagctgaaatagatgtgtgttctctcag---GGCCACGTTGACAAGGCATTCCCAACAGTATGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTATGgtgagcaaaaacctgttcaggttttattgtatcaaagtcaagtaacttct Alignment from Spaln_nt2Genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gatgagtcaaaaagtcttaggttagctgaaatagatgtgtgttctctcag---GGCCACGTTGACAAGGCATTCCCAACAGTATGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTATGgtgagcaaaaacctgttcaggttttattgtatcaaagtcaagtaacttct Alignment from Pairagon ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gatgagtcaaaaagtcttaggttagctgaaatagatgtgtgttctctcag---GGCCACGTTGACAAGGCATTCCCAACAGTATGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTATGgtgagcaaaaacctgttcaggttttattgtatcaaagtcaagtaacttct Alignment from Exonerate_protein2genome GGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gatgagtcaaaaagtcttaggttagctgaaatagatgtgtgttctctcagGGCCACGTTGACAAGGCATTCCCAACAGTATGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTATGgtgagcaaaaacctgttcaggttttattgtatcaaagtcaagtaacttct Alignment from Exonerate_coding2genome GGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gatgagtcaaaaagtcttaggttagctgaaatagatgtgtgttctctcagGGCCACGTTGACAAGGCATTCCCAACAGTATGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTATGgtgagcaaaaacctgttcaggttttattgtatcaaagtcaagtaacttct Alignment from GeneWise GGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gatgagtcaaaaagtcttaggttagctgaaatagatgtgtgttctctcagGGCCACGTTGACAAGGCATTCCCAACAGTATGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTATGgtgagcaaaaacctgttcaggttttattgtatcaaagtcaagtaacttct #### Coro1b_ID354_4 --> 2 - 0 Original Alignment gtTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA ggtatgtgctgggctaattgaattcaacactgaatcctcctgttccccaggt------AATGTGGTACTTATCTGGAATGTGGGTGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAATGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGGCACCCTGGTTGCGgtgggaacaaatgggaaatatttcgtccttcaacttcaaggccttgatcc Alignment from CESAR gtTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA tccaccggtatgtgctgggctaattaacactgaatcctcctgttccccaggt------AATGTGGTACTTATCTGGAATGTGGGTGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAATGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGGCACCCTGGTTGCGgtgggaacaaatgggaaatatttcgtccttcaacttcaaggccttgatcc Alignment from Spaln_aa2Genome GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA ggtatgtgctgggctaattgaattcaacactgaatcctcctgttccccagGT------AATGTGGTACTTATCTGGAATGTGGGTGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAATGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGGCACCCTGGTTGCGgtgggaacaaatgggaaatatttcgtccttcaacttcaaggccttgatcc Alignment from Spaln_nt2Genome GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA ggtatgtgctgggctaattgaattcaacactgaatcctcctgttccccagGT------AATGTGGTACTTATCTGGAATGTGGGTGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAATGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGGCACCCTGGTTGCGgtgggaacaaatgggaaatatttcgtccttcaacttcaaggccttgatcc Alignment from Pairagon GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA ggtatgtgctgggctaattgaattcaacactgaatcctcctgttccccagGT------AATGTGGTACTTATCTGGAATGTGGGTGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAATGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGGCACCCTGGTTGCGgtgggaacaaatgggaaatatttcgtccttcaacttcaaggccttgatcc Alignment from Exonerate_protein2genome GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA ggtatgtgctgggctaattgaattcaacactgaatcctcctgttccccagGT------AATGTGGTACTTATCTGGAATGTGGGTGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAATGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGGCACCCTGGTTGCGgtgggaacaaatgggaaatatttcgtccttcaacttcaaggccttgatcc Alignment from Exonerate_coding2genome GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA ggtatgtgctgggctaattgaattcaacactgaatcctcctgttccccagGT------AATGTGGTACTTATCTGGAATGTGGGTGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAATGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGGCACCCTGGTTGCGgtgggaacaaatgggaaatatttcgtccttcaacttcaaggccttgatcc Alignment from GeneWise ACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA ggtatgtgctgggctaattgaattcaacactgaatcctcctgttccccagGTAATGTGGTACTTATCTGGAATGTGGGTGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCTTATAATGTGAGCTGGAACCACATCGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGGCACCCTGGTTGCGgtgggaacaaatgggaaatatttcgtccttcaacttcaaggccttgatcc #### Csf2ra_ID13431_9 --> 2 - 2 Original Alignment agGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGG---ag acaggaacagacaacttccagattgccaccctcccccaactgcgctccagatGCAGATGACACACGGGTGCCTGGCACACTCCTCTACACAGTAACTGCCTGTGCTGTCCTGCTGTGTGCACTGGTGCTCGGAGTGACTTGCAGGGATaggtgagccaaaggggcaatatcatgaacaaggcgtgtaaacagtcggttac Alignment from CESAR agGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGG---ag acaggaacagacaacttccagattgccaccctcccccaactgcgctccagatGCAGATGACACACGGGTGCCTGGCACACTCCTCTACACAGTAACTGCCTGTGCTGTCCTGCTGTGTGCACTGGTGCTCGGAGTGACTTGCAGGGATaggtgagccaaaggggcaatatcatgaacaaggcgtgtaaacagtcggttac Alignment from Spaln_aa2Genome AGGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAGG-- acaggaacagacaacttccagattgccaccctcccccaactgcgctccagATGCAGATGACACACGGGTGCCTGGCACACTCCTCTACACAGTAACTGCCTGTGCTGTCCTGCTGTGTGCACTGGTGCTCGGAGTGACTTGCAGGGATAGgtgagccaaaggggcaatatcatgaacaaggcgtgtaaacagtcggttac Alignment from Spaln_nt2Genome AGGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGG---AG acaggaacagacaacttccagattgccaccctcccccaactgcgctccagATGCAGATGACACACGGGTGCCTGGCACACTCCTCTACACAGTAACTGCCTGTGCTGTCCTGCTGTGTGCACTGGTGCTCGGAGTGACTTGCAGGGATAGgtgagccaaaggggcaatatcatgaacaaggcgtgtaaacagtcggttac Alignment from Pairagon AGGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGG---AG acaggaacagacaacttccagattgccaccctcccccaactgcgctccagATGCAGATGACACACGGGTGCCTGGCACACTCCTCTACACAGTAACTGCCTGTGCTGTCCTGCTGTGTGCACTGGTGCTCGGAGTGACTTGCAGGGATAGgtgagccaaaggggcaatatcatgaacaaggcgtgtaaacagtcggttac Alignment from Exonerate_protein2genome AGGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGG---AG acaggaacagacaacttccagattgccaccctcccccaactgcgctccagATGCAGATGACACACGGGTGCCTGGCACACTCCTCTACACAGTAACTGCCTGTGCTGTCCTGCTGTGTGCACTGGTGCTCGGAGTGACTTGCAGGGATAGgtgagccaaaggggcaatatcatgaacaaggcgtgtaaacagtcggttac Alignment from Exonerate_coding2genome AGGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGG---AG acaggaacagacaacttccagattgccaccctcccccaactgcgctccagATGCAGATGACACACGGGTGCCTGGCACACTCCTCTACACAGTAACTGCCTGTGCTGTCCTGCTGTGTGCACTGGTGCTCGGAGTGACTTGCAGGGATAGgtgagccaaaggggcaatatcatgaacaaggcgtgtaaacagtcggttac Alignment from GeneWise AGGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAGG-- acaggaacagacaacttccagattgccaccctcccccaactgcgctccagATGCAGATGACACACGGGTGCCTGGCACACTCCTCTACACAGTAACTGCCTGTGCTGTCCTGCTGTGTGCACTGGTGCTCGGAGTGACTTGCAGGGATAGgtgagccaaaggggcaatatcatgaacaaggcgtgtaaacagtcggttac #### Csf2ra_ID13432_8 --> 0 - 1 Original Alignment GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCg aaagataagttcttactcccagccctatccttgtggccatctattaatagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGGGCAGGTGACACTAGGATGAAGCACTGGGGG------------------------ggtgagtataggtgtaatgattcattgtagtaaagtcgagatacgcgagtc Alignment from CESAR GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCg aaagataagttcttactcccagccctatccttgtggccatctattaatagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGGGCAGGTGACACTAGGATGAAGCACTGGGGG------------------------ggtgagtataggtgtaatgattcattgtagtaaagtcgagatacgcgagtc Alignment from Spaln_aa2Genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCG aaagataagttcttactcccagccctatccttgtggccatctattaatagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGGGCAGGTGACACTAGGATGAAGCACTGGGGGGgtgagtataggtgtaatgattcattgtagtaaagtcgagatacgcgagtc Alignment from Spaln_nt2Genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCG aaagataagttcttactcccagccctatccttgtggccatctattaatagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGGGCAGGTGACACTAGGATGAAGCACTGGGGGGgtgagtataggtgtaatgattcattgtagtaaagtcgagatacgcgagtc Alignment from Pairagon GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCG aaagataagttcttactcccagccctatccttgtggccatctattaatagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGGGCAGGTGACACTAGGATGAAGCACTGGGGGGgtgagtataggtgtaatgattcattgtagtaaagtcgagatacgcgagtc Alignment from Exonerate_protein2genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCG aaagataagttcttactcccagccctatccttgtggccatctattaatagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGGGCAGGTGACACTAGGATGAAGCACTGGGGGGgtgagtataggtgtaatgattcattgtagtaaagtcgagatacgcgagtc Alignment from Exonerate_coding2genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCG aaagataagttcttactcccagccctatccttgtggccatctattaatagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGGGCAGGTGACACTAGGATGAAGCACTGGGGGGgtgagtataggtgtaatgattcattgtagtaaagtcgagatacgcgagtc Alignment from GeneWise GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGC- ---------------- aaagataagttcttactcccagccctatccttgtggccatctattaatagGTCCTGGTTGTTGAGGAGACCCGCCTCACCTTCCCTAGTCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGGGCAGGTGACACTAGGATGAAGCACTGGGGGGgtgagtataggtgtaatgattcattgtagtaaagTCGAGATACGCGAGTC #### Csf2ra_ID13434_6 --> 2 - 0 Original Alignment ag------CGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG aatgtagagctttcacatgtttggtcttttatatttttttaaaattacagagTCGAACCGTCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATTGCACTGTGTCGTGGGCCCCACCCTCCACCTGGGCATCCCTGGCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAAgtaaactagagcttcttctttctgggaaagcataggggatgctatgccca Alignment from CESAR ag------CGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG aatgtagagctttcacatgtttggtcttttatatttttttaaaattacagagTCGAACCGTCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATTGCACTGTGTCGTGGGCCCCACCCTCCACCTGGGCATCCCTGGCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAAgtaaactagagcttcttctttctgggaaagcataggggatgctatgccca Alignment from Spaln_aa2Genome AGCGACTCGGTCCCCCA------CGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG aatgtagagctttcacatgtttggtcttttatatttttttaaaattacagAGTCGAACCGTCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATTGCACTGTGTCGTGGGCCCCACCCTCCACCTGGGCATCCCTGGCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAAgtaaactagagcttcttctttctgggaaagcataggggatgctatgccca Alignment from Spaln_nt2Genome AG------CGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG aatgtagagctttcacatgtttggtcttttatatttttttaaaattacagAGTCGAACCGTCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATTGCACTGTGTCGTGGGCCCCACCCTCCACCTGGGCATCCCTGGCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAAgtaaactagagcttcttctttctgggaaagcataggggatgctatgccca Alignment from Pairagon AG------CGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG aatgtagagctttcacatgtttggtcttttatatttttttaaaattacagAGTCGAACCGTCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATTGCACTGTGTCGTGGGCCCCACCCTCCACCTGGGCATCCCTGGCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAAgtaaactagagcttcttctttctgggaaagcataggggatgctatgccca Alignment from Exonerate_protein2genome AG------CGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG aatgtagagctttcacatgtttggtcttttatatttttttaaaattacagAGTCGAACCGTCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATTGCACTGTGTCGTGGGCCCCACCCTCCACCTGGGCATCCCTGGCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAAgtaaactagagcttcttctttctgggaaagcataggggatgctatgccca Alignment from Exonerate_coding2genome AG------CGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG aatgtagagctttcacatgtttggtcttttatatttttttaaaattacagAGTCGAACCGTCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATTGCACTGTGTCGTGGGCCCCACCCTCCACCTGGGCATCCCTGGCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAAgtaaactagagcttcttctttctgggaaagcataggggatgctatgccca Alignment from GeneWise -----GAGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG aatgtagagctttcacatgtttggtcttttatatttttttaaaattacagAGTCGAACCGTCTTGGTCCTCCATGTGATGTCACAGCAGCCTGCAACTCTTCCCATTGCACTGTGTCGTGGGCCCCACCCTCCACCTGGGCATCCCTGGCAGCACGGGACTATCAGTTTGAGGTCCAGTGGCAAgtaaactagagcttcttctttctgggaaagcataggggatgctatgccca #### Csf2ra_ID13435_5 --> 1 - 1 Original Alignment gGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTCg ttcattactacctcattgctgtctctcatgtggaaatggttttgttgtagaGGTCATGATGTAGCACACTGCATGGCTGATCCTGGGGATGATGTAATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTCGTTACTGGTCGAAGTGGGGCAGGGCCAGTGTGGTTTCTGGATGATGTGGTCGCTACAAAG------ggtaaggatgagactttgtttatgggtacatgtagggcttctcagtcacag Alignment from CESAR gGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTCg ttcattactacctcattgctgtctctcatgtggaaatggttttgttgtagaGGTCATGATGTAGCACACTGCATGGCTGATCCTGGGGATGATGTAATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTCGTTACTGGTCGAAGTGGGGCAGGGCCAGTGTGGTTTCTGGATGATGTGGTCGCTACAAAG------ggtaaggatgagactttgtttatgggtacatgtagggcttctcagtcacag Alignment from Spaln_aa2Genome GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAG- ttcattactacctcattgctgtctctcatgtggaaatggttttgttgtagAGGTCATGATGTAGCACACTGCATGGCTGATCCTGGGGATGATGTAATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTCGTTACTGGTCGAAGTGGGGCAGGGCCAGTGTGGTTTCTGGATGATGTGGTCGCTACAAAGGgtaaggatgagactttgtttatgggtacatgtagggcttctcagtcacag Alignment from Spaln_nt2Genome GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGG ttcattactacctcattgctgtctctcatgtggaaatggttttgttgtagAGGTCATGATGTAGCACACTGCATGGCTGATCCTGGGGATGATGTAATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTCGTTACTGGTCGAAGTGGGGCAGGGCCAGTGTGGTTTCTGGATGATGTGGTCGCTACAAAGGgtaaggatgagactttgtttatgggtacatgtagggcttctcagtcacag Alignment from Pairagon GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGG ttcattactacctcattgctgtctctcatgtggaaatggttttgttgtagAGGTCATGATGTAGCACACTGCATGGCTGATCCTGGGGATGATGTAATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTCGTTACTGGTCGAAGTGGGGCAGGGCCAGTGTGGTTTCTGGATGATGTGGTCGCTACAAAGGgtaaggatgagactttgtttatgggtacatgtagggcttctcagtcacag Alignment from Exonerate_protein2genome GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTCG ttcattactacctcattgctgtctctcatgtggaaatggttttgttgtagAGGTCATGATGTAGCACACTGCATGGCTGATCCTGGGGATGATGTAATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTCGTTACTGGTCGAAGTGGGGCAGGGCCAGTGTGGTTTCTGGATGATGTGGTCGCTACAAAGGGTAAGGatgagactttgtttatgggtacatgtagggcttctcagtcacag Alignment from Exonerate_coding2genome GGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTCG ttcattactacctcattgctgtctctcatgtggaaatggttttgttgtagaGGTCATGATGTAGCACACTGCATGGCTGATCCTGGGGATGATGTAATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTCGTTACTGGTCGAAGTGGGGCAGGGCCAGTGTGGTTTCTGGATGATGTGGTCGCTACAAAGGGTAAGGatgagactttgtttatgggtacatgtagggcttctcagtcacag Alignment from GeneWise GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGG ttcattactacctcattgctgtctctcatgtggaaatggttttgttgtagAGGTCATGATGTAGCACACTGCATGGCTGATCCTGGGGATGATGTAATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTCGTTACTGGTCGAAGTGGGGCAGGGCCAGTGTGGTTTCTGGATGATGTGGTCGCTACAAAGGgtaaggatgagactttgtttatgggtacatgtagggcttctcagtcacag #### Ctsf_ID675_3 --> 0 - 1 Original Alignment CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAg ataaccaaaccagatttgtgaatcaatattttgtttattattattatcagCTCTGTAGTTTTGAAGCCCTTGAAGAACTTAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCAGTGAATGCC---------ggtgagcgatatacataactgctcaagtagatggggaagaagagatcatac Alignment from CESAR CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAg ataaccaaaccagatttgtgaatcaatattttgtttattattattatcagCTCTGTAGTTTTGAAGCCCTTGAAGAACTTAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCAGTGAATGCC---------ggtgagcgatatacataactgctcaagtagatggggaagaagagatcatac Alignment from Spaln_aa2Genome CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCC- ataaccaaaccagatttgtgaatcaatattttgtttattattattatcagCTCTGTAGTTTTGAAGCCCTTGAAGAACTTAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCAGTGAATGCCGgtgagcgatatacataactgctcaagtagatggggaagaagagatcatac Alignment from Spaln_nt2Genome CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCA AGGTCA--- ataaccaaaccagatttgtgaatcaatattttgtttattattattatcagCTCTGTAGTTTTGAAGCCCTTGAAGAACTTAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCAGTGAATGCCGgtgagcgatatacataactgctcaagtagatggggaagaagAGATCATAC Alignment from Pairagon CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAG ataaccaaaccagatttgtgaatcaatattttgtttattattattatcagCTCTGTAGTTTTGAAGCCCTTGAAGAACTTAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCAGTGAATGCC---------Ggtgagcgatatacataactgctcaagtagatggggaagaagagatcatac Alignment from Exonerate_protein2genome CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCA ataaccaaaccagatttgtgaatcaatattttgtttattattattatcagCTCTGTAGTTTTGAAGCCCTTGAAGAACTTAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCAGTGAATGCCGgtgagcgatatacataactgctcaagtagatggggaagaagagatcatac Alignment from Exonerate_coding2genome CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCA ataaccaaaccagatttgtgaatcaatattttgtttattattattatcagCTCTGTAGTTTTGAAGCCCTTGAAGAACTTAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCAGTGAATGCCGgtgagcgatatacataactgctcaagtagatggggaagaagagatcatac Alignment from GeneWise CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCA ataaccaaaccagatttgtgaatcaatattttgtttattattattatcagCTCTGTAGTTTTGAAGCCCTTGAAGAACTTAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCAGTGAATGCCGgtgagcgatatacataactgctcaagtagatggggaagaagagatcatac #### Ctsf_ID679_7 --> 2 - 0 Original Alignment agGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTG------AAGAACCAG--------------------------------------- gtgggtctggtttcaagcacttatctctacactttaacttaattcttaagagGAAGAAATCCATACCATCGACCTGATCCCTCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTTCAGCAAAATCCATAAATGACCTTGCTCCACCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGGTGAAGAATGAACTGTTTTATACCTTCAATTGCGAACCTTCATGCACGTGTgtatgcgtaacttgaaattgggagagggtgcaaggcctatagagctaacc Alignment from CESAR agGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAGAACCAG gtgggtctggtttcaagcacttatctctacactttaacttaattcttaagagGAAGAAATCCATACCATCGACCTGATCCCTCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTTCAGCAAAATCCATAAATGACCTTGCTCCACCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTT------GAGgtgaagaatgaactgttttataccttcaattgcgaaccttcatgcacgtgtgtatgcgtaacttgaaattgggagagggtgcaaggcctatagagctaacc Alignment from Spaln_aa2Genome AGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAG gtgggtctggtttcaagcacttatctctacactttaacttaattcttaagAGGAAGAAATCCATACCATCGACCTGATCCCTCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTTCAGCAAAATCCATAAATGACCTTGCTCCACCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGgtgaagaatgaactgttttataccttcaattgcgaaccttcatgcacgtgtgtatgcgtaacttgaaattgggagagggtgcaaggcctatagagctaacc Alignment from Spaln_nt2Genome AGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAG gtgggtctggtttcaagcacttatctctacactttaacttaattcttaagAGGAAGAAATCCATACCATCGACCTGATCCCTCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTTCAGCAAAATCCATAAATGACCTTGCTCCACCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGgtgaagaatgaactgttttataccttcaattgcgaaccttcatgcacgtgtgtatgcgtaacttgaaattgggagagggtgcaaggcctatagagctaacc Alignment from Pairagon AGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAA------GTGAAGAA--------------------------------------------------------------------------------------------- gtgggtctggtttcaagcacttatctctacactttaacttaattcttaagAGGAAGAAATCCATACCATCGACCTGATCCCTCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTTCAGCAAAATCCATAAATGACCTTGCTCCACCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGGTGAAGAATGAACTGTTTTATACCTTCAATTGCGAACCTTCATGCACGTGTGTATGCGTAACTTGAAATTGGGAGAGGGTGCAAGGCCTATAGAGCTAACC Alignment from Exonerate_protein2genome AGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAG gtgggtctggtttcaagcacttatctctacactttaacttaattcttaagAGGAAGAAATCCATACCATCGACCTGATCCCTCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTTCAGCAAAATCCATAAATGACCTTGCTCCACCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGgtgaagaatgaactgttttataccttcaattgcgaaccttcatgcacgtgtgtatgcgtaacttgaaattgggagagggtgcaaggcctatagagctaacc Alignment from Exonerate_coding2genome AGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAG gtgggtctggtttcaagcacttatctctacactttaacttaattcttaagAGGAAGAAATCCATACCATCGACCTGATCCCTCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTTCAGCAAAATCCATAAATGACCTTGCTCCACCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGgtgaagaatgaactgttttataccttcaattgcgaaccttcatgcacgtgtgtatgcgtaacttgaaattgggagagggtgcaaggcctatagagctaacc Alignment from GeneWise AGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTG------AAGAACCAGGG gtgggtctggtttcaagcacttatctctacactttaacttaattcttaagAGGAAGAAATCCATACCATCGACCTGATCCCTCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTTCAGCAAAATCCATAAATGACCTTGCTCCACCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAGGTGAAGAATGAACTgttttataccttcaattgcgaaccttcatgcacgtgtgtatgcgtaacttgaaattgggagagggtgcaaggcctatagagctaacc #### Ctsf_ID680_8 --> 0 - 1 Original Alignment GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAG---------------------------g cctcagagaaccctaatagagcactctgcccctacccccccgtgcctcagGGCAGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGG---TTGATCCGAGGAACTCTGCTTTCCCTGTCAGAACAGCCCTATGTGCCGGTGTGGCTGATGTATggtaagtatcctgatccattctgtttttatcagacaaacccctccataggg Alignment from CESAR GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAG---------------------------g cctcagagaaccctaatagagcactctgcccctacccccccgtgcctcagGGCAGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGG---TTGATCCGAGGAACTCTGCTTTCCCTGTCAGAACAGCCCTATGTGCCGGTGTGGCTGATGTATggtaagtatcctgatccattctgtttttatcagacaaacccctccataggg Alignment from Spaln_aa2Genome GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGGAG--- cctcagagaaccctaatagagcactctgcccctacccccccgtgcctcagGGCAGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGGTTGATC---CGAGGAACTCTGCTTTCCCTGTCAGAACAGCCCTATgtgccggtgtggctgatgtatggtaagtatcctgatccattctgtttttatcagacaaacccctccataggg Alignment from Spaln_nt2Genome GGCA---TGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG----- cctcagagaaccctaatagagcactctgcccctacccccccgtgcctcagGGCAGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGGTT---GATCCGAGGAACTCTGCTTTCCCTGTCAGAACAGCCCTATgtgccggtgtggctgatgtatggtaagtatcctgatccattctgtttttatcagacaaacccctccataggg Alignment from Pairagon GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAG---------------------------G cctcagagaaccctaatagagcactctgcccctacccccccgtgcctcagGGCAGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGGT---TGATCCGAGGAACTCTGCTTTCCCTGTCAGAACAGCCCTATGTGCCGGTGTGGCTGATGTATGgtaagtatcctgatccattctgtttttatcagacaaacccctccataggg Alignment from Exonerate_protein2genome TGAAGAACCAGGGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGGAGC cctcagagaaccctaatagagcactctgcccctacccccccgTGCCTCAGGGCAGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGGTTGATC---CGAGGAACTCTGCTTTCCCTGTCAGAACAGCCCTatgtgccggtgtggctgatgtatggtaagtatcctgatccattctgtttttatcagacaaacccctccataggg Alignment from Exonerate_coding2genome TGAAGAACCAGGGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGGAGC cctcagagaaccctaatagagcactctgcccctacccccccgTGCCTCAGGGCAGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGGTTGATC---CGAGGAACTCTGCTTTCCCTGTCAGAACAGCCCTatgtgccggtgtggctgatgtatggtaagtatcctgatccattctgtttttatcagacaaacccctccataggg Alignment from GeneWise GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGGAGCTC cctcagagaaccctaatagagcactctgcccctacccccccgtgcctcagGGCAGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGGTTGATC---CGAGGAACTCTGCTTTCCCTGTCAGAACAGCCCTATgtgccggtgtggctgatgtatggtaagtatcctgatccattctgtttttatcagacaaacccctccataggg #### Ctsf_ID682_10 --> 2 - 1 Original Alignment gaGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATa gtgggagagcttctgtagcaggtcatcacaactttggctgtttatttaaggaGGTCTGGAGACAGAGGACGACTACGGCTATCAGGGCCATGTTCAGACCTGTAACTTCTCGGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGTCAAAAT------agtgagtcttcgggagggctgccctaggcgactcagggttaacacaacttt Alignment from CESAR gaGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATa gtgggagagcttctgtagcaggtcatcacaactttggctgtttatttaaggaGGTCTGGAGACAGAGGACGACTACGGCTATCAGGGCCATGTTCAGACCTGTAACTTCTCGGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGTCAA------AATagtgagtcttcgggagggctgccctaggcgactcagggttaacacgcctac Alignment from Spaln_aa2Genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gtgggagagcttctgtagcaggtcatcacaactttggctgtttatttaagGAGGTCTGGAGACAGAGGACGACTACGGCTATCAGGGCCATGTTCAGACCTGTAACTTCTCGGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGTCAA------AATAgtgagtcttcgggagggctgccctaggcgactcagggttaacacaacttt Alignment from Spaln_nt2Genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gtgggagagcttctgtagcaggtcatcacaactttggctgtttatttaagGAGGTCTGGAGACAGAGGACGACTACGGCTATCAGGGCCATGTTCAGACCTGTAACTTCTCGGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAG------TCAAAATAgtgagtcttcgggagggctgccctaggcgactcagggttaacacaacttt Alignment from Pairagon GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA gtgggagagcttctgtagcaggtcatcacaactttggctgtttatttaagGAGGTCTGGAGACAGAGGACGACTACGGCTATCAGGGCCATGTTCAGACCTGTAACTTCTCGGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGTC------AAAATAgtgagtcttcgggagggctgccctaggcgactcagggttaacacaacttt Alignment from Exonerate_protein2genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATG gtgggagagcttctgtagcaggtcatcacaactttggctgtttatttaagGAGGTCTGGAGACAGAGGACGACTACGGCTATCAGGGCCATGTTCAGACCTGTAACTTCTCGGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGTCAAAATAgtgagtcttcgggagggctgccctaggcgactcagggttaacacaacttt Alignment from Exonerate_coding2genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATG gtgggagagcttctgtagcaggtcatcacaactttggctgtttatttaagGAGGTCTGGAGACAGAGGACGACTACGGCTATCAGGGCCATGTTCAGACCTGTAACTTCTCGGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGTCAAAATAgtgagtcttcgggagggctgccctaggcgactcagggttaacacaacttt Alignment from GeneWise GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATAAGAT gtgggagagcttctgtagcaggtcatcacaactttggctgtttatttaagGAGGTCTGGAGACAGAGGACGACTACGGCTATCAGGGCCATGTTCAGACCTGTAACTTCTCGGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGT------CAAAATAGTGAgtcttcgggagggctgccctaggcgactcagggttaacacaacttt #### Cyp26a1_ID7414_2 --> 0 - 0 Original Alignment ------------------------CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG accatggccacttccatgataaagtcacttctcacctatcctaaccacagATGACTCTGTTCGGCCTCTGCTGCCGCAGGAAGTTTCTTCAGATGAAGCACAGGAAATATGGCTTCATCTACAAGACACATCTGTTTGGCCGGCCAACGGTGCGGGTGATGGGTACAGATAATGTTCGTCGTATTTTGTTGGGGGAGCACCGGTTGGTGTCAGTGCACTGGCCTGCATCAGTGCGCATCATCCTGGGTGCTGGCTGCCTTTCCAACCTGTATGATTCCTCACACAAGAAGCAAAAGAAGgtaaggattggcaggccacttcttcaacagtgtgattgatgctatgcctt Alignment from CESAR ------------------------CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG accatggccacttccatgataaagtcacttctcacctatcctaaccacagATGACTCTGTTCGGCCTCTGCTGCCGCAGGAAGTTTCTTCAGATGAAGCACAGGAAATATGGCTTCATCTACAAGACACATCTGTTTGGCCGGCCAACGGTGCGGGTGATGGGTACAGATAATGTTCGTCGTATTTTGTTGGGGGAGCACCGGTTGGTGTCAGTGCACTGGCCTGCATCAGTGCGCATCATCCTGGGTGCTGGCTGCCTTTCCAACCTGTATGATTCCTCACACAAGAAGCAAAAGAAGgtaaggattggcaggccacttcttcaacagtgtgattgatgctatgcctt Alignment from Spaln_aa2Genome GAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG accatggccacttccatgataaagtcacttctcacctatcctaaccacagatgactctgttcggcctctgctgccgcagGAAGTTTCTTCAGATGAAGCACAGGAAATATGGCTTCATCTACAAGACACATCTGTTTGGCCGGCCAACGGTGCGGGTGATGGGTACAGATAATGTTCGTCGTATTTTGTTGGGGGAGCACCGGTTGGTGTCAGTGCACTGGCCTGCATCAGTGCGCATCATCCTGGGTGCTGGCTGCCTTTCCAACCTGTATGATTCCTCACACAAGAAGCAAAAGAAGgtaaggattggcaggccacttcttcaacagtgtgattgatgctatgcctt Alignment from Spaln_nt2Genome GAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG accatggccacttccatgataaagtcacttctcacctatcctaaccacagatgactctgttcggcctctgctgccgcagGAAGTTTCTTCAGATGAAGCACAGGAAATATGGCTTCATCTACAAGACACATCTGTTTGGCCGGCCAACGGTGCGGGTGATGGGTACAGATAATGTTCGTCGTATTTTGTTGGGGGAGCACCGGTTGGTGTCAGTGCACTGGCCTGCATCAGTGCGCATCATCCTGGGTGCTGGCTGCCTTTCCAACCTGTATGATTCCTCACACAAGAAGCAAAAGAAGgtaaggattggcaggccacttcttcaacagtgtgattgatgctatgcctt Alignment from Pairagon ------------------------CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG accatggccacttccatgataaagtcacttctcacctatcctaaccacagATGACTCTGTTCGGCCTCTGCTGCCGCAGGAAGTTTCTTCAGATGAAGCACAGGAAATATGGCTTCATCTACAAGACACATCTGTTTGGCCGGCCAACGGTGCGGGTGATGGGTACAGATAATGTTCGTCGTATTTTGTTGGGGGAGCACCGGTTGGTGTCAGTGCACTGGCCTGCATCAGTGCGCATCATCCTGGGTGCTGGCTGCCTTTCCAACCTGTATGATTCCTCACACAAGAAGCAAAAGAAGgtaaggattggcaggccacttcttcaacagtgtgattgatgctatgcctt Alignment from Exonerate_protein2genome CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG accatggccacttccatgataaagtcacttctcacctatcctaaccacagatgactctgttcggcctctgctgcCGCAGGAAGTTTCTTCAGATGAAGCACAGGAAATATGGCTTCATCTACAAGACACATCTGTTTGGCCGGCCAACGGTGCGGGTGATGGGTACAGATAATGTTCGTCGTATTTTGTTGGGGGAGCACCGGTTGGTGTCAGTGCACTGGCCTGCATCAGTGCGCATCATCCTGGGTGCTGGCTGCCTTTCCAACCTGTATGATTCCTCACACAAGAAGCAAAAGAAGgtaaggattggcaggccacttcttcaacagtgtgattgatgctatgcctt Alignment from Exonerate_coding2genome CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG accatggccacttccatgataaagtcacttctcacctatcctaaccacagatgactctgttcggcctctgctgcCGCAGGAAGTTTCTTCAGATGAAGCACAGGAAATATGGCTTCATCTACAAGACACATCTGTTTGGCCGGCCAACGGTGCGGGTGATGGGTACAGATAATGTTCGTCGTATTTTGTTGGGGGAGCACCGGTTGGTGTCAGTGCACTGGCCTGCATCAGTGCGCATCATCCTGGGTGCTGGCTGCCTTTCCAACCTGTATGATTCCTCACACAAGAAGCAAAAGAAGgtaaggattggcaggccacttcttcaacagtgtgattgatgctatgcctt Alignment from GeneWise ------------------------CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG accatggccacttccatgataaagtcacttctcacctatcctaaccacagATGACTCTGTTCGGCCTCTGCTGCCGCAGGAAGTTTCTTCAGATGAAGCACAGGAAATATGGCTTCATCTACAAGACACATCTGTTTGGCCGGCCAACGGTGCGGGTGATGGGTACAGATAATGTTCGTCGTATTTTGTTGGGGGAGCACCGGTTGGTGTCAGTGCACTGGCCTGCATCAGTGCGCATCATCCTGGGTGCTGGCTGCCTTTCCAACCTGTATGATTCCTCACACAAGAAGCAAAAGAAGgtaaggattggcaggccacttcttcaacagtgtgattgatgctatgcctt #### Cyp26a1_ID7415_3 --> 0 - 0 Original Alignment ---GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcaagcacagatataggccaataagtagggacacggcccgtctcttccagTTCGTTATAATGCAGGCATTCAGTCGGGAAGCACTCCAGTGTTATGTCCCTGTCATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGTGAACATGGCCTCCTGGCCTACCCTGAGGTGAAGCGCCTCATGTTCCACATTGCCATGCGAATCTTGCTAGGCTGTGAGCAAGGCTCAGCAGGCAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCATTCGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGCGGTTTGTACCGTgtaagtcataatgttgtggatgcttttgcagGGTGTT---ACACGCAACA Alignment from CESAR ---GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcaagcacagatataggccaataagtagggacacggcccgtctcttccagTTCGTTATAATGCAGGCATTCAGTCGGGAAGCACTCCAGTGTTATGTCCCTGTCATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGTGAACATGGCCTCCTGGCCTACCCTGAGGTGAAGCGCCTCATGTTCCACATTGCCATGCGAATCTTGCTAGGCTGTGAGCAAGGCTCAGCAGGCAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCATTCGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGCGGTTTGTACCGTgtaagtcatttcaaccttcgacctgacacagGGTGTT---ACACGCAACA Alignment from Spaln_aa2Genome ---GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcaagcacagatataggccaataagtagggacacggcccgtctcttccagTTCGTTATAATGCAGGCATTCAGTCGGGAAGCACTCCAGTGTTATGTCCCTGTCATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGTGAACATGGCCTCCTGGCCTACCCTGAGGTGAAGCGCCTCATGTTCCACATTGCCATGCGAATCTTGCTAGGCTGTGAGCAAGGCTCAGCAGGCAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCATTCGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGCGGTTTGTACCGTgtaagtcataatgttgtggatgcttttgcagGGTGTT---ACACGCAACA Alignment from Spaln_nt2Genome GTGATTATGCAGGCCTT---CAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG-------------------------------GGCGTGAAGGCGCGGAACC tcaagcacagatataggccaataagtagggacacggcccgtctcttccagTTCGTTATAATGCAGGCATTCAGTCGGGAAGCACTCCAGTGTTATGTCCCTGTCATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGTGAACATGGCCTCCTGGCCTACCCTGAGGTGAAGCGCCTCATGTTCCACATTGCCATGCGAATCTTGCTAGGCTGTGAGCAAGGCTCAGCAGGCAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCATTCGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGCGGTTTGTACCGTGTAAGTCATAATGTTGTGGATGCTTTTGCAGGGTGTTA---CACGCAACA Alignment from Pairagon ---GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcaagcacagatataggccaataagtagggacacggcccgtctcttccagTTCGTTATAATGCAGGCATTCAGTCGGGAAGCACTCCAGTGTTATGTCCCTGTCATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGTGAACATGGCCTCCTGGCCTACCCTGAGGTGAAGCGCCTCATGTTCCACATTGCCATGCGAATCTTGCTAGGCTGTGAGCAAGGCTCAGCAGGCAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCATTCGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGCGGTTTGTACCGTgtaagtcataatgttgtggatgcttttgcagGGTGTTA---CACGCAACA Alignment from Exonerate_protein2genome ---GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcaagcacagatataggccaataagtagggacacggcccgtctcttccagTTCGTTATAATGCAGGCATTCAGTCGGGAAGCACTCCAGTGTTATGTCCCTGTCATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGTGAACATGGCCTCCTGGCCTACCCTGAGGTGAAGCGCCTCATGTTCCACATTGCCATGCGAATCTTGCTAGGCTGTGAGCAAGGCTCAGCAGGCAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCATTCGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGCGGTTTGTACCGTgtaagtcataatgttgtggatgcttttgcagGGTGTT---ACACGCAACA Alignment from Exonerate_coding2genome ---GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcaagcacagatataggccaataagtagggacacggcccgtctcttccagTTCGTTATAATGCAGGCATTCAGTCGGGAAGCACTCCAGTGTTATGTCCCTGTCATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGTGAACATGGCCTCCTGGCCTACCCTGAGGTGAAGCGCCTCATGTTCCACATTGCCATGCGAATCTTGCTAGGCTGTGAGCAAGGCTCAGCAGGCAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCATTCGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGCGGTTTGTACCGTgtaagtcataatgttgtggatgcttttgcagGGTGTT---ACACGCAACA Alignment from GeneWise ---GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACC tcaagcacagatataggccaataagtagggacacggcccgtctcttccagTTCGTTATAATGCAGGCATTCAGTCGGGAAGCACTCCAGTGTTATGTCCCTGTCATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGTGAACATGGCCTCCTGGCCTACCCTGAGGTGAAGCGCCTCATGTTCCACATTGCCATGCGAATCTTGCTAGGCTGTGAGCAAGGCTCAGCAGGCAGTGGGGAGGATGAACAGCAGCTAGTGGAGTCATTCGAGGAAATGACCCGCAATCTCTTCTCCCTTCCCATTGATGTCCCATTCAGCGGTTTGTACCGTgtaagtcataatgttgtggatgcttttgcagGGTGTT---ACACGCAACA #### Cyp26a1_ID7418_6 --> 0 - 0 Original Alignment GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT--- atgcttcagggtttgttacacttgcgaatgccgctttgtatactttccagGGCTTACTTTGCAAGAGCAATCAGGATAACAAGTTGGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACATTTGGGCTGAATTTCgtaagagcactccttgtccactggacatagcccttgctcttgcacactat Alignment from CESAR GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT--- atgcttcagggtttgttacacttgcgaatgccgctttgtatactttccagGGCTTACTTTGCAAGAGCAATCAGGATAACAAGTTGGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACATTTGGGCTGAATTTCgtaagagcactccttgtccactggacatagcccttgctcttgcacactat Alignment from Spaln_aa2Genome GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT--- atgcttcagggtttgttacacttgcgaatgccgctttgtatactttccagGGCTTACTTTGCAAGAGCAATCAGGATAACAAGTTGGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACATTTGGGCTGAATTTCgtaagagcactccttgtccactggacatagcccttgctcttgcacactat Alignment from Spaln_nt2Genome GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT--- atgcttcagggtttgttacacttgcgaatgccgctttgtatactttccagGGCTTACTTTGCAAGAGCAATCAGGATAACAAGTTGGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACATTTGGGCTGAATTTCgtaagagcactccttgtccactggacatagcccttgctcttgcacactat Alignment from Pairagon GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT--- atgcttcagggtttgttacacttgcgaatgccgctttgtatactttccagGGCTTACTTTGCAAGAGCAATCAGGATAACAAGTTGGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACATTTGGGCTGAATTTCgtaagagcactccttgtccactggacatagcccttgctcttgcacactat Alignment from Exonerate_protein2genome GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT--- atgcttcagggtttgttacacttgcgaatgccgctttgtatactttccagGGCTTACTTTGCAAGAGCAATCAGGATAACAAGTTGGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACATTTGGGCTGAATTTCgtaagagcactccttgtccactggacatagcccttgctcttgcacactat Alignment from Exonerate_coding2genome GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT--- atgcttcagggtttgttacacttgcgaatgccgctttgtatactttccagGGCTTACTTTGCAAGAGCAATCAGGATAACAAGTTGGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACATTTGGGCTGAATTTCgtaagagcactccttgtccactggacatagcccttgctcttgcacactat Alignment from GeneWise GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAATGGA atgcttcagggtttgttacacttgcgaatgccgctttgtatactttccagGGCTTACTTTGCAAGAGCAATCAGGATAACAAGTTGGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTAATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACATTTGGGCTGAATTTCgtaagagcactccttgtccactggacatagcccttgctcttgcacactat #### Cyp2c50_ID7861_2 --> 0 - 1 Original Alignment TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATG---g ttgaattgcagtcaaatctttctagtcttggcatgctgttctctccccagTTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTATTACAGGGATATGAGGCAGTGAAGGAATCTTTAGTTGACCATGGGGAAGAATTCGCTGGGAGAGAAAGACTACCAGTTTTTGATAAAGCTACCAATGGAATGGTTggtgagaataggtttggaataccagtgagagaatgtgtgagtccatcccag Alignment from CESAR TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATG---g ttgaattgcagtcaaatctttctagtcttggcatgctgttctctccccagTTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTATTACAGGGATATGAGGCAGTGAAGGAATCTTTAGTTGACCATGGGGAAGAATTCGCTGGGAGAGAAAGACTACCAGTTTTTGATAAAGCTACCAATGGAATGGTTggtgagaataggtttggaataccagtgagagaatgtgtgagtccatcccag Alignment from Spaln_aa2Genome TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATG---G ttgaattgcagtcaaatctttctagtcttggcatgctgttctctccccagTTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTATTACAGGGATATGAGGCAGTGAAGGAATCTTTAGTTGACCATGGGGAAGAATTCGCTGGGAGAGAAAGACTACCAGTTTTTGATAAAGCTACCAATGGAATGGTTGgtgagaataggtttggaataccagtgagagaatgtgtgagtccatcccag Alignment from Spaln_nt2Genome TTATCAAAAGTTTATG---GCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG--- ttgaattgcagtcaaatctttctagtcttggcatgctgttctctccccagTTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTATTACAGGGATATGAGGCAGTGAAGGAATCTTTAGTTGACCATGGGGAAGAATTCGCTGGGAGAGAAAGACTACCAGTTTTTGATAAAGCTACCAATGGAATGGTTGgtgagaataggtttggaataccagtgagagaatgtgtgagtccatcccag Alignment from Pairagon TTATCAAAAGTTT---ATGGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG--- ttgaattgcagtcaaatctttctagtcttggcatgctgttctctccccagTTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTATTACAGGGATATGAGGCAGTGAAGGAATCTTTAGTTGACCATGGGGAAGAATTCGCTGGGAGAGAAAGACTACCAGTTTTTGATAAAGCTACCAATGGAATGGTTGgtgagaataggtttggaataccagtgagagaatgtgtgagtccatcccag Alignment from Exonerate_protein2genome TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATG---G ttgaattgcagtcaaatctttctagtcttggcatgctgttctctccccagTTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTATTACAGGGATATGAGGCAGTGAAGGAATCTTTAGTTGACCATGGGGAAGAATTCGCTGGGAGAGAAAGACTACCAGTTTTTGATAAAGCTACCAATGGAATGGTTGgtgagaataggtttggaataccagtgagagaatgtgtgagtccatcccag Alignment from Exonerate_coding2genome TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATG---G ttgaattgcagtcaaatctttctagtcttggcatgctgttctctccccagTTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTATTACAGGGATATGAGGCAGTGAAGGAATCTTTAGTTGACCATGGGGAAGAATTCGCTGGGAGAGAAAGACTACCAGTTTTTGATAAAGCTACCAATGGAATGGTTGgtgagaataggtttggaataccagtgagagaatgtgtgagtccatcccag Alignment from GeneWise TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATG------------------------------------------------------ ttgaattgcagtcaaatctttctagtcttggcatgctgttctctccccagTTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTATTACAGGGATATGAGGCAGTGAAGGAATCTTTAGTTGACCATGGGGAAGAATTCGCTGGGAGAGAAAGACTACCAGTTTTTGATAAAGCTACCAATGGAATGGTTGGTGAGAATAGGTTTGGAATACCAGTGAGAGAATGTGTGAGTCCATCCCAG #### Cyp2c50_ID7862_3 --> 2 - 1 Original Alignment gc---ATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg agtgagagaatgtgtgagtccatcccagactttcattaatgttgtttcaggaCGCATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAGGAAGACCAATggtaagccaggtgcagacccagaacctagtgtgattttaatcaagtttttc Alignment from CESAR gc---ATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg agtgagagaatgtgtgagtccatcccagactttcattaatgttgtttcaggaCGCATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAGGAAGACCAATggtaagccaggtgcagacccagaacctagtgtgattttaatcaagtttttc Alignment from Spaln_aa2Genome GCATTATATTTAGT---AAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agtgagagaatgtgtgagtccatcccagactttcattaatgttgtttcagGACGCATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAGGAAGACCAATGgtaagccaggtgcagacccagaacctagtgtgattttaatcaagtttttc Alignment from Spaln_nt2Genome GCATTATATT---TAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agtgagagaatgtgtgagtccatcccagactttcattaatgttgtttcagGACGCATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAGGAAGACCAATGgtaagccaggtgcagacccagaacctagtgtgattttaatcaagtttttc Alignment from Pairagon ---GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agtgagagaatgtgtgagtccatcccagactttcattaatgttgtttcagGACGCATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAGGAAGACCAATGgtaagccaggtgcagacccagaacctagtgtgattttaatcaagtttttc Alignment from Exonerate_protein2genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agtgagagaatgtgtgagtccatcccagactttcattaatgttgtttcaggacGCATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAGGAAGACCAATGgtaagccaggtgcagacccagaacctagtgtgattttaatcaagtttttc Alignment from Exonerate_coding2genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agtgagagaatgtgtgagtccatcccagactttcattaatgttgtttcaggacGCATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAGGAAGACCAATGgtaagccaggtgcagacccagaacctagtgtgattttaatcaagtttttc Alignment from GeneWise -------------------------------------------------------ATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG AGTGAGAGAATGTGTGAGTCCATCCCAGACTTTCATTAATGTTGTTTCAGGACGCATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAGGAAGACCAATGgtaagccaggtgcagacccagaacctagtgtgattttaatcaagtttttc #### Cyp2c54_ID7855_3 --> 2 - 1 Original Alignment gc---------ATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg ctgctgttacaccaaggttgttcctgtagctgttgtctttttgattataggcCCATTGGAAATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAGCTGAGAAAGACTAATggtgtgtaaaataaaagggaggtagccaactaggtcttgcaaatcctgtct Alignment from CESAR gc---------ATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg ctgctgttacaccaaggttgttcctgtagctgttgtctttttgattataggcCCATTGGAAATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAGCTGAGAAAGACTAATggtgtgtaaaataaaagggaggtagccaactaggtcttgcaaatcctgtct Alignment from Spaln_aa2Genome GCATTGGATTT---------AGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgttacaccaaggttgttcctgtagctgttgtctttttgattatagGCCCATTGGAAATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAGCTGAGAAAGACTAATGgtgtgtaaaataaaagggaggtagccaactaggtcttgcaaatcctgtct Alignment from Spaln_nt2Genome GCATTGGATTTA---------GTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgttacaccaaggttgttcctgtagctgttgtctttttgattatagGCCCATTGGAAATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAGCTGAGAAAGACTAATGgtgtgtaaaataaaagggaggtagccaactaggtcttgcaaatcctgtct Alignment from Pairagon GC---------ATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgttacaccaaggttgttcctgtagctgttgtctttttgattatagGCCCATTGGAAATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAGCTGAGAAAGACTAATGgtgtgtaaaataaaagggaggtagccaactaggtcttgcaaatcctgtct Alignment from Exonerate_protein2genome GCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgttacaccaaggttgttcctgtagctgttgtctttttgattataggcccattggAAATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAGCTGAGAAAGACTAATGgtgtgtaaaataaaagggaggtagccaactaggtcttgcaaatcctgtct Alignment from Exonerate_coding2genome GCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgttacaccaaggttgttcctgtagctgttgtctttttgattataggcccattggAAATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAGCTGAGAAAGACTAATGgtgtgtaaaataaaagggaggtagccaactaggtcttgcaaatcctgtct Alignment from GeneWise --------GGCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgttacaccaaggttgttcctgtagctgttgtctttttgattatagGCCCATTGGAAATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAGCTGAGAAAGACTAATGgtgtgtaaaataaaagggaggtagccaactaggtcttgcaaatcctgtct #### Cyp2c54_ID7856_2 --> 0 - 1 Original Alignment TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg tgacaaccaggggtggtgacttcacattgtttctcatttatcccttgcagTTATCACGAGTTTATGGTCCAGTGTATACTTCATATCTGGGGAGGAAGCCAACTGTTGTGTTACATGGATATGAGGCAGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTTGCCGGAAGGGGAAGTCTCCCAGTTTTTGATAAAGCTACTAATGGA---ggttcagagttttgtgttgtgtagtatgcattgttgcagtacagtgagagc Alignment from CESAR TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg tgacaaccaggggtggtgacttcacattgtttctcatttatcccttgcagTTATCACGAGTTTATGGTCCAGTGTATACTTCATATCTGGGGAGGAAGCCAACTGTTGTGTTACATGGATATGAGGCAGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTTGCCGGAAGGGGAAGTCTCCCAGTTTTTGATAAAGCTACTAATGGA---ggttcagagttttgtgttgtgtagtatgcattgttgcagtacagtgagagc Alignment from Spaln_aa2Genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGA- tgacaaccaggggtggtgacttcacattgtttctcatttatcccttgcagTTATCACGAGTTTATGGTCCAGTGTATACTTCATATCTGGGGAGGAAGCCAACTGTTGTGTTACATGGATATGAGGCAGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTTGCCGGAAGGGGAAGTCTCCCAGTTTTTGATAAAGCTACTAATGGAGgttcagagttttgtgttgtgtagtatgcattgttgcagtacagtgagagc Alignment from Spaln_nt2Genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGA---AGGAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAAT----GG tgacaaccaggggtggtgacttcacattgtttctcatttatcccttgcagTTATCACGAGTTTATGGTCCAGTGTATACTTCATATCTGGGGAGGAAGCCAACTGTTGTGTTACATGGATATGAGGCAGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTTGCCGGAAGGGGAAGTCTCCCAGTTTTTGATAAAGCTACTAATGGAGGTTCAGAgttttgtgttgtgtagtatgcattgttgcagtacagtgagagc Alignment from Pairagon TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGA---AGGAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGG---------------------------------------------------- tgacaaccaggggtggtgacttcacattgtttctcatttatcccttgcagTTATCACGAGTTTATGGTCCAGTGTATACTTCATATCTGGGGAGGAAGCCAACTGTTGTGTTACATGGATATGAGGCAGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTTGCCGGAAGGGGAAGTCTCCCAGTTTTTGATAAAGCTACTAATGGAGGTTCAGAGTTTTGTGTTGTGTAGTATGCATTGTTGCAGTACAGTGAGAGC Alignment from Exonerate_protein2genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAA tgacaaccaggggtggtgacttcacattgtttctcatttatcccttgcagTTATCACGAGTTTATGGTCCAGTGTATACTTCATATCTGGGGAGGAAGCCAACTGTTGTGTTACATGGATATGAGGCAGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTTGCCGGAAGGGGAAGTCTCCCAGTTTTTGATAAAGCTACTAATGGAGgttcagagttttgtgttgtgtagtatgcattgttgcagtacagtgagagc Alignment from Exonerate_coding2genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAA tgacaaccaggggtggtgacttcacattgtttctcatttatcccttgcagTTATCACGAGTTTATGGTCCAGTGTATACTTCATATCTGGGGAGGAAGCCAACTGTTGTGTTACATGGATATGAGGCAGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTTGCCGGAAGGGGAAGTCTCCCAGTTTTTGATAAAGCTACTAATGGAGgttcagagttttgtgttgtgtagtatgcattgttgcagtacagtgagagc Alignment from GeneWise TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAA tgacaaccaggggtggtgacttcacattgtttctcatttatcccttgcagTTATCACGAGTTTATGGTCCAGTGTATACTTCATATCTGGGGAGGAAGCCAACTGTTGTGTTACATGGATATGAGGCAGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTTGCCGGAAGGGGAAGTCTCCCAGTTTTTGATAAAGCTACTAATGGAGgttcagagttttgtgttgtgtagtatgcattgttgcagtacagtgagagc #### D19Ertd737e_ID13192_2 --> 0 - 1 Original Alignment ---AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAg atgcccaacttatgcctacgtgtacacatgctctctgctaacccgtccagGATAAATTTCAAGAATTACATAAAAAAAATTCTGAACAGAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCCAAAAAGggtaggaaaacttaagtcctgaaatctagcttggggatgttggcttacttc Alignment from CESAR ---AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAg atgcccaacttatgcctacgtgtacacatgctctctgctaacccgtccagGATAAATTTCAAGAATTACATAAAAAAAATTCTGAACAGAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCCAAAAAGggtaggaaaacttaagtcctgaaatctagcttggggatgttggcttacttc Alignment from Spaln_aa2Genome AAATTTCAA---GAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG atgcccaacttatgcctacgtgtacacatgctctctgctaacccgtccagGATAAATTTCAAGAATTACATAAAAAAAATTCTGAACAGAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCCAAAAAGGgtaggaaaacttaagtcctgaaatctagcttggggatgttggcttacttc Alignment from Spaln_nt2Genome ATAAATTTCAA-GAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG atgcccaacttatgcctacgtgtacacatgctctctgctaacccgtccagGATAAATTTCAAGAATTACATAAAAAAAATTCTGAACAGAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCCAAAAAGGgtaggaaaacttaagtcctgaaatctagcttggggatgttggcttacttc Alignment from Pairagon ---AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG atgcccaacttatgcctacgtgtacacatgctctctgctaacccgtccagGATAAATTTCAAGAATTACATAAAAAAAATTCTGAACAGAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCCAAAAAGGgtaggaaaacttaagtcctgaaatctagcttggggatgttggcttacttc Alignment from Exonerate_protein2genome ---AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG atgcccaacttatgcctacgtgtacacatgctctctgctaacccgtccagGATAAATTTCAAGAATTACATAAAAAAAATTCTGAACAGAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCCAAAAAGGgtaggaaaacttaagtcctgaaatctagcttggggatgttggcttacttc Alignment from Exonerate_coding2genome ---AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAGGCAAATTGAAGAATGAAAAGGAATCTCACAG atgcccaacttatgcctacgtgtacacatgctctctgctaacccgtccagGATAAATTTCAAGAATTACATAAAAAAAATTCTGAACAGAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCCAAAAAGGGTAGGAAAACTTAAGTCCTGAAATCTAGCTTggggatgttggcttacttc Alignment from GeneWise ---AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG atgcccaacttatgcctacgtgtacacatgctctctgctaacccgtccagGATAAATTTCAAGAATTACATAAAAAAAATTCTGAACAGAAGAATTTAACACTAAGATTCAGGCAGAAAAAAAGAAAGAGGTCCAAAAAGGgtaggaaaacttaagtcctgaaatctagcttggggatgttggcttacttc #### Dagla_ID2755_15 --> 1 - 0 Original Alignment gATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA gaataaagatgttaacaaagaaaaacagcgaccccctttctcctctacaggGTTGGCCTTTCCCAACTGGAAGGATTCTGCCGGCAGCTTTTAGATGTCCTGCAACGGAGTACTAAACCC---gtaagaagaactgttcagatctacagcgccagaaaagtcctgtgaatccc Alignment from CESAR gATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA gaataaagatgttaacaaagaaaaacagcgaccccctttctcctctacaggGTTGGCCTTTCCCAACTGGAAGGATTCTGCCGGCAGCTTTTAGATGTCCTGCAACGGAGTACTAAACCC---gtaagaagaactgttcagatctacagcgccagaaaagtcctgtgaat Alignment from Spaln_aa2Genome GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCC gaataaagatgttaacaaagaaaaacagcgaccccctttctcctctacagGGTTGGCCTTTCCCAACTGGAAGGATTCTGCCGGCAGCTTTTAGATGTCCTGCAACGGAGTACTAAACCCgtaagaagaactgttcagatctacagcgccagaaaagtcctgtgaatccc Alignment from Spaln_nt2Genome GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCC gaataaagatgttaacaaagaaaaacagcgaccccctttctcctctacagGGTTGGCCTTTCCCAACTGGAAGGATTCTGCCGGCAGCTTTTAGATGTCCTGCAACGGAGTACTAAACCCgtaagaagaactgttcagatctacagcgccagaaaagtcctgtgaatccc Alignment from Pairagon GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCC gaataaagatgttaacaaagaaaaacagcgaccccctttctcctctacagGGTTGGCCTTTCCCAACTGGAAGGATTCTGCCGGCAGCTTTTAGATGTCCTGCAACGGAGTACTAAACCCgtaagaagaactgttcagatctacagcgccagaaaagtcctgtgaatccc Alignment from Exonerate_protein2genome GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCC gaataaagatgttaacaaagaaaaacagcgaccccctttctcctctacagGGTTGGCCTTTCCCAACTGGAAGGATTCTGCCGGCAGCTTTTAGATGTCCTGCAACGGAGTACTAAACCCgtaagaagaactgttcagatctacagcgccagaaaagtcctgtgaatccc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA--------- gaataaagatgttaacaaagaaaaacagcgaccccctttctcctctacagGGTTGGCCTTTCCCAACTGGAAGGATTCTGCCGGCAGCTTTTAGATGTCCTGCAACGGAGTACTAAACCCGTAAGAAGAACTgttcagatctacagcgccagaaaagtcctgtgaatccc #### Dagla_ID2759_11 --> 0 - 0 Original Alignment GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG acttttgttggactaccacctggtcttcctaatgaagtgtaactgtttag---------ACTGATTTGACAGGTGATGCAGAGCACCTTCCTGCAGAGACACACAGAGGTGCCTGGTTGGGGCACAAAgtgaggggttcactgaggttcccccatctcacaattgctctgatgctgaa Alignment from CESAR GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG tcttggtgtacttttgttggactacttcctaatgaagtgtaactgtttag---------ACTGATTTGACAGGTGATGCAGAGCACCTTCCTGCAGAGACACACAGAGGTGCCTGGTTGGGGCACAAAgtgaggggttcactgaggttcccccatctcacaattgctctgatgctgaa Alignment from Spaln_aa2Genome GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG acttttgttggactaccacctggtcttcctaatgaagtgtaactgtttag---------ACTGATTTGACAGGTGATGCAGAGCACCTTCCTGCAGAGACACACAGAGGTGCCTGGTTGGGGCACAAAgtgaggggttcactgaggttcccccatctcacaattgctctgatgctgaa Alignment from Spaln_nt2Genome GATGCCCT----GACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG acttttgttggactaccacctggtcttcctaatgaagTGTAACTGTTTAGACTGATTTGACAGGTGATGCAGAGCACCTTCCTGCAGAGACACACAGAGGTGCCTGGTTGGGGCACAAAgtgaggggttcactgaggttcccccatctcacaattgctctgatgctgaa Alignment from Pairagon GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG acttttgttggactaccacctggtcttcctaatgaagtgtaactgtttag---------ACTGATTTGACAGGTGATGCAGAGCACCTTCCTGCAGAGACACACAGAGGTGCCTGGTTGGGGCACAAAgtgaggggttcactgaggttcccccatctcacaattgctctgatgctgaa Alignment from Exonerate_protein2genome ----GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG acttttgttggactaccacctggtcttcctaatgaagTGTAACTGTTTAGACTGATTTGACAGGTGATGCAGAGCACCTTCCTGCAGAGACACACAGAGGTGCCTGGTTGGGGCACAAAgtgaggggttcactgaggttcccccatctcacaattgctctgatgctgaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG-------------------------------------------------- acttttgttggactaccacctggtcttcctaatgaagtgtaactgtttagACT---------GATTTGACAGGTGATGCAGAGCACCTTCCTGCAGAGACACACAGAGGTGCCTGGTTGGGGCACAAAGTGAGGGGTTCACTGAGGTTCCCCCATCTCACAATTGCTCTGATGCTGAA #### Dak_ID2899_14 --> 0 - 2 Original Alignment CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAG------aa ttaccacgtggctagttccaatcaattccttataaccttgctcttcctagCTATATGGTTTGTTCCTCACTGCTTCTGCCCAACCTCTCAAAGCTAAGACTGACCTGCCAACCTGGTCTGCTGCTATGGATGCTGGCCTAGAGTCCATGCAGCCCGTTaagtgagtcagtgtccttacctgctaacagcaaaaagtgaggtcgtgccaga Alignment from CESAR CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAG------aa ttaccacgtggctagttccaatcaattccttataaccttgctcttcctagCTATATGGTTTGTTCCTCACTGCTTCTGCCCAACCTCTCAAAGCTAAGACTGACCTGCCAACCTGGTCTGCTGCTATGGATGCTGGCCTAGAGTCCATGCAGCCCGTTaagtgagtcagtgtccttacctgctaacagcaaaaagtgaggtcgtgccaga Alignment from Spaln_aa2Genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAAG----- ttaccacgtggctagttccaatcaattccttataaccttgctcttcctagCTATATGGTTTGTTCCTCACTGCTTCTGCCCAACCTCTCAAAGCTAAGACTGACCTGCCAACCTGGTCTGCTGCTATGGATGCTGGCCTAGAGTCCATGCAGCCCGTTAAgtgagtcagtgtccttacctgctaacagcaaaaagtgaggtcgtgccaga Alignment from Spaln_nt2Genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAG------AA ttaccacgtggctagttccaatcaattccttataaccttgctcttcctagCTATATGGTTTGTTCCTCACTGCTTCTGCCCAACCTCTCAAAGCTAAGACTGACCTGCCAACCTGGTCTGCTGCTATGGATGCTGGCCTAGAGTCCATGCAGCCCGTTAAgtgagtcagtgtccttacctgctaacagcaaaaagtgaggtcgtgccaga Alignment from Pairagon CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAG------AA ttaccacgtggctagttccaatcaattccttataaccttgctcttcctagCTATATGGTTTGTTCCTCACTGCTTCTGCCCAACCTCTCAAAGCTAAGACTGACCTGCCAACCTGGTCTGCTGCTATGGATGCTGGCCTAGAGTCCATGCAGCCCGTTAAgtgagtcagtgtccttacctgctaacagcaaaaagtgaggtcgtgccaga Alignment from Exonerate_protein2genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAG------AA ttaccacgtggctagttccaatcaattccttataaccttgctcttcctagCTATATGGTTTGTTCCTCACTGCTTCTGCCCAACCTCTCAAAGCTAAGACTGACCTGCCAACCTGGTCTGCTGCTATGGATGCTGGCCTAGAGTCCATGCAGCCCGTTAAgtgagtcagtgtccttacctgctaacagcaaaaagtgaggtcgtgccaga Alignment from Exonerate_coding2genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAG------AA ttaccacgtggctagttccaatcaattccttataaccttgctcttcctagCTATATGGTTTGTTCCTCACTGCTTCTGCCCAACCTCTCAAAGCTAAGACTGACCTGCCAACCTGGTCTGCTGCTATGGATGCTGGCCTAGAGTCCATGCAGCCCGTTAAgtgagtcagtgtccttacctgctaacagcaaaaagtgaggtcgtgccaga Alignment from GeneWise CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAAG ttaccacgtggctagttccaatcaattccttataaccttgctcttcctagCTATATGGTTTGTTCCTCACTGCTTCTGCCCAACCTCTCAAAGCTAAGACTGACCTGCCAACCTGGTCTGCTGCTATGGATGCTGGCCTAGAGTCCATGCAGCCCgttaagtgagtcagtgtccttacctgctaacagcaaaaagtgaggtcgtgccaga #### Ddb1_ID2930_15 --> 2 - 1 Original Alignment agATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACA---------g tgatccatcctgatgaccacctagtaagctttctcccttgtttgatgcagagATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAGAATCGGAAggtgggtctgaagattgttttagtgctgggtattttccgtaataaggatcc Alignment from CESAR agATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACA---------g tgatccatcctgatgaccacctagtaagctttctcccttgtttgatgcagagATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAGAATCGGAAggtgggtctgaagattgttttagtgctgggtattttccgtaataaggatcc Alignment from Spaln_aa2Genome AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACA---------G tgatccatcctgatgaccacctagtaagctttctcccttgtttgatgcagAGATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAGAATCGGAAGgtgggtctgaagattgttttagtgctgggtattttccgtaataaggatcc Alignment from Spaln_nt2Genome AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG--------- tgatccatcctgatgaccacctagtaagctttctcccttgtttgatgcagAGATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAGAATCGGAAGgtgggtctgaagattgttttagtgctgggtattttccgtaataaggatcc Alignment from Pairagon AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG--------- tgatccatcctgatgaccacctagtaagctttctcccttgtttgatgcagAGATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAGAATCGGAAGgtgggtctgaagattgttttagtgctgggtattttccgtaataaggatcc Alignment from Exonerate_protein2genome AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG tgatccatcctgatgaccacctagtaagctttctcccttgtttgatgcagAGATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAGaatcggaaggtgggtctgaagattgttttagtgctgggtattttccgtaataaggatcc Alignment from Exonerate_coding2genome AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG tgatccatcctgatgaccacctagtaagctttctcccttgtttgatgcagAGATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAGaatcggaaggtgggtctgaagattgttttagtgctgggtattttccgtaataaggatcc Alignment from GeneWise AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACA---------G tgatccatcctgatgaccacctagtaagctttctcccttgtttgatgcagAGATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATTGAGACAGAATCGGAAGgtgggtctgaagattgttttagtgctgggtattttccgtaataaggatcc #### Ddb1_ID2931_16 --> 2 - 2 Original Alignment gtTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACag gtaagagctttgccctgttttgcttccccttggcctccctgcctccacaggtTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACCGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTAT------aggtaaggtgcctgttcctaagtgtctcaaggaggaggcacatatccttttc Alignment from CESAR gtTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACag gtaagagctttgccctgttttgcttccccttggcctccctgcctccacaggtTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACCGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTAT------aggtaaggtgcctgttcctaagtgtctcaaggaggaggcacatatccttttc Alignment from Spaln_aa2Genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCC gtaagagctttgccctgttttgcttccccttggcctccctgcctccacagGTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACCGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATAGgtaaggtgcctgttcctaagtgtctcaaggaggaggcacatatccttttc Alignment from Spaln_nt2Genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTG gtaagagctttgccctgttttgcttccccttggcctccctgcctccacagGTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACCGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTAT--AGgtaaggtgcctgttcctaagtgtctcaaggaggaggcacatatccttttc Alignment from Pairagon GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaagagctttgccctgttttgcttccccttggcctccctgcctccacagGTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACCGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTAT------AGgtaaggtgcctgttcctaagtgtctcaaggaggaggcacatatccttttc Alignment from Exonerate_protein2genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaagagctttgccctgttttgcttccccttggcctccctgcctccacagGTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACCGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTAT------AGgtaaggtgcctgttcctaagtgtctcaaggaggaggcacatatccttttc Alignment from Exonerate_coding2genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG gtaagagctttgccctgttttgcttccccttggcctccctgcctccacagGTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACCGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTAT------AGgtaaggtgcctgttcctaagtgtctcaaggaggaggcacatatccttttc Alignment from GeneWise GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCC gtaagagctttgccctgttttgcttccccttggcctccctgcctccacagGTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACCGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATAGgtaaggtgcctgttcctaagtgtctcaaggaggaggcacatatccttttc #### Ddb1_ID2935_20 --> 2 - 1 Original Alignment tg---------------CTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATg ggggtggttggaagccagtgtccataaacctctctttcattgcatctcagtgGTGAGACCCCTAAATCTTCACGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAATTGGGTAAAGACCCCAACACTTACTTCATTGTTGGTACAGCAATGGTATATCCAGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCTGATggtgagccaccagtctctggggtattaaagattgaaattctcatagagaca Alignment from CESAR tg---------------CTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATg ggggtggttggaagccagtgtccataaacctctctttcattgcatctcagtgGTGAGACCCCTAAATCTTCACGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAATTGGGTAAAGACCCCAACACTTACTTCATTGTTGGTACAGCAATGGTATATCCAGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCTGATggtgagccaccagtctctggggtattaaagattgaaattctcatagagaca Alignment from Spaln_aa2Genome TG---------------CTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG ggggtggttggaagccagtgtccataaacctctctttcattgcatctcagTGGTGAGACCCCTAAATCTTCACGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAATTGGGTAAAGACCCCAACACTTACTTCATTGTTGGTACAGCAATGGTATATCCAGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCTGATGgtgagccaccagtctctggggtattaaagattgaaattctcatagagaca Alignment from Spaln_nt2Genome TG---------------CTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG ggggtggttggaagccagtgtccataaacctctctttcattgcatctcagTGGTGAGACCCCTAAATCTTCACGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAATTGGGTAAAGACCCCAACACTTACTTCATTGTTGGTACAGCAATGGTATATCCAGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCTGATGgtgagccaccagtctctggggtattaaagattgaaattctcatagagaca Alignment from Pairagon TG---------------CTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG ggggtggttggaagccagtgtccataaacctctctttcattgcatctcagTGGTGAGACCCCTAAATCTTCACGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAATTGGGTAAAGACCCCAACACTTACTTCATTGTTGGTACAGCAATGGTATATCCAGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCTGATGgtgagccaccagtctctggggtattaaagattgaaattctcatagagaca Alignment from Exonerate_protein2genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG ggggtggttggaagccagtgtccataaacctctctttcattgcatctcagtggtgagacccctaaATCTTCACGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAATTGGGTAAAGACCCCAACACTTACTTCATTGTTGGTACAGCAATGGTATATCCAGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCTGATGgtgagccaccagtctctggggtattaaagattgaaattctcatagagaca Alignment from Exonerate_coding2genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG ggggtggttggaagccagtgtccataaacctctctttcattgcatctcagtggtgagacccctaaATCTTCACGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAATTGGGTAAAGACCCCAACACTTACTTCATTGTTGGTACAGCAATGGTATATCCAGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCTGATGgtgagccaccagtctctggggtattaaagattgaaattctcatagagaca Alignment from GeneWise ----------CTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG ggggtggttggaagccagtgtccataaacctctctttcattgcatctcagtggtgagACCCCTAAATCTTCACGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAATTGGGTAAAGACCCCAACACTTACTTCATTGTTGGTACAGCAATGGTATATCCAGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCTGATGgtgagccaccagtctctggggtattaaagattgaaattctcatagagaca #### Ddb1_ID2936_21 --> 2 - 0 Original Alignment gaAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG cacctaaggaaaagcctattaagaaacctctctctcgttttccggctcagga---CTG---ACTGTCACTGATAAGGAAGTAAAAGGAGCTGTGTACTCCATGGTGGAGTTTAATGGGAAATTATTGGCCAGCACCAATAGCACAgtcaggggcaggggtttacatgcttgtggattgattcttctcttctgagc Alignment from CESAR gaAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG aggcacctaaggaaaagcctattaaacctctctctcgttttccggctcagga------CTGACTGTCACTGATAAGGAAGTAAAAGGAGCTGTGTACTCCATGGTGGAGTTTAATGGGAAATTATTGGCCAGCACCAATAGCACAgtcaggggcaggggtttacatgcttgtggattgattcttctcttctgagc Alignment from Spaln_aa2Genome GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG cacctaaggaaaagcctattaagaaacctctctctcgttttccggctcagGA------CTGACTGTCACTGATAAGGAAGTAAAAGGAGCTGTGTACTCCATGGTGGAGTTTAATGGGAAATTATTGGCCAGCACCAATAGCACAgtcaggggcaggggtttacatgcttgtggattgattcttctcttctgagc Alignment from Spaln_nt2Genome TACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG cacctaaggaaaagcctattaagaaacctctctctcgttttccggctcagGACTGACTGTCACTGATAAGGAAGTAAAAGGAGCTGTGTACTCCATGGTGGAGTTTAATGGGAAATTATTGGCCAGCACCAATAGCACAgtcaggggcaggggtttacatgcttgtggattgattcttctcttctgagc Alignment from Pairagon GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG cacctaaggaaaagcctattaagaaacctctctctcgttttccggctcagG------ACTGACTGTCACTGATAAGGAAGTAAAAGGAGCTGTGTACTCCATGGTGGAGTTTAATGGGAAATTATTGGCCAGCACCAATAGCACAgtcaggggcaggggtttacatgcttgtggattgattcttctcttctgagc Alignment from Exonerate_protein2genome GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG cacctaaggaaaagcctattaagaaacctctctctcgttttccgGCTCAGGACTGACTGTCACTGATAAGGAAGTAAAAGGAGCTGTGTACTCCATGGTGGAGTTTAATGGGAAATTATTGGCCAGCACCAATAGCACAgtcaggggcaggggtttacatgcttgtggattgattcttctcttctgagc Alignment from Exonerate_coding2genome GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG cacctaaggaaaagcctattaagaaacctctctctcgttttccgGCTCAGGACTGACTGTCACTGATAAGGAAGTAAAAGGAGCTGTGTACTCCATGGTGGAGTTTAATGGGAAATTATTGGCCAGCACCAATAGCACAgtcaggggcaggggtttacatgcttgtggattgattcttctcttctgagc Alignment from GeneWise GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG cacctaaggaaaagcctattaagaaacctctctctcgttttccggctcagGA------CTGACTGTCACTGATAAGGAAGTAAAAGGAGCTGTGTACTCCATGGTGGAGTTTAATGGGAAATTATTGGCCAGCACCAATAGCACAgtcaggggcaggggtttacatgcttgtggattgattcttctcttctgagc #### Ddb1_ID2939_24 --> 1 - 1 Original Alignment t------------------------GCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAg aagagcctgctagggagaattgctctggtatgaatttaattttatttcagtTTTCACCCCCTTTTCCGGCACATTGCCGCAACCACTGTTGAGGAACGTCAGCATTTACAGGAGATAGTTCTCTTCCACCTAGGTGAGTTTGTCAATGTGTTCTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCGGTGCTTTTTGGCACAGTCAATGTCATGATAggtgagggctcaagctcttatgacatggcttgcttatgccatcgctagtac Alignment from CESAR t------------------------GCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAg aagagcctgctagggagaattgctctggtatgaatttaattttatttcagtTTTCACCCCCTTTTCCGGCACATTGCCGCAACCACTGTTGAGGAACGTCAGCATTTACAGGAGATAGTTCTCTTCCACCTAGGTGAGTTTGTCAATGTGTTCTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCGGTGCTTTTTGGCACAGTCAATGTCATGATAggtgagggctcaagctcttatgacatggcttgcttatgccatcgctagtac Alignment from Spaln_aa2Genome GAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCT---ACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG aagagcctgctagggagaattgctctggtatgaatttaattttatttcagttttcacccccttttccggcacattgccgcaaccactgttgagGAACGTCAGCATTTACAGGAGATAGTTCTCTTCCACCTAGGTGAGTTTGTCAATGTGTTCTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCGGTGCTTTTTGGCACAGTCAATGTCATGATAGgtgagggctcaagctcttatgacatggcttgcttatgccatcgctagtac Alignment from Spaln_nt2Genome TGCTGCCACCACT--GATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG aagagcctgctagggagaattgctctggtatgaatttaattttatttcagttttcacccccttttccggcacATTGCCGCAACCACTGTTGAGGAACGTCAGCATTTACAGGAGATAGTTCTCTTCCACCTAGGTGAGTTTGTCAATGTGTTCTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCGGTGCTTTTTGGCACAGTCAATGTCATGATAGgtgagggctcaagctcttatgacatggcttgcttatgccatcgctagtac Alignment from Pairagon ------------------------TGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG aagagcctgctagggagaattgctctggtatgaatttaattttatttcagTTTTCACCCCCTTTTCCGGCACATTGCCGCAACCACTGTTGAGGAACGTCAGCATTTACAGGAGATAGTTCTCTTCCACCTAGGTGAGTTTGTCAATGTGTTCTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCGGTGCTTTTTGGCACAGTCAATGTCATGATAGgtgagggctcaagctcttatgacatggcttgcttatgccatcgctagtac Alignment from Exonerate_protein2genome TGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCT---ACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG aagagcctgctagggagaattgctctggtatgaatttaattttatttcagttttcacccccttttccggcacatTGCCGCAACCACTGTTGAGGAACGTCAGCATTTACAGGAGATAGTTCTCTTCCACCTAGGTGAGTTTGTCAATGTGTTCTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCGGTGCTTTTTGGCACAGTCAATGTCATGATAGgtgagggctcaagctcttatgacatggcttgcttatgccatcgctagtac Alignment from Exonerate_coding2genome TGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCT---ACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG aagagcctgctagggagaattgctctggtatgaatttaattttatttcagttttcacccccttttccggcacatTGCCGCAACCACTGTTGAGGAACGTCAGCATTTACAGGAGATAGTTCTCTTCCACCTAGGTGAGTTTGTCAATGTGTTCTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCGGTGCTTTTTGGCACAGTCAATGTCATGATAGgtgagggctcaagctcttatgacatggcttgcttatgccatcgctagtac Alignment from GeneWise ----------------------AGTGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG aagagcctgctagggagaattgctctggtatgaatttaattttatttcagTTTTCACCCCCTTTTCCGGCACATTGCCGCAACCACTGTTGAGGAACGTCAGCATTTACAGGAGATAGTTCTCTTCCACCTAGGTGAGTTTGTCAATGTGTTCTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCGGTGCTTTTTGGCACAGTCAATGTCATGATAGgtgagggctcaagctcttatgacatggcttgcttatgccatcgctagtac #### Dkk1_ID6482_3 --> 2 - 1 Original Alignment gaATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAg tcaaaggagcagggaagcaactccccacgtttcacccttgtcatcttcaggtATATGCATGCCCTCTGAGCATAGCCACTTCCCATGCGGGGAAGTTGAAGAAAGAACTATTGAAATGCTTGGTAATGACCACAACGCTGCTGCAGGGGATGGATTTCCCAGAAGGACTGCACTGGCTTCGAAGATTTATCAT------ggtaactggctctaagcaacttaagaacttcacacttaatttacaaaaaca Alignment from CESAR gaATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAg tcaaaggagcagggaagcaactccccacgtttcacccttgtcatcttcaggtATATGCATGCCCTCTGAGCATAGCCACTTCCCATGCGGGGAAGTTGAAGAAAGAACTATTGAAATGCTTGGTAATGACCACAACGCTGCTGCAGGGGATGGATTTCCCAGAAGGACTGCACTGGCTTCGAAGATTTATCAT------ggtaactggctctaagcaacttaagaacttcacacttaatttacaaaaaca Alignment from Spaln_aa2Genome GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCAC- tcaaaggagcagggaagcaactccccacgtttcacccttgtcatcttcagGTATATGCATGCCCTCTGAGCATAGCCACTTCCCATGCGGGGAAGTTGAAGAAAGAACTATTGAAATGCTTGGTAATGACCACAACGCTGCTGCAGGGGATGGATTTCCCAGAAGGACTGCACTGGCTTCGAAGATTTATCATGgtaactggctctaagcaacttaagaacttcacacttaatttacaaaaaca Alignment from Spaln_nt2Genome GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG tcaaaggagcagggaagcaactccccacgtttcacccttgtcatcttcagGTATATGCATGCCCTCTGAGCATAGCCACTTCCCATGCGGGGAAGTTGAAGAAAGAACTATTGAAATGCTTGGTAATGACCACAACGCTGCTGCAGGGGATGGATTTCCCAGAAGGACTGCACTGGCTTCGAAGATTTATC------ATGgtaactggctctaagcaacttaagaacttcacacttaatttacaaaaaca Alignment from Pairagon GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG tcaaaggagcagggaagcaactccccacgtttcacccttgtcatcttcagGTATATGCATGCCCTCTGAGCATAGCCACTTCCCATGCGGGGAAGTTGAAGAAAGAACTATTGAAATGCTTGGTAATGACCACAACGCTGCTGCAGGGGATGGATTTCCCAGAAGGACTGCACTGGCTTCGAAGATTTATCAT------Ggtaactggctctaagcaacttaagaacttcacacttaatttacaaaaaca Alignment from Exonerate_protein2genome GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACA tcaaaggagcagggaagcaactccccacgtttcacccttgtcatcttcagGTATATGCATGCCCTCTGAGCATAGCCACTTCCCATGCGGGGAAGTTGAAGAAAGAACTATTGAAATGCTTGGTAATGACCACAACGCTGCTGCAGGGGATGGATTTCCCAGAAGGACTGCACTGGCTTCGAAGATTTATCATGgtaactggctctaagcaacttaagaacttcacacttaatttacaaaaaca Alignment from Exonerate_coding2genome GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACA tcaaaggagcagggaagcaactccccacgtttcacccttgtcatcttcagGTATATGCATGCCCTCTGAGCATAGCCACTTCCCATGCGGGGAAGTTGAAGAAAGAACTATTGAAATGCTTGGTAATGACCACAACGCTGCTGCAGGGGATGGATTTCCCAGAAGGACTGCACTGGCTTCGAAGATTTATCATGgtaactggctctaagcaacttaagaacttcacacttaatttacaaaaaca Alignment from GeneWise GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACA tcaaaggagcagggaagcaactccccacgtttcacccttgtcatcttcagGTATATGCATGCCCTCTGAGCATAGCCACTTCCCATGCGGGGAAGTTGAAGAAAGAACTATTGAAATGCTTGGTAATGACCACAACGCTGCTGCAGGGGATGGATTTCCCAGAAGGACTGCACTGGCTTCGAAGATTTATCATGgtaactggctctaagcaacttaagaacttcacacttaatttacaaaaaca #### Dkk1_ID6483_2 --> 0 - 1 Original Alignment CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATg aaagttggcaactagcctgatctagctgaaatttacatatttttttacagCCCTTCCCTTGTGTTGTAGATGAGGAGTGTGGTTCGGATAAATATTGTTCCAGCCCCAGCTGTGGAGCAGCT---GTTGAAGGTGTTCAGATCTGCTTGGCTTGCCGAAGGCATAGGAAGTGTTGTGTAAGGCATACTATGTGCTGCCCTGGGAACCACTGCAAG---cgtatccagaatgccccagtacctgtcttttatttaacaagttctacctag Alignment from CESAR CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATg aaagttggcaactagcctgatctagctgaaatttacatatttttttacagCCCTTCCCTTGTGTTGTAGATGAGGAGTGTGGTTCGGATAAATATTGTTCCAGCCCCAGCTGTGGAGCAGCT---GTTGAAGGTGTTCAGATCTGCTTGGCTTGCCGAAGGCATAGGAAGTGTTGTGTAAGGCATACTATGTGCTGCCCTGGGAACCACTGCAAG---cgtatccagaatgccccagtacctgtcttttatttaacaagttctacctag Alignment from Spaln_aa2Genome CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAA- aaagttggcaactagcctgatctagctgaaatttacatatttttttacagCCCTTCCCTTGTGTTGTAGATGAGGAGTGTGGTTCGGATAAATATTGTTCCAGCCCCAGCTGTGGAGCAGCT---GTTGAAGGTGTTCAGATCTGCTTGGCTTGCCGAAGGCATAGGAAGTGTTGTGTAAGGCATACTATGTGCTGCCCTGGGAACCACTGCAAGCgtatccagaatgccccagtacctgtcttttatttaacaagttctacctag Alignment from Spaln_nt2Genome CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAA aaagttggcaactagcctgatctagctgaaatttacatatttttttacagCCCTTCCCTTGTGTTGTAGATGAGGAGTGTGGTTCGGATAAATATTGTTCCAGCCCCAGCTGTGGAGCAGC---TGTTGAAGGTGTTCAGATCTGCTTGGCTTGCCGAAGGCATAGGAAGTGTTGTGTAAGGCATACTATGTGCTGCCCTGGGAACCACTGCAAGCgtatccagaatgccccagtacctgtcttttatttaacaagttctacctag Alignment from Pairagon CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAA aaagttggcaactagcctgatctagctgaaatttacatatttttttacagCCCTTCCCTTGTGTTGTAGATGAGGAGTGTGGTTCGGATAAATATTGTTCCAGCCCCAGCTGTGGAGCAGC---TGTTGAAGGTGTTCAGATCTGCTTGGCTTGCCGAAGGCATAGGAAGTGTTGTGTAAGGCATACTATGTGCTGCCCTGGGAACCACTGCAAgcgtatccagaatgccccagtacctgtcttttatttaacaagttctacctag Alignment from Exonerate_protein2genome CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG aaagttggcaactagcctgatctagctgaaatttacatatttttttacagCCCTTCCCTTGTGTTGTAGATGAGGAGTGTGGTTCGGATAAATATTGTTCCAGCCCCAGCTGTGGAGCAGCT---GTTGAAGGTGTTCAGATCTGCTTGGCTTGCCGAAGGCATAGGAAGTGTTGTGTAAGGCATACTATGTGCTGCCCTGGGAACCACTGCAAGCGTAtccagaatgccccagtacctgtcttttatttaacaagttctacctag Alignment from Exonerate_coding2genome CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG aaagttggcaactagcctgatctagctgaaatttacatatttttttacagCCCTTCCCTTGTGTTGTAGATGAGGAGTGTGGTTCGGATAAATATTGTTCCAGCCCCAGCTGTGGAGCAGCT---GTTGAAGGTGTTCAGATCTGCTTGGCTTGCCGAAGGCATAGGAAGTGTTGTGTAAGGCATACTATGTGCTGCCCTGGGAACCACTGCAAGCGTAtccagaatgccccagtacctgtcttttatttaacaagttctacctag Alignment from GeneWise CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAA aaagttggcaactagcctgatctagctgaaatttacatatttttttacagCCCTTCCCTTGTGTTGTAGATGAGGAGTGTGGTTCGGATAAATATTGTTCCAGCCCCAGCTGTGGAGCAGCT---GTTGAAGGTGTTCAGATCTGCTTGGCTTGCCGAAGGCATAGGAAGTGTTGTGTAAGGCATACTATGTGCTGCCCTGGGAACCACTGCAAGCgtatccagaatgccccagtacctgtcttttatttaacaagttctacctag #### Dnajc4_ID1965_3 --> 0 - 2 Original Alignment ---CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACag ggcagcactatgttcatttgagtcatatcagcatttcttttcgtctgaagTTTCTGCGCCCTGATCGGGATTTGGGTAATCCAGCCCTGCATAGCCGCTTTGTGGAACTGAATGAG------CGTGTCCTCAGCCATGAAGAAAGCCGTCGTAACTATGACCACCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATAAACAACACACCCACaggtaagttacaaaaggcacaacatgagtttgttctcatctaggtagtaggc Alignment from CESAR ---CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACag ggcagcactatgttcatttgagtcatatcagcatttcttttcgtctgaagTTTCTGCGCCCTGATCGGGATTTGGGTAATCCAGCCCTGCATAGCCGCTTTGTGGAACTGAATGAG------CGTGTCCTCAGCCATGAAGAAAGCCGTCGTAACTATGACCACCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATAAACAACACACCCACaggtaagttacaaaaggcacaacatgagtttgttctcatctaggtagtaggc Alignment from Spaln_aa2Genome ---CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG ggcagcactatgttcatttgagtcatatcagcatttcttttcgtctgaagTTTCTGCGCCCTGATCGGGATTTGGGTAATCCAGCCCTGCATAGCCGCTTTGTGGAACTGAATGAG------CGTGTCCTCAGCCATGAAGAAAGCCGTCGTAACTATGACCACCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATAAACAACACACCCACAGgtaagttacaaaaggcacaacatgagtttgttctcatctaggtagtaggc Alignment from Spaln_nt2Genome ---CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG ggcagcactatgttcatttgagtcatatcagcatttcttttcgtctgaagTTTCTGCGCCCTGATCGGGATTTGGGTAATCCAGCCCTGCATAGCCGCTTTGTGGAACTGAATGAG------CGTGTCCTCAGCCATGAAGAAAGCCGTCGTAACTATGACCACCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATAAACAACACACCCACAGgtaagttacaaaaggcacaacatgagtttgttctcatctaggtagtaggc Alignment from Pairagon ---CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG ggcagcactatgttcatttgagtcatatcagcatttcttttcgtctgaagTTTCTGCGCCCTGATCGGGATTTGGGTAATCCAGCCCTGCATAGCCGCTTTGTGGAACTGAATGAG------CGTGTCCTCAGCCATGAAGAAAGCCGTCGTAACTATGACCACCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATAAACAACACACCCACAGgtaagttacaaaaggcacaacatgagtttgttctcatctaggtagtaggc Alignment from Exonerate_protein2genome ---CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG ggcagcactatgttcatttgagtcatatcagcatttcttttcgtctgaagTTTCTGCGCCCTGATCGGGATTTGGGTAATCCAGCCCTGCATAGCCGCTTTGTGGAACTGAATGAG------CGTGTCCTCAGCCATGAAGAAAGCCGTCGTAACTATGACCACCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATAAACAACACACCCACAGgtaagttacaaaaggcacaacatgagtttgttctcatctaggtagtaggc Alignment from Exonerate_coding2genome ---CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG ggcagcactatgttcatttgagtcatatcagcatttcttttcgtctgaagTTTCTGCGCCCTGATCGGGATTTGGGTAATCCAGCCCTGCATAGCCGCTTTGTGGAACTGAATGAG------CGTGTCCTCAGCCATGAAGAAAGCCGTCGTAACTATGACCACCAGCTGCATCCAGCC---------------TCTGGCAGCACTGCTGAGCCTAAGTATAAACAACACACCCACAGgtaagttacaaaaggcacaacatgagtttgttctcatctaggtagtaggc Alignment from GeneWise ---CTACACCCTGATCGAGACCCTGGGAACCCAGCCCTGCATAGCCGCTTTGTGGAGCTGAATGAGGCATATCGAGTGCTCAGTCGTGAGGAAAGTCGTCGTAACTATGACCACCAGCTGCATTCAGCCAGTCCTCCAAAGTCTTCAGGGAGCACAGCCGAGCCTAAGTATACGCAACAGACACACAG ggcagcactatgttcatttgagtcatatcagcatttcttttcgtctgaagTTTCTGCGCCCTGATCGGGATTTGGGTAATCCAGCCCTGCATAGCCGCTTTGTGGAACTGAATGAG------CGTGTCCTCAGCCATGAAGAAAGCCGTCGTAACTATGACCACCAGCTGCATCCAGCCTCT---------------GGCAGCACTGCTGAGCCTAAGTATAAACAACACACCCACAGgtaagttacaaaaggcacaacatgagtttgttctcatctaggtagtaggc #### Dpf2_ID1305_8 --> 2 - 1 Original Alignment cc---------AAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAg atagacatgctgacaaaatcaaagaaaaccctgtctctgtctctccccagccGGGCGGAGAAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAggtaagtccatcatcctgaaacctactatacactccatgctccaggtccaa Alignment from CESAR cc---------AAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAg atagacatgctgacaaaatcaaagaaaaccctgtctctgtctctccccagccGGGCGGAGAAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAggtaagtccatcatcctgaaacctactatacactccatgctccaggtccaa Alignment from Spaln_aa2Genome AAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG atagacatgctgacaaaatcaaagaaaaccctgtctctgtctctccccagccgggcggagaaagAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtaagtccatcatcctgaaacctactatacactccatgctccaggtccaa Alignment from Spaln_nt2Genome CC---------AAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG atagacatgctgacaaaatcaaagaaaaccctgtctctgtctctccccagCCGGGCGGAGAAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtaagtccatcatcctgaaacctactatacactccatgctccaggtccaa Alignment from Pairagon CC---------AAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG atagacatgctgacaaaatcaaagaaaaccctgtctctgtctctccccagCCGGGCGGAGAAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtaagtccatcatcctgaaacctactatacactccatgctccaggtccaa Alignment from Exonerate_protein2genome ATCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG atagacatgctgacaaaatcaaagaaaaccctgtctctgtctctccccagccgggcgGAGAAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtaagtccatcatcctgaaacctactatacactccatgctccaggtccaa Alignment from Exonerate_coding2genome ATCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG atagacatgctgacaaaatcaaagaaaaccctgtctctgtctctccccagccgggcgGAGAAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtaagtccatcatcctgaaacctactatacactccatgctccaggtccaa Alignment from GeneWise AAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG atagacatgctgacaaaatcaaagaaaaccctgtctctgtctctccccagccgggcggagaaagAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtaagtccatcatcctgaaacctactatacactccatgctccaggtccaa #### Dpp3_ID741_12 --> 0 - 0 Original Alignment ------------------------------GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAG aagtgctgggaggccctgaaaagctttgctttgtccgtctaatgtcatagCTCTCCGGCCTGGAATGGATGCGGTCCCTGGATGAGAAAGGTGCTTTCAACTTTGACAAGGAAACGGTAATCAACCCAGAGACTGGGGAGCAGgtgtgtaatacattatggggtgagggaattgcaatggggcagacagctaa Alignment from CESAR caggccacaattaaatgatgaatgacatttccagagaacacgctgatagga Alignment from Spaln_aa2Genome GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAG aagtgctgggaggccctgaaaagctttgctttgtccgtctaatgtcatagctctccggcctggaatggatgcggtccctggatgag------AAAGGTGCTTTCAACTTTGACAAGGAAACGGTAATCAACCCAGAGACTGGGGAGCAGgtgtgtaatacattatggggtgagggaattgcaatggggcagacagctaa Alignment from Spaln_nt2Genome AAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAG aagtgctgggaggccctgaaaagctttgctttgtccgtctaatgtcatagctctccggcctggaatggatgcggtccctggatgagAAAGGTGCTTTCAACTTTGACAAGGAAACGGTAATCAACCCAGAGACTGGGGAGCAGgtgtgtaatacattatggggtgagggaattgcaatggggcagacagctaa Alignment from Pairagon ------------------------------GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAG aagtgctgggaggccctgaaaagctttgctttgtccgtctaatgtcatagCTCTCCGGCCTGGAATGGATGCGGTCCCTGGATGAGAAAGGTGCTTTCAACTTTGACAAGGAAACGGTAATCAACCCAGAGACTGGGGAGCAGgtgtgtaatacattatggggtgagggaattgcaatggggcagacagctaa Alignment from Exonerate_protein2genome GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAG aagtgctgggaggccctgaaaagctttgctttgtccgtctaatgtcatagctctccggcctggaatggatgcggtccctgGATGAGAAAGGTGCTTTCAACTTTGACAAGGAAACGGTAATCAACCCAGAGACTGGGGAGCAGgtgtgtaatacattatggggtgagggaattgcaatggggcagacagctaa Alignment from Exonerate_coding2genome GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAG aagtgctgggaggccctgaaaagctttgctttgtccgtctaatgtcatagctctccggcctggaatggatgcggtccctgGATGAGAAAGGTGCTTTCAACTTTGACAAGGAAACGGTAATCAACCCAGAGACTGGGGAGCAGgtgtgtaatacattatggggtgagggaattgcaatggggcagacagctaa Alignment from GeneWise ------------------------------GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAG aagtgctgggaggccctgaaaagctttgctttgtccgtctaatgtcatagCTCTCCGGCCTGGAATGGATGCGGTCCCTGGATGAGAAAGGTGCTTTCAACTTTGACAAGGAAACGGTAATCAACCCAGAGACTGGGGAGCAGgtgtgtaatacattatggggtgagggaattgcaatggggcagacagctaa #### Dpp3_ID746_7 --> 0 - 2 Original Alignment GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGag gactgtgcggatcaatcaaagtgaggattccttcactttttgtttcatagGCCTATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCCATT------aggtaagtattgtatgtcatccaagcctccaactccccaatatctcttccaa Alignment from CESAR GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGag gactgtgcggatcaatcaaagtgaggattccttcactttttgtttcatagGCCTATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCCATT------aggtaagtattgtatgtcatccaagcctccaactccccaatatctcttccaa Alignment from Spaln_aa2Genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGT gactgtgcggatcaatcaaagtgaggattccttcactttttgtttcatagGCCTATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCCATTAGgtaagtattgtatgtcatccaagcctccaactccccaatatctcttccaa Alignment from Spaln_nt2Genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGT gactgtgcggatcaatcaaagtgaggattccttcactttttgtttcatagGCCTATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCCATTAGgtaagtattgtatgtcatccaagcctccaactccccaatatctcttccaa Alignment from Pairagon GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gactgtgcggatcaatcaaagtgaggattccttcactttttgtttcatagGCCTATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCCATT------AGgtaagtattgtatgtcatccaagcctccaactccccaatatctcttccaa Alignment from Exonerate_protein2genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGT gactgtgcggatcaatcaaagtgaggattccttcactttttgtttcatagGCCTATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCCATTAGgtaagtattgtatgtcatccaagcctccaactccccaatatctcttccaa Alignment from Exonerate_coding2genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGT gactgtgcggatcaatcaaagtgaggattccttcactttttgtttcatagGCCTATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCCATTAGgtaagtattgtatgtcatccaagcctccaactccccaatatctcttccaa Alignment from GeneWise GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGT gactgtgcggatcaatcaaagtgaggattccttcactttttgtttcatagGCCTATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCCATTAGgtaagtattgtatgtcatccaagcctccaactccccaatatctcttccaa #### Drap1_ID985_5 --> 1 - 0 Original Alignment CCTCGAag gGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAaggtcaaaagcaaggggtctgcgagtactctgtactttggacaggGGCCGTAAACCGGGTAGCAGTGGTAAGAAAAATGGCGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTGGGACAGACTCCGAA------gtaagtggcgctgggctggtaggtaatgggttatgtctgcttttttgtac Alignment from CESAR CCTCGAag gGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAaggtacaaagcaaggggtctgcgagtactctgtactttggacaggGGCCGTAAACCGGGTAGCAGTGGTAAGAAAAATGGCGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTGGGACAGACTCC------GAAgtaagtggcgctgggctggtaggtaatgggttatgtctgcttttttgtac Alignment from Spaln_aa2Genome CCTCGAAG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAG CCTCGAAGgtcaaaagcaaggggtctgcgagtactctgtactttggacagGGGCCGTAAACCGGGTAGCAGTGGTAAGAAAAATGGCGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTGGGACAGACTCCGAAgtaagtggcgctgggctggtaggtaatgggttatgtctgcttttttgtac Alignment from Spaln_nt2Genome CCTCGAAG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAG CCTCGAAGgtcaaaagcaaggggtctgcgagtactctgtactttggacagGGGCCGTAAACCGGGTAGCAGTGGTAAGAAAAATGGCGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTGGGACAGACTCCGAAgtaagtggcgctgggctggtaggtaatgggttatgtctgcttttttgtac Alignment from Pairagon CCTCGA------------------------------------------AGGGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAG CCTCGAAGGTCAAAAGCAAGGGGTCTGCGAGTACTCTGTACTTTGGACAGGGGCCGTAAACCGGGTAGCAGTGGTAAGAAAAATGGCGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTGGGACAGACTCCGAAgtaagtggcgctgggctggtaggtaatgggttatgtctgcttttttgtac Alignment from Exonerate_protein2genome CCTCGAAG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAG CCTCGAAGgtcaaaagcaaggggtctgcgagtactctgtactttggacagGGGCCGTAAACCGGGTAGCAGTGGTAAGAAAAATGGCGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTGGGACAGACTCCGAAgtaagtggcgctgggctggtaggtaatgggttatgtctgcttttttgtac Alignment from Exonerate_coding2genome CCTCGAAGGGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAA------GGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGC CCTCGAAGGTCAAAAGCAAGGGGTCTGCGAGTACTCTGTACTTTGGACAGGGGCCGTAAACCGGGTAGCAGTGGTAAGAAAAATGGCGGCACAGGAAGCAAGGgtaaagataaaaagctctctgggacagactccgaagtaagtggcgctgggctggtaggtaatgggttatgtctgcttttttgtac Alignment from GeneWise CCTCGAAGG------------------------------------------GGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAAGGTCAAAAGCAAGGGGTCTGCGAGTACTCTGTACTTTGGACAGGGGCCGTAAACCGGGTAGCAGTGGTAAGAAAAATGGCGGCACAGGAAGCAAGGGTAAAGATAAAAAGCTCTCTGGGACAGACTCC------GAAgtaagtggcgctgggctggtaggtaatgggttatgtctgcttttttgtac #### Drap1_ID986_4 --> 1 - 2 Original Alignment g------AAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAag gGGCCGGA tccccaagtgtttgagaggcagccgaccgtcagtctcttgtctcttccaggGAAGGTATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCGCTAGTGGCATCAGTACCTGACATGCAGGGGGACAGGGAAGACAACCATGTAGATGGGGAAAAGGGACCTCGAaggtacaaagcaaggggtctgctgtgagctgtgttcacccctaggGGCCGTA Alignment from CESAR gAAG------CAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAag gGGCCGGA tccccaagtgtttgagaggcagccgaccgtcagtctcttgtctcttccaggGAAGGTATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCGCTAGTGGCATCAGTACCTGACATGCAGGGGGACAGGGAAGACAACCATGTAGATGGGGAAAAGGGACCTCGAaggtacaaagcaaggggtctgcgagtactctgtactttggacaggGGCCGTA Alignment from Spaln_aa2Genome GAAG------CAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAG GGGCCGGA tccccaagtgtttgagaggcagccgaccgtcagtctcttgtctcttccagGGAAGGTATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCGCTAGTGGCATCAGTACCTGACATGCAGGGGGACAGGGAAGACAACCATGTAGATGGGGAAAAGGGACCTCGAAGgtacaaagcaaggggtctgctgtgagctgtgttcacccctagGGGCCGTA Alignment from Spaln_nt2Genome GAA------GCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAG GGGCCGGA tccccaagtgtttgagaggcagccgaccgtcagtctcttgtctcttccagGGAAGGTATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCGCTAGTGGCATCAGTACCTGACATGCAGGGGGACAGGGAAGACAACCATGTAGATGGGGAAAAGGGACCTCGAAGgtacaaagcaaggggtctgctgtgagctgtgttcacccctagGGGCCGTA Alignment from Pairagon GAA------GCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAG GGGCCGGA tccccaagtgtttgagaggcagccgaccgtcagtctcttgtctcttccagGGAAGGTATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCGCTAGTGGCATCAGTACCTGACATGCAGGGGGACAGGGAAGACAACCATGTAGATGGGGAAAAGGGACCTCGAAGgtacaaagcaaggggtctgctgtgagctgtgttcacccctagGGGCCGTA Alignment from Exonerate_protein2genome GAAG------CAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAG GGGCCGGA tccccaagtgtttgagaggcagccgaccgtcagtctcttgtctcttccagGGAAGGTATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCGCTAGTGGCATCAGTACCTGACATGCAGGGGGACAGGGAAGACAACCATGTAGATGGGGAAAAGGGACCTCGAAGgtacaaagcaaggggtctgctgtgagctgtgttcacccctagGGGCCGTA Alignment from Exonerate_coding2genome GAAG------CAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAGGGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCA tccccaagtgtttgagaggcagccgaccgtcagtctcttgtctcttccagGGAAGGTATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCGCTAGTGGCATCAGTACCTGACATGCAGGGGGACAGGGAAGACAACCATGTAGATGGGGAAAAGGGACCTCGAAGGTACAAAGCAAGGGGTCTGCTGTGAGCTGTGTTCACCCCTAGGGGCCGTA Alignment from GeneWise ----CTGAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAG GGGCCGGA tccccaagtgtttgagaggcagccgaccgtcagtctcttgtctcttccagGGAAGGTATGCAATGCATTGATGTTGAGCAGCAATTTGACTTCTTGAAAGCGCTAGTGGCATCAGTACCTGACATGCAGGGGGACAGGGAAGACAACCATGTAGATGGGGAAAAGGGACCTCGAAGgtacaaagcaaggggtctgctgtgagctgtgttcacccctagGGGCCGTA #### Eef1g_ID2567_9 --> 2 - 0 Original Alignment ggATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG------ gaagaaggataaacaaagccaggagggatgtctttggatacggtttacaggtATGTTCCAGCGGCTGGACAAACTGAGGAAGAATGCCTTTGCCAGTGTTATCCTCTTTGGAACTAATAACAGCAGCTCTATTTCTGGAGTTTGGGTCTTTCGAGGCCAGGAGCTTGCCTATCCATTCCTAgtatccctttggtaagagagacatcatgatgggggactagaagctttgag Alignment from CESAR ggATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG------ gaagaaggataaacaaagccaggagggatgtctttggatacggtttacaggtATGTTCCAGCGGCTGGACAAACTGAGGAAGAATGCCTTTGCCAGTGTTATCCTCTTTGGAACTAATAACAGCAGCTCTATTTCTGGAGTTTGGGTCTTTCGAGGCCAGGAGCTTGCCTATCCATTCCTAgtatccctttggtaagagagacatcatgatgggggactagaagctttgag Alignment from Spaln_aa2Genome GGATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG------ gaagaaggataaacaaagccaggagggatgtctttggatacggtttacagGTATGTTCCAGCGGCTGGACAAACTGAGGAAGAATGCCTTTGCCAGTGTTATCCTCTTTGGAACTAATAACAGCAGCTCTATTTCTGGAGTTTGGGTCTTTCGAGGCCAGGAGCTTGCCTATCCATTCCTAgtatccctttggtaagagagacatcatgatgggggactagaagctttgag Alignment from Spaln_nt2Genome GGATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG------ gaagaaggataaacaaagccaggagggatgtctttggatacggtttacagGTATGTTCCAGCGGCTGGACAAACTGAGGAAGAATGCCTTTGCCAGTGTTATCCTCTTTGGAACTAATAACAGCAGCTCTATTTCTGGAGTTTGGGTCTTTCGAGGCCAGGAGCTTGCCTATCCATTCCTAgtatccctttggtaagagagacatcatgatgggggactagaagctttgag Alignment from Pairagon GGATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCC-----------------G gaagaaggataaacaaagccaggagggatgtctttggatacggtttacagGTATGTTCCAGCGGCTGGACAAACTGAGGAAGAATGCCTTTGCCAGTGTTATCCTCTTTGGAACTAATAACAGCAGCTCTATTTCTGGAGTTTGGGTCTTTCGAGGCCAGGAGCTTGCCTATCCATTCCTAGTATCCCTTTGgtaagagagacatcatgatgggggactagaagctttgag Alignment from Exonerate_protein2genome GGATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG gaagaaggataaacaaagccaggagggatgtctttggatacggtttacagGTATGTTCCAGCGGCTGGACAAACTGAGGAAGAATGCCTTTGCCAGTGTTATCCTCTTTGGAACTAATAACAGCAGCTCTATTTCTGGAGTTTGGGTCTTTCGAGGCCAGGAGCTTGCCTATCCAttcctagtatccctttggtaagagagacatcatgatgggggactagaagctttgag Alignment from Exonerate_coding2genome GGATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG gaagaaggataaacaaagccaggagggatgtctttggatacggtttacagGTATGTTCCAGCGGCTGGACAAACTGAGGAAGAATGCCTTTGCCAGTGTTATCCTCTTTGGAACTAATAACAGCAGCTCTATTTCTGGAGTTTGGGTCTTTCGAGGCCAGGAGCTTGCCTATCCAttcctagtatccctttggtaagagagacatcatgatgggggactagaagctttgag Alignment from GeneWise GGATGTTTCAGCGATTGGACAAACTGAGGAAGAATGCCTTTGCTAGTGTTATCCTCTTTGGAACCAACAACAGCAGCTCCATTTCTGGTGTTTGGGTCTTCCGAGGCCAAGAGCTTGCCTTTCCG---CTG gaagaaggataaacaaagccaggagggatgtctttggatacggtttacagGTATGTTCCAGCGGCTGGACAAACTGAGGAAGAATGCCTTTGCCAGTGTTATCCTCTTTGGAACTAATAACAGCAGCTCTATTTCTGGAGTTTGGGTCTTTCGAGGCCAGGAGCTTGCCTATCCATTCCTAgtatccctttggtaagagagacatcatgatgggggactagaagctttgag #### Efemp2_ID1032_5 --> 2 - 1 Original Alignment ac------ATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGg acacagaaacatacaggtcgtttggctgtgtaattttcttaatcctccagacGTTGACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGATTCTACCAGGCTCATTCCGATGCCAATGTGAGCCAGGCTTCCAGTTGGGACCTAACATTCGTTCCTGTGTGggtaagttggtgtgtcctgcaagtttctgacctcccaggtgaaccagtgtg Alignment from CESAR ac------ATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGg acacagaaacatacaggtcgtttggctgtgtaattttcttaatcctccagacGTTGACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGATTCTACCAGGCTCATTCCGATGCCAATGTGAGCCAGGCTTCCAGTTGGGACCTAACATTCGTTCCTGTGTGggtaagttggtgtgtcctgcaagtttctgacctcccaggtgaaccagtgtg Alignment from Spaln_aa2Genome GTGTGGACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG acacagaaacatacaggtcgtttggctgtgtaattttcttaatcctccagACGTTGACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGATTCTACCAGGCTCATTCCGATGCCAATGTGAGCCAGGCTTCCAGTTGGGACCTAACATTCGTTCCTGTGTGGgtaagttggtgtgtcctgcaagtttctgacctcccaggtgaaccagtgtg Alignment from Spaln_nt2Genome GTGGACATAGATG--AGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG acacagaaacatacaggtcgtttggctgtgtaattttcttaatcctccagACGTTGACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGATTCTACCAGGCTCATTCCGATGCCAATGTGAGCCAGGCTTCCAGTTGGGACCTAACATTCGTTCCTGTGTGGgtaagttggtgtgtcctgcaagtttctgacctcccaggtgaaccagtgtg Alignment from Pairagon ----------------------------------------------------GTGGACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG ACACAGAAACATACAGGTCGTTTGGCTGTGTAATTTTCTTAATCCTCCAGACGTTGACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGATTCTACCAGGCTCATTCCGATGCCAATGTGAGCCAGGCTTCCAGTTGGGACCTAACATTCGTTCCTGTGTGGgtaagttggtgtgtcctgcaagtttctgacctcccaggtgaaccagtgtg Alignment from Exonerate_protein2genome GTGTGGACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG acacagaaacatacaggtcgtttggctgtgtaattttcttaatcctccagACGTTGACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGATTCTACCAGGCTCATTCCGATGCCAATGTGAGCCAGGCTTCCAGTTGGGACCTAACATTCGTTCCTGTGTGGgtaagttggtgtgtcctgcaagtttctgacctcccaggtgaaccagtgtg Alignment from Exonerate_coding2genome GTGTGGACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG acacagaaacatacaggtcgtttggctgtgtaattttcttaatcctccagACGTTGACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGATTCTACCAGGCTCATTCCGATGCCAATGTGAGCCAGGCTTCCAGTTGGGACCTAACATTCGTTCCTGTGTGGgtaagttggtgtgtcctgcaagtttctgacctcccaggtgaaccagtgtg Alignment from GeneWise -----GACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG acacagaaacatacaggtcgtttggctgtgtaattttcttaatcctccagACGTTGACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGATTCTACCAGGCTCATTCCGATGCCAATGTGAGCCAGGCTTCCAGTTGGGACCTAACATTCGTTCCTGTGTGGgtaagttggtgtgtcctgcaagtttctgacctcccaggtgaaccagtgtg #### Efemp2_ID1034_7 --> 2 - 1 Original Alignment atATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAg caaattttccccactaccaatgatctgtaattgcatgcttgccatttcagat---GATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACGAGCCCGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAggtaggtaggcttaggtgtacagaacacaaaaagcccataacttaccatga Alignment from CESAR atATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAg cctcaaattttccccactaccaatgtgtaattgcatgcttgccatttcagat---GATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACGAGCCCGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAggtaggtaggcttaggtgtacagaacacaaaaagcccataacttaccatga Alignment from Spaln_aa2Genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG caaattttccccactaccaatgatctgtaattgcatgcttgccatttcagAT---GATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACGAGCCCGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAGgtaggtaggcttaggtgtacagaacacaaaaagcccataacttaccatga Alignment from Spaln_nt2Genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG caaattttccccactaccaatgatctgtaattgcatgcttgccatttcagAT---GATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACGAGCCCGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAGgtaggtaggcttaggtgtacagaacacaaaaagcccataacttaccatga Alignment from Pairagon ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG caaattttccccactaccaatgatctgtaattgcatgcttgccatttcagAT---GATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACGAGCCCGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAGgtaggtaggcttaggtgtacagaacacaaaaagcccataacttaccatga Alignment from Exonerate_protein2genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG caaattttccccactaccaatgatctgtaattgcatgcttgccatttcagAT---GATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACGAGCCCGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAGgtaggtaggcttaggtgtacagaacacaaaaagcccataacttaccatga Alignment from Exonerate_coding2genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG caaattttccccactaccaatgatctgtaattgcatgcttgccatttcagAT---GATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACGAGCCCGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAGgtaggtaggcttaggtgtacagaacacaaaaagcccataacttaccatga Alignment from GeneWise ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG caaattttccccactaccaatgatctgtaattgcatgcttgccatttcagAT---GATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACGAGCCCGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAGgtaggtaggcttaggtgtacagaacacaaaaagcccataacttaccatga #### Ehbp1l1_ID1228_7 --> 2 - 1 Original Alignment atCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCAg agctatatgcctgtgtatgatttcatccacctcttcctcctcctttctagatCTGTCACGTGAGTTGAAGACACTCTGTGAGGAAGAAGATGAAGGCCACATACGTCCCCAGCAG---ggtgagtagtctggtaatggggaggcaatctgaacctacatgagttattgc Alignment from CESAR atCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCAg agctatatgcctgtgtatgatttcatccacctcttcctcctcctttctagatCTGTCACGTGAGTTGAAGACACTCTGTGAGGAAGAAGATGAAGGCCACATACGTCCCCAGCAG---ggtgagtagtctggtaatggggaggcaatctgaacctacatctgttaattt Alignment from Spaln_aa2Genome ATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGG agctatatgcctgtgtatgatttcatccacctcttcctcctcctttctagATCTGTCACGTGAGTTGAAGACACTCTGTGAGGAAGAAGATGAAGGCCACATACGTCCCCAGCAGGgtgagtagtctggtaatggggaggcaatctgaacctacatgagttattgc Alignment from Spaln_nt2Genome ATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCAG- agctatatgcctgtgtatgatttcatccacctcttcctcctcctttctagATCTGTCACGTGAGTTGAAGACACTCTGTGAGGAAGAAGATGAAGGCCACATACGTCCCCAGCAGGGTGAgtagtctggtaatggggaggcaatctgaacctacatgagttattgc Alignment from Pairagon ATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGG-------------------------------------------------- agctatatgcctgtgtatgatttcatccacctcttcctcctcctttctagATCTGTCACGTGAGTTGAAGACACTCTGTGAGGAAGAAGATGAAGGCCACATACGTCCCCAGCAGGGTGAGTAGTCTGGTAATGGGGAGGCAATCTGAACCTACATGAGTTATTGC Alignment from Exonerate_protein2genome agctatatgcctgtgtatgatttcatccacctcttcctcctcctttctagatctgtcacgtgagttgaagacactctgtgaggaagaagatgaaggccacatacgtccccagcagggtgagtagtctggtaatggggaggcaatctgaacctacatgagttattgc Alignment from Exonerate_coding2genome agctatatgcctgtgtatgatttcatccacctcttcctcctcctttctagatctgtcacgtgagttgaagacactctgtgaggaagaagatgaaggccacatacgtccccagcagggtgagtagtctggtaatggggaggcaatctgaacctacatgagttattgc Alignment from GeneWise ATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGG agctatatgcctgtgtatgatttcatccacctcttcctcctcctttctagATCTGTCACGTGAGTTGAAGACACTCTGTGAGGAAGAAGATGAAGGCCACATACGTCCCCAGCAGGgtgagtagtctggtaatggggaggcaatctgaacctacatgagttattgc #### Ehbp1l1_ID1230_5 --> 0 - 2 Original Alignment GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCC---------ac ctcccccacccctgccagatcagagaagtcaacctttattgttcccacagGAGTCAAAGGGACAGCGGAAAGTATTAGCAACAGTTGGTGTCAATTTAGACCATCATGCAGGGCCCATACCTGCCCAGATCTCACTTCAACTGCGGCAGAAGCCCAAGTCTGTCAAAGTTGTGCATGCCGAGCTTAGCCTCACACTTGCAGTC---CTTCTACAAGAAGGCCGTGCCATTGGGGACacgtaagtgcagaccaatcctctgtctggcacttgggcttgtcagcaggcat Alignment from CESAR GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCC---------ac ctcccccacccctgccagatcagagaagtcaacctttattgttcccacagGAGTCAAAGGGACAGCGGAAAGTATTAGCAACAGTTGGTGTCAATTTAGACCATCATGCAGGGCCCATACCTGCCCAGATCTCACTTCAACTGCGGCAGAAGCCCAAGTCTGTCAAAGTTGTGCATGCCGAGCTTAGCCTCACACTTGCA---GTCCTTCTACAAGAAGGCCGTGCCATTGGGGACacgtaagtgcagaccaatcctctgtctggcacttgggcttgtcagcaggcat Alignment from Spaln_aa2Genome GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCACG-------- ctcccccacccctgccagatcagagaagtcaacctttattgttcccacagGAGTCAAAGGGACAGCGGAAAGTATTAGCAACAGTTGGTGTCAATTTAGACCATCATGCAGGGCCCATACCTGCCCAGATCTCACTTCAACTGCGGCAGAAGCCCAAGTCTGTCAAAGTTGTGCATGCCGAGCTTAGCCTCACACTTGCA---GTCCTTCTACAAGAAGGCCGTGCCATTGGGGACACgtaagtgcagaccaatcctctgtctggcacttgggcttgtcagcaggcat Alignment from Spaln_nt2Genome GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCA---------C ctcccccacccctgccagatcagagaagtcaacctttattgttcccacagGAGTCAAAGGGACAGCGGAAAGTATTAGCAACAGTTGGTGTCAATTTAGACCATCATGCAGGGCCCATACCTGCCCAGATCTCACTTCAACTGCGGCAGAAGCCCAAGTCTGTCAAAGTTGTGCATGCCGAGCTTAGCCTCACACT---TGCAGTCCTTCTACAAGAAGGCCGTGCCATTGGGGACACgtaagtgcagaccaatcctctgtctggcacttgggcttgtcagcaggcat Alignment from Pairagon GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGC---------CAC ctcccccacccctgccagatcagagaagtcaacctttattgttcccacagGAGTCAAAGGGACAGCGGAAAGTATTAGCAACAGTTGGTGTCAATTTAGACCATCATGCAGGGCCCATACCTGCCCAGATCTCACTTCAACTGCGGCAGAAGCCCAAGTCTGTCAAAGTTGTGCATGCCGAGCTTAGCCTCACACT---TGCAGTCCTTCTACAAGAAGGCCGTGCCATTGGGGACACgtaagtgcagaccaatcctctgtctggcacttgggcttgtcagcaggcat Alignment from Exonerate_protein2genome ctcccccacccctgccagatcagagaagtcaacctttattgttcccacaggagtcaaagggacagcggaaagtattagcaacagttggtgtcaatttagaccatcatgcagggcccatacctgcccagatctcacttcaactgcggcagaagcccaagtctgtcaaagttgtgcatgccgagcttagcctcacacttgcagtccttctacaagaaggccgtgccattggggacacgtaagtgcagaccaatcctctgtctggcacttgggcttgtcagcaggcat Alignment from Exonerate_coding2genome ctcccccacccctgccagatcagagaagtcaacctttattgttcccacaggagtcaaagggacagcggaaagtattagcaacagttggtgtcaatttagaccatcatgcagggcccatacctgcccagatctcacttcaactgcggcagaagcccaagtctgtcaaagttgtgcatgccgagcttagcctcacacttgcagtccttctacaagaaggccgtgccattggggacacgtaagtgcagaccaatcctctgtctggcacttgggcttgtcagcaggcat Alignment from GeneWise GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCC---------AC ctcccccacccctgccagatcagagaagtcaacctttattgttcccacagGAGTCAAAGGGACAGCGGAAAGTATTAGCAACAGTTGGTGTCAATTTAGACCATCATGCAGGGCCCATACCTGCCCAGATCTCACTTCAACTGCGGCAGAAGCCCAAGTCTGTCAAAGTTGTGCATGCCGAGCTTAGCCTCACACTTGCA---GTCCTTCTACAAGAAGGCCGTGCCATTGGGGACACgtaagtgcagaccaatcctctgtctggcacttgggcttgtcagcaggcat #### Eif1ad_ID950_3 --> 2 - 2 Original Alignment ggGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCAC------tg aatattgactcatgctcctcatcacaactctgacttgttactatctgtagggGACTTCCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCATTTGTACTCTGCAAGAACCATGTCCACACCCTACAGAAGGAAGGCCAAGTGAATtggtaaggtagtctccctgtgcccctgtccagcaataagagactgttagtag Alignment from CESAR ggGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCAC------tg aatattgactcatgctcctcatcacaactctgacttgttactatctgtagggGACTTCCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCATTTGTACTCTGCAAGAACCATGTCCACACCCTACAGAAGGAAGGCCAAGTGAATtggtaaggtagtctccctgtgcccctgtccagcaataagagactgttagtag Alignment from Spaln_aa2Genome GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTGG----- aatattgactcatgctcctcatcacaactctgacttgttactatctgtagGGGACTTCCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCATTTGTACTCTGCAAGAACCATGTCCACACCCTACAGAAGGAAGGCCAAGTGAATTGgtaaggtagtctccctgtgcccctgtccagcaataagagactgttagtag Alignment from Spaln_nt2Genome GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCAC------TG aatattgactcatgctcctcatcacaactctgacttgttactatctgtagGGGACTTCCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCATTTGTACTCTGCAAGAACCATGTCCACACCCTACAGAAGGAAGGCCAAGTGAATTGgtaaggtagtctccctgtgcccctgtccagcaataagagactgttagtag Alignment from Pairagon GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTC------ACTG aatattgactcatgctcctcatcacaactctgacttgttactatctgtagGGGACTTCCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCATTTGTACTCTGCAAGAACCATGTCCACACCCTACAGAAGGAAGGCCAAGTGAATTGgtaaggtagtctccctgtgcccctgtccagcaataagagactgttagtag Alignment from Exonerate_protein2genome GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCAC aatattgactcatgctcctcatcacaactctgacttgttactatctgtagGGGACTTCCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCATTTGTACTCTGCAAGAACCATGTCCACACCCTACAGAAGGAAGGCCAAgtgaattggtaaggtagtctccctgtgcccctgtccagcaataagagactgttagtag Alignment from Exonerate_coding2genome GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCAC aatattgactcatgctcctcatcacaactctgacttgttactatctgtagGGGACTTCCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCATTTGTACTCTGCAAGAACCATGTCCACACCCTACAGAAGGAAGGCCAAgtgaattggtaaggtagtctccctgtgcccctgtccagcaataagagactgttagtag Alignment from GeneWise GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCAC------TG aatattgactcatgctcctcatcacaactctgacttgttactatctgtagGGGACTTCCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTTAAGGCAGAGATCTCATTTGTACTCTGCAAGAACCATGTCCACACCCTACAGAAGGAAGGCCAAGTGAATTGgtaaggtagtctccctgtgcccctgtccagcaataagagactgttagtag #### Eif3a_ID13316_14 --> 0 - 0 Original Alignment ATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAA---------------GAAGAAGAAAGA gctctgtcctgccataggtctgtgtgtgttctacctttttatctctgcagATTGACTATTTTGAGAGGGTGAAGCGCTTGGAGGAAATTCCTCTAATAAAGAGTGCATACGAAGAACAAAGAGTTAAAGAC------------------------------------------------gtcagtttttgaaatataaccaaactaaagaaagaaagagttttcaatgc Alignment from CESAR ATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTG------TGGGAACAGCAAGAAGAAGAAAGA gctctgtcctgccataggtctgtgtgtgttctacctttttatctctgcagATTGACTATTTTGAGAGGGTGAAGCGCTTGGAGGAAATTCCTCTAATAAAGAGTGCATACGAAGAACAAAGAGTTAAAGACGTCAGTTTTTGAAATATAACCAAACTAAAGAAAGAAAGAgttttcaatgc Alignment from Spaln_aa2Genome ATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGG gctctgtcctgccataggtctgtgtgtgttctacctttttatctctgcagATTGACTATTTTGAGAGGGTGAAGCGCTTGGAGGAAATTCCTCTAATAAAGAGTGCATACGAAGAACAAAGAGTTAAAGACGTCAgtttttgaaatataaccaaactaaagaaagaaagagttttcaatgc Alignment from Spaln_nt2Genome ATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGA----AC--AGCAAGAAGAAGAAAGA gctctgtcctgccataggtctgtgtgtgttctacctttttatctctgcagATTGACTATTTTGAGAGGGTGAAGCGCTTGGAGGAAATTCCTCTAATAAAGAGTGCATACGAAGAACAAAGAGTTAAAGACGTCAGTTTTTGAAATATAACCAAACTAAAGAAAGAAAGAgttttcaatgc Alignment from Pairagon ATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGAC gctctgtcctgccataggtctgtgtgtgttctacctttttatctctgcagATTGACTATTTTGAGAGGGTGAAGCGCTTGGAGGAAATTCCTCTAATAAAGAGTGCATACGAAGAACAAAGAGTTAAAGACgtcagtttttgaaatataaccaaactaaagaaagaaagagttttcaatgc Alignment from Exonerate_protein2genome ATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGA gctctgtcctgccataggtctgtgtgtgttctacctttttatctctgcagATTGACTATTTTGAGAGGGTGAAGCGCTTGGAGGAAATTCCTCTAATAAAGAGTGCATACGAAGAACAAAGAGTTAAAGACGTCAGTTTTTGAAATATAACCAAACTAAAGAAAgaaagagttttcaatgc Alignment from Exonerate_coding2genome ATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGA gctctgtcctgccataggtctgtgtgtgttctacctttttatctctgcagATTGACTATTTTGAGAGGGTGAAGCGCTTGGAGGAAATTCCTCTAATAAAGAGTGCATACGAAGAACAAAGAGTTAAAGACGTCAGTTTTTGAAATATAACCAAACTAAAGAAAgaaagagttttcaatgc Alignment from GeneWise ATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGG gctctgtcctgccataggtctgtgtgtgttctacctttttatctctgcagATTGACTATTTTGAGAGGGTGAAGCGCTTGGAGGAAATTCCTCTAATAAAGAGTGCATACGAAGAACAAAGAGTTAAAGACGTCAgtttttgaaatataaccaaactaaagaaagaaagagttttcaatgc #### Eif3a_ID13317_13 --> 0 - 0 Original Alignment GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG agttgtagtgctttaaggtaggtataagcttgtctctatctctttttcagGACTTTGAAGAACTGGATCAAGACTTTATTATGGCCAAACAGGTAGAGCAGCTGGAAAAGGAAAAGAAGGAACTTCAGGAACGCCTCAAAACACAAGAAGAG---gtaaggagtgtggatcactgataggatctgaaagtaaattgcatcaaaag Alignment from CESAR GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG agttgtagtgctttaaggtaggtataagcttgtctctatctctttttcagGACTTTGAAGAACTGGATCAAGACTTTATTATGGCCAAACAGGTAGAGCAGCTGGAAAAGGAAAAGAAGGAACTTCAGGAACGCCTCAAAACACAAGAA---GAGgtaaggagtgtggatcactgataggatctgaaagtaaattgcatcaaaag Alignment from Spaln_aa2Genome GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAG agttgtagtgctttaaggtaggtataagcttgtctctatctctttttcagGACTTTGAAGAACTGGATCAAGACTTTATTATGGCCAAACAGGTAGAGCAGCTGGAAAAGGAAAAGAAGGAACTTCAGGAACGCCTCAAAACACAAGAAGAGgtaaggagtgtggatcactgataggatctgaaagtaaattgcatcaaaag Alignment from Spaln_nt2Genome GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAG agttgtagtgctttaaggtaggtataagcttgtctctatctctttttcagGACTTTGAAGAACTGGATCAAGACTTTATTATGGCCAAACAGGTAGAGCAGCTGGAAAAGGAAAAGAAGGAACTTCAGGAACGCCTCAAAACACAAGAAGAGgtaaggagtgtggatcactgataggatctgaaagtaaattgcatcaaaag Alignment from Pairagon GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAG agttgtagtgctttaaggtaggtataagcttgtctctatctctttttcagGACTTTGAAGAACTGGATCAAGACTTTATTATGGCCAAACAGGTAGAGCAGCTGGAAAAGGAAAAGAAGGAACTTCAGGAACGCCTCAAAACACAAGAAGAGgtaaggagtgtggatcactgataggatctgaaagtaaattgcatcaaaag Alignment from Exonerate_protein2genome GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAG agttgtagtgctttaaggtaggtataagcttgtctctatctctttttcagGACTTTGAAGAACTGGATCAAGACTTTATTATGGCCAAACAGGTAGAGCAGCTGGAAAAGGAAAAGAAGGAACTTCAGGAACGCCTCAAAACACAAGAAGAGgtaaggagtgtggatcactgataggatctgaaagtaaattgcatcaaaag Alignment from Exonerate_coding2genome GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAG agttgtagtgctttaaggtaggtataagcttgtctctatctctttttcagGACTTTGAAGAACTGGATCAAGACTTTATTATGGCCAAACAGGTAGAGCAGCTGGAAAAGGAAAAGAAGGAACTTCAGGAACGCCTCAAAACACAAGAAGAGgtaaggagtgtggatcactgataggatctgaaagtaaattgcatcaaaag Alignment from GeneWise GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG agttgtagtgctttaaggtaggtataagcttgtctctatctctttttcagGACTTTGAAGAACTGGATCAAGACTTTATTATGGCCAAACAGGTAGAGCAGCTGGAAAAGGAAAAGAAGGAACTTCAGGAACGCCTCAAAACACAAGAA---GAGgtaaggagtgtggatcactgataggatctgaaagtaaattgcatcaaaag #### Eif3a_ID13319_11 --> 0 - 0 Original Alignment GTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG cttaacagtctcaacatacagtgacaagtatttattcctttacctcctag------ATAGACCATACCTCCCGGACCCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTCGGCCCACATCTGCAAGGTATGCCTTCGGAACAGATAAGGAACCAGCTCACCGCCATGTCCTCAGTGCTTGCCAAAGCACTAGGAATTATTAGACCTGCACACATTTTGgtgagtatctagggaagggatgatttgcacaaggattaatatcgtggggg Alignment from CESAR GTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG agttggcttaacagtctcaacatacaagtatttattcctttacctcctag------ATAGACCATACCTCCCGGACCCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTCGGCCCACATCTGCAAGGTATGCCTTCGGAACAGATAAGGAACCAGCTCACCGCCATGTCCTCAGTGCTTGCCAAAGCACTAGGAATTATTAGACCTGCACACATTTTGgtgagtatctagggaagggatgatttgcacaaggattaatatcgtggggg Alignment from Spaln_aa2Genome ATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG cttaacagtctcaacatacagtgacaagtatttattcctttacctcctagATAGACCATACCTCCCGGACCCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTCGGCCCACATCTGCAAGGTATGCCTTCGGAACAGATAAGGAACCAGCTCACCGCCATGTCCTCAGTGCTTGCCAAAGCACTAGGAATTATTAGACCTGCACACATTTTGgtgagtatctagggaagggatgatttgcacaaggattaatatcgtggggg Alignment from Spaln_nt2Genome ATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG cttaacagtctcaacatacagtgacaagtatttattcctttacctcctagATAGACCATACCTCCCGGACCCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTCGGCCCACATCTGCAAGGTATGCCTTCGGAACAGATAAGGAACCAGCTCACCGCCATGTCCTCAGTGCTTGCCAAAGCACTAGGAATTATTAGACCTGCACACATTTTGgtgagtatctagggaagggatgatttgcacaaggattaatatcgtggggg Alignment from Pairagon GTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG cttaacagtctcaacatacagtgacaagtatttattcctttacctcctag------ATAGACCATACCTCCCGGACCCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTCGGCCCACATCTGCAAGGTATGCCTTCGGAACAGATAAGGAACCAGCTCACCGCCATGTCCTCAGTGCTTGCCAAAGCACTAGGAATTATTAGACCTGCACACATTTTGgtgagtatctagggaagggatgatttgcacaaggattaatatcgtggggg Alignment from Exonerate_protein2genome ATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG cttaacagtctcaacatacagtgacaagtatttattcctttacctcctagATAGACCATACCTCCCGGACCCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTCGGCCCACATCTGCAAGGTATGCCTTCGGAACAGATAAGGAACCAGCTCACCGCCATGTCCTCAGTGCTTGCCAAAGCACTAGGAATTATTAGACCTGCACACATTTTGgtgagtatctagggaagggatgatttgcacaaggattaatatcgtggggg Alignment from Exonerate_coding2genome ATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG cttaacagtctcaacatacagtgacaagtatttattcctttacctcctagATAGACCATACCTCCCGGACCCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTCGGCCCACATCTGCAAGGTATGCCTTCGGAACAGATAAGGAACCAGCTCACCGCCATGTCCTCAGTGCTTGCCAAAGCACTAGGAATTATTAGACCTGCACACATTTTGgtgagtatctagggaagggatgatttgcacaaggattaatatcgtggggg Alignment from GeneWise ATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG cttaacagtctcaacatacagtgacaagtatttattcctttacctcctagATAGACCATACCTCCCGGACCCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTCGGCCCACATCTGCAAGGTATGCCTTCGGAACAGATAAGGAACCAGCTCACCGCCATGTCCTCAGTGCTTGCCAAAGCACTAGGAATTATTAGACCTGCACACATTTTGgtgagtatctagggaagggatgatttgcacaaggattaatatcgtggggg #### Eml3_ID2503_3 --> 1 - 2 Original Alignment cAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGAC---------ac gCCCCGAAGAAATTCTTCCTCCTCC tagaattagtccaatgtgttgggtattagacttgctggtctttctcacagtAGCATTACAGTCCCGCCAGGGCTGCCACCGACCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTTCCTTCCTCTGGACCTCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGGTGTCGCAGCAGTAGTGGGGCAGGATCACCTGGGCCTCCAGGGATCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACGTCCCAGATacgtgagtttatctttctttgtttcaggCCACGAAGAAATTCTTCCTCCTCA Alignment from CESAR cAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGAC---------ac gCCCCGAAGAAATTCTTCCTCCTCC tagaattagtccaatgtgttgggtattagacttgctggtctttctcacagtAGCATTACAGTCCCGCCAGGGCTGCCACCGACCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTTCCTTCCTCTGGACCTCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGGTGTCGCAGCAGTAGTGGGGCAGGATCACCTGGGCCTCCAGGGATCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACGTCCCAGATacgtattttttttttttttcctgacaggCCACGAAGAAATTCTTCCTCCTCA Alignment from Spaln_aa2Genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACACGCCCCGAAG AAATTCTTCCTCCTCC tagaattagtccaatgtgttgggtattagacttgctggtctttctcacagTAGCATTACAGTCCCGCCAGGGCTGCCACCGACCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTTCCTTCCTCTGGACCTCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGGTGTCGCAGCAGTAGTGGGGCAGGATCACCTGGGCCTCCAGGGATCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACGTCCCAGATACgtgagtttatctttctttgtttcaggccacgaagAAATTCTTCCTCCTCA Alignment from Spaln_nt2Genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGAC ACGCCCCGAAGAAATTCTTCCTCCT tagaattagtccaatgtgttgggtattagacttgctggtctttctcacagTAGCATTACAGTCCCGCCAGGGCTGCCACCGACCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTTCCTTCCTCTGGACCTCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGGTGTCGCAGCAGTAGTGGGGCAGGATCACCTGGGCCTCCAGGGATCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACgtcccagatacgtgagtttatctttctttgtttcag--GCCACGAAGAAATTCTTCCTCCT Alignment from Pairagon CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGA----------------------------------CACGCCCCGAAGAAATTCTTCCTCCTCC tagaattagtccaatgtgttgggtattagacttgctggtctttctcacagTAGCATTACAGTCCCGCCAGGGCTGCCACCGACCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTTCCTTCCTCTGGACCTCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGGTGTCGCAGCAGTAGTGGGGCAGGATCACCTGGGCCTCCAGGGATCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACGTCCCAGATACGTGAGTTTATCTTTCTTTGTTTCAGGCCACGAAGAAATTCTTCCTCCTCA Alignment from Exonerate_protein2genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACAC GCCCCGAAGAAATTCTTCCTCCTCC tagaattagtccaatgtgttgggtattagacttgctggtctttctcacagTAGCATTACAGTCCCGCCAGGGCTGCCACCGACCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTTCCTTCCTCTGGACCTCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGGTGTCGCAGCAGTAGTGGGGCAGGATCACCTGGGCCTCCAGGGATCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACGTcccagatacgtgagtttatctttctttgtttcagGCCACGAAGAAATTCTTCCTCCTCA Alignment from Exonerate_coding2genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACAC GCCCCGAAGAAATTCTTCCTCCTCC tagaattagtccaatgtgttgggtattagacttgctggtctttctcacagTAGCATTACAGTCCCGCCAGGGCTGCCACCGACCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTTCCTTCCTCTGGACCTCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGGTGTCGCAGCAGTAGTGGGGCAGGATCACCTGGGCCTCCAGGGATCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACGTcccagatacgtgagtttatctttctttgtttcagGCCACGAAGAAATTCTTCCTCCTCA Alignment from GeneWise CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGAC-ACG---------------------------------CCCCGAAGAAATTCTTCCTCCTCC tagaattagtccaatgtgttgggtattagacttgctggtctttctcacagTAGCATTACAGTCCCGCCAGGGCTGCCACCGACCTGTAGTCCTTCCCTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTTCCTTCCTCTGGACCTCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGAGCAGCAAAGAACCTAGTGGTATCCAATTTCAAGGTGGGTGTCGCAGCAGTAGTGGGGCAGGATCACCTGGGCCTCCAGGGATCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACGTCCCAGATACGTGAGTTTATCTTTCTTTGTTTCAGGCCACGAAGAAATTCTTCCTCCTCA #### Eml3_ID2509_8 --> 1 - 0 Original Alignment cCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG atgtggagttttaatgtaggatttcatgactgtgggtgtttctgtgacagtCTTGCTGTCCATCCTGATGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGAGTGGACAAGGATGGG---gtaggcagtgccagtgagcagatggcaatgagattatgggtcaaatttac Alignment from CESAR cCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG atgtggagttttaatgtaggatttcatgactgtgggtgtttctgtgacagtCTTGCTGTCCATCCTGATGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGAGTGGACAAGGATGGG---gtaggcagtgccagtgagcagatggcaatgagattatgggtcaaatt Alignment from Spaln_aa2Genome CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGA atgtggagttttaatgtaggatttcatgactgtgggtgtttctgtgacagTCTTGCTGTCCATCCTGATGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGAGTGGACAAGGATGGGgtaggcagtgccagtgagcagatggcaatgagattatgggtcaaatttac Alignment from Spaln_nt2Genome CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG atgtggagttttaatgtaggatttcatgactgtgggtgtttctgtgacagTCTTGCTGTCCATCCTGATGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGAGTGGACAAGGATGG---Ggtaggcagtgccagtgagcagatggcaatgagattatgggtcaaatttac Alignment from Pairagon CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAA------------------------------------------------- atgtggagttttaatgtaggatttcatgactgtgggtgtttctgtgacagTCTTGCTGTCCATCCTGATGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGAGTGGACAAGGATGGGGTAGGCAGTGCCAGTGAGCAGATGGCAATGAGATTATGGGTCAAATTTAC Alignment from Exonerate_protein2genome CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG atgtggagttttaatgtaggatttcatgactgtgggtgtttctgtgacagTCTTGCTGTCCATCCTGATGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGAGTGGACAAGGATGGGGTAggcagtgccagtgagcagatggcaatgagattatgggtcaaatttac Alignment from Exonerate_coding2genome CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG atgtggagttttaatgtaggatttcatgactgtgggtgtttctgtgacagTCTTGCTGTCCATCCTGATGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGAGTGGACAAGGATGGGGTAggcagtgccagtgagcagatggcaatgagattatgggtcaaatttac Alignment from GeneWise CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG atgtggagttttaatgtaggatttcatgactgtgggtgtttctgtgacagTCTTGCTGTCCATCCTGATGGAGTTCATGTTGCTTCAGGGCAGACAGCTGGAGTGGACAAGGAT---GGGgtaggcagtgccagtgagcagatggcaatgagattatgggtcaaatttac #### Eml3_ID2510_9 --> 0 - 0 Original Alignment CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gattatgggtcaaatttacttcccagctctatctgccccgccacccccagCCCCTGCAGCCAGTGGTTCATACCTGGGACTCAGAAACACTCCTAAAACTACAGGAAATTGGTCTGGGTGCCTTTGAGCGAGGTGTAGGGGCCTTGGCATTTTCA------gtatgtaataagtgagcatgggagcacgtttgtgaccttgttatgttgtt Alignment from CESAR CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gattatgggtcaaatttacttcccagctctatctgccccgccacccccagCCCCTGCAGCCAGTGGTTCATACCTGGGACTCAGAAACACTCCTAAAACTACAGGAAATTGGTCTGGGTGCCTTTGAGCGAGGTGTAGGGGCCTTGGCATTTTCA------gtatgtaataagtgagcatgggagcacgtttgtgaccttgttat Alignment from Spaln_aa2Genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCA gattatgggtcaaatttacttcccagctctatctgccccgccacccccagCCCCTGCAGCCAGTGGTTCATACCTGGGACTCAGAAACACTCCTAAAACTACAGGAAATTGGTCTGGGTGCCTTTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAgtatgtaataagtgagcatgggagcacgtttgtgaccttgttatgttgtt Alignment from Spaln_nt2Genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCA gattatgggtcaaatttacttcccagctctatctgccccgccacccccagCCCCTGCAGCCAGTGGTTCATACCTGGGACTCAGAAACACTCCTAAAACTACAGGAAATTGGTCTGGGTGCCTTTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAgtatgtaataagtgagcatgggagcacgtttgtgaccttgttatgttgtt Alignment from Pairagon CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCA gattatgggtcaaatttacttcccagctctatctgccccgccacccccagCCCCTGCAGCCAGTGGTTCATACCTGGGACTCAGAAACACTCCTAAAACTACAGGAAATTGGTCTGGGTGCCTTTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAgtatgtaataagtgagcatgggagcacgtttgtgaccttgttatgttgtt Alignment from Exonerate_protein2genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCA gattatgggtcaaatttacttcccagctctatctgccccgccacccccagCCCCTGCAGCCAGTGGTTCATACCTGGGACTCAGAAACACTCCTAAAACTACAGGAAATTGGTCTGGGTGCCTTTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAgtatgtaataagtgagcatgggagcacgtttgtgaccttgttatgttgtt Alignment from Exonerate_coding2genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCA gattatgggtcaaatttacttcccagctctatctgccccgccacccccagCCCCTGCAGCCAGTGGTTCATACCTGGGACTCAGAAACACTCCTAAAACTACAGGAAATTGGTCTGGGTGCCTTTGAGCGAGGTGTAGGGGCCTTGGCATTTTCAgtatgtaataagtgagcatgggagcacgtttgtgaccttgttatgttgtt Alignment from GeneWise --------------------------------------------------CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG GATTATGGGTCAAATTTACTTCCCAGCTCTATCTGCCCCGCCACCCCCAGCCCCTGCAGCCAGTGGTTCATACCTGGGACTCAGAAACACTCCTAAAACTACAGGAAATTGGTCTGGGTGCCTTTGAGCGAGGTGTAGGGGCCTTGGCATTT------TCAgtatgtaataagtgagcatgggagcacgtttgtgaccttgttatgttgtt #### Eml3_ID2514_13 --> 2 - 0 Original Alignment ag---ACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG atgtcatccatgatgtggcaaactcttgcctgttgatttccctcccctagagACCACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCCCTCTGTCTTCACCAGGATGGAACAGTACTGACTGGTGGTGGGTGGCATCGACGACTGGTGCAGTGGGGGCCTGGGCTGGTGGCCCTCCAGGAGGCAGAGgtcagtcctgtcctggactctgagtctgagaagggatggggagacatggt Alignment from CESAR ag---ACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG atgtcatccatgatgtggcaaactcttgcctgttgatttccctcccctagagACCACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCCCTCTGTCTTCACCAGGATGGAACAGTACTGACTGGTGGTGGGTGGCATCGACGACTGGTGCAGTGGGGGCCTGGGCTGGTGGCCCTCCAGGAGGCAGAGgtcagtcctgtcctggactctgagtctgagaagggatggggagacatggt Alignment from Spaln_aa2Genome AG---ACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG atgtcatccatgatgtggcaaactcttgcctgttgatttccctcccctagAGACCACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCCCTCTGTCTTCACCAGGATGGAACAGTACTGACTGGTGGTGGGTGGCATCGACGACTGGTGCAGTGGGGGCCTGGGCTGGTGGCCCTCCAGGAGGCAGAGgtcagtcctgtcctggactctgagtctgagaagggatggggagacatggt Alignment from Spaln_nt2Genome AGACC---TACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG atgtcatccatgatgtggcaaactcttgcctgttgatttccctcccctagAGACCACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCCCTCTGTCTTCACCAGGATGGAACAGTACTGACTGGTGGTGGGTGGCATCGACGACTGGTGCAGTGGGGGCCTGGGCTGGTGGCCCTCCAGGAGGCAGAGgtcagtcctgtcctggactctgagtctgagaagggatggggagacatggt Alignment from Pairagon AG---ACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG atgtcatccatgatgtggcaaactcttgcctgttgatttccctcccctagAGACCACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCCCTCTGTCTTCACCAGGATGGAACAGTACTGACTGGTGGTGGGTGGCATCGACGACTGGTGCAGTGGGGGCCTGGGCTGGTGGCCCTCCAGGAGGCAGAGgtcagtcctgtcctggactctgagtctgagaagggatggggagacatggt Alignment from Exonerate_protein2genome AG---ACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG atgtcatccatgatgtggcaaactcttgcctgttgatttccctcccctagAGACCACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCCCTCTGTCTTCACCAGGATGGAACAGTACTGACTGGTGGTGGGTGGCATCGACGACTGGTGCAGTGGGGGCCTGGGCTGGTGGCCCTCCAGGAGGCAGAGgtcagtcctgtcctggactctgagtctgagaagggatggggagacatggt Alignment from Exonerate_coding2genome AG---ACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG atgtcatccatgatgtggcaaactcttgcctgttgatttccctcccctagAGACCACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCCCTCTGTCTTCACCAGGATGGAACAGTACTGACTGGTGGTGGGTGGCATCGACGACTGGTGCAGTGGGGGCCTGGGCTGGTGGCCCTCCAGGAGGCAGAGgtcagtcctgtcctggactctgagtctgagaagggatggggagacatggt Alignment from GeneWise --GAGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG atgtcatccatgatgtggcaaactcttgcctgttgatttccctcccctagAGACCACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCCCTCTGTCTTCACCAGGATGGAACAGTACTGACTGGTGGTGGGTGGCATCGACGACTGGTGCAGTGGGGGCCTGGGCTGGTGGCCCTCCAGGAGGCAGAGgtcagtcctgtcctggactctgagtctgagaagggatggggagacatggt #### Eml3_ID2515_14 --> 0 - 0 Original Alignment ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG GGCCACACTGATGAGC ggatggggagacatggtggagagtataaccttgtccttttccactcatagATTCCAGAACACTTCGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGGACCACAAAGAATGCATTACTGAGAGCAGACCTTGCCCAAGGTTTCTCTCCTGTTATC---gtgagtaatacttctcacggcttgtgtcttgcagGGACATACAGATGAGC Alignment from CESAR ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG GGCCACACTGATG ggatggggagacatggtggagagtataaccttgtccttttccactcatagATTCCAGAACACTTCGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGGACCACAAAGAATGCATTACTGAGAGCAGACCTTGCCCAAGGTTTCTCTCCTGTTATC---gtgagtaatttaatagtctcttatcttctttaagGGACATACAGATG Alignment from Spaln_aa2Genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATC CAGGGCCACACTGATG ggatggggagacatggtggagagtataaccttgtccttttccactcatagATTCCAGAACACTTCGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGGACCACAAAGAATGCATTACTGAGAGCAGACCTTGCCCAAGGTTTCTCTCCTGTTATCgtgagtaatacttctcacggcttgtgtcttgcagGGACATACA---GATG Alignment from Spaln_nt2Genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATC-------------------------------CAGGGCCACACTGATGAGC ggatggggagacatggtggagagtataaccttgtccttttccactcatagATTCCAGAACACTTCGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGGACCACAAAGAATGCATTACTGAGAGCAGACCTTGCCCAAGGTTTCTCTCCTGTTATCGTGAGTAATACTTCTCACGGCTTGTGTCTTGCAGGGACATACAGATGAGC Alignment from Pairagon ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATC-------------------------------CAGGGCCACACTGATGAGC ggatggggagacatggtggagagtataaccttgtccttttccactcatagATTCCAGAACACTTCGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGGACCACAAAGAATGCATTACTGAGAGCAGACCTTGCCCAAGGTTTCTCTCCTGTTATCGTGAGTAATACTTCTCACGGCTTGTGTCTTGCAGGGACATACAGATGAGC Alignment from Exonerate_protein2genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATC CAGGGCCACACTGATGAGC ggatggggagacatggtggagagtataaccttgtccttttccactcatagATTCCAGAACACTTCGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGGACCACAAAGAATGCATTACTGAGAGCAGACCTTGCCCAAGGTTTCTCTCCTGTTATCgtgagtaatacttctcacggcttgtgtcttgCAGGGACATACAGATGAGC Alignment from Exonerate_coding2genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATC CAGGGCCACACTGATGAGC ggatggggagacatggtggagagtataaccttgtccttttccactcatagATTCCAGAACACTTCGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGGACCACAAAGAATGCATTACTGAGAGCAGACCTTGCCCAAGGTTTCTCTCCTGTTATCgtgagtaatacttctcacggcttgtgtcttgCAGGGACATACAGATGAGC Alignment from GeneWise ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATC---------------------------------CAGGGCCACACTGATGA ggatggggagacatggtggagagtataaccttgtccttttccactcatagATTCCAGAACACTTCGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGGACCACAAAGAATGCATTACTGAGAGCAGACCTTGCCCAAGGTTTCTCTCCTGTTATCGTGAGTAATA--CTTCTCACGGCTTGTGTCTTGCAGGGACATACAGATGA #### Eml3_ID2516_15 --> 0 - 0 Original Alignment CTCCCCTGTTATCCAG ------------GGCCACACTGATGAGCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG CTCTCCTGTTATCCAGgtgagtactttagtgtgttgtcttgtttctacagTTTCAATATCTGGGACATACAGATGAGCTGTGGGGCTTGTGTACACATCCATCTCAGAATCACTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGATGGAGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtaagtagctgtcctttaacttcctcaccaaacatgttcagattgcaaat Alignment from CESAR CTCCCCTGTTATCCAG ------------GGCCACACTGATGAGCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG CTCTCCTGTTATCCAGgtaaatactttagtgtgttgtcttgtttctacagTTTCAATATCTGGGACATACAGATGAGCTGTGGGGCTTGTGTACACATCCATCTCAGAATCACTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGATGGAGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtaagtagctgtcctttaacttcctcaccaaacatgttcagattgcaaat Alignment from Spaln_aa2Genome CTCCCCTGTTATCCAG GGCCACACTGAT------------GAGCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG CTCTCCTGTTATCCAGgtgagtactttagtgtgttgtcttgtttctacagTTTCAATATCTGGGACATACAGATGAGCTGTGGGGCTTGTGTACACATCCATCTCAGAATCACTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGATGGAGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtaagtagctgtcctttaacttcctcaccaaacatgttcagattgcaaat Alignment from Spaln_nt2Genome CTCCCCTGTTATCCA- GGGCCACACTGATGAGC-----------TCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG CTCTCCTGTTATCCAGgtgagtactttagtgtgttgtcttgtttctacagTTTCAATATCTGGGACATACAGATGAGCTGTGGGGCTTGTGTACACATCCATCTCAGAATCACTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGATGGAGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtaagtagctgtcctttaacttcctcaccaaacatgttcagattgcaaat Alignment from Pairagon CTCCCCTGTTATCCA----------------------------------------------GGGCCACACTGATGAGCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG CTCTCCTGTTATCCAGGTGAGTACTTTAGTGTGTTGTCTTGTTTCTACAGTTTCAATATCTGGGACATACAGATGAGCTGTGGGGCTTGTGTACACATCCATCTCAGAATCACTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGATGGAGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtaagtagctgtcctttaacttcctcaccaaacatgttcagattgcaaat Alignment from Exonerate_protein2genome CTCCCCTGTTATCCAG GGCCACACTGATGAGCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG CTCTCCTGTTATCCAGgtgagtactttagtgtgttgtcttgtttctacagtttcaatatctgGGACATACAGATGAGCTGTGGGGCTTGTGTACACATCCATCTCAGAATCACTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGATGGAGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtaagtagctgtcctttaacttcctcaccaaacatgttcagattgcaaat Alignment from Exonerate_coding2genome CTCCCCTGTTATCCAG GGCCACACTGATGAGCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG CTCTCCTGTTATCCAGgtgagtactttagtgtgttgtcttgtttctacagtttcaatatctgGGACATACAGATGAGCTGTGGGGCTTGTGTACACATCCATCTCAGAATCACTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGATGGAGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtaagtagctgtcctttaacttcctcaccaaacatgttcagattgcaaat Alignment from GeneWise CTCCCCTGTTATCCAG ------------GGCCACACTGATGAGCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG CTCTCCTGTTATCCAGgtgagtactttagtgtgttgtcttgtttctacagTTTCAATATCTGGGACATACAGATGAGCTGTGGGGCTTGTGTACACATCCATCTCAGAATCACTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGATGGAGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtaagtagctgtcctttaacttcctcaccaaacatgttcagattgcaaat #### Eml3_ID2518_17 --> 1 - 1 Original Alignment gTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAg aagtgtaaggcaaaatcttttctctatgctccaccctttcccggttgcaggTGGTTGGTCTTGGACACAGAGACCAGGGAAATTGTATCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGG---------ggtaagtatgggacttctgcttcccctggcctgaatcctgccctgagtcct Alignment from CESAR gTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAg aagtgtaaggcaaaatcttttctctatgctccaccctttcccggttgcaggTGGTTGGTCTTGGACACAGAGACCAGGGAAATTGTATCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGG---------ggtaagtatgggacttctgcttcccctggcctgaatcctgccctgagtcct Alignment from Spaln_aa2Genome GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGG- aagtgtaaggcaaaatcttttctctatgctccaccctttcccggttgcagGTGGTTGGTCTTGGACACAGAGACCAGGGAAATTGTATCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGGGgtaagtatgggacttctgcttcccctggcctgaatcctgccctgagtcct Alignment from Spaln_nt2Genome GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaaaatcttttctctatgctccaccctttcccggttgcagGTGGTTGGTCTTGGACACAGAGACCAGGGAAATTGTATCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGG---------Ggtaagtatgggacttctgcttcccctggcctgaatcctgccctgagtcct Alignment from Pairagon GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaaaatcttttctctatgctccaccctttcccggttgcagGTGGTTGGTCTTGGACACAGAGACCAGGGAAATTGTATCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGG---------Ggtaagtatgggacttctgcttcccctggcctgaatcctgccctgagtcct Alignment from Exonerate_protein2genome GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaaaatcttttctctatgctccaccctttcccggttgcagGTGGTTGGTCTTGGACACAGAGACCAGGGAAATTGTATCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGGGGTAAGTATGggacttctgcttcccctggcctgaatcctgccctgagtcct Alignment from Exonerate_coding2genome GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaaaatcttttctctatgctccaccctttcccggttgcagGTGGTTGGTCTTGGACACAGAGACCAGGGAAATTGTATCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGGGGTAAGTATGggacttctgcttcccctggcctgaatcctgccctgagtcct Alignment from GeneWise GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGT aagtgtaaggcaaaatcttttctctatgctccaccctttcccggttgcagGTGGTTGGTCTTGGACACAGAGACCAGGGAAATTGTATCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGGGgtaagtatgggacttctgcttcccctggcctgaatcctgccctgagtcct #### Eml3_ID2519_18 --> 2 - 0 Original Alignment at------------GGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatggtagcccctgatgtcacaaaaaccaatttcttttgttggtagatTGGTTAAATGAAGGGTTGTACCTTGCGATAGGTTCACATGACAATATGATTTACATATACAGTATTTCCAGTTGTGGTACCAAATCTAGCCGCTTTGGCAGGTGTATGgtgagccttcctggagggtactatttttcttactttggttatgggcacaa Alignment from CESAR at------------GGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatggtagcccctgatgtcacaaaaaccaatttcttttgttggtagatTGGTTAAATGAAGGGTTGTACCTTGCGATAGGTTCACATGACAATATGATTTACATATACAGTATTTCCAGTTGTGGTACCAAATCTAGCCGCTTTGGCAGGTGTATGgtgagccttcctggagggtactatttttcttactttggttatgggcacaa Alignment from Spaln_aa2Genome ATGGGTTGTAC------------CTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatggtagcccctgatgtcacaaaaaccaatttcttttgttggtagATTGGTTAAATGAAGGGTTGTACCTTGCGATAGGTTCACATGACAATATGATTTACATATACAGTATTTCCAGTTGTGGTACCAAATCTAGCCGCTTTGGCAGGTGTATGgtgagccttcctggagggtactatttttcttactttggttatgggcacaa Alignment from Spaln_nt2Genome ATGGGTTGTAC------------CTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatggtagcccctgatgtcacaaaaaccaatttcttttgttggtagATTGGTTAAATGAAGGGTTGTACCTTGCGATAGGTTCACATGACAATATGATTTACATATACAGTATTTCCAGTTGTGGTACCAAATCTAGCCGCTTTGGCAGGTGTATGgtgagccttcctggagggtactatttttcttactttggttatgggcacaa Alignment from Pairagon AT------------GGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatggtagcccctgatgtcacaaaaaccaatttcttttgttggtagATTGGTTAAATGAAGGGTTGTACCTTGCGATAGGTTCACATGACAATATGATTTACATATACAGTATTTCCAGTTGTGGTACCAAATCTAGCCGCTTTGGCAGGTGTATGgtgagccttcctggagggtactatttttcttactttggttatgggcacaa Alignment from Exonerate_protein2genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatggtagcccctgatgtcacaaaaaccaatttcttttgttggtagattggttaaatgAAGGGTTGTACCTTGCGATAGGTTCACATGACAATATGATTTACATATACAGTATTTCCAGTTGTGGTACCAAATCTAGCCGCTTTGGCAGGTGTATGgtgagccttcctggagggtactatttttcttactttggttatgggcacaa Alignment from Exonerate_coding2genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatggtagcccctgatgtcacaaaaaccaatttcttttgttggtagattggttaaatgAAGGGTTGTACCTTGCGATAGGTTCACATGACAATATGATTTACATATACAGTATTTCCAGTTGTGGTACCAAATCTAGCCGCTTTGGCAGGTGTATGgtgagccttcctggagggtactatttttcttactttggttatgggcacaa Alignment from GeneWise -----------GATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatggtagcccctgatgtcacaaaaaccaatttcttttgttggtagATTGGTTAAATGAAGGGTTGTACCTTGCGATAGGTTCACATGACAATATGATTTACATATACAGTATTTCCAGTTGTGGTACCAAATCTAGCCGCTTTGGCAGGTGTATGgtgagccttcctggagggtactatttttcttactttggttatgggcacaa #### Eml3_ID2522_21 --> 2 - 0 Original Alignment gtGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG--- gtgggtgccagaggattaatgaaaagtgtccctccctccctcctcttcaggtGTATGGCCTGGTGGCTGCGATGGTACGGGCATCAATTCCCTATGCCCTTCCCACAATGAACGGGTGGTAGCTGTTGCAGATGATTGCTGTAAAGTGCATGTCTTTCAGTATCCATGCGCTCGGGCCAAATTAgtagggctccatgagcccattgggcccaggaacaaacagttgcagttact Alignment from CESAR gtGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG--- gtgggtgccagaggattaatgaaaagtgtccctccctccctcctcttcaggtGTATGGCCTGGTGGCTGCGATGGTACGGGCATCAATTCCCTATGCCCTTCCCACAATGAACGGGTGGTAGCTGTTGCAGATGATTGCTGTAAAGTGCATGTCTTTCAGTATCCATGCGCTCGGGCCAAATTAgtagggctccatgagcccattgggcccaggaacaaacagttgcagttact Alignment from Spaln_aa2Genome GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG--- gtgggtgccagaggattaatgaaaagtgtccctccctccctcctcttcagGTGTATGGCCTGGTGGCTGCGATGGTACGGGCATCAATTCCCTATGCCCTTCCCACAATGAACGGGTGGTAGCTGTTGCAGATGATTGCTGTAAAGTGCATGTCTTTCAGTATCCATGCGCTCGGGCCAAATTAgtagggctccatgagcccattgggcccaggaacaaacagttgcagttact Alignment from Spaln_nt2Genome GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG--- gtgggtgccagaggattaatgaaaagtgtccctccctccctcctcttcagGTGTATGGCCTGGTGGCTGCGATGGTACGGGCATCAATTCCCTATGCCCTTCCCACAATGAACGGGTGGTAGCTGTTGCAGATGATTGCTGTAAAGTGCATGTCTTTCAGTATCCATGCGCTCGGGCCAAATTAgtagggctccatgagcccattgggcccaggaacaaacagttgcagttact Alignment from Pairagon GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCA------------------------------------------------------- gtgggtgccagaggattaatgaaaagtgtccctccctccctcctcttcagGTGTATGGCCTGGTGGCTGCGATGGTACGGGCATCAATTCCCTATGCCCTTCCCACAATGAACGGGTGGTAGCTGTTGCAGATGATTGCTGTAAAGTGCATGTCTTTCAGTATCCATGCGCTCGGGCCAAATTAGTAGGGCTCCATGAGCCCATTGGGCCCAGGAACAAACAGTTGCAGTTACT Alignment from Exonerate_protein2genome GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG gtgggtgccagaggattaatgaaaagtgtccctccctccctcctcttcagGTGTATGGCCTGGTGGCTGCGATGGTACGGGCATCAATTCCCTATGCCCTTCCCACAATGAACGGGTGGTAGCTGTTGCAGATGATTGCTGTAAAGTGCATGTCTTTCAGTATCCATGCGCTCGGGCCAAAttagtagggctccatgagcccattgggcccaggaacaaacagttgcagttact Alignment from Exonerate_coding2genome GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG gtgggtgccagaggattaatgaaaagtgtccctccctccctcctcttcagGTGTATGGCCTGGTGGCTGCGATGGTACGGGCATCAATTCCCTATGCCCTTCCCACAATGAACGGGTGGTAGCTGTTGCAGATGATTGCTGTAAAGTGCATGTCTTTCAGTATCCATGCGCTCGGGCCAAAttagtagggctccatgagcccattgggcccaggaacaaacagttgcagttact Alignment from GeneWise GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAGGCG gtgggtgccagaggattaatgaaaagtgtccctccctccctcctcttcagGTGTATGGCCTGGTGGCTGCGATGGTACGGGCATCAATTCCCTATGCCCTTCCCACAATGAACGGGTGGTAGCTGTTGCAGATGATTGCTGTAAAGTGCATGTCTTTCAGTATCCATGCGCTCGGGCCAAATTAgtagggctccatgagcccattgggcccaggaacaaacagttgcagttact #### Fads1_ID2689_3 --> 0 - 0 Original Alignment AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gaaagtactgtccaatgaatttcagtgtttctctatctctttttttcaag---GTACTGTCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACTTCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtgctgtttacctcttagtctaaacctcagatgccaaaagagtggtctgt Alignment from CESAR AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG actgaaagtactgtccaatgaattttgtttctctatctctttttttcaag---GTACTGTCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACTTCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtgctgtttacctcttagtctaaacctcagatgccaaaagagtggtctgt Alignment from Spaln_aa2Genome AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gaaagtactgtccaatgaatttcagtgtttctctatctctttttttcaag---GTACTGTCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACTTCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtgctgtttacctcttagtctaaacctcagatgccaaaagagtggtctgt Alignment from Spaln_nt2Genome G--CTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gaaagtactgtccaatgaatttcagtgtttctctatctctttttttcaagGTACTGTCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACTTCCTTGGTGCC---CATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtgctgtttacctcttagtctaaacctcagatgccaaaagagtggtctgt Alignment from Pairagon ----------------------AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gaaagtactgtccaatgaatttcagTGTTTCTCTATCTCTTTTTTTCAAGGTACTGTCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACTTCCTTGGTGCC---CATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtgctgtttacctcttagtctaaacctcagatgccaaaagagtggtctgt Alignment from Exonerate_protein2genome AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gaaagtactgtccaatgaatttcagtgtttctctatctctttttttcAAGGTACTGTCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACTTCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtgctgtttacctcttagtctaaacctcagatgccaaaagagtggtctgt Alignment from Exonerate_coding2genome AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gaaagtactgtccaatgaatttcagtgtttctctatctctttttttcAAGGTACTGTCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACTTCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtgctgtttacctcttagtctaaacctcagatgccaaaagagtggtctgt Alignment from GeneWise AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gaaagtactgtccaatgaatttcagtgtttctctatctctttttttcaagGTA---CTGTCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTAACACTATGGATCTTTGGAACTTCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtgctgtttacctcttagtctaaacctcagatgccaaaagagtggtctgt #### Fads1_ID2690_4 --> 0 - 0 Original Alignment GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACC---TCGACATGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG--- atctgactccaacattggtatctaggggcacccactgtgtccctacccagGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCGCTTGTCAGTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTGATTGGGCACCTAAAGCTGgtaggtaatatcatcttgtccacccaagctataattgttcatagtttgtc Alignment from CESAR GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG--- atctgactccaacattggtatctaggggcacccactgtgtccctacccagGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCGCTTGTCAGTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTGATTGGGCACCTAAAGCTGgtaggtaatatcatcttgtccacccaagctataattgttcatagtttgtc Alignment from Spaln_aa2Genome GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG--- atctgactccaacattggtatctaggggcacccactgtgtccctacccagGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCGCTTGTCAGTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTGATTGGGCACCTAAAGCTGgtaggtaatatcatcttgtccacccaagctataattgttcatagtttgtc Alignment from Spaln_nt2Genome GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG--- atctgactccaacattggtatctaggggcacccactgtgtccctacccagGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCGCTTGTCAGTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTGATTGGGCACCTAAAGCTGgtaggtaatatcatcttgtccacccaagctataattgttcatagtttgtc Alignment from Pairagon GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG--- atctgactccaacattggtatctaggggcacccactgtgtccctacccagGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCGCTTGTCAGTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTGATTGGGCACCTAAAGCTGgtaggtaatatcatcttgtccacccaagctataattgttcatagtttgtc Alignment from Exonerate_protein2genome GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG atctgactccaacattggtatctaggggcacccactgtgtccctacccagGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCGCTTGTCAGTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTGATTGGGCACCTAAAGctggtaggtaatatcatcttgtccacccaagctataattgttcatagtttgtc Alignment from Exonerate_coding2genome GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG atctgactccaacattggtatctaggggcacccactgtgtccctacccagGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCGCTTGTCAGTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTGATTGGGCACCTAAAGctggtaggtaatatcatcttgtccacccaagctataattgttcatagtttgtc Alignment from GeneWise GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAGGGG atctgactccaacattggtatctaggggcacccactgtgtccctacccagGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCGCTTGTCAGTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTGATTGGGCACCTAAAGCTGgtaggtaatatcatcttgtccacccaagctataattgttcatagtttgtc #### Fads1_ID2694_8 --> 0 - 2 Original Alignment GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTC------ag gaatctttaagaacagcgaaaaccttgcatgcctctcttcaatcttgcagGATTTGGCCTGGATGCTCAGTTTCTATGCCCGCATCTTTTTAGCCTATATATCACTCCCAGGGCTGAAGGGCTTCCTAGGGCTTTTCTTCATTGTTCATTGGaggtaaaaataatcagtgaatttatacaagtaagcctagacaccagcagtaa Alignment from CESAR GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTC------ag gaatctttaagaacagcgaaaaccttgcatgcctctcttcaatcttgcagGATTTGGCCTGGATGCTCAGTTTCTATGCCCGCATCTTTTTAGCCTATATATCACTCCCAGGGCTGAAGGGCTTCCTAGGGCTTTTCTTCATTGTTCATTGGaggtaaaaataatcagtgaatttatacaagtaagcctagacaccagcagtaa Alignment from Spaln_aa2Genome GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAGG----- gaatctttaagaacagcgaaaaccttgcatgcctctcttcaatcttgcagGATTTGGCCTGGATGCTCAGTTTCTATGCCCGCATCTTTTTAGCCTATATATCACTCCCAGGGCTGAAGGGCTTCCTAGGGCTTTTCTTCATTGTTCATTGGAGgtaaaaataatcagtgaatttatacaagtaagcctagacaccagcagtaa Alignment from Spaln_nt2Genome GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTC------AG gaatctttaagaacagcgaaaaccttgcatgcctctcttcaatcttgcagGATTTGGCCTGGATGCTCAGTTTCTATGCCCGCATCTTTTTAGCCTATATATCACTCCCAGGGCTGAAGGGCTTCCTAGGGCTTTTCTTCATTGTTCATTGGAGgtaaaaataatcagtgaatttatacaagtaagcctagacaccagcagtaa Alignment from Pairagon GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTG------------------------------------------------------------ gaatctttaagaacagcgaaaaccttgcatgcctctcttcaatcttgcagGATTTGGCCTGGATGCTCAGTTTCTATGCCCGCATCTTTTTAGCCTATATATCACTCCCAGGGCTGAAGGGCTTCCTAGGGCTTTTCTTCATTGTTCATTGGAGGTAAAAATAATCAGTGAATTTATACAAGTAAGCCTAGACACCAGCAGTAA Alignment from Exonerate_protein2genome GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG gaatctttaagaacagcgaaaaccttgcatgcctctcttcaatcttgcagGATTTGGCCTGGATGCTCAGTTTCTATGCCCGCATCTTTTTAGCCTATATATCACTCCCAGGGCTGAAGGGCTTCCTAGGGCTTTTCTTCATTGTTCAttggaggtaaaaataatcagtgaatttatacaagtaagcctagacaccagcagtaa Alignment from Exonerate_coding2genome GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG gaatctttaagaacagcgaaaaccttgcatgcctctcttcaatcttgcagGATTTGGCCTGGATGCTCAGTTTCTATGCCCGCATCTTTTTAGCCTATATATCACTCCCAGGGCTGAAGGGCTTCCTAGGGCTTTTCTTCATTGTTCAttggaggtaaaaataatcagtgaatttatacaagtaagcctagacaccagcagtaa Alignment from GeneWise GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAGGTTC-- gaatctttaagaacagcgaaaaccttgcatgcctctcttcaatcttgcagGATTTGGCCTGGATGCTCAGTTTCTATGCCCGCATCTTTTTAGCCTATATATCACTCCCAGGGCTGAAGGGCTTCCTAGGGCTTTTCTTCATTGTTCATTGGAGgtaaaaataatcagtgaatttatacaagtaagcctagacaccagcagtaa #### Fads1_ID2696_10 --> 0 - 2 Original Alignment ---------CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACca tgatccctacactgatacatggaaatttttctcgcttgtgtctctgacagCAACACTTGCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACACCTAAATTTCCAGATTGAACACcagtacgggcagatctccaagaaacacgggtggcacagggagaagggtaggc Alignment from CESAR ---------CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACca tgatccctacactgatacatggaaatttttctcgcttgtgtctctgacagCAACACTTGCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACACCTAAATTTCCAGATTGAACACcagtacgggcagatctccaagaaacacgggtggcacagggagaagggtaggc Alignment from Spaln_aa2Genome CTGCAGGCAACC---------TGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tgatccctacactgatacatggaaatttttctcgcttgtgtctctgacagCAACACTTGCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACACCTAAATTTCCAGATTGAACACCAgtacgggcagatctccaagaaacacgggtggcacagggagaagggtaggc Alignment from Spaln_nt2Genome GCTGCAGGCA--------ACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tgatccctacactgatacatggaaatttttctcgcttgtgtctctgacagCAACACTTGCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACACCTAAATTTCCAGATTGAACACCAgtacgggcagatctccaagaaacacgggtggcacagggagaagggtaggc Alignment from Pairagon ---------CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tgatccctacactgatacatggaaatttttctcgcttgtgtctctgacagCAACACTTGCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACACCTAAATTTCCAGATTGAACACCAgtacgggcagatctccaagaaacacgggtggcacagggagaagggtaggc Alignment from Exonerate_protein2genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tgatccctacactgatacatggaaatttttctcgcttgtgtctctgacagcaacacttgCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACACCTAAATTTCCAGATTGAACACCAgtacgggcagatctccaagaaacacgggtggcacagggagaagggtaggc Alignment from Exonerate_coding2genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tgatccctacactgatacatggaaatttttctcgcttgtgtctctgacagcaacacttgCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACACCTAAATTTCCAGATTGAACACCAgtacgggcagatctccaagaaacacgggtggcacagggagaagggtaggc Alignment from GeneWise ---------CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tgatccctacactgatacatggaaatttttctcgcttgtgtctctgacagCAACACTTGCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACACCTAAATTTCCAGATTGAACACCAgtacgggcagatctccaagaaacacgggtggcacagggagaagggtaggc #### Fads3_ID2663_6 --> 0 - 1 Original Alignment TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTG------------------------a cctgcgcccagagagctgttccccctggtgtttgcttgtttgtttgttagTATGGTAAGAAGAAACAACGATACCTGCCATACAATCACCAGCATCTATACTTCTTCCTGAAAATCATGACCTATCTGTTTGATggtgagttggtgccaacaagcatttatgggtggcaatcctaaggtagacag Alignment from CESAR TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTG------------------------a cctgcgcccagagagctgttccccctggtgtttgcttgtttgtttgttagTATGGTAAGAAGAAACAACGATACCTGCCATACAATCACCAGCATCTATACTTCTTCCTGAAAATCATGACCTATCTGTTTGATggtgagttggtgccaacaagcatttatgggtggcaatcctaaggtagacag Alignment from Spaln_aa2Genome TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTG------------------------A cctgcgcccagagagctgttccccctggtgtttgcttgtttgtttgttagTATGGTAAGAAGAAACAACGATACCTGCCATACAATCACCAGCATCTATACTTCTTCCTGAAAATCATGACCTATCTGTTTGATGgtgagttggtgccaacaagcatttatgggtggcaatcctaaggtagacag Alignment from Spaln_nt2Genome TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTGAT-----TG-------- cctgcgcccagagagctgttccccctggtgtttgcttgtttgtttgttagTATGGTAAGAAGAAACAACGATACCTGCCATACAATCACCAGCATCTATACTTCTTCCTGAAAATCATGACCTATCTgtttgatggtgagttggtgccaacaagcatttatgggtggcaatcctaaggtagacag Alignment from Pairagon TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTGA------------------------ cctgcgcccagagagctgttccccctggtgtttgcttgtttgtttgttagTATGGTAAGAAGAAACAACGATACCTGCCATACAATCACCAGCATCTATACTTCTTCCTGAAAATCATGACCTATCTGTTTGATGgtgagttggtgccaacaagcatttatgggtggcaatcctaaggtagacag Alignment from Exonerate_protein2genome TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCT cctgcgcccagagagctgttccccctggtgtttgcttgtttgtttgttagTATGGTAAGAAGAAACAACGATACCTGCCATACAATCACCAGCATCTATACTTCTTCCTgaaaatcatgacctatctgtttgatggtgagttggtgccaacaagcatttatgggtggcaatcctaaggtagacag Alignment from Exonerate_coding2genome TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCT cctgcgcccagagagctgttccccctggtgtttgcttgtttgtttgttagTATGGTAAGAAGAAACAACGATACCTGCCATACAATCACCAGCATCTATACTTCTTCCTgaaaatcatgacctatctgtttgatggtgagttggtgccaacaagcatttatgggtggcaatcctaaggtagacag Alignment from GeneWise TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTG------------------------A cctgcgcccagagagctgttccccctggtgtttgcttgtttgtttgttagTATGGTAAGAAGAAACAACGATACCTGCCATACAATCACCAGCATCTATACTTCTTCCTGAAAATCATGACCTATCTGTTTGATGgtgagttggtgccaacaagcatttatgggtggcaatcctaaggtagacag #### Fads3_ID2664_7 --> 2 - 0 Original Alignment ttGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG------------------ tatcatttgtataacccattgcccagggagtgctctactttttattccagttGGCCCTCCGCTATTCACATTAGTGAATTATGAAGTTGAAAATCTGGCATACATGCTCGTATGCATGCAGTGGACTAAGAAGAAATGCTCTCGGgtgaggggattggcttcaaaatctaaggtatgattgggatattctgttga Alignment from CESAR ttGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG------------------ tatcatttgtataacccattgcccagggagtgctctactttttattccagttGGCCCTCCGCTATTCACATTAGTGAATTATGAAGTTGAAAATCTGGCATACATGCTCGTATGCATGCAGTGGACTAAGAAGAAATGCTCTCGGgtgaggggattggcttcaaaatctaaggtatgattgggatattctgttga Alignment from Spaln_aa2Genome TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG------------------ tatcatttgtataacccattgcccagggagtgctctactttttattccagTTGGCCCTCCGCTATTCACATTAGTGAATTATGAAGTTGAAAATCTGGCATACATGCTCGTATGCATGCAGTGGACTAAGAAGAAATGCTCTCGGgtgaggggattggcttcaaaatctaaggtatgattgggatattctgttga Alignment from Spaln_nt2Genome TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG---------- tatcatttgtataacccattgcccagggagtgctctactttttattccagTTGGCCCTCCGCTATTCACATTAGTGAATTATGAAGTTGAAAATCTGGCATACATGCTCGTATGCATGCAGTGGACTAAGAAGAAATgctctcgggtgaggggattggcttcaaaatctaaggtatgattgggatattctgttga Alignment from Pairagon TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGAC------------------G tatcatttgtataacccattgcccagggagtgctctactttttattccagTTGGCCCTCCGCTATTCACATTAGTGAATTATGAAGTTGAAAATCTGGCATACATGCTCGTATGCATGCAGTGGACTAAGAAGAAATGCTCTCGGgtgaggggattggcttcaaaatctaaggtatgattgggatattctgttga Alignment from Exonerate_protein2genome TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG tatcatttgtataacccattgcccagggagtgctctactttttattccagTTGGCCCTCCGCTATTCACATTAGTGAATTATGAAGTTGAAAATCTGGCATACATGCTCGTATGCATGCAGTGGACTaagaagaaatgctctcgggtgaggggattggcttcaaaatctaaggtatgattgggatattctgttga Alignment from Exonerate_coding2genome TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG tatcatttgtataacccattgcccagggagtgctctactttttattccagTTGGCCCTCCGCTATTCACATTAGTGAATTATGAAGTTGAAAATCTGGCATACATGCTCGTATGCATGCAGTGGACTaagaagaaatgctctcgggtgaggggattggcttcaaaatctaaggtatgattgggatattctgttga Alignment from GeneWise TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG------------------ tatcatttgtataacccattgcccagggagtgctctactttttattccagTTGGCCCTCCGCTATTCACATTAGTGAATTATGAAGTTGAAAATCTGGCATACATGCTCGTATGCATGCAGTGGACTAAGAAGAAATGCTCTCGGgtgaggggattggcttcaaaatctaaggtatgattgggatattctgttga #### Fads3_ID2665_8 --> 0 - 2 Original Alignment GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTC---------ag ttctgggcccctaggtccccagcacagcccttgaacttattcccttctagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTCTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTCGTTGTGCACTTTACTaggtgaggtgcaacatgctgtccaccaaaatccatttaggtcttgctgacat Alignment from CESAR GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTC---------ag ttctgggcccctaggtccccagcacagcccttgaacttattcccttctagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTCTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTCGTTGTGCACTTTACTaggtgaggtgcaacatgctgtccaccaaaatccatttaggtcttgctgacat Alignment from Spaln_aa2Genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAGG-------- ttctgggcccctaggtccccagcacagcccttgaacttattcccttctagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTCTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTCGTTGTGCACTTTACTAGgtgaggtgcaacatgctgtccaccaaaatccatttaggtcttgctgacat Alignment from Spaln_nt2Genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCT ttctgggcccctaggtccccagcacagcccttgaacttattcccttctagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTCTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTCGTTgtgcactttactaggtgaggtgcaacatgctgtccaccaaaatccatttaggtcttgctgacat Alignment from Pairagon GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGT---------CAG ttctgggcccctaggtccccagcacagcccttgaacttattcccttctagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTCTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTCGTTGTGCACTTTACTAGgtgaggtgcaacatgctgtccaccaaaatccatttaggtcttgctgacat Alignment from Exonerate_protein2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ttctgggcccctaggtccccagcacagcccttgaacttattcccttctagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTCTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTCGTTGTGCActttactaggtgaggtgcaacatgctgtccaccaaaatccatttaggtcttgctgacat Alignment from Exonerate_coding2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ttctgggcccctaggtccccagcacagcccttgaacttattcccttctagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTCTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTCGTTGTGCActttactaggtgaggtgcaacatgctgtccaccaaaatccatttaggtcttgctgacat Alignment from GeneWise GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTC---------AG ttctgggcccctaggtccccagcacagcccttgaacttattcccttctagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTCTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTCGTTGTGCACTTTACTAGgtgaggtgcaacatgctgtccaccaaaatccatttaggtcttgctgacat #### Fads3_ID2666_9 --> 1 - 0 Original Alignment gGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG------ actccataaactgaatcaaggatgctgttcaaattctgtcttatttctaggGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCACATCCCCAAGAAGATAGGCCATGAAAAACATCGGGACTGGGCAACCTCTCAGAATTCAgtatggactcttaagtctacatactagtggtggagtgactgtgctttatg Alignment from CESAR gGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG------ actccataaactgaatcaaggatgctgttcaaattctgtcttatttctaggGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCACATCCCCAAGAAGATAGGCCATGAAAAACATCGGGACTGGGCAACCTCTCAGAATTCAgtatggactcttaagtctacatactagtggtggagtgactgtgctttatg Alignment from Spaln_aa2Genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG------ actccataaactgaatcaaggatgctgttcaaattctgtcttatttctagGGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCACATCCCCAAGAAGATAGGCCATGAAAAACATCGGGACTGGGCAACCTCTCAGAATTCAgtatggactcttaagtctacatactagtggtggagtgactgtgctttatg Alignment from Spaln_nt2Genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG------ actccataaactgaatcaaggatgctgttcaaattctgtcttatttctagGGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCACATCCCCAAGAAGATAGGCCATGAAAAACATCGGGACTGGGCAACCTCTCAGAATTCAgtatggactcttaagtctacatactagtggtggagtgactgtgctttatg Alignment from Pairagon GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG------ actccataaactgaatcaaggatgctgttcaaattctgtcttatttctagGGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCACATCCCCAAGAAGATAGGCCATGAAAAACATCGGGACTGGGCAACCTCTCAGAATTCAgtatggactcttaagtctacatactagtggtggagtgactgtgctttatg Alignment from Exonerate_protein2genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG actccataaactgaatcaaggatgctgttcaaattctgtcttatttctagGGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCACATCCCCAAGAAGATAGGCCATGAAAAACATCGGGACTGGGCAACCTCTCAGaattcagtatggactcttaagtctacatactagtggtggagtgactgtgctttatg Alignment from Exonerate_coding2genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG actccataaactgaatcaaggatgctgttcaaattctgtcttatttctagGGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCACATCCCCAAGAAGATAGGCCATGAAAAACATCGGGACTGGGCAACCTCTCAGaattcagtatggactcttaagtctacatactagtggtggagtgactgtgctttatg Alignment from GeneWise GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG------ actccataaactgaatcaaggatgctgttcaaattctgtcttatttctagGGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCACATCCCCAAGAAGATAGGCCATGAAAAACATCGGGACTGGGCAACCTCTCAGAATTCAgtatggactcttaagtctacatactagtggtggagtgactgtgctttatg #### Fibp_ID1005_2 --> 2 - 2 Original Alignment tgAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAG---------ag cggggccttatagggttatattcctcacgcttgacccagtatcttcacagtgAATGATGCAGTGGCTCTCCATGTTCGCTCTGGTATTTTAGAACAGACTGGGGCCACTACAGGAGTGCTGCAGAGTGACACAATGGATCACTACCGTACCTTTCGCATGCTTGAACGACTATTATGTTCACCCCCAAAGCTCCTG------CTTGTATTTCAGATTCCCCCTGCCCGACAGACTCTCCTCATTGAACTTAGTGAGaggtaagcaacaggatggttagtggggtgggtcctggccagagggtcatcgt Alignment from CESAR tgAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATC---------GAGag cggggccttatagggttatattcctcacgcttgacccagtatcttcacagtgAATGATGCAGTGGCTCTCCATGTTCGCTCTGGTATTTTAGAACAGACTGGGGCCACTACAGGAGTGCTGCAGAGTGACACAATGGATCACTACCGTACCTTTCGCATGCTTGAACGACTATTATGTTCACCCCCAAAGCTCCTG------CTTGTATTTCAGATTCCCCCTGCCCGACAGACTCTCCTCATTGAACTTAGTGAGaggtaagcaacaggatggttagtggggtgggtcctggccagagggtcatcgt Alignment from Spaln_aa2Genome TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAGAGG-------- cggggccttatagggttatattcctcacgcttgacccagtatcttcacagTGAATGATGCAGTGGCTCTCCATGTTCGCTCTGGTATTTTAGAACAGACTGGGGCCACTACAGGAGTGCTGCAGAGTGACACAATGGATCACTACCGTACCTTTCGCATGCTTGAACGACTATTATGTTCACCCCCAAAGCTCCTG------CTTGTATTTCAGATTCCCCCTGCCCGACAGACTCTCCTCATTGAACTTAGTGAGAGgtaagcaacaggatggttagtggggtgggtcctggccagagggtcatcgt Alignment from Spaln_nt2Genome TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGA---------GAG cggggccttatagggttatattcctcacgcttgacccagtatcttcacagTGAATGATGCAGTGGCTCTCCATGTTCGCTCTGGTATTTTAGAACAGACTGGGGCCACTACAGGAGTGCTGCAGAGTGACACAATGGATCACTACCGTACCTTTCGCATGCTTGAACGACTATTATGTTCACCCCCAAAGCT------CCTGCTTGTATTTCAGATTCCCCCTGCCCGACAGACTCTCCTCATTGAACTTAGTGAGAGgtaagcaacaggatggttagtggggtgggtcctggccagagggtcatcgt Alignment from Pairagon TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCT------------------GCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCG---------AGAG cggggccttatagggttatattcctcacgcttgacccagtatcttcacagTGAATGATGCAGTGGCTCTCCATGTTCGCTCTGGTATTTTAGAACAGACTGGGGCCACTACAGGAGTGCTGCAGAGTGACACAATGGATCACTACCGTACCTTTCGCATGCTTGAACGACTATTATGTTCACCCCCAAAGCT------------------------CCTGCTTGTATTTCAGATTCCCCCTGCCCGACAGACTCTCCTCATTGAACTTAGTGAGAGgtaagcaacaggatggttagtggggtgggtcctggccagagggtcatcgt Alignment from Exonerate_protein2genome TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAG cggggccttatagggttatattcctcacgcttgacccagtatcttcacagTGAATGATGCAGTGGCTCTCCATGTTCGCTCTGGTATTTTAGAACAGACTGGGGCCACTACAGGAGTGCTGCAGAGTGACACAATGGATCACTACCGTACCTTTCGCATGCTTGAACGACTATTATGTTCACCCCCAAAGCTCCTG------CTTGTATTTCAGATTCCCCCTGCCCGACAGACTCTCCTCATTGAActtagtgagaggtaagcaacaggatggttagtggggtgggtcctggccagagggtcatcgt Alignment from Exonerate_coding2genome TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAG cggggccttatagggttatattcctcacgcttgacccagtatcttcacagTGAATGATGCAGTGGCTCTCCATGTTCGCTCTGGTATTTTAGAACAGACTGGGGCCACTACAGGAGTGCTGCAGAGTGACACAATGGATCACTACCGTACCTTTCGCATGCTTGAACGACTATTATGTTCACCCCCAAAGCTCCTG------CTTGTATTTCAGATTCCCCCTGCCCGACAGACTCTCCTCATTGAActtagtgagaggtaagcaacaggatggttagtggggtgggtcctggccagagggtcatcgt Alignment from GeneWise TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAG---------AG cggggccttatagggttatattcctcacgcttgacccagtatcttcacagTGAATGATGCAGTGGCTCTCCATGTTCGCTCTGGTATTTTAGAACAGACTGGGGCCACTACAGGAGTGCTGCAGAGTGACACAATGGATCACTACCGTACCTTTCGCATGCTTGAACGACTATTATGTTCACCCCCAAAGCTCCTG------CTTGTATTTCAGATTCCCCCTGCCCGACAGACTCTCCTCATTGAACTTAGTGAGAGgtaagcaacaggatggttagtggggtgggtcctggccagagggtcatcgt #### Fibp_ID1009_6 --> 2 - 2 Original Alignment ac---------------------------TCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGag gaatatccaagatgttttatgcatattcttttctcactgcccttctatagacGCTGACACCAATGCTTCTCCCATGATTCCTCAGGTGGATGACATGGATGTTGACTTAGATAAAGAATTTCTCCAAGACTTCAAGGAGCTTAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCTGGACAAGaggtgagcgtgggatacttgggagccgaggttactacactcagtctacagaa Alignment from CESAR acTCT---------------------------CAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGag gaatatccaagatgttttatgcatattcttttctcactgcccttctatagacGCTGACACCAATGCTTCTCCCATGATTCCTCAGGTGGATGACATGGATGTTGACTTAGATAAAGAATTTCTCCAAGACTTCAAGGAGCTTAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCTGGACAAGaggtgagcgtgggatacttgggagccgaggttactacactcagtctacagaa Alignment from Spaln_aa2Genome ACTCT---------------------------CAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAG gaatatccaagatgttttatgcatattcttttctcactgcccttctatagACGCTGACACCAATGCTTCTCCCATGATTCCTCAGGTGGATGACATGGATGTTGACTTAGATAAAGAATTTCTCCAAGACTTCAAGGAGCTTAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCTGGACAAGAGgtgagcgtgggatacttgggagccgaggttactacactcagtctacagaa Alignment from Spaln_nt2Genome GTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAG gaatatccaagatgttttatgcatattcttttctcactgcccttctatagacgctgacaccaatgcttctcccatgattcctcagGTGGATGACATGGATGTTGACTTAGATAAAGAATTTCTCCAAGACTTCAAGGAGCTTAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCTGGACAAGAGgtgagcgtgggatacttgggagccgaggttactacactcagtctacagaa Alignment from Pairagon AC---------------------------TCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAG gaatatccaagatgttttatgcatattcttttctcactgcccttctatagACGCTGACACCAATGCTTCTCCCATGATTCCTCAGGTGGATGACATGGATGTTGACTTAGATAAAGAATTTCTCCAAGACTTCAAGGAGCTTAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCTGGACAAGAGgtgagcgtgggatacttgggagccgaggttactacactcagtctacagaa Alignment from Exonerate_protein2genome ACTCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAG gaatatccaagatgttttatgcatattcttttctcactgcccttctatagacgctgacaccaatgcttctcccatgaTTCCTCAGGTGGATGACATGGATGTTGACTTAGATAAAGAATTTCTCCAAGACTTCAAGGAGCTTAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCTGGACAAGAGgtgagcgtgggatacttgggagccgaggttactacactcagtctacagaa Alignment from Exonerate_coding2genome ACTCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAG gaatatccaagatgttttatgcatattcttttctcactgcccttctatagacgctgacaccaatgcttctcccatgaTTCCTCAGGTGGATGACATGGATGTTGACTTAGATAAAGAATTTCTCCAAGACTTCAAGGAGCTTAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCTGGACAAGAGgtgagcgtgggatacttgggagccgaggttactacactcagtctacagaa Alignment from GeneWise -----GACTCT---------------------CAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAG gaatatccaagatgttttatgcatattcttttctcactgcccttctatagACGCTGACACCAATGCTTCTCCCATGATTCCTCAGGTGGATGACATGGATGTTGACTTAGATAAAGAATTTCTCCAAGACTTCAAGGAGCTTAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCTGGACAAGAGgtgagcgtgggatacttgggagccgaggttactacactcagtctacagaa #### Fibp_ID1012_9 --> 0 - 2 Original Alignment TTTGTGGAACCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCcg gcacaggacggtttttggtgacatgttttccccctctctttccctctcag------GAACCATGCCGCTCTGACCACTGGCCACTGAGTGATGTCCGGCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCCTGGATGGATTCcggtaaggaggggtgaacatgtttgctagctttgttggtctaattcaaggtt Alignment from CESAR TTTGTGGAACCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCcg agctgagcacaggacggtttttggtttttccccctctctttccctctcag------GAACCATGCCGCTCTGACCACTGGCCACTGAGTGATGTCCGGCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCCTGGATGGATTCcggtaaggaggggtgaacatgtttgctagctttgttggtctaattcaaggtt Alignment from Spaln_aa2Genome TTTGTGGAACCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG gcacaggacggtttttggtgacatgttttccccctctctttccctctcag------GAACCATGCCGCTCTGACCACTGGCCACTGAGTGATGTCCGGCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCCTGGATGGATTCCGgtaaggaggggtgaacatgtttgctagctttgttggtctaattcaaggtt Alignment from Spaln_nt2Genome TGGAACCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG gcacaggacggtttttggtgacatgttttccccctctctttccctctcag--GAACCATGCCGCTCTGACCACTGGCCACTGAGTGATGTCCGGCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCCTGGATGGATTCCGgtaaggaggggtgaacatgtttgctagctttgttggtctaattcaaggtt Alignment from Pairagon TTTGTGGAACCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG gcacaggacggtttttggtgacatgttttccccctctctttccctctcag------GAACCATGCCGCTCTGACCACTGGCCACTGAGTGATGTCCGGCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCCTGGATGGATTCCGgtaaggaggggtgaacatgtttgctagctttgttggtctaattcaaggtt Alignment from Exonerate_protein2genome TGGAACCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG gcacaggacggtttttggtgacatgttttccccctctctttccctctcAGGAACCATGCCGCTCTGACCACTGGCCACTGAGTGATGTCCGGCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCCTGGATGGATTCCGgtaaggaggggtgaacatgtttgctagctttgttggtctaattcaaggtt Alignment from Exonerate_coding2genome TGGAACCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG gcacaggacggtttttggtgacatgttttccccctctctttccctctcAGGAACCATGCCGCTCTGACCACTGGCCACTGAGTGATGTCCGGCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCCTGGATGGATTCCGgtaaggaggggtgaacatgtttgctagctttgttggtctaattcaaggtt Alignment from GeneWise GAACCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG gcacaggacggtttttggtgacatgttttccccctctctttccctctcagGAACCATGCCGCTCTGACCACTGGCCACTGAGTGATGTCCGGCTTTTTCTTAGCCAGTATTCAGTTTCAGTACATTCCCTGGATGGATTCCGgtaaggaggggtgaacatgtttgctagctttgttggtctaattcaaggtt #### Fkbp2_ID1945_4 --> 2 - 1 Original Alignment ggTATGGAGAGCGGGGAGCCCCCCCAAAGATCCCAg gtGGAGCAACC gtgcccagccctcagttaacatagttttgtgtctgtcggttcttttgcaggt------GAATGGGGAGCCCCCCCAAAGATCCCAggtaaaacccctaccactatacatactcttccctccccaggtGGAGCAACC Alignment from CESAR ggTATGGAGAGCGGGGAGCCCCCCCAAAGATCCCAg gtGGAGCAACC agaaaagtgcccagccctcagttaatttgtgtctgtcggttcttttgcaggt------GAATGGGGAGCCCCCCCAAAGATCCCAggtaaaacccctaccactactattttacttatatttataggtGGAGCAACC Alignment from Spaln_aa2Genome GGTATGGAGAGCGGGGAGCCCCCCCAAAGATCCCAG GTGGAGCAACC gtgcccagccctcagttaacatagttttgtgtctgtcggttcttttgcagGT------GAATGGGGAGCCCCCCCAAAGATCCCAGgtaaaacccctaccactatacatactcttccctccccagGTGGAGCAACC Alignment from Spaln_nt2Genome GAGAGCGGGGAGCCCCCCCAAAGATCCCAG GTGGAGCAACC gtgcccagccctcagttaacatagttttgtgtctgtcggttcttttgcagGTGAATGGGGAGCCCCCCCAAAGATCCCAGgtaaaacccctaccactatacatactcttccctccccagGTGGAGCAACC Alignment from Pairagon GGTATGGAGAGCGGGGAGCCCCCCCAAAGATCCCAG GTGGAGCAACC gtgcccagccctcagttaacatagttttgtgtctgtcggttcttttgcag------GTGAATGGGGAGCCCCCCCAAAGATCCCAGgtaaaacccctaccactatacatactcttccctccccagGTGGAGCAACC Alignment from Exonerate_protein2genome GGTATGGAGAGCGGGGAGCCCCCCCAAAGATCCCAG GTGGAGCAACC gtgcccagccctcagttaacatagttttgtgtctgtcggttcttttgcagGT------GAATGGGGAGCCCCCCCAAAGATCCCAGgtaaaacccctaccactatacatactcttccctccccagGTGGAGCAACC Alignment from Exonerate_coding2genome GGTATGGAGAGCGGGGAGCCCCCCCAAAGATCCCAG GTGGAGCAACC gtgcccagccctcagttaacatagttttgtgtctgtcggttcttttgcagGT------GAATGGGGAGCCCCCCCAAAGATCCCAGgtaaaacccctaccactatacatactcttccctccccagGTGGAGCAACC Alignment from GeneWise ----------------------TATGGAGAGCGGGGAGCCCCCCCAAAGATCCCAGGT---------------------------------------GGAGCAACC gtgcccagccctcagttaacatagTTTTGTGTCTGTCGGTTCTTTTGCAGGTGAATGGGGAGCCCCCCCAAAGATCCCAGGTAAAACCCCTACCACTATACATACTCTTCCCTCCCCAGGTGGAGCAACC #### Fkbp2_ID1947_2 --> 0 - 2 Original Alignment GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGgg gtgggacaacctctcctgactgggtgttgcaactgtggcctctgctctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATCTTCTCCCTTGGCACTGGCCAGGTT---------------------------gggtggggttggcatataatccaagttgctgcgctaatttcaaacgcacctg Alignment from CESAR GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGgg gtgggacaacctctcctgactgggtgttgcaactgtggcctctgctctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATCTTCTCCCTTGGCACTGGCCAGGTT---------------------------gggtggggttggcatataatccaagttgctgcgctaatttcaaacgcacctg Alignment from Spaln_aa2Genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGAC---CAGGGGCTGCTGGG gtgggacaacctctcctgactgggtgttgcaactgtggcctctgctctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATCTTCTCCCTTGGCACTGGCCAGGTTGGGTGGGGTTGGCATATAATCCAAGTTGCTGCgctaatttcaaacgcacctg Alignment from Spaln_nt2Genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGA------CCAG gtgggacaacctctcctgactgggtgttgcaactgtggcctctgctctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATCTTCTCCCTTGGCACTGGCCAGGTTGGGTGGGGTTGGCATATAATCCAAgttgctgcgctaatttcaaacgcacctg Alignment from Pairagon GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG gtgggacaacctctcctgactgggtgttgcaactgtggcctctgctctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATCTTCTCCCTTGGCACTGGCCAGGTT---------------------------GGgtggggttggcatataatccaagttgctgcgctaatttcaaacgcacctg Alignment from Exonerate_protein2genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTAT gtgggacaacctctcctgactgggtgttgcaactgtggcctctgctctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATCTTCTCCCTTGGCACTGGCCAGGTTGGgtggggttggcatataatccaagttgctgcgctaatttcaaacgcacctg Alignment from Exonerate_coding2genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTAT gtgggacaacctctcctgactgggtgttgcaactgtggcctctgctctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATCTTCTCCCTTGGCACTGGCCAGGTTGGgtggggttggcatataatccaagttgctgcgctaatttcaaacgcacctg Alignment from GeneWise GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGG---------------------------------------- gtgggacaacctctcctgactgggtgttgcaactgtggcctctgctctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATCTTCTCCCTTGGCACTGGCCAGGTTGGGTGGGGTTGGCATATAATCCAAGTTGCTGCGCTAATTTCAAACGCACCTG #### Frmd8_ID1284_4 --> 2 - 0 Original Alignment atGAGCCTTCCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tggctgcatgagcctaggtaactatgataaacctgctttatgttcttcagatGAACCTTCCCTTCACTTCCGAAGGAATGTCTTTTTCCCCAGACAGCGT---------gtaagccagcttacgcgcgacttggggaagatcacagtgttcgagtatgt Alignment from CESAR atGAGCCTTCCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tggctgcatgagcctaggtaactatgataaacctgctttatgttcttcagatGAACCTTCCCTTCACTTCCGAAGGAATGTCTTTTTCCCCAGACAGCGT---------gtaagccagcttacgcgcgacttggggaagatcacagtgtt Alignment from Spaln_aa2Genome ATGAGCCTTCCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGA tggctgcatgagcctaggtaactatgataaacctgctttatgttcttcagATGAACCTTCCCTTCACTTCCGAAGGAATGTCTTTTTCCCCAGACAGCGTgtaagccagcttacgcgcgacttggggaagatcacagtgttcgagtatgt Alignment from Spaln_nt2Genome ATGAGCCTTCCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGA GAGCT tggctgcatgagcctaggtaactatgataaacctgctttatgttcttcagATGAACCTTCCCTTCACTTCCGAAGGAATGTCTTTTTCCCCAGACAGCGTgtaagccagcttacgcgcgacttggggaagatcacagtgttcgagTATGT Alignment from Pairagon ATGAGCCTTCCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAG--------------------------------------------------------- tggctgcatgagcctaggtaactatgataaacctgctttatgttcttcagATGAACCTTCCCTTCACTTCCGAAGGAATGTCTTTTTCCCCAGACAGCGTGTAAGCCAGCTTACGCGCGACTTGGGGAAGATCACAGTGTTCGAGTATGT Alignment from Exonerate_protein2genome ATGAGCCTTCCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tggctgcatgagcctaggtaactatgataaacctgctttatgttcttcagATGAACCTTCCCTTCACTTCCGAAGGAATGTCTTTTTCCCCAGACAGCGTGTAAGCCAGcttacgcgcgacttggggaagatcacagtgttcgagtatgt Alignment from Exonerate_coding2genome ATGAGCCTTCCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tggctgcatgagcctaggtaactatgataaacctgctttatgttcttcagATGAACCTTCCCTTCACTTCCGAAGGAATGTCTTTTTCCCCAGACAGCGTGTAAGCCAGcttacgcgcgacttggggaagatcacagtgttcgagtatgt Alignment from GeneWise ATGAGCCTTCCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG tggctgcatgagcctaggtaactatgataaacctgctttatgttcttcagATGAACCTTCCCTTCACTTCCGAAGGAATGTCTTTTTCCCCAGACAG---------CGTgtaagccagcttacgcgcgacttggggaagatcacagtgttcgagtatgt #### Fth1_ID2624_3 --> 0 - 0 Original Alignment AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tgctggttaggactaatgactaggatgattccattctgtctttctcccagAAACCCGACCGTGAAGACTGGGAGAGTGGGCTGAATGGAATGGAATGTGCGCTACACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCAACTGACAAGAAT---------gtgagttccgtaatttgaagttggttggaggagatgaattgctattgctt Alignment from CESAR AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tgctggttaggactaatgactaggatgattccattctgtctttctcccagAAACCCGACCGTGAAGACTGGGAGAGTGGGCTGAATGGAATGGAATGTGCGCTACACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCAACTGACAAGAAT---------gtgagttccgtaatttgaagttggttggaggagatgaattg Alignment from Spaln_aa2Genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tgctggttaggactaatgactaggatgattccattctgtctttctcccagAAACCCGACCGTGAAGACTGGGAGAGTGGGCTGAATGGAATGGAATGTGCGCTACACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCAACTGACAAGAATGTGAGTTCCgtaatttgaagttggttggaggagatgaattgctattgctt Alignment from Spaln_nt2Genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tgctggttaggactaatgactaggatgattccattctgtctttctcccagAAACCCGACCGTGAAGACTGGGAGAGTGGGCTGAATGGAATGGAATGTGCGCTACACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCAACTGACAAGAATGTGAGTTCCgtaatttgaagttggttggaggagatgaattgctattgctt Alignment from Pairagon AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAAT tgctggttaggactaatgactaggatgattccattctgtctttctcccagAAACCCGACCGTGAAGACTGGGAGAGTGGGCTGAATGGAATGGAATGTGCGCTACACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCAACTGACAAGAATgtgagttccgtaatttgaagttggttggaggagatgaattgctattgctt Alignment from Exonerate_protein2genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tgctggttaggactaatgactaggatgattccattctgtctttctcccagAAACCCGACCGTGAAGACTGGGAGAGTGGGCTGAATGGAATGGAATGTGCGCTACACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCAACTGACAAGAATGTGAGTTCCgtaatttgaagttggttggaggagatgaattgctattgctt Alignment from Exonerate_coding2genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tgctggttaggactaatgactaggatgattccattctgtctttctcccagAAACCCGACCGTGAAGACTGGGAGAGTGGGCTGAATGGAATGGAATGTGCGCTACACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCAACTGACAAGAATGTGAGTTCCgtaatttgaagttggttggaggagatgaattgctattgctt Alignment from GeneWise AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tgctggttaggactaatgactaggatgattccattctgtctttctcccagAAACCCGACCGTGAAGACTGGGAGAGTGGGCTGAATGGAATGGAATGTGCGCTACACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCAACTGACAAGAATGTGAGTTCCgtaatttgaagttggttggaggagatgaattgctattgctt #### Ganab_ID2470_9 --> 2 - 2 Original Alignment gcCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTga gtaagtcaggcctcaatagtaacatttcgtcacccagtctgtgctcccaggt------TCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTgagtgagtccatgataaatcgggataacaaaggtaatgaaagacctaacttt Alignment from CESAR gcCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTga gtaagaaattggcaggcctcaatagttcgtcacccagtctgtgctcccaggt------TCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTgagtgagtccatgataaatcgggataacaaaggtaatgaaagacctaacttt Alignment from Spaln_aa2Genome GC---CCCA CGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA GTAAGTCAGgcctcaatagtaacatttcgtcacccagtctgtgctcccagGTTCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTGAgtgagtccatgataaatcgggataacaaaggtaatgaaagacctaacttt Alignment from Spaln_nt2Genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA gtaagtcaggcctcaatagtaacatttcgtcacccagtctgtgctcccagG------TTCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTGAgtgagtccatgataaatcgggataacaaaggtaatgaaagacctaacttt Alignment from Pairagon GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA gtaagtcaggcctcaatagtaacatttcgtcacccagtctgtgctcccagGT------TCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTGAgtgagtccatgataaatcgggataacaaaggtaatgaaagacctaacttt Alignment from Exonerate_protein2genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA gtaagtcaggcctcaatagtaacatttcgtcacccagtctgtgctcccagGT------TCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTGAgtgagtccatgataaatcgggataacaaaggtaatgaaagacctaacttt Alignment from Exonerate_coding2genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA gtaagtcaggcctcaatagtaacatttcgtcacccagtctgtgctcccagGT------TCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTGAgtgagtccatgataaatcgggataacaaaggtaatgaaagacctaacttt Alignment from GeneWise C---------------------------------------------CCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA TAAGTCAGGCCTCAATAGTAACATTTCGTC-ACCCAGTCTGTGCTCCCAGGTTCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTGAgtgagtccatgataaatcgggataacaaaggtaatgaaagacctaacttt #### Ganab_ID2473_12 --> 2 - 0 Original Alignment ggACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG------------------------------ tacaaagtattacactcttaccagcctgctgctgactgactgccctccagggTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTGGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACTTGACTTCCAAAAGACGGAAGGGTTTGCAGAGCCATTTGAAGAAGTGTGGTgtgagaggtgctgcagctgtctgcgtgcctcttgtccagtgttggggagg Alignment from CESAR ggACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG- tacaaagtattacactcttaccagcctgctgctgactgactgccctccagggTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTGGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACTTGACTTCCAAAAGACGGAAGGgtttgcagagccatttgaagaagtgtggtgtgagaggtgctgcagctgtctgcgtgcctcttgtccagtgttggggagg Alignment from Spaln_aa2Genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG- tacaaagtattacactcttaccagcctgctgctgactgactgccctccagGGTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTGGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACTTGACTTCCAAAAGACGGAAGGgtttgcagagccatttgaagaagtgtggtgtgagaggtgctgcagctgtctgcgtgcctcttgtccagtgttggggagg Alignment from Spaln_nt2Genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG- tacaaagtattacactcttaccagcctgctgctgactgactgccctccagGGTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTGGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACTTGACTTCCAAAAGACGGAAGGgtttgcagagccatttgaagaagtgtggtgtgagaggtgctgcagctgtctgcgtgcctcttgtccagtgttggggagg Alignment from Pairagon GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG------------------------------ tacaaagtattacactcttaccagcctgctgctgactgactgccctccagGGTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTGGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACTTGACTTCCAAAAGACGGAAGGGTTTGCAGAGCCATTTGAAGAAGTGTGGTgtgagaggtgctgcagctgtctgcgtgcctcttgtccagtgttggggagg Alignment from Exonerate_protein2genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG tacaaagtattacactcttaccagcctgctgctgactgactgccctccagGGTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTGGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACTTGACTTCCAAAAGACGGAAGggtttgcagagccatttgaagaagtgtggtgtgagaggtgctgcagctgtctgcgtgcctcttgtccagtgttggggagg Alignment from Exonerate_coding2genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG tacaaagtattacactcttaccagcctgctgctgactgactgccctccagGGTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTGGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACTTGACTTCCAAAAGACGGAAGggtttgcagagccatttgaagaagtgtggtgtgagaggtgctgcagctgtctgcgtgcctcttgtccagtgttggggagg Alignment from GeneWise GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAGC tacaaagtattacactcttaccagcctgctgctgactgactgccctccagGGTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTGGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACTTGACTTCCAAAAGACGGAAGGgtttgcagagccatttgaagaagtgtggtgtgagaggtgctgcagctgtctgcgtgcctcttgtccagtgttggggagg #### Ganab_ID2474_13 --> 0 - 1 Original Alignment CTGGTGGCCATTGTGGACCCCCACATCAAGGTA------GACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCAg gc ggagggccattgtaatctaaacaatttttcacttttgtgttcctttgtagCTAGTTGCTACTGTGGACCCACATATCAAAGTTAAAGTAGACTCTGGCTACCGAGTTCATGACGAGTTGCAA---------------ATTAAGACTCGAGATGGCTCTGATTATGAGGGCTGG---------ggtatgttctctcccacatgcggtcaagcacccctcccccgctctgcaggc Alignment from CESAR CTGGTGGCCATTGTGGACCCCCACATCAAG------GTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCAg gc ggagggccattgtaatctaaacaatttttcacttttgtgttcctttgtagCTAGTTGCTACTGTGGACCCACATATCAAAGTTAAAGTAGACTCTGGCTACCGAGTTCATGACGAGTTGCAA---------------ATTAAGACTCGAGATGGCTCTGATTATGAGGGCTGG---------ggtatgttctctcccacatgcggttttgtctgtcctcctccacccacaggc Alignment from Spaln_aa2Genome CTGGTGGCCATTGTGGACCCCCACATC------AAGGTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGG- TGC ggagggccattgtaatctaaacaatttttcacttttgtgttcctttgtagCTAGTTGCTACTGTGGACCCACATATCAAAGTTAAAGTAGACTCTGGCTACCGAGTTCATGACGAGTTGCAA---------------ATTAAGACTCGAGATGGCTCTGATTATGAGGGCTGGGgtatgttctctcccacatgcggtcaagcacccctcccccgctctgca Alignment from Spaln_nt2Genome CTGGTGGCCATTGTGGACCCCCACATCAAGGT------AGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCAG GC ggagggccattgtaatctaaacaatttttcacttttgtgttcctttgtagCTAGTTGCTACTGTGGACCCACATATCAAAGTTAAAGTAGACTCTGGCTACCGAGTTCATGACGAGTTGCAAA---------------TTAAGACTCGAGATGGCTCTGATTATGAGGGCTGG---------GgtatgttctctcccacatgcggtcaagcacccctcccccgctctgcagGC Alignment from Pairagon CTGGTGGCCATTGTGGACCCCCACATC------AAGGTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGG---------------------------------------TGCTGGCCAGGC ggagggccattgtaatctaaacaatttttcacttttgtgttcctttgtagCTAGTTGCTACTGTGGACCCACATATCAAAGTTAAAGTAGACTCTGGCTACCGAGTTCATGACGAGTTGCAAA---------------TTAAGACTCGAGATGGCTCTGATTATGAGGGCTGGGGTATGTTCTCTCCCACATGCGGTCAAGCACCCCTCCCCCGCTCTGCAGGC Alignment from Exonerate_protein2genome CTGGTGGCCATTGTGGACCCCCACATC------AAGGTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGT GCTGGCCAGGC ggagggccattgtaatctaaacaatttttcacttttgtgttcctttgtagCTAGTTGCTACTGTGGACCCACATATCAAAGTTAAAGTAGACTCTGGCTACCGAGTTCATGACGAGTTGCAA---------------ATTAAGACTCGAGATGGCTCTGATTATGAGGGCTGGGgtatgttctctcccacatgcggtcaagcacccctcccccGCTCTGCAGGC Alignment from Exonerate_coding2genome CTGGTGGCCATTGTGGACCCCCACATC------AAGGTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGT GCTGGCCAGGC ggagggccattgtaatctaaacaatttttcacttttgtgttcctttgtagCTAGTTGCTACTGTGGACCCACATATCAAAGTTAAAGTAGACTCTGGCTACCGAGTTCATGACGAGTTGCAA---------------ATTAAGACTCGAGATGGCTCTGATTATGAGGGCTGGGgtatgttctctcccacatgcggtcaagcacccctcccccGCTCTGCAGGC Alignment from GeneWise CTGGTGGCCATTGTGGACCCCCACATCAAGGTA------GACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGG------------------TGCTGG---------------------CCAGGC ggagggccattgtaatctaaacaatttttcacttttgtgttcctttgtagCTAGTTGCTACTGTGGACCCACATATCAAAGTTAAAGTAGACTCTGGCTACCGAGTTCATGACGAGTTGCAA---------------ATTAAGACTCGAGATGGCTCTGATTATGAGGGCTGGGGTATGTTCTCTCCCACATGCGGTCAAGCACCCCTCCCCCGCTCTGCAGGC #### Ganab_ID2475_14 --> 2 - 0 Original Alignment Ag gcTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG--- AggtaggttctgcggtcaatgaaattttgtctgtcctcctccacccacaggcTCAGCTAGTTACCCTGACTACACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGCTCgtgaggaactggtagtggtaatcctcataattttgctgatcgtcaatgtc Alignment from CESAR Ag gcTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG--- AggtatgatctgcggtcaatgaaattttgtctgtcctcctccacccacaggcTCAGCTAGTTACCCTGACTACACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGCTCgtgaggaactggtagtggtaatcctcataattttgctgatcgtcaatgtc Alignment from Spaln_aa2Genome AG GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG--- AGgtaggttctgcggtcaatgaaattttgtctgtcctcctccacccacagGCTCAGCTAGTTACCCTGACTACACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGCTCgtgaggaactggtagtggtaatcctcataattttgctgatcgtcaatgtc Alignment from Spaln_nt2Genome AG GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG--- AGgtaggttctgcggtcaatgaaattttgtctgtcctcctccacccacagGCTCAGCTAGTTACCCTGACTACACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGCTCgtgaggaactggtagtggtaatcctcataattttgctgatcgtcaatgtc Alignment from Pairagon AG GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG--- AGgtaggttctgcggtcaatgaaattttgtctgtcctcctccacccacagGCTCAGCTAGTTACCCTGACTACACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGCTCgtgaggaactggtagtggtaatcctcataattttgctgatcgtcaatgtc Alignment from Exonerate_protein2genome AG GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AGgtaggttctgcggtcaatgaaattttgtctgtcctcctccacccacagGCTCAGCTAGTTACCCTGACTACACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGctcgtgaggaactggtagtggtaatcctcataattttgctgatcgtcaatgtc Alignment from Exonerate_coding2genome AG GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AGgtaggttctgcggtcaatgaaattttgtctgtcctcctccacccacagGCTCAGCTAGTTACCCTGACTACACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGctcgtgaggaactggtagtggtaatcctcataattttgctgatcgtcaatgtc Alignment from GeneWise AG GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGGGT AGgtaggttctgcggtcaatgaaattttgtctgtcctcctccacccacagGCTCAGCTAGTTACCCTGACTACACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGCTCgtgaggaactggtagtggtaatcctcataattttgctgatcgtcaatgtc #### Ganab_ID2476_15 --> 0 - 0 Original Alignment GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG aatctcctttttctccccctttccacgaatgtttacttcttcctccatag---TCAGCTCCTAATCTGTATGTATGGATTGAGATGAATGAACCCTCTGTCTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGATATCCATAATTTTTATGGCTTATATGTGgtgagccaggcaaatgagaaggcagtaaggcaaagaggataaaacagtcg Alignment from CESAR GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG agtaatctcctttttctccccctttcgaatgtttacttcttcctccatag---TCAGCTCCTAATCTGTATGTATGGATTGAGATGAATGAACCCTCTGTCTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGATATCCATAATTTTTATGGCTTATATGTGgtgagccaggcaaatgagaaggcagtaaggcaaagaggataaaacagtcg Alignment from Spaln_aa2Genome GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG aatctcctttttctccccctttccacgaatgtttacttcttcctccatag---TCAGCTCCTAATCTGTATGTATGGATTGAGATGAATGAACCCTCTGTCTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGATATCCATAATTTTTATGGCTTATATGTGgtgagccaggcaaatgagaaggcagtaaggcaaagaggataaaacagtcg Alignment from Spaln_nt2Genome GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG aatctcctttttctccccctttccacgaatgtttacttcttcctccatag---TCAGCTCCTAATCTGTATGTATGGATTGAGATGAATGAACCCTCTGTCTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGATATCCATAATTTTTATGGCTTATATGTGgtgagccaggcaaatgagaaggcagtaaggcaaagaggataaaacagtcg Alignment from Pairagon GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG aatctcctttttctccccctttccacgaatgtttacttcttcctccatag---TCAGCTCCTAATCTGTATGTATGGATTGAGATGAATGAACCCTCTGTCTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGATATCCATAATTTTTATGGCTTATATGTGgtgagccaggcaaatgagaaggcagtaaggcaaagaggataaaacagtcg Alignment from Exonerate_protein2genome TCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG aatctcctttttctccccctttccacgaatgtttacttcttcctccatagTCAGCTCCTAATCTGTATGTATGGATTGAGATGAATGAACCCTCTGTCTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGATATCCATAATTTTTATGGCTTATATGTGgtgagccaggcaaatgagaaggcagtaaggcaaagaggataaaacagtcg Alignment from Exonerate_coding2genome TCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG aatctcctttttctccccctttccacgaatgtttacttcttcctccatagTCAGCTCCTAATCTGTATGTATGGATTGAGATGAATGAACCCTCTGTCTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGATATCCATAATTTTTATGGCTTATATGTGgtgagccaggcaaatgagaaggcagtaaggcaaagaggataaaacagtcg Alignment from GeneWise GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG aatctcctttttctccccctttccacgaatgtttacttcttcctccatagTCA---GCTCCTAATCTGTATGTATGGATTGAGATGAATGAACCCTCTGTCTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGATATCCATAATTTTTATGGCTTATATGTGgtgagccaggcaaatgagaaggcagtaaggcaaagaggataaaacagtcg #### Ganab_ID2477_16 --> 0 - 1 Original Alignment ---CACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTg accagaaggtagatagtatgtgttctttaatcttgtatttccttctctagGTACATATGGCAACCGCTGATGGGCTGATACAGTGTTCAGGGGGCATAGAGCGTTCGTTTGTGTTGAGTAGGGCTTTCTCCTCAGGTTTCCAGCGCTTTggtaagatgttgaaactagggccgtaactctagtcacctagcctggttaat Alignment from CESAR ---CACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTg accagaaggtagatagtatgtgttctttaatcttgtatttccttctctagGTACATATGGCAACCGCTGATGGGCTGATACAGTGTTCAGGGGGCATAGAGCGTTCGTTTGTGTTGAGTAGGGCTTTCTCCTCAGGTTTCCAGCGCTTTggtaagatgttgaaactagggccgtaactctagtcacctagcctggttaat Alignment from Spaln_aa2Genome GTGCACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTG accagaaggtagatagtatgtgttctttaatcttgtatttccttctctagGTACATATGGCAACCGCTGATGGGCTGATACAGTGTTCAGGGGGCATAGAGCGTTCGTTTGTGTTGAGTAGGGCTTTCTCCTCAGGTTTCCAGCGCTTTGgtaagatgttgaaactagggccgtaactctagtcacctagcctggttaat Alignment from Spaln_nt2Genome GTGCACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTG accagaaggtagatagtatgtgttctttaatcttgtatttccttctctagGTACATATGGCAACCGCTGATGGGCTGATACAGTGTTCAGGGGGCATAGAGCGTTCGTTTGTGTTGAGTAGGGCTTTCTCCTCAGGTTTCCAGCGCTTTGgtaagatgttgaaactagggccgtaactctagtcacctagcctggttaat Alignment from Pairagon GTGCACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTG accagaaggtagatagtatgtgttctttaatcttgtatttccttctctagGTACATATGGCAACCGCTGATGGGCTGATACAGTGTTCAGGGGGCATAGAGCGTTCGTTTGTGTTGAGTAGGGCTTTCTCCTCAGGTTTCCAGCGCTTTGgtaagatgttgaaactagggccgtaactctagtcacctagcctggttaat Alignment from Exonerate_protein2genome GTGCACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTG accagaaggtagatagtatgtgttctttaatcttgtatttccttctctagGTACATATGGCAACCGCTGATGGGCTGATACAGTGTTCAGGGGGCATAGAGCGTTCGTTTGTGTTGAGTAGGGCTTTCTCCTCAGGTTTCCAGCGCTTTGgtaagatgttgaaactagggccgtaactctagtcacctagcctggttaat Alignment from Exonerate_coding2genome GTGCACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTG accagaaggtagatagtatgtgttctttaatcttgtatttccttctctagGTACATATGGCAACCGCTGATGGGCTGATACAGTGTTCAGGGGGCATAGAGCGTTCGTTTGTGTTGAGTAGGGCTTTCTCCTCAGGTTTCCAGCGCTTTGgtaagatgttgaaactagggccgtaactctagtcacctagcctggttaat Alignment from GeneWise ---CACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTTG accagaaggtagatagtatgtgttctttaatcttgtatttccttctctagGTACATATGGCAACCGCTGATGGGCTGATACAGTGTTCAGGGGGCATAGAGCGTTCGTTTGTGTTGAGTAGGGCTTTCTCCTCAGGTTTCCAGCGCTTTGgtaagatgttgaaactagggccgtaactctagtcacctagcctggttaat #### Ganab_ID2478_17 --> 2 - 1 Original Alignment gaGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAg tactgttttgtgggtaatcaggacaatcgcctatgcatcatcattcccaggaGCTGTGTGGACAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCTTGGCATTGGTGGGGCTTTCCTTC------ggtaagtctaccagaagtaaacatttggggtcttgcattggatgtttgtgg Alignment from CESAR gaGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAg tactgttttgtgggtaatcaggacaatcgcctatgcatcatcattcccaggaGCTGTGTGGACAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCTTGGCATTGGTGGGGCTTTCCTTC------ggtaagtctaccagaagtaaacatttggggtcttgcattggatgtttgtgg Alignment from Spaln_aa2Genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTC- tactgttttgtgggtaatcaggacaatcgcctatgcatcatcattcccagGAGCTGTGTGGACAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCTTGGCATTGGTGGGGCTTTCCTTCGgtaagtctaccagaagtaaacatttggggtcttgcattggatgtttgtgg Alignment from Spaln_nt2Genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG tactgttttgtgggtaatcaggacaatcgcctatgcatcatcattcccagGAGCTGTGTGGACAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCTTGGCATTGGTGGGGCTTTCCTTC------Ggtaagtctaccagaagtaaacatttggggtcttgcattggatgtttgtgg Alignment from Pairagon GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG tactgttttgtgggtaatcaggacaatcgcctatgcatcatcattcccagGAGCTGTGTGGACAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCTTGGCATTGGTGGGGCTTTCCTTC------Ggtaagtctaccagaagtaaacatttggggtcttgcattggatgtttgtgg Alignment from Exonerate_protein2genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCT tactgttttgtgggtaatcaggacaatcgcctatgcatcatcattcccagGAGCTGTGTGGACAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCTTGGCATTGGTGGGGCTTTCCTTCGgtaagtctaccagaagtaaacatttggggtcttgcattggatgtttgtgg Alignment from Exonerate_coding2genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCT tactgttttgtgggtaatcaggacaatcgcctatgcatcatcattcccagGAGCTGTGTGGACAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCTTGGCATTGGTGGGGCTTTCCTTCGgtaagtctaccagaagtaaacatttggggtcttgcattggatgtttgtgg Alignment from GeneWise GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCT tactgttttgtgggtaatcaggacaatcgcctatgcatcatcattcccagGAGCTGTGTGGACAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCTTGGCATTGGTGGGGCTTTCCTTCGgtaagtctaccagaagtaaacatttggggtcttgcattggatgtttgtgg #### Ganab_ID2481_20 --> 2 - 0 Original Alignment gt------GATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggttgcataagtgtgtacaaaattatatggaatcctaattctatctctaggtGCGACGGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtaagccgccaaatagcacagcccaagggacccaaaagggcaaaaacata Alignment from CESAR gt------GATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggttgcataagtgtgtacaaaattatatggaatcctaattctatctctaggtGCGACGGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtaagccgccaaatagcacagcccaagggacccaaaagggcaaaaacata Alignment from Spaln_aa2Genome GT------GATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggttgcataagtgtgtacaaaattatatggaatcctaattctatctctagGTGCGACGGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtaagccgccaaatagcacagcccaagggacccaaaagggcaaaaacata Alignment from Spaln_nt2Genome GTGATGCACTCCTTATT------CACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggttgcataagtgtgtacaaaattatatggaatcctaattctatctctagGTGCGACGGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtaagccgccaaatagcacagcccaagggacccaaaagggcaaaaacata Alignment from Pairagon GT------GATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggttgcataagtgtgtacaaaattatatggaatcctaattctatctctagGTGCGACGGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtaagccgccaaatagcacagcccaagggacccaaaagggcaaaaacata Alignment from Exonerate_protein2genome GT------GATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggttgcataagtgtgtacaaaattatatggaatcctaattctatctctagGTGCGACGGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtaagccgccaaatagcacagcccaagggacccaaaagggcaaaaacata Alignment from Exonerate_coding2genome GT------GATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggttgcataagtgtgtacaaaattatatggaatcctaattctatctctagGTGCGACGGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtaagccgccaaatagcacagcccaagggacccaaaagggcaaaaacata Alignment from GeneWise -----GGTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggttgcataagtgtgtacaaaattatatggaatcctaattctatctctagGTGCGACGGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAgtaagccgccaaatagcacagcccaagggacccaaaagggcaaaaacata #### Ganab_ID2484_23 --> 0 - 2 Original Alignment GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCT---------ag cagaccccatcgtttgtttgggttccattctctctctctctctctctcagGGTACTGCACAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTCTCTGGCAGCACACTGGTGTCTGTCTGTGCCaggttggtggtgactcttatgccctgcctccagggttttgctgtgtgtgcct Alignment from CESAR GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCT---------ag cagaccccatcgtttgtttgggttccattctctctctctctctctctcagGGTACTGCACAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTCTCTGGCAGCACACTGGTGTCTGTCTGTGCCaggttggtggtgactcttatgccctgcctccagggttttgctgtgtgtcatg Alignment from Spaln_aa2Genome GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCTAGTTCA----- cagaccccatcgtttgtttgggttccattctctctctctctctctctcagGGTACTGCACAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTCTCTGGCAGCACACTGGTGTCTGTCTGTGCCAGgttggtggtgactcttatgccctgcctccagggttttgctgtgtgtgcct Alignment from Spaln_nt2Genome GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCT cagaccccatcgtttgtttgggttccattctctctctctctctctctcagGGTACTGCACAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTCTCTGGCAGCACACTGGTGTCTgtctgtgccaggttggtggtgactcttatgccctgcctccagggttttgctgtgtgtgcct Alignment from Pairagon GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCT------------------------------------------------------------- cagaccccatcgtttgtttgggttccattctctctctctctctctctcagGGTACTGCACAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTCTCTGGCAGCACACTGGTGTCTGTCTGTGCCAGGTTGGTGGTGACTCTTATGCCCTGCCTCCAGGGTTTTGCTGTGTGTGCCT Alignment from Exonerate_protein2genome GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGT cagaccccatcgtttgtttgggttccattctctctctctctctctctcagGGTACTGCACAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTCTCTGGCAGCACACTGGTgtctgtctgtgccaggttggtggtgactcttatgccctgcctccagggttttgctgtgtgtgcct Alignment from Exonerate_coding2genome GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGT cagaccccatcgtttgtttgggttccattctctctctctctctctctcagGGTACTGCACAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTCTCTGGCAGCACACTGGTgtctgtctgtgccaggttggtggtgactcttatgccctgcctccagggttttgctgtgtgtgcct Alignment from GeneWise GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCTAGTTCAGCA-- cagaccccatcgtttgtttgggttccattctctctctctctctctctcagGGTACTGCACAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTCTCTGGCAGCACACTGGTGTCTGTCTGTGCCAGgttggtggtgactcttatgccctgcctccagggttttgctgtgtgtgcct #### Gbf1_ID9796_15 --> 2 - 1 Original Alignment ctGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGg atcaccagccacaagtttttggtgaatgctaagccttccttgtgttacagctGAGAGAGCGACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGAGGTCTTTACTTTCCCAGTGGAGGGTGGTTG---ACGGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCA------------cgtgagtatccagcgttataatggctatattctttctggctgagcctccca Alignment from CESAR ctGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGg atcaccagccacaagtttttggtgaatgctaagccttccttgtgttacagctGAGAGAGCGACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGAGGTCTTTACTTTCCCAGTGGAGGGTGGTTG---ACGGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCA------------cgtgagtatccagcgttataatggctatattctttctggctgagcctccca Alignment from Spaln_aa2Genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCT- atcaccagccacaagtttttggtgaatgctaagccttccttgtgttacagCTGAGAGAGCGACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGAGGTCTTTACTTTCCCAGTGGAGGGTGGTTG---ACGGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCACgtgagtatccagcgttataatggctatattctttctggctgagcctccca Alignment from Spaln_nt2Genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTG atcaccagccacaagtttttggtgaatgctaagccttccttgtgttacagCTGAGAGAGCGACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGAGGTCTTTACTTTCCCAGTGGAGGGTGGTTG---ACGGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCACgtgagtatccagcgttataatggctatattctttctggctgagcctccca Alignment from Pairagon CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGA atcaccagccacaagtttttggtgaatgctaagccttccttgtgttacagCTGAGAGAGCGACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGAGGTCTTTACTTTCCCAGTGGAGGGTGGTTG---ACGGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCACGTGAgtatccagcgttataatggctatattctttctggctgagcctccca Alignment from Exonerate_protein2genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTG atcaccagccacaagtttttggtgaatgctaagccttccttgtgttacagCTGAGAGAGCGACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGAGGTCTTTACTTTCCCAGTGGAGGGTGGTTG---ACGGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCACgtgagtatccagcgttataatggctatattctttctggctgagcctccca Alignment from Exonerate_coding2genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTG atcaccagccacaagtttttggtgaatgctaagccttccttgtgttacagCTGAGAGAGCGACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGAGGTCTTTACTTTCCCAGTGGAGGGTGGTTG---ACGGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCACgtgagtatccagcgttataatggctatattctttctggctgagcctccca Alignment from GeneWise CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTG atcaccagccacaagtttttggtgaatgctaagccttccttgtgttacagCTGAGAGAGCGACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGAGGTCTTTACTTTCCCAGTGGAGGGTGGTTG---ACGGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCACgtgagtatccagcgttataatggctatattctttctggctgagcctccca #### Gbf1_ID9803_22 --> 1 - 0 Original Alignment g---------AAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ggcctggtgaatgttcaccaggtgtttccctcacgttcacctcactgaaggACCCTGTACAAGTGTGCCACGATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtaaggtggaacaagaaaactagtcggaggccaatgatcctcttcctccc Alignment from CESAR g---------AAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ggcctggtgaatgttcaccaggtgtttccctcacgttcacctcactgaaggACCCTGTACAAGTGTGCCACGATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtaaggtggaacaagaaaactagtcggaggccaatgatcctcttcctccc Alignment from Spaln_aa2Genome TGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ggcctggtgaatgttcaccaggtgtttccctcacgttcacctcactgaaggaccctgtacaagTGTGCCACGATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtaaggtggaacaagaaaactagtcggaggccaatgatcctcttcctccc Alignment from Spaln_nt2Genome GAAGTGTGCC---------ATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ggcctggtgaatgttcaccaggtgtttccctcacgttcacctcactgaagGACCCTGTACAAGTGTGCCACGATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtaaggtggaacaagaaaactagtcggaggccaatgatcctcttcctccc Alignment from Pairagon G---------AAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ggcctggtgaatgttcaccaggtgtttccctcacgttcacctcactgaagGACCCTGTACAAGTGTGCCACGATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtaaggtggaacaagaaaactagtcggaggccaatgatcctcttcctccc Alignment from Exonerate_protein2genome G---------AAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ggcctggtgaatgttcaccaggtgtttccctcacgttcacctcactgaagGACCCTGTACAAGTGTGCCACGATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtaaggtggaacaagaaaactagtcggaggccaatgatcctcttcctccc Alignment from Exonerate_coding2genome G---------AAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ggcctggtgaatgttcaccaggtgtttccctcacgttcacctcactgaagGACCCTGTACAAGTGTGCCACGATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtaaggtggaacaagaaaactagtcggaggccaatgatcctcttcctccc Alignment from GeneWise TGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ggcctggtgaatgttcaccaggtgtttccctcacgttcacctcactgaaggaccctgtacaagTGTGCCACGATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtaaggtggaacaagaaaactagtcggaggccaatgatcctcttcctccc #### Gbf1_ID9804_23 --> 0 - 0 Original Alignment TCTATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG ttatctatacagaacctagcctaagggtattattctctttcttatcacag---ATTGAAAACCTTCCCAGTGTATTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCTAAAGCTATGGTCGAGgtagaacctaatcgatgtgccttaaaatactatagcctgatctgtcccac Alignment from CESAR TCTATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG gtattatctatacagaacctagcctggtattattctctttcttatcacag---ATTGAAAACCTTCCCAGTGTATTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCTAAAGCTATGGTCGAGgtagaacctaatcgatgtgccttaaaatactatagcctgatctgtcccac Alignment from Spaln_aa2Genome TCTATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG ttatctatacagaacctagcctaagggtattattctctttcttatcacag---ATTGAAAACCTTCCCAGTGTATTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCTAAAGCTATGGTCGAGgtagaacctaatcgatgtgccttaaaatactatagcctgatctgtcccac Alignment from Spaln_nt2Genome TCTATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG ttatctatacagaacctagcctaagggtattattctctttcttatcacag---ATTGAAAACCTTCCCAGTGTATTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCTAAAGCTATGGTCGAGgtagaacctaatcgatgtgccttaaaatactatagcctgatctgtcccac Alignment from Pairagon TCTATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG ttatctatacagaacctagcctaagggtattattctctttcttatcacag---ATTGAAAACCTTCCCAGTGTATTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCTAAAGCTATGGTCGAGgtagaacctaatcgatgtgccttaaaatactatagcctgatctgtcccac Alignment from Exonerate_protein2genome ATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG ttatctatacagaacctagcctaagggtattattctctttcttatcacagATTGAAAACCTTCCCAGTGTATTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCTAAAGCTATGGTCGAGgtagaacctaatcgatgtgccttaaaatactatagcctgatctgtcccac Alignment from Exonerate_coding2genome ATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG ttatctatacagaacctagcctaagggtattattctctttcttatcacagATTGAAAACCTTCCCAGTGTATTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCTAAAGCTATGGTCGAGgtagaacctaatcgatgtgccttaaaatactatagcctgatctgtcccac Alignment from GeneWise ATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG ttatctatacagaacctagcctaagggtattattctctttcttatcacagATTGAAAACCTTCCCAGTGTATTTGGTAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGGTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCTAAAGCTATGGTCGAGgtagaacctaatcgatgtgccttaaaatactatagcctgatctgtcccac #### Gbf1_ID9805_24 --> 0 - 2 Original Alignment GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACcg taagtctgcctatgactgaccctttcaatgttcttctacgtcttttccagGTAGAAGATTTTGTAGACCCCAATGGCAAGATCTCTTTACAACATGAGGAGATACCATCA---cagtatggctgtttgattaataagtgaggcctagagaagcagatatgatcag Alignment from CESAR GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACcg taagtctgcctatgactgaccctttcaatgttcttctacgtcttttccagGTAGAAGATTTTGTAGACCCCAATGGCAAGATCTCTTTACAACATGAGGAGATACCATCA---cagtatggctgtttgattaataagtgaggcctagagaagcagatatgatcag Alignment from Spaln_aa2Genome GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACCGAG taagtctgcctatgactgaccctttcaatgttcttctacgtcttttccagGTAGAAGATTTTGTAGACCCCAATGGCAAGATCTCTTTACAACATGAGGAGATACCATCACAGTATGgctgtttgattaataagtgaggcctagagaagcagatatgatcag Alignment from Spaln_nt2Genome GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAA taagtctgcctatgactgaccctttcaatgttcttctacgtcttttccagGTAGAAGATTTTGTAGACCCCAATGGCAAGATCTCTTTACAACATGAGGAGATACCATCACAgtatggctgtttgattaataagtgaggcctagagaagcagatatgatcag Alignment from Pairagon GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAA-------------------------------------------------- taagtctgcctatgactgaccctttcaatgttcttctacgtcttttccagGTAGAAGATTTTGTAGACCCCAATGGCAAGATCTCTTTACAACATGAGGAGATACCATCACAGTATGGCTGTTTGATTAATAAGTGAGGCCTAGAGAAGCAGATATGATCAG Alignment from Exonerate_protein2genome GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACCG taagtctgcctatgactgaccctttcaatgttcttctacgtcttttccagGTAGAAGATTTTGTAGACCCCAATGGCAAGATCTCTTTACAACATGAGGAGATACCATCA---CAgtatggctgtttgattaataagtgaggcctagagaagcagatatgatcag Alignment from Exonerate_coding2genome GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACCG taagtctgcctatgactgaccctttcaatgttcttctacgtcttttccagGTAGAAGATTTTGTAGACCCCAATGGCAAGATCTCTTTACAACATGAGGAGATACCATCA---CAgtatggctgtttgattaataagtgaggcctagagaagcagatatgatcag Alignment from GeneWise GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACCGAGGA- taagtctgcctatgactgaccctttcaatgttcttctacgtcttttccagGTAGAAGATTTTGTAGACCCCAATGGCAAGATCTCTTTACAACATGAGGAGATACCATCACAGTATGGCTgtttgattaataagtgaggcctagagaagcagatatgatcag #### Gbf1_ID9807_26 --> 0 - 0 Original Alignment ------------CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttcttcttttatcatgtcctttgtgttttgttccaagAATCAACTGCCTCAGTGTGACCCAGAAAAGATGATCACGGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtaagttgtgaacagaacttggaaagacagaatcttactggtgcagcgca Alignment from CESAR ------------CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttcttcttttatcatgtcctttgtgttttgttccaagAATCAACTGCCTCAGTGTGACCCAGAAAAGATGATCACGGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtaagttgtgaacagaacttggaaagacagaatcttactggtgcagcgca Alignment from Spaln_aa2Genome CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttcttcttttatcatgtcctttgtgttttgttccaagaatcaactgcctcagTGTGAC---CCAGAAAAGATGATCACGGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtaagttgtgaacagaacttggaaagacagaatcttactggtgcagcgca Alignment from Spaln_nt2Genome CAATGTGACCC------------AGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttcttcttttatcatgtcctttgtgttttgttccaagAATCAACTGCCTCAGTGTGACCCAGAAAAGATGATCACGGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtaagttgtgaacagaacttggaaagacagaatcttactggtgcagcgca Alignment from Pairagon CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttcttcttttatcatgtcctttgtgttttgttccaagaatcaactgcctcag---TGTGACCCAGAAAAGATGATCACGGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtaagttgtgaacagaacttggaaagacagaatcttactggtgcagcgca Alignment from Exonerate_protein2genome TGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttcttcttttatcatgtcctttgtgttttgttccaagaatcaactgcctcagTGTGACCCAGAAAAGATGATCACGGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtaagttgtgaacagaacttggaaagacagaatcttactggtgcagcgca Alignment from Exonerate_coding2genome TGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttcttcttttatcatgtcctttgtgttttgttccaagaatcaactgcctcagTGTGACCCAGAAAAGATGATCACGGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtaagttgtgaacagaacttggaaagacagaatcttactggtgcagcgca Alignment from GeneWise ------------CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttcttcttttatcatgtcctttgtgttttgttccaagAATCAACTGCCTCAGTGTGACCCAGAAAAGATGATCACGGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtaagttgtgaacagaacttggaaagacagaatcttactggtgcagcgca #### Gbf1_ID9815_34 --> 2 - 0 Original Alignment gaATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG aacacacacttgatcacttacatatttaatccatgtttcacactctgcagga------TGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACATATCTACAGCATGCACTTCTCGTGCACGATCTGCAGAAACTGGATGCCCTGGAGTGGGAATCTTGTTTTAACAAGgtgagtcttcaagtggacagaagtccaaataaccctacctgggctcaaga Alignment from CESAR gaATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacccgaacacacacttgatcacttttaatccatgtttcacactctgcagga------TGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACATATCTACAGCATGCACTTCTCGTGCACGATCTGCAGAAACTGGATGCCCTGGAGTGGGAATCTTGTTTTAACAAGgtgagtcttcaagtggacagaagtccaaataaccctacctgggctcaaga Alignment from Spaln_aa2Genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG aacacacacttgatcacttacatatttaatccatgtttcacactctgcagGA------TGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACATATCTACAGCATGCACTTCTCGTGCACGATCTGCAGAAACTGGATGCCCTGGAGTGGGAATCTTGTTTTAACAAGgtgagtcttcaagtggacagaagtccaaataaccctacctgggctcaaga Alignment from Spaln_nt2Genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG aacacacacttgatcacttacatatttaatccatgtttcacactctgcagGA------TGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACATATCTACAGCATGCACTTCTCGTGCACGATCTGCAGAAACTGGATGCCCTGGAGTGGGAATCTTGTTTTAACAAGgtgagtcttcaagtggacagaagtccaaataaccctacctgggctcaaga Alignment from Pairagon GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG aacacacacttgatcacttacatatttaatccatgtttcacactctgcagGA------TGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACATATCTACAGCATGCACTTCTCGTGCACGATCTGCAGAAACTGGATGCCCTGGAGTGGGAATCTTGTTTTAACAAGgtgagtcttcaagtggacagaagtccaaataaccctacctgggctcaaga Alignment from Exonerate_protein2genome CCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG aacacacacttgatcacttacatatttaatccatgtttcacactctgcagGATGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACATATCTACAGCATGCACTTCTCGTGCACGATCTGCAGAAACTGGATGCCCTGGAGTGGGAATCTTGTTTTAACAAGgtgagtcttcaagtggacagaagtccaaataaccctacctgggctcaaga Alignment from Exonerate_coding2genome CCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG aacacacacttgatcacttacatatttaatccatgtttcacactctgcagGATGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACATATCTACAGCATGCACTTCTCGTGCACGATCTGCAGAAACTGGATGCCCTGGAGTGGGAATCTTGTTTTAACAAGgtgagtcttcaagtggacagaagtccaaataaccctacctgggctcaaga Alignment from GeneWise GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG aacacacacttgatcacttacatatttaatccatgtttcacactctgcagGA------TGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACATATCTACAGCATGCACTTCTCGTGCACGATCTGCAGAAACTGGATGCCCTGGAGTGGGAATCTTGTTTTAACAAGgtgagtcttcaagtggacagaagtccaaataaccctacctgggctcaaga #### Gif_ID3279_3 --> 2 - 1 Original Alignment acCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAa ttcttgtagccacatccttcttgtgtctaaacatttcagtcctcttctagacTTGACAAGTGGGCAGCTGGCTCTCACTGTTATGGCTCTCACATCCTCTTGCAGAGACCCAGGTAGTAAGGTTTCTACTCTG---AAGAAAATGGAGAACTGGTCACCT---agtgagtagagcagtctatggggagattaggagaaatagagtgtgatctaa Alignment from CESAR acCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAa ttcttgtagccacatccttcttgtgtctaaacatttcagtcctcttctagacTTGACAAGTGGGCAGCTGGCTCTCACTGTTATGGCTCTCACATCCTCTTGCAGAGACCCAGGTAGTAAGGTTTCTACT---CTGAAGAAAATGGAGAACTGGTCACCT---agtgagtagagcagtctatggggagattaggagaaatagagtgtgatctaa Alignment from Spaln_aa2Genome ACCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTT ttcttgtagccacatccttcttgtgtctaaacatttcagtcctcttctagACTTGACAAGTGGGCAGCTGGCTCTCACTGTTATGGCTCTCACATCCTCTTGCAGAGACCCAGGTAGTAAGGTTTCTACTCTGAAGAAA---ATGGAGAACTGGTCACCTAgtgagtagagcagtctatggggagattaggagaaatagagtgtgatctaa Alignment from Spaln_nt2Genome ACCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA ttcttgtagccacatccttcttgtgtctaaacatttcagtcctcttctagACTTGACAAGTGGGCAGCTGGCTCTCACTGTTATGGCTCTCACATCCTCTTGCAGAGACCCAGGTAGTAAGGTTTCTACT---CTGAAGAAAATGGAGAACTGGTCACCT---Agtgagtagagcagtctatggggagattaggagaaatagagtgtgatctaa Alignment from Pairagon ACCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTTCAA ttcttgtagccacatccttcttgtgtctaaacatttcagtcctcttctagACTTGACAAGTGGGCAGCTGGCTCTCACTGTTATGGCTCTCACATCCTCTTGCAGAGACCCAGGTAGTAAGGTTTCTACT---CTGAAGAAAATGGAGAACTGGTCACCT---Agtgagtagagcagtctatggggagattaggagaaatagagtgtgatctaa Alignment from Exonerate_protein2genome ACCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTT ttcttgtagccacatccttcttgtgtctaaacatttcagtcctcttctagACTTGACAAGTGGGCAGCTGGCTCTCACTGTTATGGCTCTCACATCCTCTTGCAGAGACCCAGGTAGTAAGGTTTCTACT---CTGAAGAAAATGGAGAACTGGTCACCTAgtgagtagagcagtctatggggagattaggagaaatagagtgtgatctaa Alignment from Exonerate_coding2genome ACCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTT ttcttgtagccacatccttcttgtgtctaaacatttcagtcctcttctagACTTGACAAGTGGGCAGCTGGCTCTCACTGTTATGGCTCTCACATCCTCTTGCAGAGACCCAGGTAGTAAGGTTTCTACT---CTGAAGAAAATGGAGAACTGGTCACCTAgtgagtagagcagtctatggggagattaggagaaatagagtgtgatctaa Alignment from GeneWise ACCTGACAAGTGGGCAGCTTGCCCTCACCGTTATGGCTCTCACGTCCTCCTGCAGAGACCCTGGAAGTAAAGTGTCCACTCTACTGAAGAAAATGGAGAACTGGTCACCTT ttcttgtagccacatccttcttgtgtctaaacatttcagtcctcttctagACTTGACAAGTGGGCAGCTGGCTCTCACTGTTATGGCTCTCACATCCTCTTGCAGAGACCCAGGTAGTAAGGTTTCTACT---CTGAAGAAAATGGAGAACTGGTCACCTAgtgagtagagcagtctatggggagattaggagaaatagagtgtgatctaa #### Gpam_ID11543_6 --> 1 - 0 Original Alignment gCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG atccggttattgtgacgcacctgggcctctcttcttttttttaatttaagg---------TGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGgtagcttctgaatttagatacctgggggaaggcttctgtagtattgttat Alignment from CESAR gCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gtgcccgtgatccggttattgtgaccctctcttcttttttttaatttaagg---------TGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGgtagcttctgaatttagatacctgggggaaggcttctgtagtattgttat Alignment from Spaln_aa2Genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG atccggttattgtgacgcacctgggcctctcttcttttttttaatttaagG---------TGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGgtagcttctgaatttagatacctgggggaaggcttctgtagtattgttat Alignment from Spaln_nt2Genome CTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG atccggttattgtgacgcacctgggcctctcttcttttttttaatttaagGTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGgtagcttctgaatttagatacctgggggaaggcttctgtagtattgttat Alignment from Pairagon GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG atccggttattgtgacgcacctgggcctctcttcttttttttaatttaagG---------TGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGgtagcttctgaatttagatacctgggggaaggcttctgtagtattgttat Alignment from Exonerate_protein2genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG atccggttattgtgacgcacctgggcctctcttctttttttTAATTTAAGGTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGgtagcttctgaatttagatacctgggggaaggcttctgtagtattgttat Alignment from Exonerate_coding2genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG atccggttattgtgacgcacctgggcctctcttctttttttTAATTTAAGGTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGgtagcttctgaatttagatacctgggggaaggcttctgtagtattgttat Alignment from GeneWise GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG atccggttattgtgacgcacctgggcctctcttcttttttttaatttaagG---------TGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGgtagcttctgaatttagatacctgggggaaggcttctgtagtattgttat #### Gpr137_ID1885_6 --> 0 - 2 Original Alignment AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCag aagttgcagcagaagggcaggacaccagataattttttgttttcttacagAGCACCAGTCAAATCCTTAATGGCCAAGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATAGCTGCTCCTGGGAGCACAGCCAA------------aggtaggctccctgctcttgaccatcacctttatcccaataggaaaagccta Alignment from CESAR AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCag aagttgcagcagaagggcaggacaccagataattttttgttttcttacagAGCACCAGTCAAATCCTTAATGGCCAAGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATAGCTGCTCCTGGGAGCACAGCCAA------------aggtaggctccctgctcttgaccatcacctttatcccaataggaaaagccta Alignment from Spaln_aa2Genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATA aagttgcagcagaagggcaggacaccagataattttttgttttcttacagAGCACCAGTCAAATCCTTAATGGCCAAGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATAGCTGCTCCTGGGAGCACAgccaaaggtaggctccctgctcttgaccatcacctttatcccaataggaaaagccta Alignment from Spaln_nt2Genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAG aagttgcagcagaagggcaggacaccagataattttttgttttcttacagAGCACCAGTCAAATCCTTAATGGCCAAGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATAGCTGCTCCTGGGAGCACAGCCAAAGgtaggctccctgctcttgaccatcacctttatcccaataggaaaagccta Alignment from Pairagon AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAG aagttgcagcagaagggcaggacaccagataattttttgttttcttacagAGCACCAGTCAAATCCTTAATGGCCAAGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATAGCTGCTCCTGGGAGCACAGCCAAAGgtaggctccctgctcttgaccatcacctttatcccaataggaaaagccta Alignment from Exonerate_protein2genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAG aagttgcagcagaagggcaggacaccagataattttttgttttcttacagAGCACCAGTCAAATCCTTAATGGCCAAGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATAGCTGCTCCTGGGAGCACAGCCAAAGgtaggctccctgctcttgaccatcacctttatcccaataggaaaagccta Alignment from Exonerate_coding2genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAG aagttgcagcagaagggcaggacaccagataattttttgttttcttacagAGCACCAGTCAAATCCTTAATGGCCAAGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATAGCTGCTCCTGGGAGCACAGCCAAAGgtaggctccctgctcttgaccatcacctttatcccaataggaaaagccta Alignment from GeneWise AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAG aagttgcagcagaagggcaggacaccagataattttttgttttcttacagAGCACCAGTCAAATCCTTAATGGCCAAGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATAGCTGCTCCTGGGAGCACAGCCAAAGgtaggctccctgctcttgaccatcacctttatcccaataggaaaagccta #### Gpr137_ID1889_2 --> 0 - 2 Original Alignment GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCtt aagctcacacatcaaaaaacatcccaggaactttctcattaaaatttcag---------AAGGCCAAAGCTAAGCGTCGACCAGCAATGAGCCGAGGGctgtaagcagaagaactcactggcagtgaggccgtggctgagatagggggaa Alignment from CESAR GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCtt aggaggggtaagctcacacatcaaaaggaactttctcattaaaatttcag---------AAGGCCAAAGCTAAGCGTCGACCAGCAATGAGCCGAGGGctgtaagcagaagaactcactggcagtgaggccgtggctgagatagggggaa Alignment from Spaln_aa2Genome AAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT aagctcacacatcaaaaaacatcccaggaactttctcattaaaatttcagAAGGCCAAAGCTAAGCGTCGACCAGCAATGAGCCGAGGGCTgtaagcagaagaactcactggcagtgaggccgtggctgagatagggggaa Alignment from Spaln_nt2Genome AAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT aagctcacacatcaaaaaacatcccaggaactttctcattaaaatttcagAAGGCCAAAGCTAAGCGTCGACCAGCAATGAGCCGAGGGCTgtaagcagaagaactcactggcagtgaggccgtggctgagatagggggaa Alignment from Pairagon GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT aagctcacacatcaaaaaacatcccaggaactttctcattaaaatttcag---------AAGGCCAAAGCTAAGCGTCGACCAGCAATGAGCCGAGGGCTgtaagcagaagaactcactggcagtgaggccgtggctgagatagggggaa Alignment from Exonerate_protein2genome TGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT aagctcacacatcaaaaaacatcccaggaactttctcattaaaatTTCAGAAGGCCAAAGCTAAGCGTCGACCAGCAATGAGCCGAGGGCTgtaagcagaagaactcactggcagtgaggccgtggctgagatagggggaa Alignment from Exonerate_coding2genome aagctcacacatcaaaaaacatcccaggaactttctcattaaaatttcagaaggccaaagctaagcgtcgaccagcaatgagccgagggctgtaagcagaagaactcactggcagtgaggccgtggctgagatagggggaa Alignment from GeneWise ---GCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT aagctcacacatcaaaaaacatcccaggaactttctcattaaaatttcagAAGGCCAAAGCTAAGCGTCGACCAGCAATGAGCCGAGGGCTgtaagcagaagaactcactggcagtgaggccgtggctgagatagggggaa #### Hectd2_ID7146_4 --> 1 - 0 Original Alignment g---------GAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG aagaaagtgccagtttgcctgtatttggtctgtctgtttgtgtctctcaggAGGGACTTAGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGAAAGCAGTACATGCTTTTTATATAACAGCATTTGATTCCTTCACAGAGCTAAACACTGCATTTAAGgtaagtatgcaaaaaaaagttacttctcactctttggtgtcaaacttaaa Alignment from CESAR g---------GAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG aagaaagtgccagtttgcctgtatttggtctgtctgtttgtgtctctcaggAGGGACTTAGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGAAAGCAGTACATGCTTTTTATATAACAGCATTTGATTCCTTCACAGAGCTAAACACTGCATTTAAGgtaagtatgcaaaaaaaagttacttctcactctttggtgtcaaacttaaa Alignment from Spaln_aa2Genome GGAAGATTTAGAA------AAAGCTGAGGCCACAGGGAATTGGAAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG aagaaagtgccagtttgcctgtatttggtctgtctgtttgtgtctctcaggagGGACTTAGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGAAAGCAGTACATGCTTTTTATATAACAGCATTTGATTCCTTCACAGAGCTAAACACTGCATTTAAGgtaagtatgcaaaaaaaagttacttctcactctttggtgtcaaacttaaa Alignment from Spaln_nt2Genome GGAAGATTTAGA---------AAAAGCTGAGGCCACAGGGAATTGGAAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG aagaaagtgccagtttgcctgtatttggtctgtctgtttgtgtctctcagGAGGGACTTAGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGAAAGCAGTACATGCTTTTTATATAACAGCATTTGATTCCTTCACAGAGCTAAACACTGCATTTAAGgtaagtatgcaaaaaaaagttacttctcactctttggtgtcaaacttaaa Alignment from Pairagon G---------GAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG aagaaagtgccagtttgcctgtatttggtctgtctgtttgtgtctctcagGAGGGACTTAGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGAAAGCAGTACATGCTTTTTATATAACAGCATTTGATTCCTTCACAGAGCTAAACACTGCATTTAAGgtaagtatgcaaaaaaaagttacttctcactctttggtgtcaaacttaaa Alignment from Exonerate_protein2genome G---------GAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG aagaaagtgccagtttgcctgtatttggtctgtctgtttgtgtctctcagGAGGGACTTAGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGAAAGCAGTACATGCTTTTTATATAACAGCATTTGATTCCTTCACAGAGCTAAACACTGCATTTAAGgtaagtatgcaaaaaaaagttacttctcactctttggtgtcaaacttaaa Alignment from Exonerate_coding2genome G---------GAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG aagaaagtgccagtttgcctgtatttggtctgtctgtttgtgtctctcagGAGGGACTTAGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGAAAGCAGTACATGCTTTTTATATAACAGCATTTGATTCCTTCACAGAGCTAAACACTGCATTTAAGgtaagtatgcaaaaaaaagttacttctcactctttggtgtcaaacttaaa Alignment from GeneWise ----GAGGAAGATTTAGAAAAAGCTGAGGCCACAGGGAATTGGAAGACAGTACATGCTTTTTATATAACAGCATTTGATTCTTTCACAGAACTAAACACTGCATTTAAG aagaaagtgccagtttgcctgtatttggtctgtctgtttgtgtctctcaggagGGACTTAGAAGATCTAGAAAAAGCTGAAGCCACAGGGAATTGGAAAGCAGTACATGCTTTTTATATAACAGCATTTGATTCCTTCACAGAGCTAAACACTGCATTTAAGgtaagtatgcaaaaaaaagttacttctcactctttggtgtcaaacttaaa #### Hells_ID7707_14 --> 1 - 0 Original Alignment gACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAAG--- aactagggtttatatttatagttcctcacttttggccctctctgcaccagaACAGTTGTGGAAGGTAATATCCCTATAGAATCAGAAGTTAATTTGAAGCTGCGGAATATCATGATGTTACTTCAGAAATGCTGTAATCACCCATACATGATTGAATATCCCATTGACCCAGTCACACAAGAATTTAAAGATgtacagtattggcatatactattgaagggacatagagaacaaatattact Alignment from CESAR gACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAAG--- aactagggtttatatttatagttcctcacttttggccctctctgcaccagaACAGTTGTGGAAGGTAATATCCCTATAGAATCAGAAGTTAATTTGAAGCTGCGGAATATCATGATGTTACTTCAGAAATGCTGTAATCACCCATACATGATTGAATATCCCATTGACCCAGTCACACAAGAATTTAAAGATgtacagtattggcatatactattgaagggacatagagaacaaatattact Alignment from Spaln_aa2Genome GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAAG--- aactagggtttatatttatagttcctcacttttggccctctctgcaccagAACAGTTGTGGAAGGTAATATCCCTATAGAATCAGAAGTTAATTTGAAGCTGCGGAATATCATGATGTTACTTCAGAAATGCTGTAATCACCCATACATGATTGAATATCCCATTGACCCAGTCACACAAGAATTTAAAGATgtacagtattggcatatactattgaagggacatagagaacaaatattact Alignment from Spaln_nt2Genome GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAA-GAT aactagggtttatatttatagttcctcacttttggccctctctgcaccagAACAGTTGTGGAAGGTAATATCCCTATAGAATCAGAAGTTAATTTGAAGCTGCGGAATATCATGATGTTACTTCAGAAATGCTGTAATCACCCATACATGATTGAATATCCCATTGACCCAGTCACACAAGAATTTAAAGATgtacagtattggcatatactattgaagggacatagagaacaaatattact Alignment from Pairagon GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAAG-------- aactagggtttatatttatagttcctcacttttggccctctctgcaccagAACAGTTGTGGAAGGTAATATCCCTATAGAATCAGAAGTTAATTTGAAGCTGCGGAATATCATGATGTTACTTCAGAAATGCTGTAATCACCCATACATGATTGAATATCCCATTGACCCAGTCACACAAGAATTTAAAGATGTACAgtattggcatatactattgaagggacatagagaacaaatattact Alignment from Exonerate_protein2genome GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAAG aactagggtttatatttatagttcctcacttttggccctctctgcaccagAACAGTTGTGGAAGGTAATATCCCTATAGAATCAGAAGTTAATTTGAAGCTGCGGAATATCATGATGTTACTTCAGAAATGCTGTAATCACCCATACATGATTGAATATCCCATTGACCCAGTCACACAAGAATTTAAAgatgtacagtattggcatatactattgaagggacatagagaacaaatattact Alignment from Exonerate_coding2genome GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAAG aactagggtttatatttatagttcctcacttttggccctctctgcaccagAACAGTTGTGGAAGGTAATATCCCTATAGAATCAGAAGTTAATTTGAAGCTGCGGAATATCATGATGTTACTTCAGAAATGCTGTAATCACCCATACATGATTGAATATCCCATTGACCCAGTCACACAAGAATTTAAAgatgtacagtattggcatatactattgaagggacatagagaacaaatattact Alignment from GeneWise GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAAGATT aactagggtttatatttatagttcctcacttttggccctctctgcaccagAACAGTTGTGGAAGGTAATATCCCTATAGAATCAGAAGTTAATTTGAAGCTGCGGAATATCATGATGTTACTTCAGAAATGCTGTAATCACCCATACATGATTGAATATCCCATTGACCCAGTCACACAAGAATTTAAAGATgtacagtattggcatatactattgaagggacatagagaacaaatattact #### Hells_ID7708_15 --> 0 - 0 Original Alignment ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG--------- tcagtaattctaaattctattgttgaaaccttcctctgtgtctctcacagAATGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTGATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGCCTCTGCCAgtaggtatggctagaatttgtgctcttcagcttcatatgggtcagtgtag Alignment from CESAR ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG--------- tcagtaattctaaattctattgttgaaaccttcctctgtgtctctcacagAATGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTGATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGCCTCTGCCAgtaggtatggctagaatttgtgctcttcagcttcatatgggtcagtgtag Alignment from Spaln_aa2Genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG--------- tcagtaattctaaattctattgttgaaaccttcctctgtgtctctcacagAATGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTGATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGCCTCTGCCAgtaggtatggctagaatttgtgctcttcagcttcatatgggtcagtgtag Alignment from Spaln_nt2Genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAGGTTCTGG-- tcagtaattctaaattctattgttgaaaccttcctctgtgtctctcacagAATGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTGATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGCCTCTGCCAgtaggtatggctagaatttgtgctcttcagcttcatatgggtcagtgtag Alignment from Pairagon ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAGGTTCTG----------------------------------------------------- tcagtaattctaaattctattgttgaaaccttcctctgtgtctctcacagAATGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTGATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGCCTCTGCCAGTAGGTATGGCTAGAATTTGTGCTCTTCAGCTTCATATGGGTCAGTGTAG Alignment from Exonerate_protein2genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAGGTTCTGGTG tcagtaattctaaattctattgttgaaaccttcctctgtgtctctcacagAATGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTGATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGCCTCTGCCAgtaggtatggctagaatttgtgctcttcagcttcatatgggtcagtgtag Alignment from Exonerate_coding2genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAGGTTCTGGTG tcagtaattctaaattctattgttgaaaccttcctctgtgtctctcacagAATGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTGATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGCCTCTGCCAgtaggtatggctagaatttgtgctcttcagcttcatatgggtcagtgtag Alignment from GeneWise ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG--------- tcagtaattctaaattctattgttgaaaccttcctctgtgtctctcacagAATGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTGATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGCCTCTGCCAgtaggtatggctagaatttgtgctcttcagcttcatatgggtcagtgtag #### Hnrnpul2_ID2399_3 --> 1 - 1 Original Alignment c---------TCAAAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGt ggataagttataattataacatgtttggtcacctcaccccacacccttagcGTTCATGAATCGAGGTCCCCCTCACCTCCAGAGGAAGAAGCTAAAGATGAGGAGGAGGCCCAGTCACTAGTGAACTTGGACACTtgtaggtagatgcatggtatggcttacctttacaaatagagcattgttctg Alignment from CESAR c---------TCAAAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGt ggataagttataattataacatgtttggtcacctcaccccacacccttagcGTTCATGAATCGAGGTCCCCCTCACCTCCAGAGGAAGAAGCTAAAGATGAGGAGGAGGCCCAGTCACTAGTGAACTTGGACACTtgtaggtagatgcatggtatggcttacctttacaaatagagcattgttctg Alignment from Spaln_aa2Genome C----------TCAAAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGT ggataagttataattataacatgtttggtcacctcaccccacacccttagCGTTCATGAATCGAGGTCCCCCTCACCTCCAGAGGAAGAAGCTAAAGATGAGGAGGAGGCCCAGTCACTAGTGAACTTGGACACTTgtaggtagatgcatggtatggcttacctttacaaatagagcattgttctg Alignment from Spaln_nt2Genome AAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGT ggataagttataattataacatgtttggtcacctcaccccacacccttagcgttcatgaatcgag--GTCCCCCTCACCTCCAGAGGAAGAAGCTAAAGATGAGGAGGAGGCCCAGTCACTAGTGAACTTGGACACTTgtaggtagatgcatggtatggcttacctttacaaatagagcattgttctg Alignment from Pairagon C---------TCAAAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGT ggataagttataattataacatgtttggtcacctcaccccacacccttagCGTTCATGAATCGAGGTCCCCCTCACCTCCAGAGGAAGAAGCTAAAGATGAGGAGGAGGCCCAGTCACTAGTGAACTTGGACACTTgtaggtagatgcatggtatggcttacctttacaaatagagcattgttctg Alignment from Exonerate_protein2genome CTCAAAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGT ggataagttataattataacatgtttggtcacctcaccccacacccttagcgttcatgaATCGAGGTCCCCCTCACCTCCAGAGGAAGAAGCTAAAGATGAGGAGGAGGCCCAGTCACTAGTGAACTTGGACACTTgtaggtagatgcatggtatggcttacctttacaaatagagcattgttctg Alignment from Exonerate_coding2genome CTCAAAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGT ggataagttataattataacatgtttggtcacctcaccccacacccttagcgttcatgaATCGAGGTCCCCCTCACCTCCAGAGGAAGAAGCTAAAGATGAGGAGGAGGCCCAGTCACTAGTGAACTTGGACACTTgtaggtagatgcatggtatggcttacctttacaaatagagcattgttctg Alignment from GeneWise -------CGCTCAAAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGT ggataagttataattataacatgtttggtcacctcaccccacacccttagCGTTCATGAATCGAGGTCCCCCTCACCTCCAGAGGAAGAAGCTAAAGATGAGGAGGAGGCCCAGTCACTAGTGAACTTGGACACTTgtaggtagatgcatggtatggcttacctttacaaatagagcattgttctg #### Hnrnpul2_ID2401_5 --> 0 - 1 Original Alignment GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTT------------------------------g ccttacttttagacctgcatttgtcctaatttgtttgcttgtttttccagGTTACACAGAATCTACCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGAGTGGTCTGTAGACTTTTCCTGTTCACAGCTTGAAGCTGGCTGGCTGTACAACCGGATGCTGggtaagttgatccaattagatagttttggcatcttttctttgtactttttc Alignment from CESAR GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTT------------------------------g ccttacttttagacctgcatttgtcctaatttgtttgcttgtttttccagGTTACACAGAATCTACCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGAGTGGTCTGTAGACTTTTCCTGTTCACAGCTTGAAGCTGGCTGGCTGTACAACCGGATGCTGggtaagttgatccaattagatagttttggcatcttttctttgtactttttc Alignment from Spaln_aa2Genome GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTT------G ccttacttttagacctgcatttgtcctaatttgtttgcttgtttttccagGTTACACAGAATCTACCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGAGTGGTCTGTAGACTTTTCCTGTTCACAGCTTGAAGCTGgctggctgtacaaccggatgctgggtaagttgatccaattagatagttttggcatcttttctttgtactttttc Alignment from Spaln_nt2Genome GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTTG-- ccttacttttagacctgcatttgtcctaatttgtttgcttgtttttccagGTTACACAGAATCTACCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGAGTGGTCTGTAGACTTTTCCTGTTCACAGCTTGAAgctggctggctgtacaaccggatgctgggtaagttgatccaattagatagttttggcatcttttctttgtactttttc Alignment from Pairagon GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTTG------------------------------ ccttacttttagacctgcatttgtcctaatttgtttgcttgtttttccagGTTACACAGAATCTACCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGAGTGGTCTGTAGACTTTTCCTGTTCACAGCTTGAAGCTGGCTGGCTGTACAACCGGATGCTGGgtaagttgatccaattagatagttttggcatcttttctttgtactttttc Alignment from Exonerate_protein2genome GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTTG ccttacttttagacctgcatttgtcctaatttgtttgcttgtttttccagGTTACACAGAATCTACCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGAGTGGTCTGTAGACTTTTCCTGTTCACAGCTTGaagctggctggctgtacaaccggatgctgggtaagttgatccaattagatagttttggcatcttttctttgtactttttc Alignment from Exonerate_coding2genome GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTTG ccttacttttagacctgcatttgtcctaatttgtttgcttgtttttccagGTTACACAGAATCTACCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGAGTGGTCTGTAGACTTTTCCTGTTCACAGCTTGaagctggctggctgtacaaccggatgctgggtaagttgatccaattagatagttttggcatcttttctttgtactttttc Alignment from GeneWise GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTT------------------------------G ccttacttttagacctgcatttgtcctaatttgtttgcttgtttttccagGTTACACAGAATCTACCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGAGTGGTCTGTAGACTTTTCCTGTTCACAGCTTGAAGCTGGCTGGCTGTACAACCGGATGCTGGgtaagttgatccaattagatagttttggcatcttttctttgtactttttc #### Hnrnpul2_ID2409_13 --> 0 - 0 Original Alignment GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT------ taatcttaaatgcccataaagcattgaaggtcatttctgctgttgtgtagGGCTACCGCAATTTCTATGATCGATACAAAGGTGACTATGAACGATTCTATAGTCGGGATTACAAGTACAATAGATATAGGGGATATTATAGAGAATACAACCAAGATCCTACCgtaagcatacgggatagagagcagaagaaaagtacaacaatccactagat Alignment from CESAR GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT------ taatcttaaatgcccataaagcattgaaggtcatttctgctgttgtgtagGGCTACCGCAATTTCTATGATCGATACAAAGGTGACTATGAACGATTCTATAGTCGGGATTACAAGTACAATAGATATAGGGGATATTATAGAGAATACAACCAAGATCCTACCgtaagcatacgggatagagagcagaagaaaagtacaacaatccactagat Alignment from Spaln_aa2Genome GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT------ taatcttaaatgcccataaagcattgaaggtcatttctgctgttgtgtagGGCTACCGCAATTTCTATGATCGATACAAAGGTGACTATGAACGATTCTATAGTCGGGATTACAAGTACAATAGATATAGGGGATATTATAGAGAATACAACCAAGATCCTACCgtaagcatacgggatagagagcagaagaaaagtacaacaatccactagat Alignment from Spaln_nt2Genome GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT------ taatcttaaatgcccataaagcattgaaggtcatttctgctgttgtgtagGGCTACCGCAATTTCTATGATCGATACAAAGGTGACTATGAACGATTCTATAGTCGGGATTACAAGTACAATAGATATAGGGGATATTATAGAGAATACAACCAAGATCCTACCgtaagcatacgggatagagagcagaagaaaagtacaacaatccactagat Alignment from Pairagon GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT------ taatcttaaatgcccataaagcattgaaggtcatttctgctgttgtgtagGGCTACCGCAATTTCTATGATCGATACAAAGGTGACTATGAACGATTCTATAGTCGGGATTACAAGTACAATAGATATAGGGGATATTATAGAGAATACAACCAAGATCCTACCgtaagcatacgggatagagagcagaagaaaagtacaacaatccactagat Alignment from Exonerate_protein2genome GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT------ taatcttaaatgcccataaagcattgaaggtcatttctgctgttgtgtagGGCTACCGCAATTTCTATGATCGATACAAAGGTGACTATGAACGATTCTATAGTCGGGATTACAAGTACAATAGATATAGGGGATATTATAGAGAATACAACCAAGATCCTACCgtaagcatacgggatagagagcagaagaaaagtacaacaatccactagat Alignment from Exonerate_coding2genome GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT------ taatcttaaatgcccataaagcattgaaggtcatttctgctgttgtgtagGGCTACCGCAATTTCTATGATCGATACAAAGGTGACTATGAACGATTCTATAGTCGGGATTACAAGTACAATAGATATAGGGGATATTATAGAGAATACAACCAAGATCCTACCgtaagcatacgggatagagagcagaagaaaagtacaacaatccactagat Alignment from GeneWise GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT------ taatcttaaatgcccataaagcattgaaggtcatttctgctgttgtgtagGGCTACCGCAATTTCTATGATCGATACAAAGGTGACTATGAACGATTCTATAGTCGGGATTACAAGTACAATAGATATAGGGGATATTATAGAGAATACAACCAAGATCCTACCgtaagcatacgggatagagagcagaagaaaagtacaacaatccactagat #### Hoga1_ID8380_3 --> 2 - 0 Original Alignment ccACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG--- tggaaatgaaccgatccaatattggttgcctatctctacctttatttcagccATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCATGTTACTATCATGGCCACATGAGCAGTGCAGCAATCATTCACCACTACACTAAGATCgtgccggggaatggttgatgtgtgctggaggtcttgatcggaggaagcta Alignment from CESAR ccACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG--- tggaaatgaaccgatccaatattggttgcctatctctacctttatttcagccATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCATGTTACTATCATGGCCACATGAGCAGTGCAGCAATCATTCACCACTACACTAAGATCgtgccggggaatggttgatgtgtgctggaggtcttgatcggaggaagcta Alignment from Spaln_aa2Genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG--- tggaaatgaaccgatccaatattggttgcctatctctacctttatttcagCCATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCATGTTACTATCATGGCCACATGAGCAGTGCAGCAATCATTCACCACTACACTAAGATCgtgccggggaatggttgatgtgtgctggaggtcttgatcggaggaagcta Alignment from Spaln_nt2Genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG--- tggaaatgaaccgatccaatattggttgcctatctctacctttatttcagCCATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCATGTTACTATCATGGCCACATGAGCAGTGCAGCAATCATTCACCACTACACTAAGATCgtgccggggaatggttgatgtgtgctggaggtcttgatcggaggaagcta Alignment from Pairagon CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG---------------------- tggaaatgaaccgatccaatattggttgcctatctctacctttatttcagCCATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCATGTTACTATCATGGCCACATGAGCAGTGCAGCAATCATTCACCACTACACTAAGATCGTGCCGGGGAATGGTTGATgtgtgctggaggtcttgatcggaggaagcta Alignment from Exonerate_protein2genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG tggaaatgaaccgatccaatattggttgcctatctctacctttatttcagCCATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCATGTTACTATCATGGCCACATGAGCAGTGCAGCAATCATTCACCACTACACTAAGatcgtgccggggaatggttgatgtgtgctggaggtcttgatcggaggaagcta Alignment from Exonerate_coding2genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG tggaaatgaaccgatccaatattggttgcctatctctacctttatttcagCCATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCATGTTACTATCATGGCCACATGAGCAGTGCAGCAATCATTCACCACTACACTAAGatcgtgccggggaatggttgatgtgtgctggaggtcttgatcggaggaagcta Alignment from GeneWise CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAGGTT tggaaatgaaccgatccaatattggttgcctatctctacctttatttcagCCATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCATGTTACTATCATGGCCACATGAGCAGTGCAGCAATCATTCACCACTACACTAAGATCgtgccggggaatggttgatgtgtgctggaggtcttgatcggaggaagcta #### Hps1_ID8617_11 --> 0 - 0 Original Alignment ------AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG ccccatcccctgggtgcccctatctcaaacagcccctcaatcctgcttagCCTACCAGCCCTGGCGCCCCACTCACCCAAATTCTATGCCAACTGCTGGATGGATTCTCGCTCCTGGAGAAAAAGTTGAAGGAGGGCCAGGAGGCTGGCAGTGCCCTACGATCCCAGCCCTTTGTGACTGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGATTCAGgtatggtctcagaactaatgtgggccaatgttggaggagctgactagggc Alignment from CESAR ------AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG ccccatcccctgggtgcccctatctcaaacagcccctcaatcctgcttagCCTACCAGCCCTGGCGCCCCACTCACCCAAATTCTATGCCAACTGCTGGATGGATTCTCGCTCCTGGAGAAAAAGTTGAAGGAGGGCCAGGAGGCTGGCAGTGCCCTACGATCCCAGCCCTTTGTGACTGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGATTCAGgtatggtctcagaactaatgtgggccaatgttggaggagctgactagggc Alignment from Spaln_aa2Genome ------AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCA ccccatcccctgggtgcccctatctcaaacagcccctcaatcctgcttagCCTACCAGCCCTGGCGCCCCACTCACCCAAATTCTATGCCAACTGCTGGATGGATTCTCGCTCCTGGAGAAAAAGTTGAAGGAGGGCCAGGAGGCTGGCAGTGCCCTACGATCCCAGCCCTTTGTGACTGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGATTCAGgtatggtctcagaactaatgtgggccaatgttggaggagctgactagggc Alignment from Spaln_nt2Genome ------AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG ccccatcccctgggtgcccctatctcaaacagcccctcaatcctgcttagCCTACCAGCCCTGGCGCCCCACTCACCCAAATTCTATGCCAACTGCTGGATGGATTCTCGCTCCTGGAGAAAAAGTTGAAGGAGGGCCAGGAGGCTGGCAGTGCCCTACGATCCCAGCCCTTTGTGACTGACCCACACCAGAACA---ACAAGTTCATCAAGAATCGGGTAGGGCAGGAGATTCAGgtatggtctcagaactaatgtgggccaatgttggaggagctgactagggc Alignment from Pairagon ------AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG ccccatcccctgggtgcccctatctcaaacagcccctcaatcctgcttagCCTACCAGCCCTGGCGCCCCACTCACCCAAATTCTATGCCAACTGCTGGATGGATTCTCGCTCCTGGAGAAAAAGTTGAAGGAGGGCCAGGAGGCTGGCAGTGCCCTACGATCCCAGCCCTTTGTGACTGACCCACACCAGAACA---ACAAGTTCATCAAGAATCGGGTAGGGCAGGAGATTCAGgtatggtctcagaactaatgtgggccaatgttggaggagctgactagggc Alignment from Exonerate_protein2genome AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG ccccatcccctgggtgcccctatctcaaacagcccctcaatcctgcttagcctaccAGCCCTGGCGCCCCACTCACCCAAATTCTATGCCAACTGCTGGATGGATTCTCGCTCCTGGAGAAAAAGTTGAAGGAGGGCCAGGAGGCTGGCAGTGCCCTACGATCCCAGCCCTTTGTGACTGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGATTCAGgtatggtctcagaactaatgtgggccaatgttggaggagctgactagggc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ------AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG ccccatcccctgggtgcccctatctcaaacagcccctcaatcctgcttagCCTACCAGCCCTGGCGCCCCACTCACCCAAATTCTATGCCAACTGCTGGATGGATTCTCGCTCCTGGAGAAAAAGTTGAAGGAGGGCCAGGAGGCTGGCAGTGCCCTACGATCCCAGCCCTTTGTGACTGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGATTCAGgtatggtctcagaactaatgtgggccaatgttggaggagctgactagggc #### Incenp_ID2608_11 --> 1 - 0 Original Alignment gAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG tgagcccctcagaagttacagaggctctatgtcctatgtctctgtcccaggAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAGATGAAGGAGGAGAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAGAAG---------gtaggcctaatatgctctgaagagcagtcagagtatatttggaagggttt Alignment from CESAR gAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG tgagcccctcagaagttacagaggctctatgtcctatgtctctgtcccaggAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAGATGAAGGAGGAGAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAG---------AAGgtaggcctaatatgctctgaagagcagtcagagtatatttggaagggttt Alignment from Spaln_aa2Genome GAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAG tgagcccctcagaagttacagaggctctatgtcctatgtctctgtcccagGAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAGATGAAGGAGGAGAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAGAAGgtaggcctaatatgctctgaagagcagtcagagtatatttggaagggttt Alignment from Spaln_nt2Genome GAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAG tgagcccctcagaagttacagaggctctatgtcctatgtctctgtcccagGAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAGATGAAGGAGGAGAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAGAAGgtaggcctaatatgctctgaagagcagtcagagtatatttggaagggttt Alignment from Pairagon GAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAG tgagcccctcagaagttacagaggctctatgtcctatgtctctgtcccagGAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAGATGAAGGAGGAGAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAGAAGgtaggcctaatatgctctgaagagcagtcagagtatatttggaagggttt Alignment from Exonerate_protein2genome GAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG tgagcccctcagaagttacagaggctctatgtcctatgtctctgtcccagGAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAGATGAAGGAGGAGAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAGAAGGTAGGCCTAatatgctctgaagagcagtcagagtatatttggaagggttt Alignment from Exonerate_coding2genome GAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG tgagcccctcagaagttacagaggctctatgtcctatgtctctgtcccagGAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAGATGAAGGAGGAGAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAGAAGGTAGGCCTAatatgctctgaagagcagtcagagtatatttggaagggttt Alignment from GeneWise GAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG tgagcccctcagaagttacagaggctctatgtcctatgtctctgtcccagGAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAGATGAAGGAGGAGAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAG---------AAGgtaggcctaatatgctctgaagagcagtcagagtatatttggaagggttt #### Incenp_ID2611_8 --> 1 - 0 Original Alignment gAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG ggagggcgatcaactcttgttaatgatattggatctctttcttggaacaggAGGAAACGTAGTTACAAAAAGGCTATAAGTAAGCCAGATGAGGAGCAGCTGGAAGATGAAGACCGTAAGCCCTGTCAGAATAAAACACTTTCAGCACCCTGCCCACCCAAC---gtaggaagcatctgctcatgttttatgcccttattttgcattctgtccaa Alignment from CESAR gAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG ggagggcgatcaactcttgttaatgatattggatctctttcttggaacaggAGGAAACGTAGTTACAAAAAGGCTATAAGTAAGCCAGATGAGGAGCAGCTGGAAGATGAAGACCGTAAGCCCTGTCAGAATAAAACACTTTCAGCACCCTGCCCACCCAAC---gtaggaagcatctgctcatgttttatgcccttattttgcattctgtc Alignment from Spaln_aa2Genome GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAAC ggagggcgatcaactcttgttaatgatattggatctctttcttggaacagGAGGAAACGTAGTTACAAAAAGGCTATAAGTAAGCCAGATGAGGAGCAGCTGGAAGATGAAGACCGTAAGCCCTGTCAGAATAAAACACTTTCAGCACCCTGCCCACCCAACgtaggaagcatctgctcatgttttatgcccttattttgcattctgtccaa Alignment from Spaln_nt2Genome GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAAC ggagggcgatcaactcttgttaatgatattggatctctttcttggaacagGAGGAAACGTAGTTACAAAAAGGCTATAAGTAAGCCAGATGAGGAGCAGCTGGAAGATGAAGACCGTAAGCCCTGTCAGAATAAAACACTTTCAGCACCCTGCCCACCCAACgtaggaagcatctgctcatgttttatgcccttattttgcattctgtccaa Alignment from Pairagon GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAAC ggagggcgatcaactcttgttaatgatattggatctctttcttggaacagGAGGAAACGTAGTTACAAAAAGGCTATAAGTAAGCCAGATGAGGAGCAGCTGGAAGATGAAGACCGTAAGCCCTGTCAGAATAAAACACTTTCAGCACCCTGCCCACCCAACgtaggaagcatctgctcatgttttatgcccttattttgcattctgtccaa Alignment from Exonerate_protein2genome GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG ggagggcgatcaactcttgttaatgatattggatctctttcttggaacagGAGGAAACGTAGTTACAAAAAGGCTATAAGTAAGCCAGATGAGGAGCAGCTGGAAGATGAAGACCGTAAGCCCTGTCAGAATAAAACACTTTCAGCACCCTGCCCACCCAACGTAggaagcatctgctcatgttttatgcccttattttgcattctgtccaa Alignment from Exonerate_coding2genome GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG ggagggcgatcaactcttgttaatgatattggatctctttcttggaacagGAGGAAACGTAGTTACAAAAAGGCTATAAGTAAGCCAGATGAGGAGCAGCTGGAAGATGAAGACCGTAAGCCCTGTCAGAATAAAACACTTTCAGCACCCTGCCCACCCAACGTAggaagcatctgctcatgttttatgcccttattttgcattctgtccaa Alignment from GeneWise GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAAC-------------------------------------------------- ggagggcgatcaactcttgttaatgatattggatctctttcttggaacagGAGGAAACGTAGTTACAAAAAGGCTATAAGTAAGCCAGATGAGGAGCAGCTGGAAGATGAAGACCGTAAGCCCTGTCAGAATAAAACACTTTCAGCACCCTGCCCACCCAACGTAGGAAGCATCTGCTCATGTTTTATGCCCTTATTTTGCATTCTGTCCAA #### Incenp_ID2614_5 --> 1 - 0 Original Alignment cCTGGAGCAGGAGCCTGTCGAGGTGGCCGAACCTGAGGAGGCAGAAGAGGAGCAAGAG tgctctctaccgtgaagatatgtgttcttaacattccttatgtatttcagc------CAAGAGCCTGTTGAGGTTACTGAGCCTGAAGATGCAGAAGAGGAGCAAGAGgtctgttcactcctgggccggctctgactccccttagcttgtaggtcagt Alignment from CESAR cCTGGAGCAGGAGCCTGTCGAGGTGGCCGAACCTGAGGAGGCAGAAGAGGAGCAAGAG cacaactgctctctaccgtgaagattcttaacattccttatgtatttcagc------CAAGAGCCTGTTGAGGTTACTGAGCCTGAAGATGCAGAAGAGGAGCAAGAGgtctgttcactcctgggccggctctgactccccttagcttgtaggtcagt Alignment from Spaln_aa2Genome CCTGGAGCAGGAGCCTGTCGAGGTGGCCGAACCTGAGGAGGCAGAAGAGGAGCAAGAG tgctctctaccgtgaagatatgtgttcttaacattccttatgtatttcagC------CAAGAGCCTGTTGAGGTTACTGAGCCTGAAGATGCAGAAGAGGAGCAAGAGgtctgttcactcctgggccggctctgactccccttagcttgtaggtcagt Alignment from Spaln_nt2Genome -CAGGAGCCTGTCGAGGTGGCCGAACCTGAGGAGGCAGAAGAGGAGCAAGAG tgctctctaccgtgaagatatgtgttcttaacattccttatgtatttcagCCAAGAGCCTGTTGAGGTTACTGAGCCTGAAGATGCAGAAGAGGAGCAAGAGgtctgttcactcctgggccggctctgactccccttagcttgtaggtcagt Alignment from Pairagon CCTGGAGCAGGAGCCTGTCGAGGTGGCCGAACCTGAGGAGGCAGAAGAGGAGCAAGAG tgctctctaccgtgaagatatgtgttcttaacattccttatgtatttcagC------CAAGAGCCTGTTGAGGTTACTGAGCCTGAAGATGCAGAAGAGGAGCAAGAGgtctgttcactcctgggccggctctgactccccttagcttgtaggtcagt Alignment from Exonerate_protein2genome CCTGGAGCAGGAGCCTGTCGAGGTGGCCGAACCTGAGGAGGCAGAAGAGGAGCAAGAG tgctctctaccgtgaagatatgtgttcttaacattccttatgtatttcagC------CAAGAGCCTGTTGAGGTTACTGAGCCTGAAGATGCAGAAGAGGAGCAAGAGgtctgttcactcctgggccggctctgactccccttagcttgtaggtcagt Alignment from Exonerate_coding2genome CCTGGAGCAGGAGCCTGTCGAGGTGGCCGAACCTGAGGAGGCAGAAGAGGAGCAAGAG tgctctctaccgtgaagatatgtgttcttaacattccttatgtatttcagC------CAAGAGCCTGTTGAGGTTACTGAGCCTGAAGATGCAGAAGAGGAGCAAGAGgtctgttcactcctgggccggctctgactccccttagcttgtaggtcagt Alignment from GeneWise GCAGGAGCCTGTCGAGGTGGCCGAACCTGAGGAGGCAGAAGAGGAGCAAGAG tgctctctaccgtgaagatatgtgttcttaacattccttatgtatttcagCCAAGAGCCTGTTGAGGTTACTGAGCCTGAAGATGCAGAAGAGGAGCAAGAGgtctgttcactcctgggccggctctgactccccttagcttgtaggtcagt #### Jak2_ID6240_16 --> 0 - 1 Original Alignment ------AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAg tcatttgtgaagcagcctgcatccccaatctctgcgttacctccccccagCCTACCAAACTGCAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCGAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAACCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGACCTTAATAGTCTTTTTACACCTggtgatggctggtttctcaccactgatggatttgtcttctgtaacctcaga Alignment from CESAR ------AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAg tcatttgtgaagcagcctgcatccccaatctctgcgttacctccccccagCCTACCAAACTGCAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCGAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAACCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGACCTTAATAGTCTTTTTACACCTggtgatggctggtttctcaccactgatggatttgtcttctgtaacctcaga Alignment from Spaln_aa2Genome AAGCTGCAGTTC------TATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAG tcatttgtgaagcagcctgcatccccaatctctgcgttacctccccccagCCTACCAAACTGCAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCGAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAACCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGACCTTAATAGTCTTTTTACACCTGgtgatggctggtttctcaccactgatggatttgtcttctgtaacctcaga Alignment from Spaln_nt2Genome ------AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAG tcatttgtgaagcagcctgcatccccaatctctgcgttacctccccccagCCTACCAAACTGCAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCGAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAACCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGACCTTAATAGTCTTTTTACACCTGgtgatggctggtttctcaccactgatggatttgtcttctgtaacctcaga Alignment from Pairagon ------AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAG tcatttgtgaagcagcctgcatccccaatctctgcgttacctccccccagCCTACCAAACTGCAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCGAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAACCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGACCTTAATAGTCTTTTTACACCTGgtgatggctggtttctcaccactgatggatttgtcttctgtaacctcaga Alignment from Exonerate_protein2genome ------AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAG tcatttgtgaagcagcctgcatccccaatctctgcgttacctccccccagCCTACCAAACTGCAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCGAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAACCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGACCTTAATAGTCTTTTTACACCTGgtgatggctggtttctcaccactgatggatttgtcttctgtaacctcaga Alignment from Exonerate_coding2genome ------AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAG tcatttgtgaagcagcctgcatccccaatctctgcgttacctccccccagCCTACCAAACTGCAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCGAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAACCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGACCTTAATAGTCTTTTTACACCTGgtgatggctggtttctcaccactgatggatttgtcttctgtaacctcaga Alignment from GeneWise ------AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAG tcatttgtgaagcagcctgcatccccaatctctgcgttacctccccccagCCTACCAAACTGCAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCGAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAACCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGACCTTAATAGTCTTTTTACACCTGgtgatggctggtttctcaccactgatggatttgtcttctgtaacctcaga #### Kat5_ID1109_13 --> 1 - 0 Original Alignment tGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG--------- gtggtagggtttctacaggtgataactttttgtttaactattttttccagtGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTCATCAATTACTACAAGGAACACATAgtgagtgggcataactacaaggtgacacaacttgcttatacttaaacact Alignment from CESAR tGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG--------- gtggtagggtttctacaggtgataactttttgtttaactattttttccagtGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTCATCAATTACTACAAGGAACACATAgtgagtgggcataactacaaggtgacacaacttgcttatacttaaacact Alignment from Spaln_aa2Genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG--------- gtggtagggtttctacaggtgataactttttgtttaactattttttccagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTCATCAATTACTACAAGGAACACATAgtgagtgggcataactacaaggtgacacaacttgcttatacttaaacact Alignment from Spaln_nt2Genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG--------- gtggtagggtttctacaggtgataactttttgtttaactattttttccagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTCATCAATTACTACAAGGAACACATAgtgagtgggcataactacaaggtgacacaacttgcttatacttaaacact Alignment from Pairagon TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG--------- gtggtagggtttctacaggtgataactttttgtttaactattttttccagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTCATCAATTACTACAAGGAACACATAgtgagtgggcataactacaaggtgacacaacttgcttatacttaaacact Alignment from Exonerate_protein2genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtagggtttctacaggtgataactttttgtttaactattttttccagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTCATCAATTACTACAAGgaacacatagtgagtgggcataactacaaggtgacacaacttgcttatacttaaacact Alignment from Exonerate_coding2genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtagggtttctacaggtgataactttttgtttaactattttttccagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTCATCAATTACTACAAGgaacacatagtgagtgggcataactacaaggtgacacaacttgcttatacttaaacact Alignment from GeneWise TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG--------- gtggtagggtttctacaggtgataactttttgtttaactattttttccagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTCATCAATTACTACAAGGAACACATAgtgagtgggcataactacaaggtgacacaacttgcttatacttaaacact #### Kat5_ID1110_12 --> 2 - 2 Original Alignment gc------TATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCaa gtttgggcctgtacaagggatgaaggtcgaaaactctttgtttttttcaggcTTTGCCTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCaagtaagctaaagtgctaactggggggatgtggtagggtttctacaggtgat Alignment from CESAR gc------TATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCaa gtttgggcctgtacaagggatgaaggtcgaaaactctttgtttttttcaggcTTTGCCTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCaagtaagctaaagtgctaactggggggatgtggtagggtttctacaggtgat Alignment from Spaln_aa2Genome GCTATGAACTCTCG------AAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA gtttgggcctgtacaagggatgaaggtcgaaaactctttgtttttttcagGCTTTGCCTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtaagctaaagtgctaactggggggatgtggtagggtttctacaggtgat Alignment from Spaln_nt2Genome GCTATGAACT------CTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA gtttgggcctgtacaagggatgaaggtcgaaaactctttgtttttttcagGCTTTGCCTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtaagctaaagtgctaactggggggatgtggtagggtttctacaggtgat Alignment from Pairagon G------CTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA gtttgggcctgtacaagggatgaaggtcgaaaactctttgtttttttcagGCTTTGCCTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtaagctaaagtgctaactggggggatgtggtagggtttctacaggtgat Alignment from Exonerate_protein2genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA gtttgggcctgtacaagggatgaaggtcgaaaactctttgtttttttcaggctttgCCTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtaagctaaagtgctaactggggggatgtggtagggtttctacaggtgat Alignment from Exonerate_coding2genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA gtttgggcctgtacaagggatgaaggtcgaaaactctttgtttttttcaggctttgCCTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtaagctaaagtgctaactggggggatgtggtagggtttctacaggtgat Alignment from GeneWise -----AGCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA gtttgggcctgtacaagggatgaaggtcgaaaactctttgtttttttcagGCTTTGCCTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtaagctaaagtgctaactggggggatgtggtagggtttctacaggtgat #### Kat5_ID1117_5 --> 0 - 0 Original Alignment CCGGCCTCCGCCCAGGCCAGCGGGAAGACCTTGCCAATCCCGGTCCAGATCACACTCCGCTTCAACCTGCCCAAGGAGCGGGAGGCCATCCCAGGTGGCGAGCCTGACCAGCCGCTCTCCTCCAGCTCCTGCCTGCAACCCAACCACCGCTCAACG--------- tgtctctacactaccccccccagaagggtggatgtgactgtcttttgtagCCGGCCTCAGCCCAGGCCAGCGGGAAGACGTTGCCAATCCCAGTCCAGATCACCCTCCGCTTCAACTTGCCCAAGGAGCGGGAGGCCATCCCAGGTGATGAGCCTGACCAGCCGCTCTCCTCTAGCTCCTGCCTACAACCCAACCACCGCTCAACGTCATCTTTTgtgagctgacagtttgcaaaaacagtcatcctcataccagctcctgtgtc Alignment from CESAR CCGGCCTCCGCCCAGGCCAGCGGGAAGACCTTGCCAATCCCGGTCCAGATCACACTCCGCTTCAACCTGCCCAAGGAGCGGGAGGCCATCCCAGGTGGCGAGCCTGACCAGCCGCTCTCCTCCAGCTCCTGCCTGCAACCCAACCACCGCTCAACG--------- tgtctctacactaccccccccagaagggtggatgtgactgtcttttgtagCCGGCCTCAGCCCAGGCCAGCGGGAAGACGTTGCCAATCCCAGTCCAGATCACCCTCCGCTTCAACTTGCCCAAGGAGCGGGAGGCCATCCCAGGTGATGAGCCTGACCAGCCGCTCTCCTCTAGCTCCTGCCTACAACCCAACCACCGCTCAACGTCATCTTTTgtgagctgacagtttgcaaaaacagtcatcctcataccagctcctgtgtc Alignment from Spaln_aa2Genome CCGGCCTCCGCCCAGGCCAGCGGGAAGACCTTGCCAATCCCGGTCCAGATCACACTCCGCTTCAACCTGCCCAAGGAGCGGGAGGCCATCCCAGGTGGCGAGCCTGACCAGCCGCTCTCCTCCAGCTCCTGCCTGCAACCCAACCACCGCTCAACG--------- tgtctctacactaccccccccagaagggtggatgtgactgtcttttgtagCCGGCCTCAGCCCAGGCCAGCGGGAAGACGTTGCCAATCCCAGTCCAGATCACCCTCCGCTTCAACTTGCCCAAGGAGCGGGAGGCCATCCCAGGTGATGAGCCTGACCAGCCGCTCTCCTCTAGCTCCTGCCTACAACCCAACCACCGCTCAACGTCATCTTTTgtgagctgacagtttgcaaaaacagtcatcctcataccagctcctgtgtc Alignment from Spaln_nt2Genome CCGGCCTCCGCCCAGGCCAGCGGGAAGACCTTGCCAATCCCGGTCCAGATCACACTCCGCTTCAACCTGCCCAAGGAGCGGGAGGCCATCCCAGGTGGCGAGCCTGACCAGCCGCTCTCCTCCAGCTCCTGCCTGCAACCCAACCACCGCTCAAC tgtctctacactaccccccccagaagggtggatgtgactgtcttttgtagCCGGCCTCAGCCCAGGCCAGCGGGAAGACGTTGCCAATCCCAGTCCAGATCACCCTCCGCTTCAACTTGCCCAAGGAGCGGGAGGCCATCCCAGGTGATGAGCCTGACCAGCCGCTCTCCTCTAGCTCCTGCCTACAACCCAACCACCGCTCAACgtcatcttttgtgagctgacagtttgcaaaaacagtcatcctcataccagctcctgtgtc Alignment from Pairagon CCGGCCTCCGCCCAGGCCAGCGGGAAGACCTTGCCAATCCCGGTCCAGATCACACTCCGCTTCAACCTGCCCAAGGAGCGGGAGGCCATCCCAGGTGGCGAGCCTGACCAGCCGCTCTCCTCCAGCTCCTGCCTGCAACCCAACCACCGCTCAAC------------------------------------------------------------ tgtctctacactaccccccccagaagggtggatgtgactgtcttttgtagCCGGCCTCAGCCCAGGCCAGCGGGAAGACGTTGCCAATCCCAGTCCAGATCACCCTCCGCTTCAACTTGCCCAAGGAGCGGGAGGCCATCCCAGGTGATGAGCCTGACCAGCCGCTCTCCTCTAGCTCCTGCCTACAACCCAACCACCGCTCAACGTCATCTTTTGTGAGCTGACAGTTTGCAAAAACAGTCATCCTCATACCAGCTCCTGTGTC Alignment from Exonerate_protein2genome CCGGCCTCCGCCCAGGCCAGCGGGAAGACCTTGCCAATCCCGGTCCAGATCACACTCCGCTTCAACCTGCCCAAGGAGCGGGAGGCCATCCCAGGTGGCGAGCCTGACCAGCCGCTCTCCTCCAGCTCCTGCCTGCAACCCAACCACCGCTCAACG tgtctctacactaccccccccagaagggtggatgtgactgtcttttgtagCCGGCCTCAGCCCAGGCCAGCGGGAAGACGTTGCCAATCCCAGTCCAGATCACCCTCCGCTTCAACTTGCCCAAGGAGCGGGAGGCCATCCCAGGTGATGAGCCTGACCAGCCGCTCTCCTCTAGCTCCTGCCTACAACCCAACCACCGCTCAACGtcatcttttgtgagctgacagtttgcaaaaacagtcatcctcataccagctcctgtgtc Alignment from Exonerate_coding2genome CCGGCCTCCGCCCAGGCCAGCGGGAAGACCTTGCCAATCCCGGTCCAGATCACACTCCGCTTCAACCTGCCCAAGGAGCGGGAGGCCATCCCAGGTGGCGAGCCTGACCAGCCGCTCTCCTCCAGCTCCTGCCTGCAACCCAACCACCGCTCAACG tgtctctacactaccccccccagaagggtggatgtgactgtcttttgtagCCGGCCTCAGCCCAGGCCAGCGGGAAGACGTTGCCAATCCCAGTCCAGATCACCCTCCGCTTCAACTTGCCCAAGGAGCGGGAGGCCATCCCAGGTGATGAGCCTGACCAGCCGCTCTCCTCTAGCTCCTGCCTACAACCCAACCACCGCTCAACGtcatcttttgtgagctgacagtttgcaaaaacagtcatcctcataccagctcctgtgtc Alignment from GeneWise CCGGCCTCCGCCCAGGCCAGCGGGAAGACCTTGCCAATCCCGGTCCAGATCACACTCCGCTTCAACCTGCCCAAGGAGCGGGAGGCCATCCCAGGTGGCGAGCCTGACCAGCCGCTCTCCTCCAGCTCCTGCCTGCAACCCAACCACCGCTCAACG--------- tgtctctacactaccccccccagaagggtggatgtgactgtcttttgtagCCGGCCTCAGCCCAGGCCAGCGGGAAGACGTTGCCAATCCCAGTCCAGATCACCCTCCGCTTCAACTTGCCCAAGGAGCGGGAGGCCATCCCAGGTGATGAGCCTGACCAGCCGCTCTCCTCTAGCTCCTGCCTACAACCCAACCACCGCTCAACGTCATCTTTTgtgagctgacagtttgcaaaaacagtcatcctcataccagctcctgtgtc #### Kat5_ID1119_3 --> 2 - 1 Original Alignment ccCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGACt gctggccctgatggctaaactcccaccactgaactgccttaatattatagca------GAGATCCTAAGTGTGAAGGACATAAGCGGCAGAAAGCTTTTCTATGTTTACTACATTGACtgtactccaagccaagatagaagagggttactataaaagattaggaaatct Alignment from CESAR ccCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGACt ctccaggctggccctgatggctaaaccactgaactgccttaatattatagca------GAGATCCTAAGTGTGAAGGACATAAGCGGCAGAAAGCTTTTCTATGTTTACTACATTGACtgtactccaagccaagatagaagagggttactataaaagattaggaaatct Alignment from Spaln_aa2Genome CCCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGACT gctggccctgatggctaaactcccaccactgaactgccttaatattatagCA------GAGATCCTAAGTGTGAAGGACATAAGCGGCAGAAAGCTTTTCTATGTTTACTACATTGACTgtactccaagccaagatagaagagggttactataaaagattaggaaatct Alignment from Spaln_nt2Genome CTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGACT gctggccctgatggctaaactcccaccactgaactgccttaatattatagCAGAGATCCTAAGTGTGAAGGACATAAGCGGCAGAAAGCTTTTCTATGTTTACTACATTGACTgtactccaagccaagatagaagagggttactataaaagattaggaaatct Alignment from Pairagon CCCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGACT gctggccctgatggctaaactcccaccactgaactgccttaatattatag------CAGAGATCCTAAGTGTGAAGGACATAAGCGGCAGAAAGCTTTTCTATGTTTACTACATTGACTgtactccaagccaagatagaagagggttactataaaagattaggaaatct Alignment from Exonerate_protein2genome CTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGACT gctggccctgatggctaaactcccaccactgaactgccttaatattatagCAGAGATCCTAAGTGTGAAGGACATAAGCGGCAGAAAGCTTTTCTATGTTTACTACATTGACTgtactccaagccaagatagaagagggttactataaaagattaggaaatct Alignment from Exonerate_coding2genome CTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGACT gctggccctgatggctaaactcccaccactgaactgccttaatattatagCAGAGATCCTAAGTGTGAAGGACATAAGCGGCAGAAAGCTTTTCTATGTTTACTACATTGACTgtactccaagccaagatagaagagggttactataaaagattaggaaatct Alignment from GeneWise CCCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGACT gctggccctgatggctaaactcccaccactgaactgccttaatattatagCA------GAGATCCTAAGTGTGAAGGACATAAGCGGCAGAAAGCTTTTCTATGTTTACTACATTGACTgtactccaagccaagatagaagagggttactataaaagattaggaaatct #### Kat5_ID1120_2 --> 0 - 1 Original Alignment GGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGc gagactcaaggcctaccaatacacacccatttttttgttttcttttttagGGGGAGATAATTGAGGGCTGCCGCCTGCCTGTCCTTCGG---------------------------cgtaagtgtgttctgaggggcagtccgattgtccccaagatgggtttagac Alignment from CESAR GGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGc gagactcaaggcctaccaatacacacccatttttttgttttcttttttagGGGGAGATAATTGAGGGCTGCCGCCTGCCTGTCCTTCGG---------------------------cgtaagtgtgttctgaggggcagtccgattgtccccaagatgggtttagac Alignment from Spaln_aa2Genome GGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAA gagactcaaggcctaccaatacacacccatttttttgttttcttttttagGGGGAGATAATTGAGGGCTGCCGCCTGCCTGTCCTTCGGCGTAAgtgtgttctgaggggcagtccgattgtccccaagatgggtttagac Alignment from Spaln_nt2Genome GGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAA CC gagactcaaggcctaccaatacacacccatttttttgttttcttttttagGGGGAGATAATTGAGGGCTGCCGCCTGCCTGTCCTTCGGCGTAAgtgtgttctgaggggcagtccgattgtccccaagatgggtttagAC Alignment from Pairagon GGGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGC gagactcaaggcctaccaatacacacccatttttttgttttcttttttaGGGGGAGATAATTGAGGGCTGCCGCCTGCCTGTCCTTCGGCgtaagtgtgttctgaggggcagtccgattgtccccaagatgggtttagac Alignment from Exonerate_protein2genome GGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAA gagactcaaggcctaccaatacacacccatttttttgttttcttttttagGGGGAGATAATTGAGGGCTGCCGCCTGCCTGTCCTTCGGCGTAAgtgtgttctgaggggcagtccgattgtccccaagatgggtttagac Alignment from Exonerate_coding2genome GGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAA gagactcaaggcctaccaatacacacccatttttttgttttcttttttagGGGGAGATAATTGAGGGCTGCCGCCTGCCTGTCCTTCGGCGTAAgtgtgttctgaggggcagtccgattgtccccaagatgggtttagac Alignment from GeneWise gagactcaaggcctaccaatacacacccatttttttgttttcttttttagggggagataattgagggctgccgcctgcctgtccttcggcgtaagtgtgttctgaggggcagtccgattgtccccaagatgggtttagac #### Kazald1_ID9301_3 --> 0 - 1 Original Alignment TCTGTGCAG TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAg TCCTTGCAGgtaagcattgatgatgcctctgcatgttcatgtctctccag---------GGACCACAAGAATTTGAAGTGACCAGTTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGCTGCCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCCGCAACCCTGACGGTACTTACACCAggtaacaattagctctgggtggcaagatgaggcaggagttgggttttaaga Alignment from CESAR TCTGTGCAG TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAg TCCTTGCAGgtttgtgacagggttacctctgcatgttcatgtctctccag---------GGACCACAAGAATTTGAAGTGACCAGTTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGCTGCCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCCGCAACCCTGACGGTACTTACACCAggtaacaattagctctgggtggcaagatgaggcaggagttgggttttaaga Alignment from Spaln_aa2Genome TCTGTGCAG TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG TCCTTGCAGgtaagcattgatgatgcctctgcatgttcatgtctctccag---------GGACCACAAGAATTTGAAGTGACCAGTTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGCTGCCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCCGCAACCCTGACGGTACTTACACCAGgtaacaattagctctgggtggcaagatgaggcaggagttgggttttaaga Alignment from Spaln_nt2Genome TCTGTGCAG TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG TCCTTGCAGgtaagcattgatgatgcctctgcatgttcatgtctctccag---------GGACCACAAGAATTTGAAGTGACCAGTTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGCTGCCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCCGCAACCCTGACGGTACTTACACCAGgtaacaattagctctgggtggcaagatgaggcaggagttgggttttaaga Alignment from Pairagon TCTGTGCAG TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG TCCTTGCAGgtaagcattgatgatgcctctgcatgttcatgtctctccag---------GGACCACAAGAATTTGAAGTGACCAGTTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGCTGCCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCCGCAACCCTGACGGTACTTACACCAGgtaacaattagctctgggtggcaagatgaggcaggagttgggttttaaga Alignment from Exonerate_protein2genome TCTGTGCAG TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG TCCTTGCAGgtaagcattgatgatgcctctgcatgttcatgTCTCTCCAGGGACCACAAGAATTTGAAGTGACCAGTTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGCTGCCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCCGCAACCCTGACGGTACTTACACCAGgtaacaattagctctgggtggcaagatgaggcaggagttgggttttaaga Alignment from Exonerate_coding2genome TCTGTGCAG TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG TCCTTGCAGgtaagcattgatgatgcctctgcatgttcatgTCTCTCCAGGGACCACAAGAATTTGAAGTGACCAGTTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGCTGCCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCCGCAACCCTGACGGTACTTACACCAGgtaacaattagctctgggtggcaagatgaggcaggagttgggttttaaga Alignment from GeneWise TCTGTGCAGTTT------------------------------AGG--GGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG TCCTTGCAGGTAAGCATTGATGATGCCTCTGCATGTTCATGTCTCTCCAGGGACCACAAGAATTTGAAGTGACCAGTTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGCTGCCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCCGCAACCCTGACGGTACTTACACCAGgtaacaattagctctgggtggcaagatgaggcaggagttgggttttaaga #### Kcnip2_ID9603_9 --> 0 - 0 Original Alignment AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTGAGTCTTGTCAACAG------ ttgaggaaaggtttccctcaagactcattcaccttgtttctcggccccagAAGATGGATAGAATCAAGGATGGTGTGGTGACCATTGAGGAATTCATTGCGTCTTGTCAACAGCCTACCgtaagcaaatgtgcaagaagggtgggggtctgaaaggttgttctagatcc Alignment from CESAR AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTGAGTCTTGTCAACAG------ ttgaggaaaggtttccctcaagactcattcaccttgtttctcggccccagAAGATGGATAGAATCAAGGATGGTGTGGTGACCATTGAGGAATTCATTGCGTCTTGTCAACAGCCTACCgtaagcaaatgtgcaagaagggtgggggtctgaaaggttgttctagatcc Alignment from Spaln_aa2Genome AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTGAGTCTTGTCAACAG------ ttgaggaaaggtttccctcaagactcattcaccttgtttctcggccccagAAGATGGATAGAATCAAGGATGGTGTGGTGACCATTGAGGAATTCATTGCGTCTTGTCAACAGCCTACCgtaagcaaatgtgcaagaagggtgggggtctgaaaggttgttctagatcc Alignment from Spaln_nt2Genome AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTGAGTCTTGTCAACAG------ ttgaggaaaggtttccctcaagactcattcaccttgtttctcggccccagAAGATGGATAGAATCAAGGATGGTGTGGTGACCATTGAGGAATTCATTGCGTCTTGTCAACAGCCTACCgtaagcaaatgtgcaagaagggtgggggtctgaaaggttgttctagatcc Alignment from Pairagon AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTGAGTCTTGTCAACAG------ ttgaggaaaggtttccctcaagactcattcaccttgtttctcggccccagAAGATGGATAGAATCAAGGATGGTGTGGTGACCATTGAGGAATTCATTGCGTCTTGTCAACAGCCTACCgtaagcaaatgtgcaagaagggtgggggtctgaaaggttgttctagatcc Alignment from Exonerate_protein2genome AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTGAGTCTTGTCAACAG ttgaggaaaggtttccctcaagactcattcaccttgtttctcggccccagAAGATGGATAGAATCAAGGATGGTGTGGTGACCATTGAGGAATTCATTGCGTCTTGTCAACAGcctaccgtaagcaaatgtgcaagaagggtgggggtctgaaaggttgttctagatcc Alignment from Exonerate_coding2genome AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTGAGTCTTGTCAACAG ttgaggaaaggtttccctcaagactcattcaccttgtttctcggccccagAAGATGGATAGAATCAAGGATGGTGTGGTGACCATTGAGGAATTCATTGCGTCTTGTCAACAGcctaccgtaagcaaatgtgcaagaagggtgggggtctgaaaggttgttctagatcc Alignment from GeneWise AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTGAGTCTTGTCAACAG------ ttgaggaaaggtttccctcaagactcattcaccttgtttctcggccccagAAGATGGATAGAATCAAGGATGGTGTGGTGACCATTGAGGAATTCATTGCGTCTTGTCAACAGCCTACCgtaagcaaatgtgcaagaagggtgggggtctgaaaggttgttctagatcc #### Kcnip2_ID9605_7 --> 0 - 0 Original Alignment ------------------------------------------------GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG agcatccacaccaacatgttttagaagaaactttgcatatctttttctagAAGACTTGGAGTGATATAAACGGTTTAGATTTACCTAAGCGATTAACGGACTTTGTGGCAGGTTTGTCAGTAATCCTTCGAGCAACTATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtagtgggccactaatgtgacagattatgctgacatatgtcatcaaacac Alignment from CESAR tctagtctaatgggcctagtgggggccctaggggctgtagatgcgagaaga Alignment from Spaln_aa2Genome ---------GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG agcatccacaccaacatgttttagaagaaactttgcatatctttttctagaagacttggagtgatataaacggtttagatttacctaagCGATTAACGGACTTTGTGGCAGGTTTGTCAGTAATCCTTCGAGCAACTATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtagtgggccactaatgtgacagattatgctgacatatgtcatcaaacac Alignment from Spaln_nt2Genome GGACTTTGT--------GGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG agcatccacaccaacatgttttagaagaaactttgcatatctttttctagaagacttggagtgatataaacggtttagatttacctaagCGATTAACGGACTTTGTGGCAGGTTTGTCAGTAATCCTTCGAGCAACTATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtagtgggccactaatgtgacagattatgctgacatatgtcatcaaacac Alignment from Pairagon ---------GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG agcatccacaccaacatgttttagaagaaactttgcatatctttttctagaagacttggagtgatataaacggtttagatttacctaagCGATTAACGGACTTTGTGGCAGGTTTGTCAGTAATCCTTCGAGCAACTATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtagtgggccactaatgtgacagattatgctgacatatgtcatcaaacac Alignment from Exonerate_protein2genome GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG agcatccacaccaacatgttttagaagaaactttgcatatctttttctagaagacttggagtgatataaacggtttagatttacctaagcgattaacgGACTTTGTGGCAGGTTTGTCAGTAATCCTTCGAGCAACTATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtagtgggccactaatgtgacagattatgctgacatatgtcatcaaacac Alignment from Exonerate_coding2genome GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG agcatccacaccaacatgttttagaagaaactttgcatatctttttctagaagacttggagtgatataaacggtttagatttacctaagcgattaacgGACTTTGTGGCAGGTTTGTCAGTAATCCTTCGAGCAACTATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtagtgggccactaatgtgacagattatgctgacatatgtcatcaaacac Alignment from GeneWise ---------GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG agcatccacaccaacatgttttagaagaaactttgcatatctttttctagaagacttggagtgatataaacggtttagatttacctaagCGATTAACGGACTTTGTGGCAGGTTTGTCAGTAATCCTTCGAGCAACTATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtagtgggccactaatgtgacagattatgctgacatatgtcatcaaacac #### Kcnk4_ID1876_4 --> 0 - 1 Original Alignment ---AAGTGGCATGTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCg gtagggtctcctggtatcttgatgggtgcttcctttacttttgtctgcagGATAAGTGGCATGTTCCACCAGGACTGGTCAGAAGCCTGTCTGCAGTGCTCTTCCTGCTAATTGGCTGCCTACTTTTTGTCCTGACTCCTACCTTCACATTGCCATACATGGAGAGCTCCAGCAAGTTGGAAGCTATCTACTTTGTTATAGTAACTCTCACCAGTGTGGGCTTTGGCGATTATGTCCCTggtgagtccacccttgccttgcatttaatatttttttctttaatttatttg Alignment from CESAR ---AAGTGGCATGTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCg gtagggtctcctggtatcttgatgggtgcttcctttacttttgtctgcagGATAAGTGGCATGTTCCACCAGGACTGGTCAGAAGCCTGTCTGCAGTGCTCTTCCTGCTAATTGGCTGCCTACTTTTTGTCCTGACTCCTACCTTCACATTGCCATACATGGAGAGCTCCAGCAAGTTGGAAGCTATCTACTTTGTTATAGTAACTCTCACCAGTGTGGGCTTTGGCGATTATGTCCCTggtgagtccacccttgccttgcatttaatatttttttctttaatttatttg Alignment from Spaln_aa2Genome TTGAAGTGGCATGTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCG gtagggtctcctggtatcttgatgggtgcttcctttacttttgtctgcagGATAAGTGGCATGTTCCACCAGGACTGGTCAGAAGCCTGTCTGCAGTGCTCTTCCTGCTAATTGGCTGCCTACTTTTTGTCCTGACTCCTACCTTCACATTGCCATACATGGAGAGCTCCAGCAAGTTGGAAGCTATCTACTTTGTTATAGTAACTCTCACCAGTGTGGGCTTTGGCGATTATGTCCCTGgtgagtccacccttgccttgcatttaatatttttttctttaatttatttg Alignment from Spaln_nt2Genome TTGAAGTGGCATGTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCG gtagggtctcctggtatcttgatgggtgcttcctttacttttgtctgcagGATAAGTGGCATGTTCCACCAGGACTGGTCAGAAGCCTGTCTGCAGTGCTCTTCCTGCTAATTGGCTGCCTACTTTTTGTCCTGACTCCTACCTTCACATTGCCATACATGGAGAGCTCCAGCAAGTTGGAAGCTATCTACTTTGTTATAGTAACTCTCACCAGTGTGGGCTTTGGCGATTATGTCCCTGgtgagtccacccttgccttgcatttaatatttttttctttaatttatttg Alignment from Pairagon ACATCGAAGCAATCTTCTTG--AAGTGGCATGTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCG gtagggtctcctggtatcttgatgggtgcttcctttacttttgtctgcag-------------------GATAAGTGGCATGTTCCACCAGGACTGGTCAGAAGCCTGTCTGCAGTGCTCTTCCTGCTAATTGGCTGCCTACTTTTTGTCCTGACTCCTACCTTCACATTGCCATACATGGAGAGCTCCAGCAAGTTGGAAGCTATCTACTTTGTTATAGTAACTCTCACCAGTGTGGGCTTTGGCGATTATGTCCCTGgtgagtccacccttgccttgcatttaatatttttttctttaatttatttg Alignment from Exonerate_protein2genome TGAAGTGGCATGTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCG gtagggtctcctggtatcttgatgggtgcttcctttacttttgtctgcaggATAAGTGGCATGTTCCACCAGGACTGGTCAGAAGCCTGTCTGCAGTGCTCTTCCTGCTAATTGGCTGCCTACTTTTTGTCCTGACTCCTACCTTCACATTGCCATACATGGAGAGCTCCAGCAAGTTGGAAGCTATCTACTTTGTTATAGTAACTCTCACCAGTGTGGGCTTTGGCGATTATGTCCCTGgtgagtccacccttgccttgcatttaatatttttttctttaatttatttg Alignment from Exonerate_coding2genome TGAAGTGGCATGTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCG gtagggtctcctggtatcttgatgggtgcttcctttacttttgtctgcaggATAAGTGGCATGTTCCACCAGGACTGGTCAGAAGCCTGTCTGCAGTGCTCTTCCTGCTAATTGGCTGCCTACTTTTTGTCCTGACTCCTACCTTCACATTGCCATACATGGAGAGCTCCAGCAAGTTGGAAGCTATCTACTTTGTTATAGTAACTCTCACCAGTGTGGGCTTTGGCGATTATGTCCCTGgtgagtccacccttgccttgcatttaatatttttttctttaatttatttg Alignment from GeneWise ---CATGTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCG gtagggtctcctggtatcttgatgggtgcttcctttacttttgtctgcaggataagTGGCATGTTCCACCAGGACTGGTCAGAAGCCTGTCTGCAGTGCTCTTCCTGCTAATTGGCTGCCTACTTTTTGTCCTGACTCCTACCTTCACATTGCCATACATGGAGAGCTCCAGCAAGTTGGAAGCTATCTACTTTGTTATAGTAACTCTCACCAGTGTGGGCTTTGGCGATTATGTCCCTGgtgagtccacccttgccttgcatttaatatttttttctttaatttatttg #### Kcnk4_ID1877_3 --> 2 - 0 Original Alignment TTTTCTCGGGGACCATCATCACTACCATCg gc---------TATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATG---CTG---CTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG TTTTTTCAGGTTCTATCATCACAAACATatgtaattatgtatccctccgcttgatctctttctatttcagccGATTGCCATctatcgttctcccttcaggtTATGGAAATATAGTCCTACACACTGAGGCTGGATGTCTCTTTTGTGTCTTCTATGCACTGGTGGGGATCCCACTATGTGGGATAGAGTTGCTGCTTGTAGGAGTCGGGGACCAGCTGGGCTCCTCTCTACGCCGAGGCATTGGCCAAATTGGAGCAATCTTCTCGgtgagtactc Alignment from CESAR cttgtcttgcttcagaatgatggaggagagcgtcaaagtaatacatcactt Alignment from Spaln_aa2Genome TTTTCTCGGGGACCATCATCACTACCATCG GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGG------ATGCTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG TTTTTTCAGGTTCTATCATCACAAACATATgtaattatgtatccctccgcttgatctctttctatttcagccgattgccatctatcgttctcccttcagGTTATGGAAATATAGTCCTACACACTGAGGCTGGATGTCTCTTTTGTGTCTTCTATGCACTGGTGGGGATCCCACTATGTGGGATAGAGTTGCTGCTTGTAGGAGTCGGGGACCAGCTGGGCTCCTCTCTACGCCGAGGCATTGGCCAAATTGGAGCAATCTTCTCGgtgagtactc Alignment from Spaln_nt2Genome TTTTCTCGGGGACCATCATCACTACCATCG GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGAT------GCTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG TTTTTTCAGGTTCTATCATCACAAACATATgtaattatgtatccctccgcttgatctctttctatttcagccgattgccatctatcgttctcccttcagGTTATGGAAATATAGTCCTACACACTGAGGCTGGATGTCTCTTTTGTGTCTTCTATGCACTGGTGGGGATCCCACTATGTGGGATAGAGTTGCTGCTTGTAGGAGTCGGGGACCAGCTGGGCTCCTCTCTACGCCGAGGCATTGGCCAAATTGGAGCAATCTTCTCGgtgagtactc Alignment from Pairagon TTTTCTCGGGGACCATCATCACTACCATCG GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGA------TGCTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG TTTTTTCAGGTTCTATCATCACAAACATATgtaattatgtatccctccgcttgatctctttctatttcagccgattgccatctatcgttctcccttcagGTTATGGAAATATAGTCCTACACACTGAGGCTGGATGTCTCTTTTGTGTCTTCTATGCACTGGTGGGGATCCCACTATGTGGGATAGAGTTGCTGCTTGTAGGAGTCGGGGACCAGCTGGGCTCCTCTCTACGCCGAGGCATTGGCCAAATTGGAGCAATCTTCTCGgtgagtactc Alignment from Exonerate_protein2genome TTTTCTCGGGGACCATCATCACTACCATCG GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGG------ATGCTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG TTTTTTCAGGTTCTATCATCACAAACATATgtaattatgtatccctccgcttgatctctttctatttcagccgattgccatctatcgttctcccttcagGTTATGGAAATATAGTCCTACACACTGAGGCTGGATGTCTCTTTTGTGTCTTCTATGCACTGGTGGGGATCCCACTATGTGGGATAGAGTTGCTGCTTGTAGGAGTCGGGGACCAGCTGGGCTCCTCTCTACGCCGAGGCATTGGCCAAATTGGAGCAATCTTCTCGgtgagtactc Alignment from Exonerate_coding2genome TTTTCTCGGGGACCATCATCACTACCATCG GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGG------ATGCTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG TTTTTTCAGGTTCTATCATCACAAACATATgtaattatgtatccctccgcttgatctctttctatttcagccgattgccatctatcgttctcccttcagGTTATGGAAATATAGTCCTACACACTGAGGCTGGATGTCTCTTTTGTGTCTTCTATGCACTGGTGGGGATCCCACTATGTGGGATAGAGTTGCTGCTTGTAGGAGTCGGGGACCAGCTGGGCTCCTCTCTACGCCGAGGCATTGGCCAAATTGGAGCAATCTTCTCGgtgagtactc Alignment from GeneWise TTTTCTCGGGGACCATCATCACTACCATC---------------------------------------------------------------------GGCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGG------ATGCTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG TTTTTTCAGGTTCTATCATCACAAACATATGTAATTATGTATCCCTCCGCTTGATCTCTTTCTATTTCAGCCGATTGCCATCTATCGTTCTCCCTTCAGGTTATGGAAATATAGTCCTACACACTGAGGCTGGATGTCTCTTTTGTGTCTTCTATGCACTGGTGGGGATCCCACTATGTGGGATAGAGTTGCTGCTTGTAGGAGTCGGGGACCAGCTGGGCTCCTCTCTACGCCGAGGCATTGGCCAAATTGGAGCAATCTTCTCGgtgagtactc #### Kif11_ID7313_3 --> 0 - 2 Original Alignment GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCATCTTCgc acaactatcaattgcttcacccgagtattcctttctctttcctttggtagGTTATTGGGGCATCTACAAAGCAGATTGATGTTTATCAAAGTGTTGTTTGTCCAATTCTAGATGATGTAATTATGGGCTACAATTGCACC------gtgtatgttgagcgaacaactgtcttctcaagtttggatcatatgtatgggt Alignment from CESAR GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCATCTTCgc acaactatcaattgcttcacccgagtattcctttctctttcctttggtagGTTATTGGGGCATCTACAAAGCAGATTGATGTTTATCAAAGTGTTGTTTGTCCAATTCTAGATGATGTAATTATGGGCTACAATTGCACC------gtgtatgttgagcgaacaactgtcttctcaagtttggatcatatgtatgggt Alignment from Spaln_aa2Genome GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCATCTTCGCA-- acaactatcaattgcttcacccgagtattcctttctctttcctttggtagGTTATTGGGGCATCTACAAAGCAGATTGATGTTTATCAAAGTGTTGTTTGTCCAATTCTAGATGATGTAATTATGGGCTACAATTGCACCGTGTATGTTGAgcgaacaactgtcttctcaagtttggatcatatgtatgggt Alignment from Spaln_nt2Genome GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCAT acaactatcaattgcttcacccgagtattcctttctctttcctttggtagGTTATTGGGGCATCTACAAAGCAGATTGATGTTTATCAAAGTGTTGTTTGTCCAATTCTAGATGATGTAATTATGGGCTACAATTGCACCGTgtatgttgagcgaacaactgtcttctcaagtttggatcatatgtatgggt Alignment from Pairagon GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCAT acaactatcaattgcttcacccgagtattcctttctctttcctttggtagGTTATTGGGGCATCTACAAAGCAGATTGATGTTTATCAAAGTGTTGTTTGTCCAATTCTAGATGATGTAATTATGGGCTACAATTGCACCGTgtatgttgagcgaacaactgtcttctcaagtttggatcatatgtatgggt Alignment from Exonerate_protein2genome GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCATCTTCG acaactatcaattgcttcacccgagtattcctttctctttcctttggtagGTTATTGGGGCATCTACAAAGCAGATTGATGTTTATCAAAGTGTTGTTTGTCCAATTCTAGATGATGTAATTATGGGCTACAATTGCACCGTGTATGttgagcgaacaactgtcttctcaagtttggatcatatgtatgggt Alignment from Exonerate_coding2genome GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCATCTTCG acaactatcaattgcttcacccgagtattcctttctctttcctttggtagGTTATTGGGGCATCTACAAAGCAGATTGATGTTTATCAAAGTGTTGTTTGTCCAATTCTAGATGATGTAATTATGGGCTACAATTGCACCGTGTATGttgagcgaacaactgtcttctcaagtttggatcatatgtatgggt Alignment from GeneWise GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACC-- acaactatcaattgcttcacccgagtattcctttctctttcctttggtagGTTATTGGGGCATCTACAAAGCAGATTGATGTTTATCAAAGTGTTGTTTGTCCAATTCTAGATGATGTAATTATGGGCTACAATTGCACCGTgtatgttgagcgaacaactgtcttctcaagtttggatcatatgtatgggt #### Kif20b_ID7008_13 --> 0 - 2 Original Alignment GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTaa acaaaatgtaatcacagatgcaacttggactagcattgtttatttcacagGAACTGTTGGATTTGATAGAAAAGTTGAATAAAAGATTAATAAATGAGAATCAAGAAAAATTATCATTAGAACTTAAGATCCGAGAAGATGTTACACAGGAATTCACACAGTATTGGAGCCATCGG------------aagtacgttaatcgccatactccacatttgctctatcgtggcaatgatttaa Alignment from CESAR GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTaa acaaaatgtaatcacagatgcaacttggactagcattgtttatttcacagGAACTGTTGGATTTGATAGAAAAGTTGAATAAAAGATTAATAAATGAGAATCAAGAAAAATTATCATTAGAACTTAAGATCCGAGAAGATGTTACACAGGAATTCACACAGTATTGGAGCCATCGG------------aagtacgttaatcgccatactccacatttgctctatcgtggcaatgatttaa Alignment from Spaln_aa2Genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGA acaaaatgtaatcacagatgcaacttggactagcattgtttatttcacagGAACTGTTGGATTTGATAGAAAAGTTGAATAAAAGATTAATAAATGAGAATCAAGAAAAATTATCATTAGAACTTAAGATCCGAGAAGATGTTACACAGGAATTCACACAGTATTGGAGCCATCGGAAgtacgttaatcgccatactccacatttgctctatcgtggcaatgatttaa Alignment from Spaln_nt2Genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAA acaaaatgtaatcacagatgcaacttggactagcattgtttatttcacagGAACTGTTGGATTTGATAGAAAAGTTGAATAAAAGATTAATAAATGAGAATCAAGAAAAATTATCATTAGAACTTAAGATCCGAGAAGATGTTACACAGGAATTCACACAGTATTGGAGCCATC-GGAAgtacgttaatcgccatactccacatttgctctatcgtggcaatgatttaa Alignment from Pairagon GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA acaaaatgtaatcacagatgcaacttggactagcattgtttatttcacagGAACTGTTGGATTTGATAGAAAAGTTGAATAAAAGATTAATAAATGAGAATCAAGAAAAATTATCATTAGAACTTAAGATCCGAGAAGATGTTACACAGGAATTCACACAGTATTGGAGCCATCGG------------AAgtacgttaatcgccatactccacatttgctctatcgtggcaatgatttaa Alignment from Exonerate_protein2genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGA acaaaatgtaatcacagatgcaacttggactagcattgtttatttcacagGAACTGTTGGATTTGATAGAAAAGTTGAATAAAAGATTAATAAATGAGAATCAAGAAAAATTATCATTAGAACTTAAGATCCGAGAAGATGTTACACAGGAATTCACACAGTATTGGAGCCATCGGAAgtacgttaatcgccatactccacatttgctctatcgtggcaatgatttaa Alignment from Exonerate_coding2genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGA acaaaatgtaatcacagatgcaacttggactagcattgtttatttcacagGAACTGTTGGATTTGATAGAAAAGTTGAATAAAAGATTAATAAATGAGAATCAAGAAAAATTATCATTAGAACTTAAGATCCGAGAAGATGTTACACAGGAATTCACACAGTATTGGAGCCATCGGAAgtacgttaatcgccatactccacatttgctctatcgtggcaatgatttaa Alignment from GeneWise GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGG-- acaaaatgtaatcacagatgcaacttggactagcattgtttatttcacagGAACTGTTGGATTTGATAGAAAAGTTGAATAAAAGATTAATAAATGAGAATCAAGAAAAATTATCATTAGAACTTAAGATCCGAGAAGATGTTACACAGGAATTCACACAGTATTGGAGCCATCGGAAgtacgttaatcgccatactccacatttgctctatcgtggcaatgatttaa #### Klc2_ID852_14 --> 1 - 0 Original Alignment gATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTCCAG tctcttttgctctcaggatgaagagggccttttcatttgtttatttgtaggATGAAGAGGGCCAGCTCTCTTAACTTCCTTAATAAGAGTGTGCGGAAGCCC------gtatatctgatggggataaaatgtaccaaatagcctatatttgcagatgc Alignment from CESAR gATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTCCAG tctcttttgctctcaggatgaagagggccttttcatttgtttatttgtaggATGAAGAGGGCCAGCTCTCTTAACTTCCTTAATAAGAGTGTGCGGAAGCCC------gtatatctgatggggataaaatgtaccaaatagcctatatttgc Alignment from Spaln_aa2Genome GATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCA tctcttttgctctcaggatgaagagggccttttcatttgtttatttgtagGATGAAGAGGGCCAGCTCTCTTAACTTCCTTAATAAGAGTGTGCGGAAGCCCgtatatctgatggggataaaatgtaccaaatagcctatatttgcagatgc Alignment from Spaln_nt2Genome GATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTG-GAAG AGCC tctcttttgctctcaggatgaagagggccttttcatttgtttatttgtagGATGAAGAGGGCCAGCTCTCTTAACTTCCTTAATAAGAGTGTGCGGAAgcccgtatatctgatggggataaaatgtaccaaatagcctatatttgcagATGC Alignment from Pairagon GATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGT tctcttttgctctcaggatgaagagggccttttcatttgtttatttgtagGATGAAGAGGGCCAGCTCTCTTAACTTCCTTAATAAGAGTgtgcggaagcccgtatatctgatggggataaaatgtaccaaatagcctatatttgcagatgc Alignment from Exonerate_protein2genome GATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTCCAG tctcttttgctctcaggatgaagagggccttttcatttgtttatttgtagGATGAAGAGGGCCAGCTCTCTTAACTTCCTTAATAAGAGTGTGCGGAAGCCCGTATATctgatggggataaaatgtaccaaatagcctatatttgcagatgc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTCCAGCCT tctcttttgctctcaggatgaagagggccttttcatttgtttatttgtagGATGAAGAGGGCCAGCTCTCTTAACTTCCTTAATAAGAGTGTGCGG---------AAGCCCgtatatctgatggggataaaatgtaccaaatagcctatatttgcagatgc #### Klc2_ID853_13 --> 0 - 2 Original Alignment ---------GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTag ggtgataggtgaatccatcttgagtcaaaaatcaaaccatcattttccagGCTACAATCGATGGCAGTGGTTCCCTGCAGTGCAGTGGATCTTTTGGGAAACTCCGAGATGCTCTAAGACGTAGCAGTGAAATGCTTGTAAGGAAACTGCAGGGAGGTGGACCACAGGAGCCCTCTAATTCTaggtaagtcatcacctctcccttccatactatttatcatgaagagcagggca Alignment from CESAR ---------GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTag ggtgataggtgaatccatcttgagtcaaaaatcaaaccatcattttccagGCTACAATCGATGGCAGTGGTTCCCTGCAGTGCAGTGGATCTTTTGGGAAACTCCGAGATGCTCTAAGACGTAGCAGTGAAATGCTTGTAAGGAAACTGCAGGGAGGTGGACCACAGGAGCCCTCTAATTCTaggtaagtcatcacctctcccttccatactatttatcatgaagagcagggca Alignment from Spaln_aa2Genome -------GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG ggtgataggtgaatccatcttgagtcaaaaatcaaaccatcattttccagGCTACAATCGATGGCAGTGGTTCCCTGCAGTGCAGTGGATCTTTTGGGAAACTCCGAGATGCTCTAAGACGTAGCAGTGAAATGCTTGTAAGGAAACTGCAGGGAGGTGGACCACAGGAGCCCTCTAATTCTAGgtaagtcatcacctctcccttccatactatttatcatgaagagcagggca Alignment from Spaln_nt2Genome G---------ACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG ggtgataggtgaatccatcttgagtcaaaaatcaaaccatcattttccagGCTACAATCGATGGCAGTGGTTCCCTGCAGTGCAGTGGATCTTTTGGGAAACTCCGAGATGCTCTAAGACGTAGCAGTGAAATGCTTGTAAGGAAACTGCAGGGAGGTGGACCACAGGAGCCCTCTAATTCTAGgtaagtcatcacctctcccttccatactatttatcatgaagagcagggca Alignment from Pairagon ---------GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG ggtgataggtgaatccatcttgagtcaaaaatcaaaccatcattttccagGCTACAATCGATGGCAGTGGTTCCCTGCAGTGCAGTGGATCTTTTGGGAAACTCCGAGATGCTCTAAGACGTAGCAGTGAAATGCTTGTAAGGAAACTGCAGGGAGGTGGACCACAGGAGCCCTCTAATTCTAGgtaagtcatcacctctcccttccatactatttatcatgaagagcagggca Alignment from Exonerate_protein2genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG ggtgataggtgaatccatcttgagtcaaaaatcaaaccatcattttccaggctacaatcGATGGCAGTGGTTCCCTGCAGTGCAGTGGATCTTTTGGGAAACTCCGAGATGCTCTAAGACGTAGCAGTGAAATGCTTGTAAGGAAACTGCAGGGAGGTGGACCACAGGAGCCCTCTAATTCTAGgtaagtcatcacctctcccttccatactatttatcatgaagagcagggca Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ---------GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG ggtgataggtgaatccatcttgagtcaaaaatcaaaccatcattttccagGCTACAATCGATGGCAGTGGTTCCCTGCAGTGCAGTGGATCTTTTGGGAAACTCCGAGATGCTCTAAGACGTAGCAGTGAAATGCTTGTAAGGAAACTGCAGGGAGGTGGACCACAGGAGCCCTCTAATTCTAGgtaagtcatcacctctcccttccatactatttatcatgaagagcagggca #### Klc2_ID859_7 --> 0 - 0 Original Alignment GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG gcatgagtgccaagcaagcagtaggatcaggaattcccttccttttccag---------------------------------------------------TTGCTATGCCAGAACCAGGGCAGAGCTGAAGAGGTGGAATATTATTACCCACGGGGCTTGAAGATATACGCCACACGCCTTAGTCCTGAAGATCCCAATGTGGCAAAAACTAAGAACAACCTGgtaccttgtaaaggtaagggatgccaataaggaaggcagcacatccagat Alignment from CESAR GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG gcatgagtgccaagcaagcagtaggatcaggaattcccttccttttccag---------------------------------------------------TTGCTATGCCAGAACCAGGGCAGAGCTGAAGAGGTGGAATATTATTACCCACGGGGCTTGAAGATATACGCCACACGCCTTAGTCCTGAAGATCCCAATGTGGCAAAAACTAAGAACAACCTGgtaccttgtaaaggtaagggatgccaataaggaaggcagcacatccagat Alignment from Spaln_aa2Genome CAGCAACCTGGCC TTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG GCATGAGTGCCAAgcaagcagtaggatcaggaattcccttccttttccagTTGCTATGCCAGAACCAGGGCAGAGCTGAAGAGGTGGAATATTATTACCCACGGGGCTTGAAGATATACGCCACACGCCTTAGTCCTGAAGATCCCAATGTGGCAAAAACTAAGAACAACCTGgtaccttgtaaaggtaagggatgccaataaggaaggcagcacatccagat Alignment from Spaln_nt2Genome GCCAAGCAGCTCAGCAA CCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG CATGAG-TGCCAAGCAAgcagtaggatcaggaattcccttccttttccag-------TTGCTATGCCAGAACCAGGGCAGAGCTGAAGAGGTGGAATATTATTACCCACGGGGCTTGAAGATATACGCCACACGCCTTAGTCCTGAAGATCCCAATGTGGCAAAAACTAAGAACAACCTGgtaccttgtaaaggtaagggatgccaataaggaaggcagcacatccagat Alignment from Pairagon GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG gcatgagtgccaagcaagcagtaggatcaggaattcccttccttttccag---------------------------------------------------TTGCTATGCCAGAACCAGGGCAGAGCTGAAGAGGTGGAATATTATTACCCACGGGGCTTGAAGATATACGCCACACGCCTTAGTCCTGAAGATCCCAATGTGGCAAAAACTAAGAACAACCTGgtaccttgtaaaggtaagggatgccaataaggaaggcagcacatccagat Alignment from Exonerate_protein2genome gcatgagtgccaagcaagcagtaggatcaggaattcccttccttttccagttgctatgccagaaccagggcagagctgaagaggtggaatattattacccacggggcttgaagatatacgccacacgccttagtcctgaagatcccaatgtggcaaaaactaagaacaacctggtaccttgtaaaggtaagggatgccaataaggaaggcagcacatccagat Alignment from Exonerate_coding2genome TTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG gcatgagtgccaagcaagcagtaggatcaggaattcccttccttttccagTTGCTATGCCAGAACCAGGGCAGAGCTGAAGAGGTGGAATATTATTACCCACGGGGCTTGAAGATATACGCCACACGCCTTAGTCCTGAAGATCCCAATGTGGCAAAAACTAAGAACAACCTGgtaccttgtaaaggtaagggatgccaataaggaaggcagcacatccagat Alignment from GeneWise --------GCCAAGCAGCTCAGCAAC------------------CTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG GCATGAGTGCCAAGCAAGCAGTAGGATCAGGAATTCCCTTCCTTTTCCAGTTGCTATGCCAGAACCAGGGCAGAGCTGAAGAGGTGGAATATTATTACCCACGGGGCTTGAAGATATACGCCACACGCCTTAGTCCTGAAGATCCCAATGTGGCAAAAACTAAGAACAACCTGgtaccttgtaaaggtaagggatgccaataaggaaggcagcacatccagat #### Ldb1_ID9693_7 --> 0 - 0 Original Alignment ---GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC gtagtaaatcaccaaggcaaaggatgggtattggaaaaaattttccctagATTGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTGGCGATGCATgtatgtttgcgccagcaccacctgaaatgaggggattggagtccacttct Alignment from CESAR ---GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC gtagtaaatcaccaaggcaaaggatgggtattggaaaaaattttccctagATTGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTGGCGATGCATgtatgtttgcgccagcaccacctgaaatgaggggattggagtccacttct Alignment from Spaln_aa2Genome GTGTGTGTGGAA---GGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC gtagtaaatcaccaaggcaaaggatgggtattggaaaaaattttccctagATTGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTGGCGATGCATgtatgtttgcgccagcaccacctgaaatgaggggattggagtccacttct Alignment from Spaln_nt2Genome GTGTGTGTGGAAGGCCG---GTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGC gtagtaaatcaccaaggcaaaggatgggtattggaaaaaattttccctagATTGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTGGCGATGCatgtatgtttgcgccagcaccacctgaaatgaggggattggagtccacttct Alignment from Pairagon ---GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC gtagtaaatcaccaaggcaaaggatgggtattggaaaaaattttccctagATTGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTGGCGATGCATgtatgtttgcgccagcaccacctgaaatgaggggattggagtccacttct Alignment from Exonerate_protein2genome GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC gtagtaaatcaccaaggcaaaggatgggtattggaaaaaattttccctagattGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTGGCGATGCATgtatgtttgcgccagcaccacctgaaatgaggggattggagtccacttct Alignment from Exonerate_coding2genome GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC gtagtaaatcaccaaggcaaaggatgggtattggaaaaaattttccctagattGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTGGCGATGCATgtatgtttgcgccagcaccacctgaaatgaggggattggagtccacttct Alignment from GeneWise ---GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC gtagtaaatcaccaaggcaaaggatgggtattggaaaaaattttccctagATTGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTGGCGATGCATgtatgtttgcgccagcaccacctgaaatgaggggattggagtccacttct #### Ldb1_ID9694_6 --> 2 - 0 Original Alignment ccATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG--------- ttcacatgtgacctctcctggtcctgaattaagttctgtgtcttggccagccATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGACATATGACgtaagaaagctgtaggcacagtgaaacctgatatcatgacacaattttgc Alignment from CESAR ccATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG--------- ttcacatgtgacctctcctggtcctgaattaagttctgtgtcttggccagccATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGACATATGACgtaagaaagctgtaggcacagtgaaacctgatatcatgacacaattttgc Alignment from Spaln_aa2Genome CCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG--------- ttcacatgtgacctctcctggtcctgaattaagttctgtgtcttggccagCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGACATATGACgtaagaaagctgtaggcacagtgaaacctgatatcatgacacaattttgc Alignment from Spaln_nt2Genome CCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG--------- ttcacatgtgacctctcctggtcctgaattaagttctgtgtcttggccagCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGACATATGACgtaagaaagctgtaggcacagtgaaacctgatatcatgacacaattttgc Alignment from Pairagon CCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG--------- ttcacatgtgacctctcctggtcctgaattaagttctgtgtcttggccagCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGACATATGACgtaagaaagctgtaggcacagtgaaacctgatatcatgacacaattttgc Alignment from Exonerate_protein2genome CCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG ttcacatgtgacctctcctggtcctgaattaagttctgtgtcttggccagCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGacatatgacgtaagaaagctgtaggcacagtgaaacctgatatcatgacacaattttgc Alignment from Exonerate_coding2genome CCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG ttcacatgtgacctctcctggtcctgaattaagttctgtgtcttggccagCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGacatatgacgtaagaaagctgtaggcacagtgaaacctgatatcatgacacaattttgc Alignment from GeneWise CCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG--------- ttcacatgtgacctctcctggtcctgaattaagttctgtgtcttggccagCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGACATATGACgtaagaaagctgtaggcacagtgaaacctgatatcatgacacaattttgc #### Ldb1_ID9695_5 --> 0 - 1 Original Alignment ---GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATa agagaggttgagaggggagtgcctggggtcttcttctctgtcgtttccagCTCGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTCACTATAACCTTTTGCTTGAAGGATGGGCCAAACAGGTACagtaagctagctctcagcgagatgctttcacatagctcttttttctctttc Alignment from CESAR ---GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATa agagaggttgagaggggagtgcctggggtcttcttctctgtcgtttccagCTCGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTCACTATAACCTTTTGCTTGAAGGATGGGCCAAACAGGTACagtaagctagctctcagcgagatgctttcacatagctcttttttctctttc Alignment from Spaln_aa2Genome GAGTGTGACAATCTCTGG---TGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA agagaggttgagaggggagtgcctggggtcttcttctctgtcgtttccagCTCGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTCACTATAACCTTTTGCTTGAAGGATGGGCCAAACAGGTACAgtaagctagctctcagcgagatgctttcacatagctcttttttctctttc Alignment from Spaln_nt2Genome GGAGTGTGACAA--TCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA agagaggttgagaggggagtgcctggggtcttcttctctgtcgtttccagCTCGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTCACTATAACCTTTTGCTTGAAGGATGGGCCAAACAGGTACAgtaagctagctctcagcgagatgctttcacatagctcttttttctctttc Alignment from Pairagon -----------------------------------------------------GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA AGAGAGGTTGAGAGGGGAGTGCCTGGGGTCTTCTTCTCTGTCGTTTCCAGCTCGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTCACTATAACCTTTTGCTTGAAGGATGGGCCAAACAGGTACAgtaagctagctctcagcgagatgctttcacatagctcttttttctctttc Alignment from Exonerate_protein2genome ---GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA agagaggttgagaggggagtgcctggggtcttcttctctgtcgtttccagCTCGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTCACTATAACCTTTTGCTTGAAGGATGGGCCAAACAGGTACAgtaagctagctctcagcgagatgctttcacatagctcttttttctctttc Alignment from Exonerate_coding2genome ---GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA agagaggttgagaggggagtgcctggggtcttcttctctgtcgtttccagCTCGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTCACTATAACCTTTTGCTTGAAGGATGGGCCAAACAGGTACAgtaagctagctctcagcgagatgctttcacatagctcttttttctctttc Alignment from GeneWise ---GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA agagaggttgagaggggagtgcctggggtcttcttctctgtcgtttccagCTCGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTCACTATAACCTTTTGCTTGAAGGATGGGCCAAACAGGTACAgtaagctagctctcagcgagatgctttcacatagctcttttttctctttc #### Loxl4_ID8561_12 --> 2 - 0 Original Alignment gaGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcctgggcatttctgcctctgcccttgcccctccccaacccccagggGTACAACGTCGCTATGCATGTGCTAACTTTGGAGAACAAGGGGTTGCAGTAGGCTGCTGGGACACCTACCGGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAG---GGTCCAGGGGACTACATC------gtaagtcacctgatcagtccaggacatatgcttcaggtattactgtaagc Alignment from CESAR gaGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcctgggcatttctgcctctgcccttgcccctccccaacccccagggGTACAACGTCGCTATGCATGTGCTAACTTTGGAGAACAAGGGGTTGCAGTAGGCTGCTGGGACACCTACCGGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAG---GGTCCAGGGGACTACATC------gtaagtcacctgatcagtccaggacatatgcttcaggtattact Alignment from Spaln_aa2Genome GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATC aaaatgcctgggcatttctgcctctgcccttgcccctccccaacccccagGGGTACAACGTCGCTATGCATGTGCTAACTTTGGAGAACAAGGGGTTGCAGTAGGCTGCTGGGACACCTACCGGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAG---GGTCCAGGGGACTACATCgtaagtcacctgatcagtccaggacatatgcttcaggtattactgtaagc Alignment from Spaln_nt2Genome GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATC aaaatgcctgggcatttctgcctctgcccttgcccctccccaacccccagGGGTACAACGTCGCTATGCATGTGCTAACTTTGGAGAACAAGGGGTTGCAGTAGGCTGCTGGGACACCTACCGGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGA---GGGTCCAGGGGACTACATCgtaagtcacctgatcagtccaggacatatgcttcaggtattactgtaagc Alignment from Pairagon GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATC aaaatgcctgggcatttctgcctctgcccttgcccctccccaacccccagGGGTACAACGTCGCTATGCATGTGCTAACTTTGGAGAACAAGGGGTTGCAGTAGGCTGCTGGGACACCTACCGGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGA---GGGTCCAGGGGACTACATCgtaagtcacctgatcagtccaggacatatgcttcaggtattactgtaagc Alignment from Exonerate_protein2genome GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATC aaaatgcctgggcatttctgcctctgcccttgcccctccccaacccccagGGGTACAACGTCGCTATGCATGTGCTAACTTTGGAGAACAAGGGGTTGCAGTAGGCTGCTGGGACACCTACCGGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAG---GGTCCAGGGGACTACATCgtaagtcacctgatcagtccaggacatatgcttcaggtattactgtaagc Alignment from Exonerate_coding2genome GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATC aaaatgcctgggcatttctgcctctgcccttgcccctccccaacccccagGGGTACAACGTCGCTATGCATGTGCTAACTTTGGAGAACAAGGGGTTGCAGTAGGCTGCTGGGACACCTACCGGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAG---GGTCCAGGGGACTACATCgtaagtcacctgatcagtccaggacatatgcttcaggtattactgtaagc Alignment from GeneWise GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATC aaaatgcctgggcatttctgcctctgcccttgcccctccccaacccccagGGGTACAACGTCGCTATGCATGTGCTAACTTTGGAGAACAAGGGGTTGCAGTAGGCTGCTGGGACACCTACCGGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAG---GGTCCAGGGGACTACATCgtaagtcacctgatcagtccaggacatatgcttcaggtattactgtaagc #### Lpxn_ID3473_6 --> 0 - 0 Original Alignment GTGATCCATGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT ggataggccacgtattgcaccttatgatttttctttttcttttattatag---------------------------CACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCGGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGATgtgagtgatgccccacaccagtagcacacatatagtgatggataatcata Alignment from CESAR GTGATCCATGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT catttgtgcaatagaacgaaataatgatttttctttttcttttattatag---------------------------CACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCGGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGATgtgagtgatgccccacaccagtagcacacatatagtgatggataatcatt Alignment from Spaln_aa2Genome CACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT ggataggccacgtattgcaccttatgatttttctttttcttttattatagCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCGGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGATgtgagtgatgccccacaccagtagcacacatatagtgatggataatcata Alignment from Spaln_nt2Genome CACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT ggataggccacgtattgcaccttatgatttttctttttcttttattatagCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCGGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGATgtgagtgatgccccacaccagtagcacacatatagtgatggataatcata Alignment from Pairagon TGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT ggataggccacgtattgcaccttatgatttttctttttcttttattatag-------------------CACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCGGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGATgtgagtgatgccccacaccagtagcacacatatagtgatggataatcata Alignment from Exonerate_protein2genome CACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT ggataggccacgtattgcaccttatgatttttctttttcttttattatagCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCGGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGATgtgagtgatgccccacaccagtagcacacatatagtgatggataatcata Alignment from Exonerate_coding2genome CACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT ggataggccacgtattgcaccttatgatttttctttttcttttattatagCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCGGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGATgtgagtgatgccccacaccagtagcacacatatagtgatggataatcata Alignment from GeneWise CACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT ggataggccacgtattgcaccttatgatttttctttttcttttattatagCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGCGGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGATgtgagtgatgccccacaccagtagcacacatatagtgatggataatcata #### Ltbp3_ID1258_10 --> 0 - 1 Original Alignment CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAg tcacagtaccattatgaggcaattctctctacagtacattttaattgcag---------GAGGAGCGATCTGTGCAACAGAGCCATCCCACTACCATTACCTCACCTTCTCGGCCTTTCCTGggtaaactggtgggaggggatgggcaaatcataccggcaggggtaagccta Alignment from CESAR CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAg tatgacagctcacagtaccattatgtctctacagtacattttaattgcag---------GAGGAGCGATCTGTGCAACAGAGCCATCCCACTACCATTACCTCACCTTCTCGGCCTTTCCTGggtaaactggtgggaggggatgggcaaatcataccggcaggggtaagccta Alignment from Spaln_aa2Genome CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG tcacagtaccattatgaggcaattctctctacagtacattttaattgcag---------GAGGAGCGATCTGTGCAACAGAGCCATCCCACTACCATTACCTCACCTTCTCGGCCTTTCCTGGgtaaactggtgggaggggatgggcaaatcataccggcaggggtaagccta Alignment from Spaln_nt2Genome CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG tcacagtaccattatgaggcaattctctctacagtacattttaattgcag---------GAGGAGCGATCTGTGCAACAGAGCCATCCCACTACCATTACCTCACCTTCTCGGCCTTTCCTGGgtaaactggtgggaggggatgggcaaatcataccggcaggggtaagccta Alignment from Pairagon CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG tcacagtaccattatgaggcaattctctctacagtacattttaattgcag---------GAGGAGCGATCTGTGCAACAGAGCCATCCCACTACCATTACCTCACCTTCTCGGCCTTTCCTGGgtaaactggtgggaggggatgggcaaatcataccggcaggggtaagccta Alignment from Exonerate_protein2genome GAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG tcacagtaccattatgaggcaattctctctacagtacattttaattgcagGAGGAGCGATCTGTGCAACAGAGCCATCCCACTACCATTACCTCACCTTCTCGGCCTTTCCTGGgtaaactggtgggaggggatgggcaaatcataccggcaggggtaagccta Alignment from Exonerate_coding2genome tcacagtaccattatgaggcaattctctctacagtacattttaattgcaggaggagcgatctgtgcaacagagccatcccactaccattacctcaccttctcggcctttcctgggtaaactggtgggaggggatgggcaaatcataccggcaggggtaagccta Alignment from GeneWise CCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG tcacagtaccattatgaggcaattctctctacagtacattttaattgcaggaggagcgatctgtgcaacagagCCATCCCACTACCATTACCTCACCTTCTCGGCCTTTCCTGGgtaaactggtgggaggggatgggcaaatcataccggcaggggtaagccta #### Ltbp3_ID1268_20 --> 2 - 1 Original Alignment ag---GTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAg ttggaactattataacttctctatggaaaatttgtggtttcttcccacagagGTGGTGGAGCAGCCCCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTGGCTACTAATGTCACTCAACAGGAATGCTGTTGCTCTCTGGGAGCGGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGCTCAggtgcggcaacagaccaaatcatggtcctatgaaactggtctgagaattct Alignment from CESAR agGTG---GAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAg ttggaactattataacttctctatggaaaatttgtggtttcttcccacagagGTGGTGGAGCAGCCCCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTGGCTACTAATGTCACTCAACAGGAATGCTGTTGCTCTCTGGGAGCGGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGCTCAggtgcggcaacagaccaaatcatggtcctatgaaactggtctgagaattct Alignment from Spaln_aa2Genome AG---GTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG ttggaactattataacttctctatggaaaatttgtggtttcttcccacagAGGTGGTGGAGCAGCCCCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTGGCTACTAATGTCACTCAACAGGAATGCTGTTGCTCTCTGGGAGCGGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGCTCAGgtgcggcaacagaccaaatcatggtcctatgaaactggtctgagaattct Alignment from Spaln_nt2Genome AGGTGGAGCAG---CCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG ttggaactattataacttctctatggaaaatttgtggtttcttcccacagAGGTGGTGGAGCAGCCCCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTGGCTACTAATGTCACTCAACAGGAATGCTGTTGCTCTCTGGGAGCGGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGCTCAGgtgcggcaacagaccaaatcatggtcctatgaaactggtctgagaattct Alignment from Pairagon A---GGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG ttggaactattataacttctctatggaaaatttgtggtttcttcccacagAGGTGGTGGAGCAGCCCCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTGGCTACTAATGTCACTCAACAGGAATGCTGTTGCTCTCTGGGAGCGGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGCTCAGgtgcggcaacagaccaaatcatggtcctatgaaactggtctgagaattct Alignment from Exonerate_protein2genome AG---GTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG ttggaactattataacttctctatggaaaatttgtggtttcttcccacagAGGTGGTGGAGCAGCCCCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTGGCTACTAATGTCACTCAACAGGAATGCTGTTGCTCTCTGGGAGCGGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGCTCAGgtgcggcaacagaccaaatcatggtcctatgaaactggtctgagaattct Alignment from Exonerate_coding2genome AG---GTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG ttggaactattataacttctctatggaaaatttgtggtttcttcccacagAGGTGGTGGAGCAGCCCCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTGGCTACTAATGTCACTCAACAGGAATGCTGTTGCTCTCTGGGAGCGGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGCTCAGgtgcggcaacagaccaaatcatggtcctatgaaactggtctgagaattct Alignment from GeneWise --GAGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG ttggaactattataacttctctatggaaaatttgtggtttcttcccacagAGGTGGTGGAGCAGCCCCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCATACTGGCTACTAATGTCACTCAACAGGAATGCTGTTGCTCTCTGGGAGCGGGATGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGCTCAGgtgcggcaacagaccaaatcatggtcctatgaaactggtctgagaattct #### Ltbp3_ID1270_22 --> 2 - 1 Original Alignment acATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTG------g acatctgagtaataggccactgggatctcaccccgtttcctttcccccagatATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTTCTAGAGTGTGTAATCCCGggtaagctagactattgtgcaacccaaagaacagctgaatgcttgtctttt Alignment from CESAR acATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTG------g acatctgagtaataggccactgggatctcaccccgtttcctttcccccagatATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTTCTAGAGTGTGTAATCCCGggtaagctagactattgtgcaacccaaagaacagctgaatgaaaacttgtg Alignment from Spaln_aa2Genome ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGGACGTGG acatctgagtaataggccactgggatctcaccccgtttcctttcccccagATATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTTCTAGAGTGTGTAATCCCGGgtaagctagactattgtgcaacccaaagaacagctgaatgcttgtctttt Alignment from Spaln_nt2Genome ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGT------GG acatctgagtaataggccactgggatctcaccccgtttcctttcccccagATATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTTCTAGAGTGTGTAATCCCGGgtaagctagactattgtgcaacccaaagaacagctgaatgcttgtctttt Alignment from Pairagon ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGGACGTGG acatctgagtaataggccactgggatctcaccccgtttcctttcccccagATATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTTCTAGAGTGTGTAATCCCGGgtaagctagactattgtgcaacccaaagaacagctgaatgcttgtctttt Alignment from Exonerate_protein2genome ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGGACGTGG acatctgagtaataggccactgggatctcaccccgtttcctttcccccagATATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTTCTAGAGTGTGTAATCCCGGgtaagctagactattgtgcaacccaaagaacagctgaatgcttgtctttt Alignment from Exonerate_coding2genome ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGGACGTGG acatctgagtaataggccactgggatctcaccccgtttcctttcccccagATATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTTCTAGAGTGTGTAATCCCGGgtaagctagactattgtgcaacccaaagaacagctgaatgcttgtctttt Alignment from GeneWise ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGGACGTG- acatctgagtaataggccactgggatctcaccccgtttcctttcccccagATATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTTCTAGAGTGTGTAATCCCGGgtaagctagactattgtgcaacccaaagaacagctgaatgcttgtctttt #### Ltbp3_ID1274_26 --> 2 - 1 Original Alignment acGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGg accattgtatgcaaatcctactataggtctgactgagtctgtccccgcagatGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCAGGTGGGGCTGTATGCGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCTCGT------ggtaaatcgcccgatgacattagggggtgaaggacagtgtggactcattac Alignment from CESAR acGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGg accattgtatgcaaatcctactataggtctgactgagtctgtccccgcagatGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCAGGTGGGGCTGTATGCGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCTCGT------ggtaaatcgcccgatgacattagggggtgaaggacagtgtggactcattac Alignment from Spaln_aa2Genome ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGC- accattgtatgcaaatcctactataggtctgactgagtctgtccccgcagATGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCAGGTGGGGCTGTATGCGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCTCGTGgtaaatcgcccgatgacattagggggtgaaggacagtgtggactcattac Alignment from Spaln_nt2Genome ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG accattgtatgcaaatcctactataggtctgactgagtctgtccccgcagATGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCAGGTGGGGCTGTATGCGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCTCG------TGgtaaatcgcccgatgacattagggggtgaaggacagtgtggactcattac Alignment from Pairagon ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG accattgtatgcaaatcctactataggtctgactgagtctgtccccgcagATGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCAGGTGGGGCTGTATGCGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCTCGT------Ggtaaatcgcccgatgacattagggggtgaaggacagtgtggactcattac Alignment from Exonerate_protein2genome CTCCGCGAGACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCT accattgtatgcaaatcctactataggtctgactgagtctgTCCCCGCAGATGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCAGGTGGGGCTGTATGCGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCTCGTGgtaaatcgcccgatgacattagggggtgaaggacagtgtggactcattac Alignment from Exonerate_coding2genome CTCCGCGAGACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCT accattgtatgcaaatcctactataggtctgactgagtctgTCCCCGCAGATGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCAGGTGGGGCTGTATGCGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCTCGTGgtaaatcgcccgatgacattagggggtgaaggacagtgtggactcattac Alignment from GeneWise --------------TCTCCGCGAGACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCT accattgtatgcaaatcctactatagGTCTGACTGAGTCTGTCCCCGCAGATGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCAGGTGGGGCTGTATGCGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCTCGTGgtaaatcgcccgatgacattagggggtgaaggacagtgtggactcattac #### Macrod1_ID2053_8 --> 2 - 0 Original Alignment gcTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG ggtggggtccaatatgcattcacagctcttattccggcttttgcccaaaggc---CCTAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCGGGAATGGTTGGAGCAACACAAGGACAAGgtgaggccagatccatattacatgatgggagcctggttgctatgaactaa Alignment from CESAR gcTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG tggggtggggtccaatatgcattcactcttattccggcttttgcccaaaggc---CCTAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCGGGAATGGTTGGAGCAACACAAGGACAAGgtgaggccagatccatattacatgatgggagcctggttgctatgaactaa Alignment from Spaln_aa2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG ggtggggtccaatatgcattcacagctcttattccggcttttgcccaaagGC---CCTAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCGGGAATGGTTGGAGCAACACAAGGACAAGgtgaggccagatccatattacatgatgggagcctggttgctatgaactaa Alignment from Spaln_nt2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG ggtggggtccaatatgcattcacagctcttattccggcttttgcccaaagG---CCCTAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCGGGAATGGTTGGAGCAACACAAGGACAAGgtgaggccagatccatattacatgatgggagcctggttgctatgaactaa Alignment from Pairagon GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG ggtggggtccaatatgcattcacagctcttattccggcttttgcccaaagG---CCCTAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCGGGAATGGTTGGAGCAACACAAGGACAAGgtgaggccagatccatattacatgatgggagcctggttgctatgaactaa Alignment from Exonerate_protein2genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG ggtggggtccaatatgcattcacagctcttattccggcttttgcccaaagGC---CCTAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCGGGAATGGTTGGAGCAACACAAGGACAAGgtgaggccagatccatattacatgatgggagcctggttgctatgaactaa Alignment from Exonerate_coding2genome ggtggggtccaatatgcattcacagctcttattccggcttttgcccaaaggccctaatgaggaggctgcagaggtagtgctggtttcattgcgggaatggttggagcaacacaaggacaaggtgaggccagatccatattacatgatgggagcctggttgctatgaactaa Alignment from GeneWise ---GCTTTCCCGTGCATCTCCACAGGCGTGTTTGGCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG ggtggggtccaatatgcattcacagCTCTTATTCCGGCTTTTGCCCAAAGGC------------CCTAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCGGGAATGGTTGGAGCAACACAAGGACAAGgtgaggccagatccatattacatgatgggagcctggttgctatgaactaa #### Map3k11_ID1203_4 --> 2 - 0 Original Alignment acTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG ctggtgagaatgtctagaggtcctctttcattttttccatgtctttccagat---------CAGGATCCACACCGCAGGCCCCATTTTGCTTCCATATTGCAGCAGTTGGAAGCTCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGAGCTGCGGGCCAAGGAAAAGgtgagtttcctatgggacatagaaagtaatacgcaatggggtgggggtct Alignment from CESAR acTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG agcaggcccctggtgagaatgtctatttcattttttccatgtctttccagat---------CAGGATCCACACCGCAGGCCCCATTTTGCTTCCATATTGCAGCAGTTGGAAGCTCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGAGCTGCGGGCCAAGGAAAAGgtgagtttcctatgggacatagaaagtaatacgcaatggggtgggggtct Alignment from Spaln_aa2Genome CACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG ctggtgagaatgtctagaggtcctctttcattttttccatgtctttccagATCAGGATCCACACCGCAGGCCCCATTTTGCTTCCATATTGCAGCAGTTGGAAGCTCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGAGCTGCGGGCCAAGGAAAAGgtgagtttcctatgggacatagaaagtaatacgcaatggggtgggggtct Alignment from Spaln_nt2Genome CACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG ctggtgagaatgtctagaggtcctctttcattttttccatgtctttccagATCAGGATCCACACCGCAGGCCCCATTTTGCTTCCATATTGCAGCAGTTGGAAGCTCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGAGCTGCGGGCCAAGGAAAAGgtgagtttcctatgggacatagaaagtaatacgcaatggggtgggggtct Alignment from Pairagon ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG ctggtgagaatgtctagaggtcctctttcattttttccatgtctttccagAT---------CAGGATCCACACCGCAGGCCCCATTTTGCTTCCATATTGCAGCAGTTGGAAGCTCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGAGCTGCGGGCCAAGGAAAAGgtgagtttcctatgggacatagaaagtaatacgcaatggggtgggggtct Alignment from Exonerate_protein2genome ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG ctggtgagaatgtctagaggtcctctttcattttttccatgTCTTTCCAGATCAGGATCCACACCGCAGGCCCCATTTTGCTTCCATATTGCAGCAGTTGGAAGCTCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGAGCTGCGGGCCAAGGAAAAGgtgagtttcctatgggacatagaaagtaatacgcaatggggtgggggtct Alignment from Exonerate_coding2genome ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG ctggtgagaatgtctagaggtcctctttcattttttccatgTCTTTCCAGATCAGGATCCACACCGCAGGCCCCATTTTGCTTCCATATTGCAGCAGTTGGAAGCTCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGAGCTGCGGGCCAAGGAAAAGgtgagtttcctatgggacatagaaagtaatacgcaatggggtgggggtct Alignment from GeneWise ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG ctggtgagaatgtctagaggtcctctttcattttttccatgtctttccagAT---------CAGGATCCACACCGCAGGCCCCATTTTGCTTCCATATTGCAGCAGTTGGAAGCTCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGTTTGTTTGATGAGCTGCGGGCCAAGGAAAAGgtgagtttcctatgggacatagaaagtaatacgcaatggggtgggggtct #### Map3k11_ID1204_5 --> 0 - 1 Original Alignment GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGA------CGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTG---g tctacgttagtgaactgatagccagcttaactacactgtttgctttacagGAACTCCTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAGCAGCTGCGGCTGCGACGGCGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTGCTACTCCAGCAGGTGGATCGAGAACAGCCACATGTACACCGACGCCGGGGCACCTCCAAGTTGAGTAAACTCCGAGCAAGAGACAGTGAAGAACGGGTCAGCATGCCCTTGGAAggtgagtgctggggcttcaattgtgtccgcaatttgctagtggtggtgctg Alignment from CESAR GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTG------CGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTG---g tctacgttagtgaactgatagccagcttaactacactgtttgctttacagGAACTCCTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAGCAGCTGCGGCTGCGACGGCGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTGCTACTCCAGCAGGTGGATCGAGAACAGCCACATGTACACCGACGCCGGGGCACCTCCAAGTTGAGTAAACTCCGAGCAAGAGACAGTGAAGAACGGGTCAGCATGCCCTTGGAAggtgagtgctggggcttcaattgtgtccgcaatttgctagtggtggtgctg Alignment from Spaln_aa2Genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAG------CTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTG---G tctacgttagtgaactgatagccagcttaactacactgtttgctttacagGAACTCCTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAGCAGCTGCGGCTGCGACGGCGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTGCTACTCCAGCAGGTGGATCGAGAACAGCCACATGTACACCGACGCCGGGGCACCTCCAAGTTGAGTAAACTCCGAGCAAGAGACAGTGAAGAACGGGTCAGCATGCCCTTGGAAGgtgagtgctggggcttcaattgtgtccgcaatttgctagtggtggtgctg Alignment from Spaln_nt2Genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCA------GCTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGA------GCGCGAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGGAT- tctacgttagtgaactgatagccagcttaactacactgtttgctttacagGAACTCCTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAGCAGCTGCGGCTGCGACGGCGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTGCTACTCCAGCAGGTGGATCGAGAACAGCCACATGTACACCGACGCCGGGGCACCTCCAAGTTGAGTAAACTCCGAGCAAGAGACAGTGAAGAACGGGTCAGCATGCCCTTGGAAGgtgagtgctggggcttcaattgtgtccgcaatttgctagtggtggtgctg Alignment from Pairagon GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCA------GCTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGA------GCGCGAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG--- tctacgttagtgaactgatagccagcttaactacactgtttgctttacagGAACTCCTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAGCAGCTGCGGCTGCGACGGCGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTGCTACTCCAGCAGGTGGATCGAGAACAGCCACATGTACACCGACGCCGGGGCACCTCCAAGTTGAGTAAACTCCGAGCAAGAGACAGTGAAGAACGGGTCAGCATGCCCTTGGAAGgtgagtgctggggcttcaattgtgtccgcaatttgctagtggtggtgctg Alignment from Exonerate_protein2genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAG------CTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTG---G tctacgttagtgaactgatagccagcttaactacactgtttgctttacagGAACTCCTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAGCAGCTGCGGCTGCGACGGCGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTGCTACTCCAGCAGGTGGATCGAGAACAGCCACATGTACACCGACGCCGGGGCACCTCCAAGTTGAGTAAACTCCGAGCAAGAGACAGTGAAGAACGGGTCAGCATGCCCTTGGAAGgtgagtgctggggcttcaattgtgtccgcaatttgctagtggtggtgctg Alignment from Exonerate_coding2genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAG------CTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTG---G tctacgttagtgaactgatagccagcttaactacactgtttgctttacagGAACTCCTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAGCAGCTGCGGCTGCGACGGCGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTGCTACTCCAGCAGGTGGATCGAGAACAGCCACATGTACACCGACGCCGGGGCACCTCCAAGTTGAGTAAACTCCGAGCAAGAGACAGTGAAGAACGGGTCAGCATGCCCTTGGAAGgtgagtgctggggcttcaattgtgtccgcaatttgctagtggtggtgctg Alignment from GeneWise GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGA------CGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGGAT- tctacgttagtgaactgatagccagcttaactacactgtttgctttacagGAACTCCTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGTGTGCAGTGGTCTCAGGCAGAGCAGCTGCGGCTGCGACGGCGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTGCTACTCCAGCAGGTGGATCGAGAACAGCCACATGTACACCGACGCCGGGGCACCTCCAAGTTGAGTAAACTCCGAGCAAGAGACAGTGAAGAACGGGTCAGCATGCCCTTGGAAGgtgagtgctggggcttcaattgtgtccgcaatttgctagtggtggtgctg #### Map4k2_ID1624_4 --> 1 - 1 Original Alignment gAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCAC------g gccatactcttaggtgttcattgtgctatgaccatctccgtgcctgacaggAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGGGGAGCGTCACTACAGGAAGTTTACCATACAGCCggtaccaaccaaactccatggacctgtcattctgtgattacaataacaagt Alignment from CESAR gAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCAC------g gccatactcttaggtgttcattgtgctatgaccatctccgtgcctgacaggAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGGGGAGCGTCACTACAGGAAGTTTACCATACAGCCggtaccaaccaaactccatggacctgtcattctgtgattacaataacaagt Alignment from Spaln_aa2Genome GAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACGCCACTG gccatactcttaggtgttcattgtgctatgaccatctccgtgcctgacagGAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGGGGAGCGTCACTACAGGAAGTTTACCATACAGCCGgtaccaaccaaactccatggacctgtcattctgtgattacaataacaagt Alignment from Spaln_nt2Genome GAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCA------CG gccatactcttaggtgttcattgtgctatgaccatctccgtgcctgacagGAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGGGGAGCGTCACTACAGGAAGTTTACCATACAGCCGgtaccaaccaaactccatggacctgtcattctgtgattacaataacaagt Alignment from Pairagon GAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCA------CG gccatactcttaggtgttcattgtgctatgaccatctccgtgcctgacagGAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGGGGAGCGTCACTACAGGAAGTTTACCATACAGCCGgtaccaaccaaactccatggacctgtcattctgtgattacaataacaagt Alignment from Exonerate_protein2genome gccatactcttaggtgttcattgtgctatgaccatctccgtgcctgacaggaatgaccgattgtggatctgtatggagttctgtgggggagcgtcactacaggaagtttaccatacagccggtaccaaccaaactccatggacctgtcattctgtgattacaataacaagt Alignment from Exonerate_coding2genome gccatactcttaggtgttcattgtgctatgaccatctccgtgcctgacaggaatgaccgattgtggatctgtatggagttctgtgggggagcgtcactacaggaagtttaccatacagccggtaccaaccaaactccatggacctgtcattctgtgattacaataacaagt Alignment from GeneWise GAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACGCCACT- gccatactcttaggtgttcattgtgctatgaccatctccgtgcctgacagGAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGGGGAGCGTCACTACAGGAAGTTTACCATACAGCCGgtaccaaccaaactccatggacctgtcattctgtgattacaataacaagt #### Map4k2_ID1625_5 --> 2 - 0 Original Alignment ccACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG------ cttaaagatatcaagtccttctatccaagtccttcctgtttctcttaaagctACTGGACCACTTGAAGAACGGCAAATTGCCTATGTTTGTTGGGCAGCCCTTAGGACAACCgtaggagatttgccaacagtatcaatttgggcagttagattgcctgtgag Alignment from CESAR ccACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG------ cttaaagatatcaagtccttctatccaagtccttcctgtttctcttaaagctACTGGACCACTTGAAGAACGGCAAATTGCCTATGTTTGTTGGGCAGCCCTTAGGACAACCgtaggagatttgccaacagtatcaatttgggcagttagattgcctgtgag Alignment from Spaln_aa2Genome CCACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG------ cttaaagatatcaagtccttctatccaagtccttcctgtttctcttaaagCTACTGGACCACTTGAAGAACGGCAAATTGCCTATGTTTGTTGGGCAGCCCTTAGGACAACCgtaggagatttgccaacagtatcaatttgggcagttagattgcctgtgag Alignment from Spaln_nt2Genome CCACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG------ cttaaagatatcaagtccttctatccaagtccttcctgtttctcttaaagCTACTGGACCACTTGAAGAACGGCAAATTGCCTATGTTTGTTGGGCAGCCCTTAGGACAACCgtaggagatttgccaacagtatcaatttgggcagttagattgcctgtgag Alignment from Pairagon CCACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTT cttaaagatatcaagtccttctatccaagtccttcctgtttctcttaaagCTACTGGACCACTTGAAGAACGGCAAATTGCCTATGTTTgttgggcagcccttaggacaaccgtaggagatttgccaacagtatcaatttgggcagttagattgcctgtgag Alignment from Exonerate_protein2genome cttaaagatatcaagtccttctatccaagtccttcctgtttctcttaaagctactggaccacttgaagaacggcaaattgcctatgtttgttgggcagcccttaggacaaccgtaggagatttgccaacagtatcaatttgggcagttagattgcctgtgag Alignment from Exonerate_coding2genome cttaaagatatcaagtccttctatccaagtccttcctgtttctcttaaagctactggaccacttgaagaacggcaaattgcctatgtttgttgggcagcccttaggacaaccgtaggagatttgccaacagtatcaatttgggcagttagattgcctgtgag Alignment from GeneWise CCACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG------ cttaaagatatcaagtccttctatccaagtccttcctgtttctcttaaagCTACTGGACCACTTGAAGAACGGCAAATTGCCTATGTTTGTTGGGCAGCCCTTAGGACAACCgtaggagatttgccaacagtatcaatttgggcagttagattgcctgtgag #### Map4k2_ID1628_7 --> 0 - 1 Original Alignment GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTG---g aaagcctagaagtgtacccagcatataactttgccttgccttcaatccagGGCGCGAACCTTCTGCTCACTCTGCAGGGAGATGTGCAGTTGCCCtgtaagcagctgggggacttcagagaccacacgacggcatgctggggctcc Alignment from CESAR GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTG---g aaagcctagaagtgtacccagcatataactttgccttgccttcaatccagGGCGCGAACCTTCTGCTCACTCTGCAGGGAGATGTGCAGTTGCCCtgtaagcagctgggggacttcagagaccacacgacggcatgctggggctcc Alignment from Spaln_aa2Genome GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTG---G aaagcctagaagtgtacccagcatataactttgccttgccttcaatccagGGCGCGAACCTTCTGCTCACTCTGCAGGGAGATGTGCAGTTGCCCTgtaagcagctgggggacttcagagaccacacgacggcatgctggggctcc Alignment from Spaln_nt2Genome GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTGGCG- aaagcctagaagtgtacccagcatataactttgccttgccttcaatccagGGCGCGAACCTTCTGCTCACTCTGCAGGGAGATGTGCAGTTGCCCTgtaagcagctgggggacttcagagaccacacgacggcatgctggggctcc Alignment from Pairagon GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTGG--- aaagcctagaagtgtacccagcatataactttgccttgccttcaatccagGGCGCGAACCTTCTGCTCACTCTGCAGGGAGATGTGCAGTTGCCCTgtaagcagctgggggacttcagagaccacacgacggcatgctggggctcc Alignment from Exonerate_protein2genome aaagcctagaagtgtacccagcatataactttgccttgccttcaatccagggcgcgaaccttctgctcactctgcagggagatgtgcagttgccctgtaagcagctgggggacttcagagaccacacgacggcatgctggggctcc Alignment from Exonerate_coding2genome GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTG---G aaagcctagaagtgtacccagcatataactttgccttgccttcaatccagGGCGCGAACCTTCTGCTCACTCTGCAGGGAGATGTGCAGTTGCCCTgtaagcagctgggggacttcagagaccacacgacggcatgctggggctcc Alignment from GeneWise GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTGGCG- aaagcctagaagtgtacccagcatataactttgccttgccttcaatccagGGCGCGAACCTTCTGCTCACTCTGCAGGGAGATGTGCAGTTGCCCTgtaagcagctgggggacttcagagaccacacgacggcatgctggggctcc #### Map4k2_ID1631_10 --> 1 - 2 Original Alignment gGCCTTGATGCTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTtg ccccctgatgacccttgacctctggtgtgagccttcttattgggtttcagg---------CTCATGTCAAAGAGTAGTTTCCAGCCACCTAAGCTAAGAGATAAGACACGTtggtacttctccaccacaacagggaaatttccagcatactgtatgagataga Alignment from CESAR gGCCTTGATGCTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTtg tgtgcttgtccccctgatgaccctttgtgagccttcttattgggtttcagg---------CTCATGTCAAAGAGTAGTTTCCAGCCACCTAAGCTAAGAGATAAGACACGTtggtacttctccaccacaacagggaaatttccagcatactgtatgagataga Alignment from Spaln_aa2Genome GGCCTTGATGCTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTTG ccccctgatgacccttgacctctggtgtgagccttcttattgggtttcagG---------CTCATGTCAAAGAGTAGTTTCCAGCCACCTAAGCTAAGAGATAAGACACGTTGgtacttctccaccacaacagggaaatttccagcatactgtatgagataga Alignment from Spaln_nt2Genome GGCCTTGATGCTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTTG ccccctgatgacccttgacctctggtgtgagccttcttattgggtttcag---------GCTCATGTCAAAGAGTAGTTTCCAGCCACCTAAGCTAAGAGATAAGACACGTTGgtacttctccaccacaacagggaaatttccagcatactgtatgagataga Alignment from Pairagon GGCCTTGATGCTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTTG ccccctgatgacccttgacctctggtgtgagccttcttattgggtttcag---------GCTCATGTCAAAGAGTAGTTTCCAGCCACCTAAGCTAAGAGATAAGACACGTTGgtacttctccaccacaacagggaaatttccagcatactgtatgagataga Alignment from Exonerate_protein2genome ccccctgatgacccttgacctctggtgtgagccttcttattgggtttcaggctcatgtcaaagagtagtttccagccacctaagctaagagataagacacgttggtacttctccaccacaacagggaaatttccagcatactgtatgagataga Alignment from Exonerate_coding2genome ccccctgatgacccttgacctctggtgtgagccttcttattgggtttcaggctcatgtcaaagagtagtttccagccacctaagctaagagataagacacgttggtacttctccaccacaacagggaaatttccagcatactgtatgagataga Alignment from GeneWise GGCCTTGATGCTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTTG ccccctgatgacccttgacctctggtgtgagccttcttattgggtttcagG---------CTCATGTCAAAGAGTAGTTTCCAGCCACCTAAGCTAAGAGATAAGACACGTTGgtacttctccaccacaacagggaaatttccagcatactgtatgagataga #### Map4k2_ID1633_12 --> 0 - 0 Original Alignment CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG ttgaaaaagtgatctggagggcaaccagtctctgtccttgactctttcag------TTCACAACCCAGCATCTCCCTCCAGCACTTCTTACCCAACTCCTTGATAAGGCTAGTGATCCCCATCTAGGTACCCTCTCCCCAGAAGACAGTAAGCTAAAGgtaagagcagttagggaactgggtttggcttggtggataggtggtgtcca Alignment from CESAR CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG gagattttgaaaaagtgatctggagcagtctctgtccttgactctttcag------TTCACAACCCAGCATCTCCCTCCAGCACTTCTTACCCAACTCCTTGATAAGGCTAGTGATCCCCATCTAGGTACCCTCTCCCCAGAAGACAGTAAGCTAAAGgtaagagcagttagggaactgggtttggcttggtggataggtggtgtcca Alignment from Spaln_aa2Genome CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG ttgaaaaagtgatctggagggcaaccagtctctgtccttgactctttcag------TTCACAACCCAGCATCTCCCTCCAGCACTTCTTACCCAACTCCTTGATAAGGCTAGTGATCCCCATCTAGGTACCCTCTCCCCAGAAGACAGTAAGCTAAAGgtaagagcagttagggaactgggtttggcttggtggataggtggtgtcca Alignment from Spaln_nt2Genome TTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG ttgaaaaagtgatctggagggcaaccagtctctgtccttgactctttcagTTCACAACCCAGCATCTCCCTCCAGCACTTCTTACCCAACTCCTTGATAAGGCTAGTGATCCCCATCTAGGTACCCTCTCCCCAGAAGACAGTAAGCTAAAGgtaagagcagttagggaactgggtttggcttggtggataggtggtgtcca Alignment from Pairagon TTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG ttgaaaaagtgatctggagggcaaccagtctctgtccttgactctttcagTTCACAACCCAGCATCTCCCTCCAGCACTTCTTACCCAACTCCTTGATAAGGCTAGTGATCCCCATCTAGGTACCCTCTCCCCAGAAGACAGTAAGCTAAAGgtaagagcagttagggaactgggtttggcttggtggataggtggtgtcca Alignment from Exonerate_protein2genome ttgaaaaagtgatctggagggcaaccagtctctgtccttgactctttcagttcacaacccagcatctccctccagcacttcttacccaactccttgataaggctagtgatccccatctaggtaccctctccccagaagacagtaagctaaaggtaagagcagttagggaactgggtttggcttggtggataggtggtgtcca Alignment from Exonerate_coding2genome ttgaaaaagtgatctggagggcaaccagtctctgtccttgactctttcagttcacaacccagcatctccctccagcacttcttacccaactccttgataaggctagtgatccccatctaggtaccctctccccagaagacagtaagctaaaggtaagagcagttagggaactgggtttggcttggtggataggtggtgtcca Alignment from GeneWise TTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG ttgaaaaagtgatctggagggcaaccagtctctgtccttgactctttcagTTCACAACCCAGCATCTCCCTCCAGCACTTCTTACCCAACTCCTTGATAAGGCTAGTGATCCCCATCTAGGTACCCTCTCCCCAGAAGACAGTAAGCTAAAGgtaagagcagttagggaactgggtttggcttggtggataggtggtgtcca #### Map4k2_ID1636_15 --> 0 - 2 Original Alignment ---------------TGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTgg cttcccattttgtgtctacttctcttcactagtctccgtttcttccctagGGTTATCAAGATGTTTGGGAAGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTgggcaagtgagagtggttgggaaagtaggggtgcaagcagaccctgttgatg Alignment from CESAR ---------------TGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTgg cttcccattttgtgtctacttctcttcactagtctccgtttcttccctagGGTTATCAAGATGTTTGGGAAGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTgggcaagtgagagtggttgggaaagtaggggtgcaagcagaccctgttgatg Alignment from Spaln_aa2Genome ACAGATCCTCTCAATGAACCGTGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGG cttcccattttgtgtctacttctcttcactagtctccgtttcttccctagGGT------TATCAAGATGTTTGGGAAGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGGgcaagtgagagtggttgggaaagtaggggtgcaagcagaccctgttgatg Alignment from Spaln_nt2Genome TCCTCTCAATGAACCGTGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGG cttcccattttgtgtctacttctcttcactagtctccgtttcttccctagGGTTATCAA-GATGTTTGGGAAGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGGgcaagtgagagtggttgggaaagtaggggtgcaagcagaccctgttgatg Alignment from Pairagon ---------------TGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGG cttcccattttgtgtctacttctcttcactagtctccgtttcttccctagGGTTATCAAGATGTTTGGGAAGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGGgcaagtgagagtggttgggaaagtaggggtgcaagcagaccctgttgatg Alignment from Exonerate_protein2genome AATGAACCGTGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGG cttcccattttgtgtctacttctcttcactagtctccgtttcttccctagggttatCAAGATGTTTGGGAAGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGGgcaagtgagagtggttgggaaagtaggggtgcaagcagaccctgttgatg Alignment from Exonerate_coding2genome AATGAACCGTGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGGGAGC cttcccattttgtgtctacttctcttcactagtctccgtttcttccctagggttatCAAGATGTTTGGGAAGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGGGCAAgtgagagtggttgggaaagtaggggtgcaagcagaccctgttgatg Alignment from GeneWise cttcccattttgtgtctacttctcttcactagtctccgtttcttccctagggttatcaagatgtttgggaagaggagtggacgctcctgggaaaagaggaactgagtgggcaagtgagagtggttgggaaagtaggggtgcaagcagaccctgttgatg #### Map4k2_ID1637_16 --> 1 - 2 Original Alignment gAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAag gcaagcagaccctgttgatgcttgggacactccctccttctcatttgcaggAGCCTGTTGCAGTCGGTGCAGGAAGCT---------aagtaagtcttttaagtttatatcccttgatgagaggctgggaagtgccaca Alignment from CESAR gAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAag gcaagcagaccctgttgatgcttgggacactccctccttctcatttgcaggAGCCTGTTGCAGTCGGTGCAGGAAGCT---------aagtaagtcttttaagtttatatcccttgatgagaggctgggaagtgccaca Alignment from Spaln_aa2Genome GAGCCTGCTGCAGTCAGTCCAGGAGGCCCT gcaagcagaccctgttgatgcttgggacactccctccttctcatttgcagGAGCCTGTTGCAGTCGGTGCAGGAAGCTAAgtaagtcttttaagtttatatcccttgatgagaggctgggaagtgccaca Alignment from Spaln_nt2Genome GAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAAG gcaagcagaccctgttgatgcttgggacactccctccttctcatttgcagGAGCCTGTTGCAGTCGGTGCAGGAAGC---------TAAgtaagtcttttaagtttatatcccttgatgagaggctgggaagtgccaca Alignment from Pairagon GAGCCTGCTGCAGTCAGTCCAGGAGGC----------------------------------------------------- gcaagcagaccctgttgatgcttgggacactccctccttctcatttgcagGAGCCTGTTGCAGTCGGTGCAGGAAGCTAAGTAAGTCTTTTAAGTTTATATCCCTTGATGAGAGGCTGGGAAGTGCCACA Alignment from Exonerate_protein2genome CAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCGTGGGAGGAGGAGTGGACGCTCCTGGG gcaagcagaccctgttgatgcttgggacactccctccttctcatttgcagGAGCCTGTTGCAGTCGGTGCAGGAAGCTAAGTAAGTCTTTTAAGTTTATATCCCTTGATGAGAGGCTGGGAAGTGCCACA Alignment from Exonerate_coding2genome CAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCGTGGGAGGAGGAGTGGACGCTCCTGGG gcaagcagaccctgttgatgcttgggacactccctccttctcatttgcagGAGCCTGTTGCAGTCGGTGCAGGAAGCTAAGTAAGTCTTTTAAGTTTATATCCCTTGATGAGAGGCTGGGAAGTGCCACA Alignment from GeneWise gcaagcagaccctgttgatgcttgggacactccctccttctcatttgcaggagcctgttgcagtcggtgcaggaagctaagtaagtcttttaagtttatatcccttgatgagaggctgggaagtgccaca #### Map4k2_ID1638_17 --> 1 - 0 Original Alignment g------AGCCTGACTATCCGGCCAGCCTTAGAACTCCAG actatccctcttgcaaataataataccacctatttctgtcttcaattcaggCTGGCTAGCCTGGCTATCCGGCCAGCCTTAGAACTGCAGgtaaaagttgatagtgtgatactagaaatggactcatagactagtgagct Alignment from CESAR g------AGCCTGACTATCCGGCCAGCCTTAGAACTCCAG actatccctcttgcaaataataataccacctatttctgtcttcaattcaggCTGGCTAGCCTGGCTATCCGGCCAGCCTTAGAACTGCAGgtaaaagttgatagtgtgatactagaaatggactcatagactagtgagct Alignment from Spaln_aa2Genome GAGCCTGACTATCCGG------CCAGCCTTAGAACTCCAG actatccctcttgcaaataataataccacctatttctgtcttcaattcagGCTGGCTAGCCTGGCTATCCGGCCAGCCTTAGAACTGCAGgtaaaagttgatagtgtgatactagaaatggactcatagactagtgagct Alignment from Spaln_nt2Genome G------AGCCTGACTATCCGGCCAGCCTTAGAACTCCAG actatccctcttgcaaataataataccacctatttctgtcttcaattcagGCTGGCTAGCCTGGCTATCCGGCCAGCCTTAGAACTGCAGgtaaaagttgatagtgtgatactagaaatggactcatagactagtgagct Alignment from Pairagon ---------------------------------------------------------AGCCTGACTATCCGGCCAGCCTTAGAACTCCAG ACTATCCCTCTTGCAAATAATAATACCACCTATTTCTGTCTTCAATTCAGGCTGGCTAGCCTGGCTATCCGGCCAGCCTTAGAACTGCAGgtaaaagttgatagtgtgatactagaaatggactcatagactagtgagct Alignment from Exonerate_protein2genome G------AGCCTGACTATCCGGCCAGCCTTAGAACTCCAG actatccctcttgcaaataataataccacctatttctgtcttcaattcagGCTGGCTAGCCTGGCTATCCGGCCAGCCTTAGAACTGCAGgtaaaagttgatagtgtgatactagaaatggactcatagactagtgagct Alignment from Exonerate_coding2genome actatccctcttgcaaataataataccacctatttctgtcttcaattcaggctggctagcctggctatccggccagccttagaactgcaggtaaaagttgatagtgtgatactagaaatggactcatagactagtgagct Alignment from GeneWise GT actatccctcttgcaaataataataccacctatttctgtcttcaattcaggctggctagcctggctatccggccagccttagaactgcaggtaaaagttgatagtgtgatactagaaatggactcatagactagtgagCT #### Map4k2_ID1647_26 --> 2 - 0 Original Alignment tt---------CGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gtgggggtgctgtgaagctggtcccacctgatggattttcacccctatagtgCTCTTTCAACACAATCCTTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtaagtgactggcggaccattaaggaggtggggacacaacggactgaaaa Alignment from CESAR tt---------CGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gtgggggtgctgtgaagctggtcccacctgatggattttcacccctatagtgCTCTTTCAACACAATCCTTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtaagtgactggcggaccattaaggaggtggggacacaacggactgaaaa Alignment from Spaln_aa2Genome TTCGAAACCCCTAT---------ACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gtgggggtgctgtgaagctggtcccacctgatggattttcacccctatagTGCTCTTTCAACACAATCCTTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtaagtgactggcggaccattaaggaggtggggacacaacggactgaaaa Alignment from Spaln_nt2Genome T------TCGAAAC---CCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gtgggggtgctgtgaagctggtcccacctgatggattttcacccctatagTGCTCTTTCAACACAATCCTTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtaagtgactggcggaccattaaggaggtggggacacaacggactgaaaa Alignment from Pairagon -------------------------------------------------------------CGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG GTGGGGGTGCTGTGAAGCTGGTCCCACCTGATGGATTTTCACCCCTATAGTGCTCTTTCAACACAATCCTTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtaagtgactggcggaccattaaggaggtggggacacaacggactgaaaa Alignment from Exonerate_protein2genome AACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gtgggggtgctgtgaagctggtcccacctgatggattttcacccctatagtgctctttcaacacAATCCTTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtaagtgactggcggaccattaaggaggtggggacacaacggactgaaaa Alignment from Exonerate_coding2genome AACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gtgggggtgctgtgaagctggtcccacctgatggattttcacccctatagtgctctttcaacacAATCCTTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtaagtgactggcggaccattaaggaggtggggacacaacggactgaaaa Alignment from GeneWise --CGTGTGGTTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gtgggggtgctgtgaagctggtcccacctgatggattttcacccctatagTGCTCTTTCAACACAATCCTTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTGCTTTTAGAATGGTATGAGCCCCTGCAGAAATTTCTGCTGCTTAAGgtaagtgactggcggaccattaaggaggtggggacacaacggactgaaaa #### Map4k2_ID1652_31 --> 0 - 2 Original Alignment GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACag ctgagaaggatgtagccagatatcctagaaatgagtttttgtcttcacag------------------GATGATGCTAGGATCTTCCGAGTACTTGGAGCCCATaggtaagtgcaaaacagacctccttgatttgtaaagttgtagggaacctgtc Alignment from CESAR GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACag gcttcctgagggcctacactgagaatagaaatgagtttttgtcttcacag------------------GATGATGCTAGGATCTTCCGAGTACTTGGAGCCCATaggtaagtgcaaaacagacctccttgatttgtaaagttgtagggtatatgat Alignment from Spaln_aa2Genome GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACAG agaaggatgtagccagatatcctagaaatgagTTTTTGTCT---TCACAGGATGATGCTAGGATCTTCCGAGTACTTGGAGCCCATAGgtaagtgcaaaacagacctccttgatttgtaaagttgtagggaacctgtc Alignment from Spaln_nt2Genome GATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACAG ctgagaaggatgtagccagatatcctagaaatgagtttttgtcttcacagGATGATGCTAGGATCTTCCGAGTACTTGGAGCCCATAGgtaagtgcaaaacagacctccttgatttgtaaagttgtagggaacctgtc Alignment from Pairagon GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACAG ctgagaaggatgtagccagatatcctagaaatgagtttttgtcttcacag------------------GATGATGCTAGGATCTTCCGAGTACTTGGAGCCCATAGgtaagtgcaaaacagacctccttgatttgtaaagttgtagggaacctgtc Alignment from Exonerate_protein2genome GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACAG ctgagaaggatgtagccagatatcctagaaatGAGTTTTTGTCTTCACAGGATGATGCTAGGATCTTCCGAGTACTTGGAGCCCATAGgtaagtgcaaaacagacctccttgatttgtaaagttgtagggaacctgtc Alignment from Exonerate_coding2genome GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACAG ctgagaaggatgtagccagatatcctagaaatGAGTTTTTGTCTTCACAGGATGATGCTAGGATCTTCCGAGTACTTGGAGCCCATAGgtaagtgcaaaacagacctccttgatttgtaaagttgtagggaacctgtc Alignment from GeneWise GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACAG agaaggatgtagccagatatcctagaaatgagTTTTTGTCTTCA---CAGGATGATGCTAGGATCTTCCGAGTACTTGGAGCCCATAGgtaagtgcaaaacagacctccttgatttgtaaagttgtagggaacctgtc #### Mark2_ID2107_14 --> 0 - 2 Original Alignment AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACag taactgggctacactagaggcaatattttgtttgtgtgtactctgtccag---GGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACaggtaagttaattgagtctggttcctctcctcagaagcttgcagagttttat Alignment from CESAR AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACag gcctaactgggctacactagaggcattttgtttgtgtgtactctgtccag---GGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACaggtaagttaattgagtctggttcctctcctcagaagcttgcagagttttat Alignment from Spaln_aa2Genome AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG taactgggctacactagaggcaatattttgtttgtgtgtactctgtccag---GGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACAGgtaagttaattgagtctggttcctctcctcagaagcttgcagagttttat Alignment from Spaln_nt2Genome AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG taactgggctacactagaggcaatattttgtttgtgtgtactctgtccag---GGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACAGgtaagttaattgagtctggttcctctcctcagaagcttgcagagttttat Alignment from Pairagon AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG taactgggctacactagaggcaatattttgtttgtgtgtactctgtccag---GGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACAGgtaagttaattgagtctggttcctctcctcagaagcttgcagagttttat Alignment from Exonerate_protein2genome AGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG taactgggctacactagaggcaatattttgtttgtgtgtactctgtccagGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACAGgtaagttaattgagtctggttcctctcctcagaagcttgcagagttttat Alignment from Exonerate_coding2genome AGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG taactgggctacactagaggcaatattttgtttgtgtgtactctgtccagGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACAGgtaagttaattgagtctggttcctctcctcagaagcttgcagagttttat Alignment from GeneWise AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG taactgggctacactagaggcaatattttgtttgtgtgtactctgtccagGGT---GTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACAGgtaagttaattgagtctggttcctctcctcagaagcttgcagagttttat #### Mark2_ID2108_13 --> 2 - 0 Original Alignment cc---------GTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG ccaaaaggacttgtacagagagattggggctgtttgctttttccttccagctAGCCGGCTGGTCCCTGGCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAAGAAACGGGGCGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAGACTACT---GCACCCTCCACAgtaagtcctgaagttactctccacggggctggccacccccttatttgccc Alignment from CESAR cc---------GTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG ccaaaaggacttgtacagagagattggggctgtttgctttttccttccagctAGCCGGCTGGTCCCTGGCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAAGAAACGGGGCGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAGACTACT---GCACCCTCCACAgtaagtcctgaagttactctccacggggctggccacccccttatttgccc Alignment from Spaln_aa2Genome GTGACCAGGCCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG ccaaaaggacttgtacagagagattggggctgtttgctttttccttccagCTAGCCGGCTGGTCCCTGGCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAAGAAACGGGGCGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAGACTACT---GCACCCTCCACAgtaagtcctgaagttactctccacggggctggccacccccttatttgccc Alignment from Spaln_nt2Genome GTGACCAGGCCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG ccaaaaggacttgtacagagagattggggctgtttgctttttccttccagCTAGCCGGCTGGTCCCTGGCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAAGAAACGGGGCGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAG---ACTACTGCACCCTCCACAgtaagtcctgaagttactctccacggggctggccacccccttatttgccc Alignment from Pairagon CC---------GTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG ccaaaaggacttgtacagagagattggggctgtttgctttttccttccagCTAGCCGGCTGGTCCCTGGCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAAGAAACGGGGCGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAGACTA---CTGCACCCTCCACAgtaagtcctgaagttactctccacggggctggccacccccttatttgccc Alignment from Exonerate_protein2genome GTGACCAGGCCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG ccaaaaggacttgtacagagagattggggctgtttgctttttccttccagCTAGCCGGCTGGTCCCTGGCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAAGAAACGGGGCGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAGACTACT---GCACCCTCCACAgtaagtcctgaagttactctccacggggctggccacccccttatttgccc Alignment from Exonerate_coding2genome GTGACCAGGCCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG ccaaaaggacttgtacagagagattggggctgtttgctttttccttccagCTAGCCGGCTGGTCCCTGGCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAAGAAACGGGGCGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAGACTACT---GCACCCTCCACAgtaagtcctgaagttactctccacggggctggccacccccttatttgccc Alignment from GeneWise --------GCCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG ccaaaaggacttgtacagagagattggggctgtttgctttttccttccagCTAGCCGGCTGGTCCCTGGCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAATGCAGAAAACAAGCGCCCTGAGGAAGAAACGGGGCGAAGAGCCAGCAGCACTGCCAAGGTGCCCACCAGCCCATTGCCAGGCCTGGATAGGAAGAAGACTACT---GCACCCTCCACAgtaagtcctgaagttactctccacggggctggccacccccttatttgccc #### Mark2_ID2112_9 --> 0 - 0 Original Alignment GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG ccttcttgcaatgacttatatgtcagtttgctggtggtgggtgtctgcagGAGCTACGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTCATACTTAATCCTAGTAAAAGAGGC---------gtgagtaacagaggacttctgagatactagtcagcaaaggaaaatgccaa Alignment from CESAR GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG ccttcttgcaatgacttatatgtcagtttgctggtggtgggtgtctgcagGAGCTACGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTCATACTTAATCCTAGTAAAAGAGGC---------gtgagtaacagaggacttctgagatactagtcagcaaagga Alignment from Spaln_aa2Genome GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGC ccttcttgcaatgacttatatgtcagtttgctggtggtgggtgtctgcagGAGCTACGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTCATACTTAATCCTAGTAAAAGAGGCgtgagtaacagaggacttctgagatactagtcagcaaaggaaaatgccaa Alignment from Spaln_nt2Genome GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGC ccttcttgcaatgacttatatgtcagtttgctggtggtgggtgtctgcagGAGCTACGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTCATACTTAATCCTAGTAAAAGAGGCgtgagtaacagaggacttctgagatactagtcagcaaaggaaaatgccaa Alignment from Pairagon GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGC ccttcttgcaatgacttatatgtcagtttgctggtggtgggtgtctgcagGAGCTACGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTCATACTTAATCCTAGTAAAAGAGGCgtgagtaacagaggacttctgagatactagtcagcaaaggaaaatgccaa Alignment from Exonerate_protein2genome GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGC ccttcttgcaatgacttatatgtcagtttgctggtggtgggtgtctgcagGAGCTACGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTCATACTTAATCCTAGTAAAAGAGGCgtgagtaacagaggacttctgagatactagtcagcaaaggaaaatgccaa Alignment from Exonerate_coding2genome GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGC ccttcttgcaatgacttatatgtcagtttgctggtggtgggtgtctgcagGAGCTACGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTCATACTTAATCCTAGTAAAAGAGGCgtgagtaacagaggacttctgagatactagtcagcaaaggaaaatgccaa Alignment from GeneWise GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGC ccttcttgcaatgacttatatgtcagtttgctggtggtgggtgtctgcagGAGCTACGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTCATACTTAATCCTAGTAAAAGAGGCgtgagtaacagaggacttctgagatactagtcagcaaaggaaaatgccaa #### Mark2_ID2114_7 --> 0 - 0 Original Alignment ---------ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG ctgttatgcccccgtgtatcactctcaccttcctttcttgctactctcagCAAGGGTCAATAGTGTCTGCTGTGCAATACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGgtaaattatgttcctgtccccatgacctgctgtgagtgggccaggtggcc Alignment from CESAR ---------ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG ctgttatgcccccgtgtatcactctcaccttcctttcttgctactctcagCAAGGGTCAATAGTGTCTGCTGTGCAATACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGgtaaattatgttcctgtccccatgacctgctgtgagtgggccaggtggcc Alignment from Spaln_aa2Genome TGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG ctgttatgcccccgtgtatcactctcaccttcctttcttgctactctcagcaagggtcaatagTGTCTGCTGTGCAATACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGgtaaattatgttcctgtccccatgacctgctgtgagtgggccaggtggcc Alignment from Spaln_nt2Genome ---------ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG ctgttatgcccccgtgtatcactctcaccttcctttcttgctactctcagCAAGGGTCAATAGTGTCTGCTGTGCAATACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGgtaaattatgttcctgtccccatgacctgctgtgagtgggccaggtggcc Alignment from Pairagon ---------ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG ctgttatgcccccgtgtatcactctcaccttcctttcttgctactctcagCAAGGGTCAATAGTGTCTGCTGTGCAATACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGgtaaattatgttcctgtccccatgacctgctgtgagtgggccaggtggcc Alignment from Exonerate_protein2genome ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG ctgttatgcccccgtgtatcactctcaccttcctttcttgctactctcagcaagggtcaATAGTGTCTGCTGTGCAATACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGgtaaattatgttcctgtccccatgacctgctgtgagtgggccaggtggcc Alignment from Exonerate_coding2genome ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG ctgttatgcccccgtgtatcactctcaccttcctttcttgctactctcagcaagggtcaATAGTGTCTGCTGTGCAATACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGgtaaattatgttcctgtccccatgacctgctgtgagtgggccaggtggcc Alignment from GeneWise ---------ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG ctgttatgcccccgtgtatcactctcaccttcctttcttgctactctcagCAAGGGTCAATAGTGTCTGCTGTGCAATACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGgtaaattatgttcctgtccccatgacctgctgtgagtgggccaggtggcc #### Mark2_ID2115_6 --> 2 - 0 Original Alignment gaGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG tgattccgactttgaggtcagacgtggtgccttactgtctccacccacaggt------------------GTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATTCCACCAGgtaggagtgtccccaattttggctctagatcttggatgagaatatggcat Alignment from CESAR gaGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG tgacacaaccctcacccttgattccggtgccttactgtctccacccacaggt------------------GTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATTCCACCAGgtaggagtgtccccaattttggctctagatcttggatgagaatatggcat Alignment from Spaln_aa2Genome TAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG tgattccgactttgaggtcagacgtggtgccttactgtctccacccacagGTGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATTCCACCAGgtaggagtgtccccaattttggctctagatcttggatgagaatatggcat Alignment from Spaln_nt2Genome ATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG tgattccgactttgaggtcagacgtggtgccttactgtctccacccacagGT------GTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATTCCACCAGgtaggagtgtccccaattttggctctagatcttggatgagaatatggcat Alignment from Pairagon ----------------------------------------------AGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG TGATTCCGACTTTGAGGTCAGACGTGGTGCCTTACTGTCTCCACCCACAGGT-------------GTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATTCCACCAGgtaggagtgtccccaattttggctctagatcttggatgagaatatggcat Alignment from Exonerate_protein2genome tgattccgactttgaggtcagacgtggtgccttactgtctccacccacaggtgtggctcatggcaggatgaaagaaaaagaggctcgagccaaattccaccaggtaggagtgtccccaattttggctctagatcttggatgagaatatggcat Alignment from Exonerate_coding2genome GGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG tgattccgactttgaggtcagacgtggtgccttactgtctccacccacaggtgtGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATTCCACCAGgtaggagtgtccccaattttggctctagatcttggatgagaatatggcat Alignment from GeneWise TTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG tgattccgactttgaggtcagacgtggtgccttactgtctccacccacagGT---------GTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATTCCACCAGgtaggagtgtccccaattttggctctagatcttggatgagaatatggcat #### Men1_ID1618_9 --> 0 - 0 Original Alignment GGCACCCAGGGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTCGAGGGACAG taggtaaggcatgcaatcctcttgattgccacgactgtttttgctctgccttacag---ACACAGGGACAAGGTTCTGCTCTCCAAGACCCTGAGTGCTTTGCCCACTTGCTTAGATTTTATGATGGGATATGCAAATGGGAGGAGGGTAGTCTCACTCCAGTCTTGCATGTGGGCTGGGCAACTTTTCTTGTGCAGTCTCTAGGGCGCTTCAAGAGACAGgtatcagggcgctatagcatagggagaaacagaggtgagcaatg Alignment from CESAR GGCACCCAGGGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTCGAGGGACAG atataggtaaggcatgcaatcctcttgattgcgactgtttttgctctgccttacag---ACACAGGGACAAGGTTCTGCTCTCCAAGACCCTGAGTGCTTTGCCCACTTGCTTAGATTTTATGATGGGATATGCAAATGGGAGGAGGGTAGTCTCACTCCAGTCTTGCATGTGGGCTGGGCAACTTTTCTTGTGCAGTCTCTAGGGCGCTTCAAGAGACAGgtatcagggcgctatagcatagggagaaacagaggtgagcaatg Alignment from Spaln_aa2Genome ACCCAGGGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTCGAGGGACAG taggtaaggcatgcaatcctcttgattgccacgactgtttttgctctgccttacagACACAGGGACAAGGTTCTGCTCTCCAAGACCCTGAGTGCTTTGCCCACTTGCTTAGATTTTATGATGGGATATGCAAATGGGAGGAGGGTAGTCTCACTCCAGTCTTGCATGTGGGCTGGGCAACTTTTCTTGTGCAGTCTCTAGGGCGCTTCAAGAGACAGgtatcagggcgctatagcatagggagaaacagaggtgagcaatg Alignment from Spaln_nt2Genome CACCCAGGGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTCGAGGGACAG taggtaaggcatgcaatcctcttgattgccacgactgtttttgctctgccttacag-ACACAGGGACAAGGTTCTGCTCTCCAAGACCCTGAGTGCTTTGCCCACTTGCTTAGATTTTATGATGGGATATGCAAATGGGAGGAGGGTAGTCTCACTCCAGTCTTGCATGTGGGCTGGGCAACTTTTCTTGTGCAGTCTCTAGGGCGCTTCAAGAGACAGgtatcagggcgctatagcatagggagaaacagaggtgagcaatg Alignment from Pairagon GGCACCCAGGGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTCGAGGGACAG taggtaaggcatgcaatcctcttgattgccacgactgtttttgctctgccttacag---ACACAGGGACAAGGTTCTGCTCTCCAAGACCCTGAGTGCTTTGCCCACTTGCTTAGATTTTATGATGGGATATGCAAATGGGAGGAGGGTAGTCTCACTCCAGTCTTGCATGTGGGCTGGGCAACTTTTCTTGTGCAGTCTCTAGGGCGCTTCAAGAGACAGgtatcagggcgctatagcatagggagaaacagaggtgagcaatg Alignment from Exonerate_protein2genome ACCCAGGGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTCGAGGGACAG taggtaaggcatgcaatcctcttgattgccacgactgtttttgctctgccttacagACACAGGGACAAGGTTCTGCTCTCCAAGACCCTGAGTGCTTTGCCCACTTGCTTAGATTTTATGATGGGATATGCAAATGGGAGGAGGGTAGTCTCACTCCAGTCTTGCATGTGGGCTGGGCAACTTTTCTTGTGCAGTCTCTAGGGCGCTTCAAGAGACAGgtatcagggcgctatagcatagggagaaacagaggtgagcaatg Alignment from Exonerate_coding2genome ACCCAGGGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTCGAGGGACAG taggtaaggcatgcaatcctcttgattgccacgactgtttttgctctgccttacagACACAGGGACAAGGTTCTGCTCTCCAAGACCCTGAGTGCTTTGCCCACTTGCTTAGATTTTATGATGGGATATGCAAATGGGAGGAGGGTAGTCTCACTCCAGTCTTGCATGTGGGCTGGGCAACTTTTCTTGTGCAGTCTCTAGGGCGCTTCAAGAGACAGgtatcagggcgctatagcatagggagaaacagaggtgagcaatg Alignment from GeneWise ACCCAGGGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTCGAGGGACAG taggtaaggcatgcaatcctcttgattgccacgactgtttttgctctgccttacagACACAGGGACAAGGTTCTGCTCTCCAAGACCCTGAGTGCTTTGCCCACTTGCTTAGATTTTATGATGGGATATGCAAATGGGAGGAGGGTAGTCTCACTCCAGTCTTGCATGTGGGCTGGGCAACTTTTCTTGTGCAGTCTCTAGGGCGCTTCAAGAGACAGgtatcagggcgctatagcatagggagaaacagaggtgagcaatg #### Mrpl11_ID767_2 --> 0 - 0 Original Alignment CGAGGTGTCTCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG gtgctcacgtgatcctagcccaaagattcatgtttctgtttccataatag---------------------TTCTGTAAAGAGTTCAATGAGAAGACAAAGGACATCAAAGAGGGCATTCTTCTGGCTACAAAAATTTTCATAGAGgtaagggacccattaactaactcacttcggggccctggacccggaatgtt Alignment from CESAR CGAGGTGTCTCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG tccctgttgtttaaaataccagtgcattcatgtttctgtttccataatag---------------------TTCTGTAAAGAGTTCAATGAGAAGACAAAGGACATCAAAGAGGGCATTCTTCTGGCTACAAAAATTTTCATAGAGgtaagggacccattaactaactcacttcggggccctggacccggaatgtt Alignment from Spaln_aa2Genome TTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG gtgctcacgtgatcctagcccaaagattcatgtttctgtttccataatagTTCTGTAAAGAGTTCAATGAGAAGACAAAGGACATCAAAGAGGGCATTCTTCTGGCTACAAAAATTTTCATAGAGgtaagggacccattaactaactcacttcggggccctggacccggaatgtt Alignment from Spaln_nt2Genome TTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG gtgctcacgtgatcctagcccaaagattcatgtttctgtttccataatagTTCTGTAAAGAGTTCAATGAGAAGACAAAGGACATCAAAGAGGGCATTCTTCTGGCTACAAAAATTTTCATAGAGgtaagggacccattaactaactcacttcggggccctggacccggaatgtt Alignment from Pairagon CGAGGTGTCTCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG gtgctcacgtgatcctagcccaaagattcatgtttctgtttccataatag---------------------TTCTGTAAAGAGTTCAATGAGAAGACAAAGGACATCAAAGAGGGCATTCTTCTGGCTACAAAAATTTTCATAGAGgtaagggacccattaactaactcacttcggggccctggacccggaatgtt Alignment from Exonerate_protein2genome TTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG gtgctcacgtgatcctagcccaaagattcatgtttctgtttccataatagTTCTGTAAAGAGTTCAATGAGAAGACAAAGGACATCAAAGAGGGCATTCTTCTGGCTACAAAAATTTTCATAGAGgtaagggacccattaactaactcacttcggggccctggacccggaatgtt Alignment from Exonerate_coding2genome TTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG gtgctcacgtgatcctagcccaaagattcatgtttctgtttccataatagTTCTGTAAAGAGTTCAATGAGAAGACAAAGGACATCAAAGAGGGCATTCTTCTGGCTACAAAAATTTTCATAGAGgtaagggacccattaactaactcacttcggggccctggacccggaatgtt Alignment from GeneWise TTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG gtgctcacgtgatcctagcccaaagattcatgtttctgtttccataatagTTCTGTAAAGAGTTCAATGAGAAGACAAAGGACATCAAAGAGGGCATTCTTCTGGCTACAAAAATTTTCATAGAGgtaagggacccattaactaactcacttcggggccctggacccggaatgtt #### Mrpl43_ID9260_2 --> 1 - 1 Original Alignment g---------GAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACc agcacaaaactgagagctagcctaatacctgtgttccatttcttccacagaGTTATCTCAGAGTTGGTGGAACGTGAGGTTACTGACTTTTCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTCGGCCTTGCACCATGCCACGAATGGTGGCAGAATACtgtacgtgtagctgagtgagggcaggggtgtgcagtgcatgttctactaca Alignment from CESAR g---------GAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACc agcacaaaactgagagctagcctaatacctgtgttccatttcttccacagaGTTATCTCAGAGTTGGTGGAACGTGAGGTTACTGACTTTTCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTCGGCCTTGCACCATGCCACGAATGGTGGCAGAATACtgtacgtgtagctgagtgagggcaggggtgtgcagtgcatgttctactaca Alignment from Spaln_aa2Genome G----------GAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC agcacaaaactgagagctagcctaatacctgtgttccatttcttccacagAGTTATCTCAGAGTTGGTGGAACGTGAGGTTACTGACTTTTCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTCGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtacgtgtagctgagtgagggcaggggtgtgcagtgcatgttctactaca Alignment from Spaln_nt2Genome GGAGTTCGTGGA---------ACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC agcacaaaactgagagctagcctaatacctgtgttccatttcttccacagAGTTATCTCAGAGTTGGTGGAACGTGAGGTTACTGACTTTTCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTCGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtacgtgtagctgagtgagggcaggggtgtgcagtgcatgttctactaca Alignment from Pairagon ------------------------------------------------------------GAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC AGCACAAAACTGAGAGCTAGCCTAATACCTGTGTTCCATTTCTTCCACAGAGTTATCTCAGAGTTGGTGGAACGTGAGGTTACTGACTTTTCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTCGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtacgtgtagctgagtgagggcaggggtgtgcagtgcatgttctactaca Alignment from Exonerate_protein2genome G---------GAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC agcacaaaactgagagctagcctaatacctgtgttccatttcttccacagAGTTATCTCAGAGTTGGTGGAACGTGAGGTTACTGACTTTTCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTCGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtacgtgtagctgagtgagggcaggggtgtgcagtgcatgttctactaca Alignment from Exonerate_coding2genome G---------GAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC agcacaaaactgagagctagcctaatacctgtgttccatttcttccacagAGTTATCTCAGAGTTGGTGGAACGTGAGGTTACTGACTTTTCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTCGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtacgtgtagctgagtgagggcaggggtgtgcagtgcatgttctactaca Alignment from GeneWise -------AGGGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC agcacaaaactgagagctagcctaatacctgtgttccatttcttccacagAGTTATCTCAGAGTTGGTGGAACGTGAGGTTACTGACTTTTCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTCGGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtacgtgtagctgagtgagggcaggggtgtgcagtgcatgttctactaca #### Ms4a5_ID3161_4 --> 0 - 0 Original Alignment ---ATAAAAATGAGCCGGGCAATGAATTTACTTAGTGCTCTGGGAGCAGCAGCTGGAATCATTCTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTCATCTGTGGCTATTCTCCAGATGGTATGCAGTGTGGTGTTATTACCATTCTATTCATT gagcatatgataaggaagcaggcaacctctccttagcctttgtgccccagCATATAAAAATGAGCCGGGCAATGAATTTGCTTAGTGCTCTGGGAGCAGCAGCTGGTATCATTCTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTCATCTGTGGCTATTCCCCAGATGGTATGCAGTGTGGTGTGATTACCATCCTATTCATTgtaaagaacctattctgctgtttaggactaagcagagttgagaaaggggc Alignment from CESAR ---ATAAAAATGAGCCGGGCAATGAATTTACTTAGTGCTCTGGGAGCAGCAGCTGGAATCATTCTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTCATCTGTGGCTATTCTCCAGATGGTATGCAGTGTGGTGTTATTACCATTCTATTCATT gagcatatgataaggaagcaggcaacctctccttagcctttgtgccccagCATATAAAAATGAGCCGGGCAATGAATTTGCTTAGTGCTCTGGGAGCAGCAGCTGGTATCATTCTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTCATCTGTGGCTATTCCCCAGATGGTATGCAGTGTGGTGTGATTACCATCCTATTCATTgtaaagaacctattctgctgtttaggactaagcagagttgagaaaggggc Alignment from Spaln_aa2Genome ---ATAAAAATGAGCCGGGCAATGAATTTACTTAGTGCTCTGGGAGCAGCAGCTGGAATCATTCTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTCATCTGTGGCTATTCTCCAGATGGTATGCAGTGTGGTGTTATTACCATTCTATTCATT gagcatatgataaggaagcaggcaacctctccttagcctttgtgccccagCATATAAAAATGAGCCGGGCAATGAATTTGCTTAGTGCTCTGGGAGCAGCAGCTGGTATCATTCTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTCATCTGTGGCTATTCCCCAGATGGTATGCAGTGTGGTGTGATTACCATCCTATTCATTgtaaagaacctattctgctgtttaggactaagcagagttgagaaaggggc Alignment from Spaln_nt2Genome ATAAAAATG---AGCCGGGCAATGAATTTACTTAGTGCTCTGGGAGCAGCAGCTGGAATCATTCTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTCATCTGTGGCTATTCTCCAGATGGTATGCAGTGTGGTGTTATTACCATTCTATTCATT gagcatatgataaggaagcaggcaacctctccttagcctttgtgccccagCATATAAAAATGAGCCGGGCAATGAATTTGCTTAGTGCTCTGGGAGCAGCAGCTGGTATCATTCTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTCATCTGTGGCTATTCCCCAGATGGTATGCAGTGTGGTGTGATTACCATCCTATTCATTgtaaagaacctattctgctgtttaggactaagcagagttgagaaaggggc Alignment from Pairagon ---ATAAAAATGAGCCGGGCAATGAATTTACTTAGTGCTCTGGGAGCAGCAGCTGGAATCATTCTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTCATCTGTGGCTATTCTCCAGATGGTATGCAGTGTGGTGTTATTACCATTCTATTCATT gagcatatgataaggaagcaggcaacctctccttagcctttgtgccccagCATATAAAAATGAGCCGGGCAATGAATTTGCTTAGTGCTCTGGGAGCAGCAGCTGGTATCATTCTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTCATCTGTGGCTATTCCCCAGATGGTATGCAGTGTGGTGTGATTACCATCCTATTCATTgtaaagaacctattctgctgtttaggactaagcagagttgagaaaggggc Alignment from Exonerate_protein2genome ATAAAAATGAGCCGGGCAATGAATTTACTTAGTGCTCTGGGAGCAGCAGCTGGAATCATTCTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTCATCTGTGGCTATTCTCCAGATGGTATGCAGTGTGGTGTTATTACCATTCTATTCATT gagcatatgataaggaagcaggcaacctctccttagcctttgtgccccagcatATAAAAATGAGCCGGGCAATGAATTTGCTTAGTGCTCTGGGAGCAGCAGCTGGTATCATTCTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTCATCTGTGGCTATTCCCCAGATGGTATGCAGTGTGGTGTGATTACCATCCTATTCATTgtaaagaacctattctgctgtttaggactaagcagagttgagaaaggggc Alignment from Exonerate_coding2genome ATAAAAATGAGCCGGGCAATGAATTTACTTAGTGCTCTGGGAGCAGCAGCTGGAATCATTCTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTCATCTGTGGCTATTCTCCAGATGGTATGCAGTGTGGTGTTATTACCATTCTATTCATT gagcatatgataaggaagcaggcaacctctccttagcctttgtgccccagcatATAAAAATGAGCCGGGCAATGAATTTGCTTAGTGCTCTGGGAGCAGCAGCTGGTATCATTCTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTCATCTGTGGCTATTCCCCAGATGGTATGCAGTGTGGTGTGATTACCATCCTATTCATTgtaaagaacctattctgctgtttaggactaagcagagttgagaaaggggc Alignment from GeneWise ---ATAAAAATGAGCCGGGCAATGAATTTACTTAGTGCTCTGGGAGCAGCAGCTGGAATCATTCTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTCATCTGTGGCTATTCTCCAGATGGTATGCAGTGTGGTGTTATTACCATTCTATTCATT gagcatatgataaggaagcaggcaacctctccttagcctttgtgccccagCATATAAAAATGAGCCGGGCAATGAATTTGCTTAGTGCTCTGGGAGCAGCAGCTGGTATCATTCTCCTCATATTTGGCTTCCTTCTAGATGGGGAATTCATCTGTGGCTATTCCCCAGATGGTATGCAGTGTGGTGTGATTACCATCCTATTCATTgtaaagaacctattctgctgtttaggactaagcagagttgagaaaggggc #### Mta2_ID2532_5 --> 1 - 0 Original Alignment g------GGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG aatgactggtgttttcacatcccaagtttgattctttttattcattgcaggTTACTGGTAAAGTGCAGTGTGAGTCTCTTGAATGAGACAGACATCTTAAACCAGTATCTAGACAAGGAAgtatgtagccattgggataaaagggggggtggacactggaggtaggtgag Alignment from CESAR g------GGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG aatgactggtgttttcacatcccaagtttgattctttttattcattgcaggTTACTGGTAAAGTGCAGTGTGAGTCTCTTGAATGAGACAGACATCTTAAACCAGTATCTAGACAAGGAAgtatgtagccattgggataaaagggggggtggacactggaggtaggtgag Alignment from Spaln_aa2Genome G------GGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGA aatgactggtgttttcacatcccaagtttgattctttttattcattgcagGTTACTGGTAAAGTGCAGTGTGAGTCTCTTGAATGAGACAGACATCTTAAACCAGTATCTAGACAAGGAAgtatgtagccattgggataaaagggggggtggacactggaggtaggtgag Alignment from Spaln_nt2Genome G------GGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG aatgactggtgttttcacatcccaagtttgattctttttattcattgcagGTTACTGGTAAAGTGCAGTGTGAGTCTCTTGAATGAGACAGACATCTTAAACCAGTATCTAGACAAGGAAgtatgtagccattgggataaaagggggggtggacactggaggtaggtgag Alignment from Pairagon ------GGGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG aatgactggtgttttcacatcccaagtttgattctttttattcattgcagGTTACTGGTAAAGTGCAGTGTGAGTCTCTTGAATGAGACAGACATCTTAAACCAGTATCTAGACAAGGAAgtatgtagccattgggataaaagggggggtggacactggaggtaggtgag Alignment from Exonerate_protein2genome G------GGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG aatgactggtgttttcacatcccaagtttgattctttttattcattgcagGTTACTGGTAAAGTGCAGTGTGAGTCTCTTGAATGAGACAGACATCTTAAACCAGTATCTAGACAAGGAAgtatgtagccattgggataaaagggggggtggacactggaggtaggtgag Alignment from Exonerate_coding2genome G------GGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG aatgactggtgttttcacatcccaagtttgattctttttattcattgcagGTTACTGGTAAAGTGCAGTGTGAGTCTCTTGAATGAGACAGACATCTTAAACCAGTATCTAGACAAGGAAgtatgtagccattgggataaaagggggggtggacactggaggtaggtgag Alignment from GeneWise ----AGGGGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG aatgactggtgttttcacatcccaagtttgattctttttattcattgcagGTTACTGGTAAAGTGCAGTGTGAGTCTCTTGAATGAGACAGACATCTTAAACCAGTATCTAGACAAGGAAgtatgtagccattgggataaaagggggggtggacactggaggtaggtgag #### Mta2_ID2536_9 --> 0 - 0 Original Alignment TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT------------------------------ aaggctgaaaagaccgtcaaaccctcatacccatttctcctcccctgcagTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTAGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCAGTTCTTTGTCAAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAAGACTTTGAAAATTTGATAAACAAAATGCGAAACCGGgtgagtgatcaagaccaagaagggaaagaacaatgaggagactgaaaaga Alignment from CESAR TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT aaggctgaaaagaccgtcaaaccctcatacccatttctcctcccctgcagTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTAGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCAGTTCTTTGTCAAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAAGACTTTgaaaatttgataaacaaaatgcgaaaccgggtgagtgatcaagaccaagaagggaaagaacaatgaggagactgaaaaga Alignment from Spaln_aa2Genome TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT------------------------------ aaggctgaaaagaccgtcaaaccctcatacccatttctcctcccctgcagTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTAGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCAGTTCTTTGTCAAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAAGACTTTGAAAATTTGATAAACAAAATGCGAAACCGGgtgagtgatcaagaccaagaagggaaagaacaatgaggagactgaaaaga Alignment from Spaln_nt2Genome TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT---- aaggctgaaaagaccgtcaaaccctcatacccatttctcctcccctgcagTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTAGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCAGTTCTTTGTCAAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAAGACTTTGAAAatttgataaacaaaatgcgaaaccgggtgagtgatcaagaccaagaagggaaagaacaatgaggagactgaaaaga Alignment from Pairagon TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT------------------------------ aaggctgaaaagaccgtcaaaccctcatacccatttctcctcccctgcagTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTAGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCAGTTCTTTGTCAAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAAGACTTTGAAAATTTGATAAACAAAATGCGAAACCGGgtgagtgatcaagaccaagaagggaaagaacaatgaggagactgaaaaga Alignment from Exonerate_protein2genome TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT aaggctgaaaagaccgtcaaaccctcatacccatttctcctcccctgcagTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTAGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCAGTTCTTTGTCAAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAAGACTTTgaaaatttgataaacaaaatgcgaaaccgggtgagtgatcaagaccaagaagggaaagaacaatgaggagactgaaaaga Alignment from Exonerate_coding2genome AGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTGTTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT AAGGCTGAAAAGACCGTCAAACCCTCATACCCATTTCTCCTCCCCTGCAGTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTAGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCAGTTCTTTGTCAAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAAGACTTTgaaaatttgataaacaaaatgcgaaaccgggtgagtgatcaagaccaagaagggaaagaacaatgaggagactgaaaaga Alignment from GeneWise TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT------------------------------ aaggctgaaaagaccgtcaaaccctcatacccatttctcctcccctgcagTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTAGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCAGTTCTTTGTCAAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAAGACTTTGAAAATTTGATAAACAAAATGCGAAACCGGgtgagtgatcaagaccaagaagggaaagaacaatgaggagactgaaaaga #### Mta2_ID2538_11 --> 0 - 2 Original Alignment AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTta ctgagatgattccaaatttagcttggttcatctctgtctttcctgaacag------CTAAAAGCTGCTGAAGCAGACAGTATATTGAAACAGGTGTATATCCCCACTtagtaagtctgccagcattgcaaaaccagaacccctgatctgccatggtgac Alignment from CESAR AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTta atgtgcctgagatgattccaaatttgttcatctctgtctttcctgaacag------CTAAAAGCTGCTGAAGCAGACAGTATATTGAAACAGGTGTATATCCCCACTtagtaagtctgccagcattgcaaaaccagaacccctgatctgccatggtgac Alignment from Spaln_aa2Genome AGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTA ctgagatgattccaaatttagcttggttcatctctgtctttcctgaacagCTAAAAGCTGCT---GAAGCAGACAGTATATTGAAACAGGTGTATATCCCCACTTAgtaagtctgccagcattgcaaaaccagaacccctgatctgccatggtgac Alignment from Spaln_nt2Genome -TGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTA ctgagatgattccaaatttagcttggttcatctctgtctttcctgaacagCTAAAAGCTGCTGAAGCAGACAGTATATTGAAACAGGTGTATATCCCCACTTAgtaagtctgccagcattgcaaaaccagaacccctgatctgccatggtgac Alignment from Pairagon AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTA ctgagatgattccaaatttagcttggttcatctctgtctttcctgaacag------CTAAAAGCTGCTGAAGCAGACAGTATATTGAAACAGGTGTATATCCCCACTTAgtaagtctgccagcattgcaaaaccagaacccctgatctgccatggtgac Alignment from Exonerate_protein2genome AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTA ctgagatgattccaaatttagcttggttcatctctgtctttcctGAACAGCTAAAAGCTGCTGAAGCAGACAGTATATTGAAACAGGTGTATATCCCCACTTAgtaagtctgccagcattgcaaaaccagaacccctgatctgccatggtgac Alignment from Exonerate_coding2genome AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTA ctgagatgattccaaatttagcttggttcatctctgtctttcctGAACAGCTAAAAGCTGCTGAAGCAGACAGTATATTGAAACAGGTGTATATCCCCACTTAgtaagtctgccagcattgcaaaaccagaacccctgatctgccatggtgac Alignment from GeneWise ctgagatgattccaaatttagcttggttcatctctgtctttcctgaacagctaaaagctgctgaagcagacagtatattgaaacaggtgtatatccccacttagtaagtctgccagcattgcaaaaccagaacccctgatctgccatggtgac #### Mus81_ID1042_14 --> 0 - 2 Original Alignment ---------GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCag atgaatggaaaacattatctttcacaaaattgcttttcaaatcttcacagCCAATAGATGCTCAGTCTGTGCGGGAGGTATTTGCCCGACAGCTGATGCAGGTGCGTGGACTGAGTGGTGAGAAGGCAGCAGCTGTAGTGGATCGTTACAGCACCCCTGCCaggtatgctacctacagcacatatgaacctattctaccacagctagtgcaac Alignment from CESAR ---------GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCag atgaatggaaaacattatctttcacaaaattgcttttcaaatcttcacagCCAATAGATGCTCAGTCTGTGCGGGAGGTATTTGCCCGACAGCTGATGCAGGTGCGTGGACTGAGTGGTGAGAAGGCAGCAGCTGTAGTGGATCGTTACAGCACCCCTGCCaggtatgctacctacagcacatatgaacctattctaccacagctagtgcaac Alignment from Spaln_aa2Genome GCCCAGTCTGTG---------CGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCAG atgaatggaaaacattatctttcacaaaattgcttttcaaatcttcacagCCAATAGATGCTCAGTCTGTGCGGGAGGTATTTGCCCGACAGCTGATGCAGGTGCGTGGACTGAGTGGTGAGAAGGCAGCAGCTGTAGTGGATCGTTACAGCACCCCTGCCAGgtatgctacctacagcacatatgaacctattctaccacagctagtgcaac Alignment from Spaln_nt2Genome AGGCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCAG atgaatggaaaacattatctttcacaaaattgcttttcaaatcttcacagccaatagATGCTCAGTCTGTGCGGGAGGTATTTGCCCGACAGCTGATGCAGGTGCGTGGACTGAGTGGTGAGAAGGCAGCAGCTGTAGTGGATCGTTACAGCACCCCTGCCAGgtatgctacctacagcacatatgaacctattctaccacagctagtgcaac Alignment from Pairagon ---------GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCAG atgaatggaaaacattatctttcacaaaattgcttttcaaatcttcacagCCAATAGATGCTCAGTCTGTGCGGGAGGTATTTGCCCGACAGCTGATGCAGGTGCGTGGACTGAGTGGTGAGAAGGCAGCAGCTGTAGTGGATCGTTACAGCACCCCTGCCAGgtatgctacctacagcacatatgaacctattctaccacagctagtgcaac Alignment from Exonerate_protein2genome GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCAG atgaatggaaaacattatctttcacaaaattgcttttcaaatcttcacagccaatagatGCTCAGTCTGTGCGGGAGGTATTTGCCCGACAGCTGATGCAGGTGCGTGGACTGAGTGGTGAGAAGGCAGCAGCTGTAGTGGATCGTTACAGCACCCCTGCCAGgtatgctacctacagcacatatgaacctattctaccacagctagtgcaac Alignment from Exonerate_coding2genome GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCAG atgaatggaaaacattatctttcacaaaattgcttttcaaatcttcacagccaatagatGCTCAGTCTGTGCGGGAGGTATTTGCCCGACAGCTGATGCAGGTGCGTGGACTGAGTGGTGAGAAGGCAGCAGCTGTAGTGGATCGTTACAGCACCCCTGCCAGgtatgctacctacagcacatatgaacctattctaccacagctagtgcaac Alignment from GeneWise ---------GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCAG atgaatggaaaacattatctttcacaaaattgcttttcaaatcttcacagCCAATAGATGCTCAGTCTGTGCGGGAGGTATTTGCCCGACAGCTGATGCAGGTGCGTGGACTGAGTGGTGAGAAGGCAGCAGCTGTAGTGGATCGTTACAGCACCCCTGCCAGgtatgctacctacagcacatatgaacctattctaccacagctagtgcaac #### Mus81_ID1043_13 --> 0 - 0 Original Alignment GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAACAAG ggagtgcttatccttcagagcctgcccacgtgtctgttgtttccccacagGGTCATACCCTTCGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCTGAAGCAAAACCATCAAGAAACCCTTTATGCTCACTC---ACCTTCAGTGACTTTAATGCAGAAGCTGTCAAG------gtgagttctaacacctcactccactcctttactgaatgataccaatgaat Alignment from CESAR GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAACAAG ggagtgcttatccttcagagcctgcccacgtgtctgttgtttccccacagGGTCATACCCTTCGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCTGAAGCAAAACCATCAAGAAACCCTTTATGCTCA---CTCACCTTCAGTGACTTTAATGCAGAAGCTGTC------AAGgtgagttctaacacctcactccactcctttactgaatgataccaatgaat Alignment from Spaln_aa2Genome GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAG ggagtgcttatccttcagagcctgcccacgtgtctgttgtttccccacagGGTCATACCCTTCGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCTGAAGCAAAACCATCAAGAAACCCTTTATGCTCACTC---ACCTTCAGTGACTTTAATGCAGAAGCTGTCAAGgtgagttctaacacctcactccactcctttactgaatgataccaatgaat Alignment from Spaln_nt2Genome GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAG ggagtgcttatccttcagagcctgcccacgtgtctgttgtttccccacagGGTCATACCCTTCGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCTGAAGCAAAACCATCAAGAAACCCTTTATGCTCA---CTCACCTTCAGTGACTTTAATGCAGAAGCTGTCAAGgtgagttctaacacctcactccactcctttactgaatgataccaatgaat Alignment from Pairagon GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAG ggagtgcttatccttcagagcctgcccacgtgtctgttgtttccccacagGGTCATACCCTTCGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCTGAAGCAAAACCATCAAGAAACCCTTTATGCTCA---CTCACCTTCAGTGACTTTAATGCAGAAGCTGTCAAGgtgagttctaacacctcactccactcctttactgaatgataccaatgaat Alignment from Exonerate_protein2genome GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAACAAG ggagtgcttatccttcagagcctgcccacgtgtctgttgtttccccacagGGTCATACCCTTCGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCTGAAGCAAAACCATCAAGAAACCCTTTATGCTCA---CTCACCTTCAGTGACTTTAATGCAGAAGCTGTC------AAGgtgagttctaacacctcactccactcctttactgaatgataccaatgaat Alignment from Exonerate_coding2genome GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAACAAG ggagtgcttatccttcagagcctgcccacgtgtctgttgtttccccacagGGTCATACCCTTCGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCTGAAGCAAAACCATCAAGAAACCCTTTATGCTCA---CTCACCTTCAGTGACTTTAATGCAGAAGCTGTC------AAGgtgagttctaacacctcactccactcctttactgaatgataccaatgaat Alignment from GeneWise GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAACAAG ggagtgcttatccttcagagcctgcccacgtgtctgttgtttccccacagGGTCATACCCTTCGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCTGAAGCAAAACCATCAAGAAACCCTTTATGCTCACTC---ACCTTCAGTGACTTTAATGCAGAAGCTGTC------AAGgtgagttctaacacctcactccactcctttactgaatgataccaatgaat #### Mus81_ID1044_12 --> 0 - 0 Original Alignment GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG gcagacaagagaacaggctagtggctcagtactctgtctgtgtgttttagGTCATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGTCTGGAGCGTTTG------gtgagatagttcagatgcagagccttgcctggctttggttgtagaagaag Alignment from CESAR GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG gcagacaagagaacaggctagtggctcagtactctgtctgtgtgttttagGTCATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGTCTGGAGCGTTTG------gtgagatagttcagatgcagagccttgcctggctttggttgtag Alignment from Spaln_aa2Genome GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTG gcagacaagagaacaggctagtggctcagtactctgtctgtgtgttttagGTCATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGTCTGGAGCGTTTGgtgagatagttcagatgcagagccttgcctggctttggttgtagaagaag Alignment from Spaln_nt2Genome GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTG gcagacaagagaacaggctagtggctcagtactctgtctgtgtgttttagGTCATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGTCTGGAGCGTTTGgtgagatagttcagatgcagagccttgcctggctttggttgtagaagaag Alignment from Pairagon GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTG gcagacaagagaacaggctagtggctcagtactctgtctgtgtgttttagGTCATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGTCTGGAGCGTTTGgtgagatagttcagatgcagagccttgcctggctttggttgtagaagaag Alignment from Exonerate_protein2genome GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG gcagacaagagaacaggctagtggctcagtactctgtctgtgtgttttagGTCATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGTCTGGAGCGTTTG------gtgagatagttcagatgcagagccttgcctggctttggttgtag Alignment from Exonerate_coding2genome GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG gcagacaagagaacaggctagtggctcagtactctgtctgtgtgttttagGTCATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGTCTGGAGCGTTTG------gtgagatagttcagatgcagagccttgcctggctttggttgtag Alignment from GeneWise GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG gcagacaagagaacaggctagtggctcagtactctgtctgtgtgttttagGTCATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGTCTGGAGCGT------TTGgtgagatagttcagatgcagagccttgcctggctttggttgtagaagaag #### Mus81_ID1045_11 --> 0 - 0 Original Alignment ---------TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG cctataacctgggtgtttagacccagactcctccccgtgctcctctgcagTACTATGGATTTCGCCTGAAGCGCTGTGTCCTGGGGCACCGAGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCAGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGgtgaggcatatgggcagcaagcaaatactgcagacaagagaacaggctag Alignment from CESAR ---------TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG cctataacctgggtgtttagacccagactcctccccgtgctcctctgcagTACTATGGATTTCGCCTGAAGCGCTGTGTCCTGGGGCACCGAGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCAGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGgtgaggcatatgggcagcaagcaaatactgcagacaagagaacaggctag Alignment from Spaln_aa2Genome TTCCGCCTG---------AAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG cctataacctgggtgtttagacccagactcctccccgtgctcctctgcagTACTATGGATTTCGCCTGAAGCGCTGTGTCCTGGGGCACCGAGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCAGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGgtgaggcatatgggcagcaagcaaatactgcagacaagagaacaggctag Alignment from Spaln_nt2Genome GTTCCGCCTGAA--------GCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG cctataacctgggtgtttagacccagactcctccccgtgctcctctgcagTACTATGGATTTCGCCTGAAGCGCTGTGTCCTGGGGCACCGAGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCAGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGgtgaggcatatgggcagcaagcaaatactgcagacaagagaacaggctag Alignment from Pairagon ---------TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG cctataacctgggtgtttagacccagactcctccccgtgctcctctgcagTACTATGGATTTCGCCTGAAGCGCTGTGTCCTGGGGCACCGAGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCAGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGgtgaggcatatgggcagcaagcaaatactgcagacaagagaacaggctag Alignment from Exonerate_protein2genome GAGCAGAAGTTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG cctataacctgggtgtttagacccagactcctccccgtgctcctctgcagTACTATGGATTTCGCCTGAAGCGCTGTGTCCTGGGGCACCGAGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCAGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGgtgaggcatatgggcagcaagcaaatactgcagacaagagaacaggctag Alignment from Exonerate_coding2genome GAGCAGAAGTTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG cctataacctgggtgtttagacccagactcctccccgtgctcctctgcagTACTATGGATTTCGCCTGAAGCGCTGTGTCCTGGGGCACCGAGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCAGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGgtgaggcatatgggcagcaagcaaatactgcagacaagagaacaggctag Alignment from GeneWise ---------TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG cctataacctgggtgtttagacccagactcctccccgtgctcctctgcagTACTATGGATTTCGCCTGAAGCGCTGTGTCCTGGGGCACCGAGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCAGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGgtgaggcatatgggcagcaagcaaatactgcagacaagagaacaggctag #### Mus81_ID1048_8 --> 1 - 2 Original Alignment tGGCACCACCGAGGGGGCCGTCCAGCAGAGACCACTGGAGCTAAGGCCTAGCGAGTACAGAGTGCTGTTGTGTGTGGACATTGGCGAAACCAGAgg gattcacttcaccaaaggaacacctagggtcctgtctcctcctcctccagt---ACTAGTGAGGGAGCTGTCCAGCAAAGGTCACTGGAGTTGCGGCCAAGTGTGTACAGGGTGTTGGTGTGTGCGGACATCCGAGAAACCAGAgggtaatgaggcaggggggcctgcagaatggcttaaatgtactttccaatgc Alignment from CESAR tGGCACCACCGAGGGGGCCGTCCAGCAGAGACCACTGGAGCTAAGGCCTAGCGAGTACAGAGTGCTGTTGTGTGTGGACATTGGCGAAACCAGAgg gcagattcacttcaccaaaggaacaagggtcctgtctcctcctcctccagt---ACTAGTGAGGGAGCTGTCCAGCAAAGGTCACTGGAGTTGCGGCCAAGTGTGTACAGGGTGTTGGTGTGTGCGGACATCCGAGAAACCAGAgggtaatgaggcaggggggcctgcagaatggcttaaatgtactttccaatgc Alignment from Spaln_aa2Genome TGGCACCACCGAGGGGGCCGTCCAGCAGAGACCACTGGAGCTAAGGCCTAGCGAGTACAGAGTGCTGTTGTGTGTGGACATTGGCGAAACCAGAGG gattcacttcaccaaaggaacacctagggtcctgtctcctcctcctccagT---ACTAGTGAGGGAGCTGTCCAGCAAAGGTCACTGGAGTTGCGGCCAAGTGTGTACAGGGTGTTGGTGTGTGCGGACATCCGAGAAACCAGAGGgtaatgaggcaggggggcctgcagaatggcttaaatgtactttccaatgc Alignment from Spaln_nt2Genome TGGCACCACCGAGGGGGCCGTCCAGCAGAGACCACTGGAGCTAAGGCCTAGCGAGTACAGAGTGCTGTTGTGTGTGGACATTGGCGAAACCAGAGG gattcacttcaccaaaggaacacctagggtcctgtctcctcctcctccagT---ACTAGTGAGGGAGCTGTCCAGCAAAGGTCACTGGAGTTGCGGCCAAGTGTGTACAGGGTGTTGGTGTGTGCGGACATCCGAGAAACCAGAGGgtaatgaggcaggggggcctgcagaatggcttaaatgtactttccaatgc Alignment from Pairagon TGGCACCACCGAGGGGGCCGTCCAGCAGAGACCACTGGAGCTAAGGCCTAGCGAGTACAGAGTGCTGTTGTGTGTGGACATTGGCGAAACCAGAGG gattcacttcaccaaaggaacacctagggtcctgtctcctcctcctccagtactagT---------GAGGGAGCTGTCCAGCAAAGGTCACTGGAGTTGCGGCCAAGTGTGTACAGGGTGTTGGTGTGTGCGGACATCCGAGAAACCAGAGGgtaatgaggcaggggggcctgcagaatggcttaaatgtactttccaatgc Alignment from Exonerate_protein2genome TGGCACCACCGAGGGGGCCGTCCAGCAGAGACCACTGGAGCTAAGGCCTAGCGAGTACAGAGTGCTGTTGTGTGTGGACATTGGCGAAACCAGAGG gattcacttcaccaaaggaacacctagggtcctgtctcctcctcctccagT---ACTAGTGAGGGAGCTGTCCAGCAAAGGTCACTGGAGTTGCGGCCAAGTGTGTACAGGGTGTTGGTGTGTGCGGACATCCGAGAAACCAGAGGgtaatgaggcaggggggcctgcagaatggcttaaatgtactttccaatgc Alignment from Exonerate_coding2genome TGGCACCACCGAGGGGGCCGTCCAGCAGAGACCACTGGAGCTAAGGCCTAGCGAGTACAGAGTGCTGTTGTGTGTGGACATTGGCGAAACCAGAGG gattcacttcaccaaaggaacacctagggtcctgtctcctcctcctccagT---ACTAGTGAGGGAGCTGTCCAGCAAAGGTCACTGGAGTTGCGGCCAAGTGTGTACAGGGTGTTGGTGTGTGCGGACATCCGAGAAACCAGAGGgtaatgaggcaggggggcctgcagaatggcttaaatgtactttccaatgc Alignment from GeneWise -ACCACCGAGGGGGCCGTCCAGCAGAGACCACTGGAGCTAAGGCCTAGCGAGTACAGAGTGCTGTTGTGTGTGGACATTGGCGAAACCAGAGG gattcacttcaccaaaggaacacctagggtcctgtctcctcctcctccagTACTAGTGAGGGAGCTGTCCAGCAAAGGTCACTGGAGTTGCGGCCAAGTGTGTACAGGGTGTTGGTGTGTGCGGACATCCGAGAAACCAGAGGgtaatgaggcaggggggcctgcagaatggcttaaatgtactttccaatgc #### Mus81_ID1051_5 --> 0 - 0 Original Alignment AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG------ gtgttacacaggcacacactccaccaagaaatctccatttctatttacagAATTTTGATGGACACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGATTCTGgtgagcatcattcaaaaggaagagggtatatgccataatagttctccttc Alignment from CESAR AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG------ gtgttacacaggcacacactccaccaagaaatctccatttctatttacagAATTTTGATGGACACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGATTCTGgtgagcatcattcaaaaggaagagggtatatgccataatagttctccttc Alignment from Spaln_aa2Genome AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG------ gtgttacacaggcacacactccaccaagaaatctccatttctatttacagAATTTTGATGGACACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGATTCTGgtgagcatcattcaaaaggaagagggtatatgccataatagttctccttc Alignment from Spaln_nt2Genome AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG------ gtgttacacaggcacacactccaccaagaaatctccatttctatttacagAATTTTGATGGACACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGATTCTGgtgagcatcattcaaaaggaagagggtatatgccataatagttctccttc Alignment from Pairagon AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG------ gtgttacacaggcacacactccaccaagaaatctccatttctatttacagAATTTTGATGGACACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGATTCTGgtgagcatcattcaaaaggaagagggtatatgccataatagttctccttc Alignment from Exonerate_protein2genome AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG gtgttacacaggcacacactccaccaagaaatctccatttctatttacagAATTTTGATGGACACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGattctggtgagcatcattcaaaaggaagagggtatatgccataatagttctccttc Alignment from Exonerate_coding2genome AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG gtgttacacaggcacacactccaccaagaaatctccatttctatttacagAATTTTGATGGACACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGattctggtgagcatcattcaaaaggaagagggtatatgccataatagttctccttc Alignment from GeneWise AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGGGTAGTG gtgttacacaggcacacactccaccaagaaatctccatttctatttacagAATTTTGATGGACACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGATTCTGgtgagcatcattcaaaaggaagagggtatatgccataatagttctccttc #### Mus81_ID1054_2 --> 0 - 1 Original Alignment GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGC---g agatgtttggaggctaattaaaccaacttcctggatgtggcccatcacagGTATTGCGCTCCCTGCAAAAGTATGCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGTATGCTGGATAAGAAGCTAAAGCAGCCCCTAGCCTCAGGTATCggtgatagcttcacagcagtctcctaactccttccctcacactgtggctat Alignment from CESAR GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGC---g agatgtttggaggctaattaaaccaacttcctggatgtggcccatcacagGTATTGCGCTCCCTGCAAAAGTATGCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGTATGCTGGATAAGAAGCTAAAGCAGCCCCTAGCCTCAGGTATCggtgatagcttcacagcagtctcctaactccttccctcacactgtggctat Alignment from Spaln_aa2Genome GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCGGTG agatgtttggaggctaattaaaccaacttcctggatgtggcccatcacagGTATTGCGCTCCCTGCAAAAGTATGCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGTATGCTGGATAAGAAGCTAAAGCAGCCCCTAGCCTCAGGTATCGgtgatagcttcacagcagtctcctaactccttccctcacactgtggctat Alignment from Spaln_nt2Genome GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAG agatgtttggaggctaattaaaccaacttcctggatgtggcccatcacagGTATTGCGCTCCCTGCAAAAGTATGCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGTATGCTGGATAAGAAGCTAAAGCAGCCCCTAGCCTCAGgtatcggtgatagcttcacagcagtctcctaactccttccctcacactgtggctat Alignment from Pairagon GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGG---CG agatgtttggaggctaattaaaccaacttcctggatgtggcccatcacagGTATTGCGCTCCCTGCAAAAGTATGCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGTATGCTGGATAAGAAGCTAAAGCAGCCCCTAGCCTCAGGTATCGgtgatagcttcacagcagtctcctaactccttccctcacactgtggctat Alignment from Exonerate_protein2genome GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGC---G agatgtttggaggctaattaaaccaacttcctggatgtggcccatcacagGTATTGCGCTCCCTGCAAAAGTATGCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGTATGCTGGATAAGAAGCTAAAGCAGCCCCTAGCCTCAGGTATCGgtgatagcttcacagcagtctcctaactccttccctcacactgtggctat Alignment from Exonerate_coding2genome CAAAAGGCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGC---G agatgtttggaggctaattaaaccaacttcctggatgtggcccaTCACAGGTATTGCGCTCCCTGCAAAAGTATGCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGTATGCTGGATAAGAAGCTAAAGCAGCCCCTAGCCTCAGGTATCGgtgatagcttcacagcagtctcctaactccttccctcacactgtggctat Alignment from GeneWise GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCGGT- agatgtttggaggctaattaaaccaacttcctggatgtggcccatcacagGTATTGCGCTCCCTGCAAAAGTATGCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGTATGCTGGATAAGAAGCTAAAGCAGCCCCTAGCCTCAGGTATCGgtgatagcttcacagcagtctcctaactccttccctcacactgtggctat #### Myof_ID7468_34 --> 0 - 0 Original Alignment GATGGCTCCAACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG atgaaagggaagaattattgtggcttctatttccttgccgtgtcatacag---------AATCTTCCCATCCTTCCATCTCAGAGAGCACCAAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACCGCTCACTGCCATTGAAgtgagaatttgataaccctcatcaagctgtgcaaatgcagggcataggac Alignment from CESAR GATGGCTCCAACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG tgtgttttaatgaaagggaagaatttctatttccttgccgtgtcatacag---------AATCTTCCCATCCTTCCATCTCAGAGAGCACCAAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACCGCTCACTGCCATTGAAgtgagaatttgataaccctcatcaagctgtgcaaatgcagggcataggac Alignment from Spaln_aa2Genome GATGGCTCCAACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG atgaaagggaagaattattgtggcttctatttccttgccgtgtcatacag---------AATCTTCCCATCCTTCCATCTCAGAGAGCACCAAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACCGCTCACTGCCATTGAAgtgagaatttgataaccctcatcaagctgtgcaaatgcagggcataggac Alignment from Spaln_nt2Genome GATGGCTCCAACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG atgaaagggaagaattattgtggcttctatttccttgccgtgtcatacag---------AATCTTCCCATCCTTCCATCTCAGAGAGCACCAAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACCGCTCACTGCCATTGAAgtgagaatttgataaccctcatcaagctgtgcaaatgcagggcataggac Alignment from Pairagon GATGGCTCCAACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG atgaaagggaagaattattgtggcttctatttccttgccgtgtcatacag---------AATCTTCCCATCCTTCCATCTCAGAGAGCACCAAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACCGCTCACTGCCATTGAAgtgagaatttgataaccctcatcaagctgtgcaaatgcagggcataggac Alignment from Exonerate_protein2genome GATGGCTCCAACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG atgaaagggaagaattattgtggcttctatttccttgccgtGTCATACAGAATCTTCCCATCCTTCCATCTCAGAGAGCACCAAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACCGCTCACTGCCATTGAAgtgagaatttgataaccctcatcaagctgtgcaaatgcagggcataggac Alignment from Exonerate_coding2genome GATGGCTCCAACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG atgaaagggaagaattattgtggcttctatttccttgccgtGTCATACAGAATCTTCCCATCCTTCCATCTCAGAGAGCACCAAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACCGCTCACTGCCATTGAAgtgagaatttgataaccctcatcaagctgtgcaaatgcagggcataggac Alignment from GeneWise AACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG atgaaagggaagaattattgtggcttctatttccttgccgtgtcatacagAATCTTCCCATCCTTCCATCTCAGAGAGCACCAAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACCGCTCACTGCCATTGAAgtgagaatttgataaccctcatcaagctgtgcaaatgcagggcataggac #### Myof_ID7469_33 --> 0 - 0 Original Alignment GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG--- ataaaagtatctgctggaacaatgggtgttgttctcttttctttaattagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACAGATGTTACACCTAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAAGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGGAACAAGGGCgtaaaccatattcagatttgcacatttctcagtgaagtaaccagatacat Alignment from CESAR GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG--- ataaaagtatctgctggaacaatgggtgttgttctcttttctttaattagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACAGATGTTACACCTAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAAGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGGAACAAGGGCgtaaaccatattcagatttgcacatttctcagtgaagtaaccagatacat Alignment from Spaln_aa2Genome GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG--- ataaaagtatctgctggaacaatgggtgttgttctcttttctttaattagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACAGATGTTACACCTAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAAGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGGAACAAGGGCgtaaaccatattcagatttgcacatttctcagtgaagtaaccagatacat Alignment from Spaln_nt2Genome GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAGG-- ataaaagtatctgctggaacaatgggtgttgttctcttttctttaattagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACAGATGTTACACCTAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAAGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGGAACAAGGGCgtaaaccatattcagatttgcacatttctcagtgaagtaaccagatacat Alignment from Pairagon GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG--- ataaaagtatctgctggaacaatgggtgttgttctcttttctttaattagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACAGATGTTACACCTAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAAGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGGAACAAGGGCgtaaaccatattcagatttgcacatttctcagtgaagtaaccagatacat Alignment from Exonerate_protein2genome GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG ataaaagtatctgctggaacaatgggtgttgttctcttttctttaattagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACAGATGTTACACCTAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAAGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGGAACAAGggcgtaaaccatattcagatttgcacatttctcagtgaagtaaccagatacat Alignment from Exonerate_coding2genome GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG ataaaagtatctgctggaacaatgggtgttgttctcttttctttaattagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACAGATGTTACACCTAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAAGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGGAACAAGggcgtaaaccatattcagatttgcacatttctcagtgaagtaaccagatacat Alignment from GeneWise GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAGGAT ataaaagtatctgctggaacaatgggtgttgttctcttttctttaattagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACAGATGTTACACCTAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAAGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGGAACAAGGGCgtaaaccatattcagatttgcacatttctcagtgaagtaaccagatacat #### Myof_ID7493_9 --> 0 - 0 Original Alignment GTTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGGGAATTTAAG tatccgcttgggaggaaagaattttgctaccctactctatcttcccctagATTTACAATTCACATTCTTTGAGA---------------------------gtaagtaacacaaccatcatgttcaatagccggcttcacccagttttgga Alignment from CESAR GTTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGGGAATTTAAG tgagagcttgggaggaaagaattttgctaccctactctatcttcccctagATTTACAATTCACATTCTTTGAGA---------------------------gtaagtaacacaaccatcatgtt Alignment from Spaln_aa2Genome GTTTATAATTCCCATTCTTTGAGG tatccgcttgggaggaaagaattttgctaccctactctatcttcccctagATTTACAATTCACATTCTTTGAGAgtaagtaacacaaccatcatgttcaatagccggcttcacccagttttgga Alignment from Spaln_nt2Genome GTTTATAATTCCCATTCTTTGAGG tatccgcttgggaggaaagaattttgctaccctactctatcttcccctagATTTACAATTCACATTCTTTGAGAgtaagtaacacaaccatcatgttcaatagccggcttcacccagttttgga Alignment from Pairagon ---------------------------------------------------TTTATAATTCCCATTCTTTGAGG TATCCGCTTGGGAGGAAAGAATTTTGCTACCCTACTCTATCTTCCCCTAGATTTACAATTCACATTCTTTGAGAgtaagtaacacaaccatcatgttcaatagccggcttcacccagttttgga Alignment from Exonerate_protein2genome GTTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGGGAATTTA tatccgcttgggaggaaagaattttgctaccctactctatcttcccctagATTTACAATTCACATTCTTTGAGAGTAAGTAACACAACCATCATGTTCAatagccggcttcacccagttttgga Alignment from Exonerate_coding2genome TTTATAATTCCCAT TATCCGCTTGGGAGgaaagaattttgctaccctactctatcttcccctagatttacaattcacattctttgagagtaagtaacacaaccatcatgttcaatagccggcttcacccagttttgga Alignment from GeneWise tatccgcttgggaggaaagaattttgctaccctactctatcttcccctagatttacaattcacattctttgagagtaagtaacacaaccatcatgttcaatagccggcttcacccagttttgga #### Myrf_ID2714_23 --> 1 - 2 Original Alignment gCTTGGCAACTTCACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATG------------aa ggaggtgaggctggaaaagtggctgggtcatccttgcctcctctctccagaCTTGGCAACTTCACATACCATATCCCTGTAAGCAGCAGCACACCACTACACCTCAGCCTCACCCTGCAGATGCGCACTCTGGGAaagtagggaaaagtccattacctgacctatgaatataaagtggcaatcccaa Alignment from CESAR gCTTGGCAACTTCACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATG------------aa ggaggtgaggctggaaaagtggctgggtcatccttgcctcctctctccagaCTTGGCAACTTCACATACCATATCCCTGTAAGCAGCAGCACACCACTACACCTCAGCCTCACCCTGCAGATGCGCACTCTGGGAaagtagggaaaagtccattacctgacctatgaatataaagtggcaatcccaa Alignment from Spaln_aa2Genome GCTTGGCAACTTCACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGAAT----------- ggaggtgaggctggaaaagtggctgggtcatccttgcctcctctctccagACTTGGCAACTTCACATACCATATCCCTGTAAGCAGCAGCACACCACTACACCTCAGCCTCACCCTGCAGATGCGCACTCTGGGAAAgtagggaaaagtccattacctgacctatgaatataaagtggcaatcccaa Alignment from Spaln_nt2Genome GCTTGGCAACTTCACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGA ggaggtgaggctggaaaagtggctgggtcatccttgcctcctctctccagACTTGGCAACTTCACATACCATATCCCTGTAAGCAGCAGCACACCACTACACCTCAGCCTCACCCTGCAGATGCgcactctgggaaagtagggaaaagtccattacctgacctatgaatataaagtggcaatcccaa Alignment from Pairagon GCTTGGCAACTTCACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATG------------AA ggaggtgaggctggaaaagtggctgggtcatccttgcctcctctctccagACTTGGCAACTTCACATACCATATCCCTGTAAGCAGCAGCACACCACTACACCTCAGCCTCACCCTGCAGATGCGCACTCTGGGAAAgtagggaaaagtccattacctgacctatgaatataaagtggcaatcccaa Alignment from Exonerate_protein2genome GCTTGGCAACTTCACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGAA ggaggtgaggctggaaaagtggctgggtcatccttgcctcctctctccagACTTGGCAACTTCACATACCATATCCCTGTAAGCAGCAGCACACCACTACACCTCAGCCTCACCCTGCAGATGCGcactctgggaaagtagggaaaagtccattacctgacctatgaatataaagtggcaatcccaa Alignment from Exonerate_coding2genome GCTTGGCAACTTCACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGAA ggaggtgaggctggaaaagtggctgggtcatccttgcctcctctctccagACTTGGCAACTTCACATACCATATCCCTGTAAGCAGCAGCACACCACTACACCTCAGCCTCACCCTGCAGATGCGcactctgggaaagtagggaaaagtccattacctgacctatgaatataaagtggcaatcccaa Alignment from GeneWise GCTTGGCAACTTCACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATG------------AA ggaggtgaggctggaaaagtggctgggtcatccttgcctcctctctccagACTTGGCAACTTCACATACCATATCCCTGTAAGCAGCAGCACACCACTACACCTCAGCCTCACCCTGCAGATGCGCACTCTGGGAAAgtagggaaaagtccattacctgacctatgaatataaagtggcaatcccaa #### Myrf_ID2725_12 --> 0 - 0 Original Alignment ---------------------------------------------------GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG aggtaattgactcaccaggtctcaaatatgatatttgtcttttctcctagGACATCCTCCTTTTCTGTGATGATTGTGACCAAGGTCTGCTACAAGGGATGGCCTCTAACCCAGGGCCGTTT---AGTGATAGTGATGTGTTATGGCAACGGGCACAACTA---GATACAGTTTTTCACCCTGGCCGTGTGGGTATTAACTCTGACCTGCCAGATGACGCATTAGTTGTACATGGAAATGTGAAGGTCATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGgtgagttgtgcaggaggtgcatgggcatcccctgcataactggattgtgt Alignment from CESAR aggtaggaacttgtagttatacaattagtacactatatgtgtattttccag Alignment from Spaln_aa2Genome ------GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGA aggtaattgactcaccaggtctcaaatatgatatttgtcttttctcctaggacatcctccttttctgtgatgattgtgaccaaggtctgctacaagGGATGGCCTCTAACCCAGGGCCGTTT---AGTGATAGTGATGTGTTATGGCAACGGGCACAACTA---GATACAGTTTTTCACCCTGGCCGTGTGGGTATTAACTCTGACCTGCCAGATGACGCATTAGTTGTACATGGAAATGTGAAGGTCATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGgtgagttgtgcaggaggtgcatgggcatcccctgcataactggattgtgt Alignment from Spaln_nt2Genome GGCCTCTAACC----CAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG aggtaattgactcaccaggtctcaaatatgatatttgtcttttctcctaggacatcctccttttctgtgatgattgtgaccaaggtctgctacaagGGATGGCCTCTAACCCAGGGCCGTTT---AGTGATAGTGATGTGTTATGGCAACGGGCACAACT---AGATACAGTTTTTCACCCTGGCCGTGTGGGTATTAACTCTGACCTGCCAGATGACGCATTAGTTGTACATGGAAATGTGAAGGTCATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGgtgagttgtgcaggaggtgcatgggcatcccctgcataactggattgtgt Alignment from Pairagon -----GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG aggtaattgactcaccaggtctcaaatatgatatttgtcttttctcctaggacatcctccttttctgtgatgattgtgaccaaggtctgctacaagGGATGGCCTCTAACCCAGGGCCGTTT---AGTGATAGTGATGTGTTATGGCAACGGGCACAACT---AGATACAGTTTTTCACCCTGGCCGTGTGGGTATTAACTCTGACCTGCCAGATGACGCATTAGTTGTACATGGAAATGTGAAGGTCATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGgtgagttgtgcaggaggtgcatgggcatcccctgcataactggattgtgt Alignment from Exonerate_protein2genome GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG aggtaattgactcaccaggtctcaaatatgatatttgtcttttctcctaggacatcctccttttctgtgatgattgtgaccaaggtctgctacaagggatgGCCTCTAACCCAGGGCCGTTT---AGTGATAGTGATGTGTTATGGCAACGGGCACAACTA---GATACAGTTTTTCACCCTGGCCGTGTGGGTATTAACTCTGACCTGCCAGATGACGCATTAGTTGTACATGGAAATGTGAAGGTCATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGgtgagttgtgcaggaggtgcatgggcatcccctgcataactggattgtgt Alignment from Exonerate_coding2genome GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG aggtaattgactcaccaggtctcaaatatgatatttgtcttttctcctaggacatcctccttttctgtgatgattgtgaccaaggtctgctacaagggatgGCCTCTAACCCAGGGCCGTTT---AGTGATAGTGATGTGTTATGGCAACGGGCACAACTA---GATACAGTTTTTCACCCTGGCCGTGTGGGTATTAACTCTGACCTGCCAGATGACGCATTAGTTGTACATGGAAATGTGAAGGTCATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGgtgagttgtgcaggaggtgcatgggcatcccctgcataactggattgtgt Alignment from GeneWise --------TCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG aggtaattgactcaccaggtctcaaatatgatatttgtcttttctcctaggacatcctccttttctgtgatgattgtgaccaaggtctgctacaagGGATGGCCTCTAACCCAGGGCCGTTT---AGTGATAGTGATGTGTTATGGCAACGGGCACAACTA---GATACAGTTTTTCACCCTGGCCGTGTGGGTATTAACTCTGACCTGCCAGATGACGCATTAGTTGTACATGGAAATGTGAAGGTCATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGgtgagttgtgcaggaggtgcatgggcatcccctgcataactggattgtgt #### Myrf_ID2726_11 --> 1 - 0 Original Alignment gTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG------ atgggagaatgggtacaggtatccctgagtgtctgctccctctgccaaaggTATTTCATGCTGGTGGTTGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGATGTTGgtaagaaccacaactacaccctggcagcccagatttcggagcatatcatt Alignment from CESAR gTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG------ atgggagaatgggtacaggtatccctgagtgtctgctccctctgccaaaggTATTTCATGCTGGTGGTTGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGATGTTGgtaagaaccacaactacaccctggcagcccagatttcggagcatatcatt Alignment from Spaln_aa2Genome GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG------ atgggagaatgggtacaggtatccctgagtgtctgctccctctgccaaagGTATTTCATGCTGGTGGTTGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGATGTTGgtaagaaccacaactacaccctggcagcccagatttcggagcatatcatt Alignment from Spaln_nt2Genome GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG-- atgggagaatgggtacaggtatccctgagtgtctgctccctctgccaaagGTATTTCATGCTGGTGGTTGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGATgttggtaagaaccacaactacaccctggcagcccagatttcggagcatatcatt Alignment from Pairagon GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG------ atgggagaatgggtacaggtatccctgagtgtctgctccctctgccaaagGTATTTCATGCTGGTGGTTGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGATGTTGgtaagaaccacaactacaccctggcagcccagatttcggagcatatcatt Alignment from Exonerate_protein2genome GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggagaatgggtacaggtatccctgagtgtctgctccctctgccaaagGTATTTCATGCTGGTGGTTGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGatgttggtaagaaccacaactacaccctggcagcccagatttcggagcatatcatt Alignment from Exonerate_coding2genome GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggagaatgggtacaggtatccctgagtgtctgctccctctgccaaagGTATTTCATGCTGGTGGTTGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGatgttggtaagaaccacaactacaccctggcagcccagatttcggagcatatcatt Alignment from GeneWise GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG------ atgggagaatgggtacaggtatccctgagtgtctgctccctctgccaaagGTATTTCATGCTGGTGGTTGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGATGTTGgtaagaaccacaactacaccctggcagcccagatttcggagcatatcatt #### Myrf_ID2727_10 --> 1 - 2 Original Alignment gGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAG------------------------------ag tggtggcggcttgctagaaaattctgctagaatgctccttcctctttcagaGTTAATCTTCCACCTGAGCAGGTTACACAGGTAACTGTGGGG---CTCCATTTCACTGAGACCACTGCCAACAACATGAGCAAGAAAGGCAAGCCCAACCCTGACCAGGTTCCATTCGGTGTGACTGATCTTCAAAATaggtgaggaagttgtatttgccccaagatccctcacacctacatacctgcac Alignment from CESAR gGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGag tggtggcggcttgctagaaaattctgctagaatgctccttcctctttcagaGTTAATCTTCCACCTGAGCAGGTTACACAGGTAACTGTGGGG---CTCCATTTCACTGAGACCACTGCCAACAACATGAGCAAGAAAGGCAAGCCCAACCCTGACCAGgttccattcggtgtgactgatcttcaaaataggtgaggaagttgtatttgccccaagatccctcacacctacatacctgcac Alignment from Spaln_aa2Genome GGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGAGG-- tggtggcggcttgctagaaaattctgctagaatgctccttcctctttcagAGTTAATCTTCCACCTGAGCAGGTTACACAGGTAACTGTGGGG---CTCCATTTCACTGAGACCACTGCCAACAACATGAGCAAGAAAGGCAAGCCCAACCCTGACCAGGTTCCattcggtgtgactgatcttcaaaataggtgaggaagttgtatttgccccaagatccctcacacctacatacctgcac Alignment from Spaln_nt2Genome GGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGA tggtggcggcttgctagaaaattctgctagaatgctccttcctctttcagAGTTAATCTTCCACCTGAGCAGGTTACACAGGTAACTGTGG---GGCTCCATTTCACTGAGACCACTGCCAACAACATGAGCAAGAAAGGCAAGCCCAACCCTGACCAG-gttccattcggtgtgactgatcttcaaaataggtgaggaagttgtatttgccccaagatccctcacacctacatacctgcac Alignment from Pairagon GGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAG------------------------------AG tggtggcggcttgctagaaaattctgctagaatgctccttcctctttcagAGTTAATCTTCCACCTGAGCAGGTTACACAGGTAACTGTGG---GGCTCCATTTCACTGAGACCACTGCCAACAACATGAGCAAGAAAGGCAAGCCCAACCCTGACCAGGTTCCATTCGGTGTGACTGATCTTCAAAATAGgtgaggaagttgtatttgccccaagatccctcacacctacatacctgcac Alignment from Exonerate_protein2genome GGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAG tggtggcggcttgctagaaaattctgctagaatgctccttcctctttcagAGTTAATCTTCCACCTGAGCAGGTTACACAGGTAACTGTGGGG---CTCCATTTCACTGAGACCACTGCCAACAACATGAGCAAGAAAGGCAAGCCCAACCCTGACCAGgttccattcggtgtgactgatcttcaaaataggtgaggaagttgtatttgccccaagatccctcacacctacatacctgcac Alignment from Exonerate_coding2genome GGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAG tggtggcggcttgctagaaaattctgctagaatgctccttcctctttcagAGTTAATCTTCCACCTGAGCAGGTTACACAGGTAACTGTGGGG---CTCCATTTCACTGAGACCACTGCCAACAACATGAGCAAGAAAGGCAAGCCCAACCCTGACCAGgttccattcggtgtgactgatcttcaaaataggtgaggaagttgtatttgccccaagatccctcacacctacatacctgcac Alignment from GeneWise GGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAG tggtggcggcttgctagaaaattctgctagaatgctccttcctctttcagAGTTAATCTTCCACCTGAGCAGGTTACACAGGTAACTGTGGGG---CTCCATTTCACTGAGACCACTGCCAACAACATGAGCAAGAAAGGCAAGCCCAACCCTGACCAGgttccattcggtgtgactgatcttcaaaataggtgaggaagttgtatttgccccaagatccctcacacctacatacctgcac #### Naaladl1_ID1443_2 --> 1 - 1 Original Alignment aGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTC---------g ctgctgatggattctattctcctccgtattcttttcttcctctattttagaGAGCTTGCAAAGGAACCACATGTCGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCGGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTCGCTTTCCCTAATGCAGAGCAGGCTAACAGTGTGGAAGTTCGTTCCGAGggtgagtgtctagaaatgtcaaggcaggatggttctccgtcccttcctgca Alignment from CESAR aGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTC---------g ctgctgatggattctattctcctccgtattcttttcttcctctattttagaGAGCTTGCAAAGGAACCACATGTCGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCGGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTCGCTTTCCCTAATGCAGAGCAGGCTAACAGTGTGGAAGTTCGTTCCGAGggtgagtgtctagaaatgtcaaggcaggatgggtatttgctgtgctctctt Alignment from Spaln_aa2Genome AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG ctgctgatggattctattctcctccgtattcttttcttcctctattttagAGAGCTTGCAAAGGAACCACATGTCGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCGGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTCGCTTTCCCTAATGCAGAGCAGGCTAACAGTGTGGAAGTTCgttccgagggtgagtgtctagaaatgtcaaggcaggatggttctccgtcccttcctgca Alignment from Spaln_nt2Genome AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGT------CGTGG ctgctgatggattctattctcctccgtattcttttcttcctctattttagAGAGCTTGCAAAGGAACCACATGTCGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCGGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTCGCTTTCCCTAATGCAGAGCAGGCTAACAGTGTGGAAGTTCGTTCCGAGGgtgagtgtctagaaatgtcaaggcaggatggttctccgtcccttcctgca Alignment from Pairagon AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTC------------------------------------------------------------ ctgctgatggattctattctcctccgtattcttttcttcctctattttagAGAGCTTGCAAAGGAACCACATGTCGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCGGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTCGCTTTCCCTAATGCAGAGCAGGCTAACAGTGTGGAAGTTCGTTCCGAGGGTGAGTGTCTAGAAATGTCAAGGCAGGATGGTTCTCCGTCCCTTCCTGCA Alignment from Exonerate_protein2genome AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG ctgctgatggattctattctcctccgtattcttttcttcctctattttagAGAGCTTGCAAAGGAACCACATGTCGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCGGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTCGCTTTCCCTAATGCAGAGCAGGCTAACAGTGTGGAAGTTCgttccgagggtgagtgtctagaaatgtcaaggcaggatggttctccgtcccttcctgca Alignment from Exonerate_coding2genome ctgctgatggattctattctcctccgtattcttttcttcctctattttagagagcttgcaaaggaaccacatgtcgccaccagcactcgagatgatgccctggttcagctgctgctggggcgttggaaggatacagcaccgggactggactcagccaagacctatgaatatcgggtgttgctcgctttccctaatgcagagcaggctaacagtgtggaagttcgttccgagggtgagtgtctagaaatgtcaaggcaggatggttctccgtcccttcctgca Alignment from GeneWise AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG ctgctgatggattctattctcctccgtattcttttcttcctctattttagAGAGCTTGCAAAGGAACCACATGTCGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCGGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTCGCTTTCCCTAATGCAGAGCAGGCTAACAGTGTGGAAGTTCgttccgagggtgagtgtctagaaatgtcaaggcaggatggttctccgtcccttcctgca #### Naaladl1_ID1444_3 --> 2 - 0 Original Alignment tgGGCCCCAATGGAACAACCTTCCACTCCTTCCAACCCTTCGAGAAGAATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG cgtaaatgtcaaggcaggatgggtattttttttgtcttatgtttgtttagta------AATGGAACAACATTCCACTCCTTTCAACCTTTCAAGAGGAATCTAACTGGAGAGCAGGCAGGGCCTAATGCATTACAACCTTATGCTGCCTATGCTCCTCCAGGGACCCCCAAAgtgagctgaggactctggttgcactcacattgtgctcactagattcactc Alignment from CESAR tgGGCCCCAATGGAACAACCTTCCACTCCTTCCAACCCTTCGAGAAGAATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG cgagtctagaaatgtcaaggcaggattttttttgtcttatgtttgtttagta------AATGGAACAACATTCCACTCCTTTCAACCTTTCAAGAGGAATCTAACTGGAGAGCAGGCAGGGCCTAATGCATTACAACCTTATGCTGCCTATGCTCCTCCAGGGACCCCCAAAgtgagctgaggactctggttgcactcacattgtgctcactagattcactc Alignment from Spaln_aa2Genome TGGGCCCCAATGGAACAACCTTCCACTCCTTCCAACCCTTCGAGAAGAATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG cgtaaatgtcaaggcaggatgggtattttttttgtcttatgtttgtttagTA------AATGGAACAACATTCCACTCCTTTCAACCTTTCAAGAGGAATCTAACTGGAGAGCAGGCAGGGCCTAATGCATTACAACCTTATGCTGCCTATGCTCCTCCAGGGACCCCCAAAgtgagctgaggactctggttgcactcacattgtgctcactagattcactc Alignment from Spaln_nt2Genome C CCAATGGAACAACCTTCCACTCCTTCCAACCCTTCGAGAAGAATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG CgtaaatgtcaaggcaggatgggtattttttttgtcttatgtttgtttagTAAATGGAACAACATTCCACTCCTTTCAACCTTTCAAGAGGAATCTAACTGGAGAGCAGGCAGGGCCTAATGCATTACAACCTTATGCTGCCTATGCTCCTCCAGGGACCCCCAAAgtgagctgaggactctggttgcactcacattgtgctcactagattcactc Alignment from Pairagon TGGGCCCCAATGGAACAACCTTCCACTCCTTCCAACCCTTCGAGAAGAATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG cgtaaatgtcaaggcaggatgggtattttttttgtcttatgtttgtttagTA------AATGGAACAACATTCCACTCCTTTCAACCTTTCAAGAGGAATCTAACTGGAGAGCAGGCAGGGCCTAATGCATTACAACCTTATGCTGCCTATGCTCCTCCAGGGACCCCCAAAgtgagctgaggactctggttgcactcacattgtgctcactagattcactc Alignment from Exonerate_protein2genome GTCGTGGGCCCCAATGGAACAACCTTCCACTCCTTCCAACCCTTCGAGAAGAATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG cgtaaatgtcaaggcaggatgggtattttttttgtcttatGTTTGTTTAGTAAATGGAACAACATTCCACTCCTTTCAACCTTTCAAGAGGAATCTAACTGGAGAGCAGGCAGGGCCTAATGCATTACAACCTTATGCTGCCTATGCTCCTCCAGGGACCCCCAAAgtgagctgaggactctggttgcactcacattgtgctcactagattcactc Alignment from Exonerate_coding2genome GTCGTGGGCCCCAATGGAACAACCTTCCACTCCTTCCAACCCTTCGAGAAGAATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG cgtaaatgtcaaggcaggatgggtattttttttgtcttatGTTTGTTTAGTAAATGGAACAACATTCCACTCCTTTCAACCTTTCAAGAGGAATCTAACTGGAGAGCAGGCAGGGCCTAATGCATTACAACCTTATGCTGCCTATGCTCCTCCAGGGACCCCCAAAgtgagctgaggactctggttgcactcacattgtgctcactagattcactc Alignment from GeneWise TGGGCCCCAATGGAACAACCTTCCACTCCTTCCAACCCTTCGAGAAGAATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG cgtaaatgtcaaggcaggatgggtattttttttgtcttatgtttgtttagTA------AATGGAACAACATTCCACTCCTTTCAACCTTTCAAGAGGAATCTAACTGGAGAGCAGGCAGGGCCTAATGCATTACAACCTTATGCTGCCTATGCTCCTCCAGGGACCCCCAAAgtgagctgaggactctggttgcactcacattgtgctcactagattcactc #### Naaladl1_ID1448_7 --> 1 - 1 Original Alignment tGAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTg ataatcacactaaatttcaatttgcattttctgtttgtttgtttttaaagt------AAAGTGCGTGTCCACAACAGATTAGAACTTAGGACTTCCACTAATGTGCTTGGCATCATCCAGGGCACTGTAGAGCCTggtgagtccattcacagtctaccctgccctctggcttgcctacagcctggt Alignment from CESAR tGAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTg tactcaataatcacactaaatttcaattttctgtttgtttgtttttaaagt------AAAGTGCGTGTCCACAACAGATTAGAACTTAGGACTTCCACTAATGTGCTTGGCATCATCCAGGGCACTGTAGAGCCTggtgagtccattcacagtctaccctgccctctggcttgcctacagcctggt Alignment from Spaln_aa2Genome TGAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG ataatcacactaaatttcaatttgcattttctgtttgtttgtttttaaagT------AAAGTGCGTGTCCACAACAGATTAGAACTTAGGACTTCCACTAATGTGCTTGGCATCATCCAGGGCACTGTAGAGCCTGgtgagtccattcacagtctaccctgccctctggcttgcctacagcctggt Alignment from Spaln_nt2Genome GAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG ataatcacactaaatttcaatttgcattttctgtttgtttgtttttaaagTAAAGTGCGTGTCCACAACAGATTAGAACTTAGGACTTCCACTAATGTGCTTGGCATCATCCAGGGCACTGTAGAGCCTGgtgagtccattcacagtctaccctgccctctggcttgcctacagcctggt Alignment from Pairagon TGAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG ataatcacactaaatttcaatttgcattttctgtttgtttgtttttaaagT------AAAGTGCGTGTCCACAACAGATTAGAACTTAGGACTTCCACTAATGTGCTTGGCATCATCCAGGGCACTGTAGAGCCTGgtgagtccattcacagtctaccctgccctctggcttgcctacagcctggt Alignment from Exonerate_protein2genome TGAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG ataatcacactaaatttcaatttgcattttctgtttgtttgtttTTAAAGTAAAGTGCGTGTCCACAACAGATTAGAACTTAGGACTTCCACTAATGTGCTTGGCATCATCCAGGGCACTGTAGAGCCTGgtgagtccattcacagtctaccctgccctctggcttgcctacagcctggt Alignment from Exonerate_coding2genome AAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG ataatcacactaaatttcaatttgcattttctgtttgtttgtttttaaagtAAAGTGCGTGTCCACAACAGATTAGAACTTAGGACTTCCACTAATGTGCTTGGCATCATCCAGGGCACTGTAGAGCCTGgtgagtccattcacagtctaccctgccctctggcttgcctacagcctggt Alignment from GeneWise TGAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG ataatcacactaaatttcaatttgcattttctgtttgtttgtttttaaagT------AAAGTGCGTGTCCACAACAGATTAGAACTTAGGACTTCCACTAATGTGCTTGGCATCATCCAGGGCACTGTAGAGCCTGgtgagtccattcacagtctaccctgccctctggcttgcctacagcctggt #### Naaladl1_ID1456_15 --> 2 - 1 Original Alignment gt---------TTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGg gg gcataaaggtgggacttggatgttacctttcttttcaccttctttactaggtAATTACATATTTAGCAGCCAACAAGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAGGTTTCCTTCAGGCAGCTCAAGAAGCCCTGGGCACCCAGTTAGAAAAGCAGAATGTTAGCTTGggtcagtcacagcatcctgaggcagtgacactcctttggttgttcccaggg Alignment from CESAR gt---------TTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGg gg gcataaaggtgggacttggatgttacctttcttttcaccttctttactaggtAATTACATATTTAGCAGCCAACAAGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAGGTTTCCTTCAGGCAGCTCAAGAAGCCCTGGGCACCCAGTTAGAAAAGCAGAATGTTAGCTTGggtcagtcacagcatcctgaggcagtgccccccccactcccaccaccaggg Alignment from Spaln_aa2Genome GTTTCAGCAGCCACCAA---------GCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG gcataaaggtgggacttggatgttacctttcttttcaccttctttactagGTAATTACATATTTAGCAGCCAACAAGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAGGTTTCCTTCAGGCAGCTCAAGAAGCCCTGGGCACCCAGTTAGAAAAGCAGAATGTTAGCTTGGgtcagtcacagcatcctgaggcagtgacactcctttggttgttcccagGG Alignment from Spaln_nt2Genome GT---------TTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG gcataaaggtgggacttggatgttacctttcttttcaccttctttactagGTAATTACATATTTAGCAGCCAACAAGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAGGTTTCCTTCAGGCAGCTCAAGAAGCCCTGGGCACCCAGTTAGAAAAGCAGAATGTTAGCTTGGgtcagtcacagcatcctgaggcagtgacactcctttggttgttcccagGG Alignment from Pairagon -------------------------------------------------------------TTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG GCATAAAGGTGGGACTTGGATGTTACCTTTCTTTTCACCTTCTTTACTAGGTAATTACATATTTAGCAGCCAACAAGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAGGTTTCCTTCAGGCAGCTCAAGAAGCCCTGGGCACCCAGTTAGAAAAGCAGAATGTTAGCTTGGgtcagtcacagcatcctgaggcagtgacactcctttggttgttcccagGG Alignment from Exonerate_protein2genome CCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG GG gcataaaggtgggacttggatgttacctttcttttcaccttctttactaggtaattacatatttagcagCCAACAAGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAGGTTTCCTTCAGGCAGCTCAAGAAGCCCTGGGCACCCAGTTAGAAAAGCAGAATGTTAGCTTGGgtcagtcacagcatcctgaggcagtgacactcctttggttgttcccagGG Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise --------GGTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTG------------------------------------------------GGG gcataaaggtgggacttggatgttacctttcttttcaccttctttactagGTAATTACATATTTAGCAGCCAACAAGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTACAAGGTTTCCTTCAGGCAGCTCAAGAAGCCCTGGGCACCCAGTTAGAAAAGCAGAATGTTAGCTTGGGTCAGTCACAGCATCCTGAGGCAGTGACACTCCTTTGGTTGTTCCCAGGG #### Naaladl1_ID1457_16 --> 2 - 2 Original Alignment Gg ggCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTga GggtaaggcacagcatcctgaggcagtgccccccccactcccaccaccagggCCTTTGGTGACGGCAGTAGCAAACTTTAAGGCTGCGGCTGCCTCACTGGGAGAAGACATCCTGACCCTAGGCAAG---------gagtgagtgcctataaatggagcagaggacatgtctcaccaggtatacatgg Alignment from CESAR Gg ggCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTga GggtcagtcacagcatcctgaggcagtgccccccccactcccaccaccagggCCTTTGGTGACGGCAGTAGCAAACTTTAAGGCTGCGGCTGCCTCACTGGGAGAAGACATCCTGACCCTAGGCAAG---------gagtgagtgcctataaatggagcagaggacatgtctcaccaggtatacatgg Alignment from Spaln_aa2Genome GG GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAG GGgtaaggcacagcatcctgaggcagtgccccccccactcccaccaccagGGCCTTTGGTGACGGCAGTAGCAAACTTTAAGGCTGCGGCTGCCTCACTGGGAGAAGACATCCTGACCCTAGGCAAGGAgtgagtgcctataaatggagcagaggacatgtctcaccaggtatacatgg Alignment from Spaln_nt2Genome GG GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA GGgtaaggcacagcatcctgaggcagtgccccccccactcccaccaccagGGCCTTTGGTGACGGCAGTAGCAAACTTTAAGGCTGCGGCTGCCTCACTGGGAGAAGACATCCTGACCCT--AGGCAAGGAG---TGAgtgcctataaatggagcagaggacatgtctcaccaggtataca Alignment from Pairagon GG GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA GGgtaaggcacagcatcctgaggcagtgccccccccactcccaccaccagGGCCTTTGGTGACGGCAGTAGCAAACTTTAAGGCTGCGGCTGCCTCACTGGGAGAAGACATCCTGACCCTAGGCAAG---------GAgtgagtgcctataaatggagcagaggacatgtctcaccaggtatacatgg Alignment from Exonerate_protein2genome GG GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAG GGgtaaggcacagcatcctgaggcagtgccccccccactcccaccaccagGGCCTTTGGTGACGGCAGTAGCAAACTTTAAGGCTGCGGCTGCCTCACTGGGAGAAGACATCCTGACCCTAGGCAAGGAgtgagtgcctataaatggagcagaggacatgtctcaccaggtatacatgg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise G------------------------------------------------GGGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAG GGGTAAGGCACAGCATCCTGAGGCAGTGCCCCCCCCACTCCCACCACCAGGGCCTTTGGTGACGGCAGTAGCAAACTTTAAGGCTGCGGCTGCCTCACTGGGAGAAGACATCCTGACCCTAGGCAAGGAgtgagtgcctataaatggagcagaggacatgtctcaccaggtatacatgg #### Ndufs8_ID193_3 --> 2 - 1 Original Alignment ag---TATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATT---CTGATGTGGACAGAACTCATCCGAg ctgtcactaatctccttttgccattaacttcattcctttttttttttcagagGTGTATGTAAACAAAAAAGAGCAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGggtaggatccagcgcagggccataagtggagaattcaagcagcagtgtggt Alignment from CESAR ag---TATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTG---ATGTGGACAGAACTCATCCGAg ctgtcactaatctccttttgccattaacttcattcctttttttttttcagagGTGTATGTAAACAAAAAAGAGCAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGggtaggatccagcgcagggccataagtggagaattcaagcagcagtgtggt Alignment from Spaln_aa2Genome AG---TATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTG---ATGTGGACAGAACTCATCCGAG ctgtcactaatctccttttgccattaacttcattcctttttttttttcagAGGTGTATGTAAACAAAAAAGAGCAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGGgtaggatccagcgcagggccataagtggagaattcaagcagcagtgtggt Alignment from Spaln_nt2Genome AG---TATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTC---TGATGTGGACAGAACTCATCCGAG ctgtcactaatctccttttgccattaacttcattcctttttttttttcagAGGTGTATGTAAACAAAAAAGAGCAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGGgtaggatccagcgcagggccataagtggagaattcaagcagcagtgtggt Alignment from Pairagon A---GTATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTC---TGATGTGGACAGAACTCATCCGAG ctgtcactaatctccttttgccattaacttcattcctttttttttttcagAGGTGTATGTAAACAAAAAAGAGCAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGGgtaggatccagcgcagggccataagtggagaattcaagcagcagtgtggt Alignment from Exonerate_protein2genome AG---TATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTG---ATGTGGACAGAACTCATCCGAG ctgtcactaatctccttttgccattaacttcattcctttttttttttcagAGGTGTATGTAAACAAAAAAGAGCAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGGgtaggatccagcgcagggccataagtggagaattcaagcagcagtgtggt Alignment from Exonerate_coding2genome AG---TATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTG---ATGTGGACAGAACTCATCCGAG ctgtcactaatctccttttgccattaacttcattcctttttttttttcagAGGTGTATGTAAACAAAAAAGAGCAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGGgtaggatccagcgcagggccataagtggagaattcaagcagcagtgtggt Alignment from GeneWise --AAGTATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTGATG---TGGACAGAACTCATCCGAG ctgtcactaatctccttttgccattaacttcattcctttttttttttcagAGGTGTATGTAAACAAAAAAGAGCAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGGgtaggatccagcgcagggccataagtggagaattcaagcagcagtgtggt #### Ndufv1_ID274_8 --> 0 - 1 Original Alignment ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCGTGCCGTGAGg tgttctagggtgatggccagaatgtccgacaccacaccctttcctggcagGCAGACATTGTGAAAGCCATTGCTCATCTCATTGGGTTTTACAAGTATGAGAGCTGTGGTCAGTGTACCCCA---------ggtatggtataccagtcctctttaagtattgttgtgttgttgtaatgttca Alignment from CESAR ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCGTGCCGTGAGg tgttctagggtgatggccagaatgtccgacaccacaccctttcctggcagGCAGACATTGTGAAAGCCATTGCTCATCTCATTGGGTTTTACAAGTATGAGAGCTGTGGTCAGTGTACCCCA---------ggtatggtataccagtcctctttaagtattgttgtgttgttgtaatgttca Alignment from Spaln_aa2Genome ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCG- tgttctagggtgatggccagaatgtccgacaccacaccctttcctggcagGCAGACATTGTGAAAGCCATTGCTCATCTCATTGGGTTTTACAAGTATGAGAGCTGTGGTCAGTGTACCCCAGgtatggtataccagtcctctttaagtattgttgtgttgttgtaatgttca Alignment from Spaln_nt2Genome ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCC-G tgttctagggtgatggccagaatgtccgacaccacaccctttcctggcagGCAGACATTGTGAAAGCCATTGCTCATCTCATTGGGTTTTACAAGTATGAGAGCTGTGGTCAGTGTACCCCAGgtatggtataccagtcctctttaagtattgttgtgttgttgtaatgttca Alignment from Pairagon ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCGTGCCGTGAGG tgttctagggtgatggccagaatgtccgacaccacaccctttcctggcagGCAGACATTGTGAAAGCCATTGCTCATCTCATTGGGTTTTACAAGTATGAGAGCTGTGGTCAGTGTACCCC---------AGgtatggtataccagtcctctttaagtattgttgtgttgttgtaatgttca Alignment from Exonerate_protein2genome ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCGT tgttctagggtgatggccagaatgtccgacaccacaccctttcctggcagGCAGACATTGTGAAAGCCATTGCTCATCTCATTGGGTTTTACAAGTATGAGAGCTGTGGTCAGTGTACCCCAGgtatggtataccagtcctctttaagtattgttgtgttgttgtaatgttca Alignment from Exonerate_coding2genome ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCGT tgttctagggtgatggccagaatgtccgacaccacaccctttcctggcagGCAGACATTGTGAAAGCCATTGCTCATCTCATTGGGTTTTACAAGTATGAGAGCTGTGGTCAGTGTACCCCAGgtatggtataccagtcctctttaagtattgttgtgttgttgtaatgttca Alignment from GeneWise ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCGT tgttctagggtgatggccagaatgtccgacaccacaccctttcctggcagGCAGACATTGTGAAAGCCATTGCTCATCTCATTGGGTTTTACAAGTATGAGAGCTGTGGTCAGTGTACCCCAGgtatggtataccagtcctctttaagtattgttgtgttgttgtaatgttca #### Ndufv1_ID276_6 --> 2 - 1 Original Alignment gaGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCT------g gacagtgtttaatcatgccctagttaattcttctctggctgcctctgtaggaGTGTTTGGCTGCCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACCATTTGTCGCCGTGGGGGCACCTGGTTTGCCGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCCGTCCCCCTCAAAGAGCTGATTGAGAAACATACTTTCCTGggtgagacttaagcgaactcaaggtcagagcatcagaggggtccttgcaaa Alignment from CESAR gaGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCT------g gacagtgtttaatcatgccctagttaattcttctctggctgcctctgtaggaGTGTTTGGCTGCCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACCATTTGTCGCCGTGGGGGCACCTGGTTTGCCGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCCGTCCCCCTCAAAGAGCTGATTGAGAAACATACTTTCCTGggtgagacttaagcgaactcaaggtcagagcatcagaggggtccttgcaaa Alignment from Spaln_aa2Genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCT------G gacagtgtttaatcatgccctagttaattcttctctggctgcctctgtagGAGTGTTTGGCTGCCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACCATTTGTCGCCGTGGGGGCACCTGGTTTGCCGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCCGTCCCCCTCAAAGAGCTGATTGAGAAACATACTTTCCTGGgtgagacttaagcgaactcaaggtcagagcatcagaggggtccttgcaaa Alignment from Spaln_nt2Genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCT------G gacagtgtttaatcatgccctagttaattcttctctggctgcctctgtagGAGTGTTTGGCTGCCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACCATTTGTCGCCGTGGGGGCACCTGGTTTGCCGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCCGTCCCCCTCAAAGAGCTGATTGAGAAACATACTTTCCTGGgtgagacttaagcgaactcaaggtcagagcatcagaggggtccttgcaaa Alignment from Pairagon GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCT--------------------------------------------------------- gacagtgtttaatcatgccctagttaattcttctctggctgcctctgtagGAGTGTTTGGCTGCCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACCATTTGTCGCCGTGGGGGCACCTGGTTTGCCGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCCGTCCCCCTCAAAGAGCTGATTGAGAAACATACTTTCCTGGGTGAGACTTAAGCGAACTCAAGGTCAGAGCATCAGAGGGGTCCTTGCAAA Alignment from Exonerate_protein2genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCT------G gacagtgtttaatcatgccctagttaattcttctctggctgcctctgtagGAGTGTTTGGCTGCCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACCATTTGTCGCCGTGGGGGCACCTGGTTTGCCGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCCGTCCCCCTCAAAGAGCTGATTGAGAAACATACTTTCCTGGgtgagacttaagcgaactcaaggtcagagcatcagaggggtccttgcaaa Alignment from Exonerate_coding2genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCT------G gacagtgtttaatcatgccctagttaattcttctctggctgcctctgtagGAGTGTTTGGCTGCCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACCATTTGTCGCCGTGGGGGCACCTGGTTTGCCGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCCGTCCCCCTCAAAGAGCTGATTGAGAAACATACTTTCCTGGgtgagacttaagcgaactcaaggtcagagcatcagaggggtccttgcaaa Alignment from GeneWise GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCT------G gacagtgtttaatcatgccctagttaattcttctctggctgcctctgtagGAGTGTTTGGCTGCCCCACAACTGTGGCCAATGTTAAAACAGTGGCTGTGTCCCCCACCATTTGTCGCCGTGGGGGCACCTGGTTTGCCGGCTTTGGCCGGGAACACAATTCAGGCACAAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCCGTCCCCCTCAAAGAGCTGATTGAGAAACATACTTTCCTGGgtgagacttaagcgaactcaaggtcagagcatcagaggggtccttgcaaa #### Ndufv1_ID280_2 --> 0 - 2 Original Alignment ---------ACAGCACCCAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGag g tgtgctgactgcccctctcactgtttaacctggtggggctttgtttacagTACCACTATACAGCACCCAAGAAAACCTCATTTGGCTCGGTGAAGGATGATGACTGTATTTTTACTAATCTCTGTGGGCGCCATGACTGGaggtaattcaaagctatgacctaggcaaatgattggtttcctttttttaaga Alignment from CESAR ---------ACAGCACCCAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGag g tgtgctgactgcccctctcactgtttaacctggtggggctttgtttacagTACCACTATACAGCACCCAAGAAAACCTCATTTGGCTCGGTGAAGGATGATGACTGTATTTTTACTAATCTCTGTGGGCGCCATGACTGGaggtaattcaaagctatgacctaggcaaagggtgggttttgtgccttttaga Alignment from Spaln_aa2Genome CACCCAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGAG G tgtgctgactgcccctctcactgtttaacctggtggggctttgtttacagtaccactatacagCACCCAAGAAAACCTCATTTGGCTCGGTGAAGGATGATGACTGTATTTTTACTAATCTCTGTGGGCGCCATGACTGGAGgtaattcaaagctatgacctaggcaaatgattggtttcctttttttaagA Alignment from Spaln_nt2Genome G--CACGA--CAGCACCCAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGAG G tgtgctgactgcccctctcactgtttaacctggtggggctttgtttacagTACCACTATACAGCACCCAAGAAAACCTCATTTGGCTCGGTGAAGGATGATGACTGTATTTTTACTAATCTCTGTGGGCGCCATGACTGGAGgtaattcaaagctatgacctaggcaaatgattggtttcctttttttaagA Alignment from Pairagon ---------ACAGCACCCAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGAGG------------------------------------------------- tgtgctgactgcccctctcactgtttaacctggtggggctttgtttacagTACCACTATACAGCACCCAAGAAAACCTCATTTGGCTCGGTGAAGGATGATGACTGTATTTTTACTAATCTCTGTGGGCGCCATGACTGGAGGTAATTCAAAGCTATGACCTAGGCAAATGATTGGTTTCCTTTTTTTAAGA Alignment from Exonerate_protein2genome ACAGCACCCAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGAG G tgtgctgactgcccctctcactgtttaacctggtggggctttgtttacagtaccactatACAGCACCCAAGAAAACCTCATTTGGCTCGGTGAAGGATGATGACTGTATTTTTACTAATCTCTGTGGGCGCCATGACTGGAGgtaattcaaagctatgacctaggcaaatgattggtttcctttttttaagA Alignment from Exonerate_coding2genome ACAGCACCCAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGAG G tgtgctgactgcccctctcactgtttaacctggtggggctttgtttacagtaccactatACAGCACCCAAGAAAACCTCATTTGGCTCGGTGAAGGATGATGACTGTATTTTTACTAATCTCTGTGGGCGCCATGACTGGAGgtaattcaaagctatgacctaggcaaatgattggtttcctttttttaagA Alignment from GeneWise CACCCAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGAG G tgtgctgactgcccctctcactgtttaacctggtggggctttgtttacagtaccactatacagCACCCAAGAAAACCTCATTTGGCTCGGTGAAGGATGATGACTGTATTTTTACTAATCTCTGTGGGCGCCATGACTGGAGgtaattcaaagctatgacctaggcaaatgattggtttcctttttttaagA #### Nfkb2_ID9824_2 --> 0 - 1 Original Alignment ---------------------------------------GGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAg catcaattgatcccttgataccgctaccgtcactgttttatttctggcagTCCAGGCCAGTGGTGTTACTGCAACATATGGTGGTCTACGGGCTGGATGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACGATAGTAGAACCTAATGATCCAGCCCCTGAAACAggtaagtaaatatatggagaaactattgtgttgttgcacttcaattgaaga Alignment from CESAR taaaggaataggcagcagcagcaagcagcctcaggccaaaagaattagctg Alignment from Spaln_aa2Genome GACAATTGCTACGATCCAGGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG catcaattgatcccttgataccgctaccgtcactgttttatttctggcagtccaggccagtggtgttactgcaacatATGGTGGTCTAC------GGGCTGGATGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACGATAGTAGAACCTAATGATCCAGCCCCTGAAACAGgtaagtaaatatatggagaaactattgtgttgttgcacttcaattgaaga Alignment from Spaln_nt2Genome GGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG catcaattgatcccttgataccgctaccgtcactgttttatttctggcagtccaggccagtggtgttactgcaacatatggtggtctacGGGCTGGATGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACGATAGTAGAACCTAATGATCCAGCCCCTGAAACAGgtaagtaaatatatggagaaactattgtgttgttgcacttcaattgaaga Alignment from Pairagon TCCAGGC-----------------------------------CTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG catcaattgatcccttgataccgctaccgtcactgttttatttctggcagTCCAGGCCAGTGGTGTTACTGCAACATATGGTGGTCTACGGGCTGGATGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACGATAGTAGAACCTAATGATCCAGCCCCTGAAACAGgtaagtaaatatatggagaaactattgtgttgttgcacttcaattgaaga Alignment from Exonerate_protein2genome GGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG catcaattgatcccttgataccgctaccgtcactgttttatttctggcagtccaggccagtggtgttactgcaacatatggtggtctacGGGCTGGATGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACGATAGTAGAACCTAATGATCCAGCCCCTGAAACAGgtaagtaaatatatggagaaactattgtgttgttgcacttcaattgaaga Alignment from Exonerate_coding2genome GGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG catcaattgatcccttgataccgctaccgtcactgttttatttctggcagtccaggccagtggtgttactgcaacatatggtggtctacGGGCTGGATGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACGATAGTAGAACCTAATGATCCAGCCCCTGAAACAGgtaagtaaatatatggagaaactattgtgttgttgcacttcaattgaaga Alignment from GeneWise GACAATTGCTACGATCCAGGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG catcaattgatcccttgataccgctaccgtcactgttttatttctggcagtccaggccagtggtgttactgCAACATATGGTGGTCTACGGGCTGGATGGAATCCCAGATTATGAGGATTTTGAATTCAGCCCAACGATAGTAGAACCTAATGATCCAGCCCCTGAAACAGgtaagtaaatatatggagaaactattgtgttgttgcacttcaattgaaga #### Nfkb2_ID9828_6 --> 1 - 1 Original Alignment aTTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAg agtatagaagaatagagatcatccagaagcttttgactttgatttcacaga------------------------------------AACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTGGCTggtaagacactccaaggtgtcttgggtggtgctcttaaataggctgtaaag Alignment from CESAR aTTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAg gaggtgcctcaggagagatcatccagaagcttttgactttgatttcacaga------------------------------------AACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTGGCTggtaagacactccaaggtgtcttgggtggtgctcttaaataggctgtaaag Alignment from Spaln_aa2Genome GAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG agtatagaagaatagagatcatccagaagcttttgactttgatttcacagAAACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTGGCTGgtaagacactccaaggtgtcttgggtggtgctcttaaataggctgtaaag Alignment from Spaln_nt2Genome AGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG agtatagaagaatagagatcatccagaagcttttgactttgatttcacagA-AACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTGGCTGgtaagacactccaaggtgtcttgggtggtgctcttaaataggctgtaaag Alignment from Pairagon ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG agtatagaagaatagagatcatccagaagcttttgactttgatttcacagA------------------------------------AACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTGGCTGgtaagacactccaaggtgtcttgggtggtgctcttaaataggctgtaaag Alignment from Exonerate_protein2genome C---ATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG agtatagaagaatagagatcatccagaagcttttgactttgatttcacagAAACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTGGCTGgtaagacactccaaggtgtcttgggtggtgctcttaaataggctgtaaag Alignment from Exonerate_coding2genome C---ATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG agtatagaagaatagagatcatccagaagcttttgactttgatttcacagAAACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTGGCTGgtaagacactccaaggtgtcttgggtggtgctcttaaataggctgtaaag Alignment from GeneWise ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG agtatagaagaatagagatcatccagaagcttttgactttgatttcacagA------------------------------------AACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTGGCTGgtaagacactccaaggtgtcttgggtggtgctcttaaataggctgtaaag #### Nfkb2_ID9829_7 --> 2 - 1 Original Alignment ag------GCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCa aggctgtaaagagcaacttatcgcttgcttttctcttgtcctctgggtagagGTAAAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCCAGTGATGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCTCAGCCAATCCATGACAGCagtaagtccggcacacactgataagagttcaggtaagagatctgatcctag Alignment from CESAR ag------GCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCa aggctgtaaagagcaacttatcgcttgcttttctcttgtcctctgggtagagGTAAAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCCAGTGATGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCTCAGCCAATCCATGACAGCagtaagtccggcacacactgataagagttcaggtaagagatctgatcctag Alignment from Spaln_aa2Genome ACAGAGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA aggctgtaaagagcaacttatcgcttgcttttctcttgtcctctgggtagagGTAAAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCCAGTGATGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCTCAGCCAATCCATGACAGCAgtaagtccggcacacactgataagagttcaggtaagagatctgatcctag Alignment from Spaln_nt2Genome AGG------CTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA aggctgtaaagagcaacttatcgcttgcttttctcttgtcctctgggtagAGGTAAAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCCAGTGATGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCTCAGCCAATCCATGACAGCAgtaagtccggcacacactgataagagttcaggtaagagatctgatcctag Alignment from Pairagon ------------------------------------------------------AGAGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA AGGCTGTAAAGAGCAACTTATCGCTTGCTTTTCTCTTGTCCTCTGGGTAGAGGTAAAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCCAGTGATGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCTCAGCCAATCCATGACAGCAgtaagtccggcacacactgataagagttcaggtaagagatctgatcctag Alignment from Exonerate_protein2genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA aggctgtaaagagcaacttatcgcttgcttttctcttgtcctctgggtagaggtaaAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCCAGTGATGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCTCAGCCAATCCATGACAGCAgtaagtccggcacacactgataagagttcaggtaagagatctgatcctag Alignment from Exonerate_coding2genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA aggctgtaaagagcaacttatcgcttgcttttctcttgtcctctgggtagaggtaaAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCCAGTGATGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCTCAGCCAATCCATGACAGCAgtaagtccggcacacactgataagagttcaggtaagagatctgatcctag Alignment from GeneWise -----GAGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA aggctgtaaagagcaacttatcgcttgcttttctcttgtcctctgggtagAGGTAAAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTTATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCCAGTGATGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCTCAGCCAATCCATGACAGCAgtaagtccggcacacactgataagagttcaggtaagagatctgatcctag #### Nfkb2_ID9831_9 --> 2 - 0 Original Alignment ac---GACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG agacatcacttgcccctgccatatgactagacgttaactctgcatggcagatCTGGACATCGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTTGGGGACTTCTCTCCCACAGATGTTTATAAACAGgtaaggcaacctaattcatattccccctcttcagtgaaaacatgctggcc Alignment from CESAR ac---GACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG agacatcacttgcccctgccatatgactagacgttaactctgcatggcagatCTGGACATCGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTTGGGGACTTCTCTCCCACAGATGTTTATAAACAGgtaaggcaacctaattcatattccccctcttcagtgaaaacatgctggcc Alignment from Spaln_aa2Genome AC---GACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG agacatcacttgcccctgccatatgactagacgttaactctgcatggcagATCTGGACATCGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTTGGGGACTTCTCTCCCACAGATGTTTATAAACAGgtaaggcaacctaattcatattccccctcttcagtgaaaacatgctggcc Alignment from Spaln_nt2Genome AC---GACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG agacatcacttgcccctgccatatgactagacgttaactctgcatggcagATCTGGACATCGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTTGGGGACTTCTCTCCCACAGATGTTTATAAACAGgtaaggcaacctaattcatattccccctcttcagtgaaaacatgctggcc Alignment from Pairagon AC---------------------------------------------------GACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG agACATCACTTGCCCCTGCCATATGACTAGACGTTAACTCTGCATGGCAGATCTGGACATCGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTTGGGGACTTCTCTCCCACAGATGTTTATAAACAGgtaaggcaacctaattcatattccccctcttcagtgaaaacatgctggcc Alignment from Exonerate_protein2genome AC---GACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG agacatcacttgcccctgccatatgactagacgttaactctgcatggcagATCTGGACATCGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTTGGGGACTTCTCTCCCACAGATGTTTATAAACAGgtaaggcaacctaattcatattccccctcttcagtgaaaacatgctggcc Alignment from Exonerate_coding2genome AC---GACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG agacatcacttgcccctgccatatgactagacgttaactctgcatggcagATCTGGACATCGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTTGGGGACTTCTCTCCCACAGATGTTTATAAACAGgtaaggcaacctaattcatattccccctcttcagtgaaaacatgctggcc Alignment from GeneWise --GACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG agacatcacttgcccctgccatatgactagacgttaactctgcatggcagATCTGGACATCGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTTGGGGACTTCTCTCCCACAGATGTTTATAAACAGgtaaggcaacctaattcatattccccctcttcagtgaaaacatgctggcc #### Nfkb2_ID9833_11 --> 2 - 1 Original Alignment acAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAg gcacttgtctgtatttattaagttttgaggttttttttgttcttttgcagacAAGGAGGAA------AGTAAGAGGAGGAAGGCCTTGCCCACCTTCTCTCAGCCCTTTGGAGGTGGAACCCATATGGGTGGACGT---------------------------------------ggtgatgaagcacaaatgacaggggaaaggaaggagaatgcttcagttcta Alignment from CESAR acAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAg gcacttgtctgtatttattaagttttgaggttttttttgttcttttgcagacAAGGAGGAA------AGTAAGAGGAGGAAGGCCTTGCCCACCTTCTCTCAGCCCTTTGGAGGTGGAACCCATATGGGTGGACGT---------------------------------------ggtgatgaagcacaaatgacaggggaaaggaaggagaatgcttcagttcta Alignment from Spaln_aa2Genome ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG gcacttgtctgtatttattaagttttgaggttttttttgttcttttgcagACAAGGAGGAA------AGTAAGAGGAGGAAGGCCTTGCCCACCTTCTCTCAGCCCTTTGGAGGTGGAACCCATATGGGTGGACGT---GGTGATGAAGCACAAATGACAGGGGAAAGGAAGGAGAatgcttcagttcta Alignment from Spaln_nt2Genome ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGG--GCTCCGCTG---GGGGTTATGGAGGCGCTGGAGGAG gcacttgtctgtatttattaagttttgaggttttttttgttcttttgcagACAAGGAGGAA------AGTAAGAGGAGGAAGGCCTTGCCCACCTTCTCTCAGCCCTTTGGAGGTGGAACCCATATGGGTGGACGTGGTGATGAAGCACAAATGACAGGGGAAAGGAAGGAGAATGCTTCAgttcta Alignment from Pairagon ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG gcacttgtctgtatttattaagttttgaggttttttttgttcttttgcagACAAGGAGGAA------AGTAAGAGGAGGAAGGCCTTGCCCACCTTCTCTCAGCCCTTTGGAGGTGGAACCCATATGGGTGGACGT---------------------------------------Ggtgatgaagcacaaatgacaggggaaaggaaggagaatgcttcagttcta Alignment from Exonerate_protein2genome ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTT gcacttgtctgtatttattaagttttgaggttttttttgttcttttgcagACAAGGAGGAA------AGTAAGAGGAGGAAGGCCTTGCCCACCTTCTCTCAGCCCTTTGGAGGTGGAACCCATATGGGTGGACGTGgtgatgaagcacaaatgacaggggaaaggaaggagaatgcttcagttcta Alignment from Exonerate_coding2genome ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTT gcacttgtctgtatttattaagttttgaggttttttttgttcttttgcagACAAGGAGGAA------AGTAAGAGGAGGAAGGCCTTGCCCACCTTCTCTCAGCCCTTTGGAGGTGGAACCCATATGGGTGGACGTGgtgatgaagcacaaatgacaggggaaaggaaggagaatgcttcagttcta Alignment from GeneWise ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGA---GGTTCTGGGGGCTCCGCTGGGGGT--------------------------- gcacttgtctgtatttattaagttttgaggttttttttgttcttttgcagACAAGGAGGAA------AGTAAGAGGAGGAAGGCCTTGCCCACCTTCTCTCAGCCCTTTGGAGGTGGAACCCATATGGGTGGACGTGGTGATGAAGCACAAATGACAGGGGAAAGGAAGGAGAATGCTTCAGTTCTA #### Nfkb2_ID9838_16 --> 2 - 0 Original Alignment ga---CTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG cagagaagccacttaggatgattaccacacttctgttgtgtgctcttaaggaAAGCTATACCCTGTGCACCTGGCAGTACATGCGCGGAGCCCTGAATGTCTGGACCTCTTAGTTGACTGCGGAGCTGTAGTGGAGGCTCCAGGGAGGCAGGGGGGCCGAAATGCCTTGCGCCTGGCAACAGAGATGGAAGAATTGGGGCTGGTTGCCCATTTAGTCACCAAGgtaacaattcaactgtgtggactatgaatggggtaagataatagatgctg Alignment from CESAR ga---CTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG cagagaagccacttaggatgattaccacacttctgttgtgtgctcttaaggaAAGCTATACCCTGTGCACCTGGCAGTACATGCGCGGAGCCCTGAATGTCTGGACCTCTTAGTTGACTGCGGAGCTGTAGTGGAGGCTCCAGGGAGGCAGGGGGGCCGAAATGCCTTGCGCCTGGCAACAGAGATGGAAGAATTGGGGCTGGTTGCCCATTTAGTCACCAAGgtaacaattcaactgtgtggactatgaatggggtaagataatagatgctg Alignment from Spaln_aa2Genome GA---CTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG cagagaagccacttaggatgattaccacacttctgttgtgtgctcttaagGAAAGCTATACCCTGTGCACCTGGCAGTACATGCGCGGAGCCCTGAATGTCTGGACCTCTTAGTTGACTGCGGAGCTGTAGTGGAGGCTCCAGGGAGGCAGGGGGGCCGAAATGCCTTGCGCCTGGCAACAGAGATGGAAGAATTGGGGCTGGTTGCCCATTTAGTCACCAAGgtaacaattcaactgtgtggactatgaatggggtaagataatagatgctg Alignment from Spaln_nt2Genome GACTATACCCT---GTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG cagagaagccacttaggatgattaccacacttctgttgtgtgctcttaagGAAAGCTATACCCTGTGCACCTGGCAGTACATGCGCGGAGCCCTGAATGTCTGGACCTCTTAGTTGACTGCGGAGCTGTAGTGGAGGCTCCAGGGAGGCAGGGGGGCCGAAATGCCTTGCGCCTGGCAACAGAGATGGAAGAATTGGGGCTGGTTGCCCATTTAGTCACCAAGgtaacaattcaactgtgtggactatgaatggggtaagataatagatgctg Alignment from Pairagon GA---CTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG cagagaagccacttaggatgattaccacacttctgttgtgtgctcttaagGAAAGCTATACCCTGTGCACCTGGCAGTACATGCGCGGAGCCCTGAATGTCTGGACCTCTTAGTTGACTGCGGAGCTGTAGTGGAGGCTCCAGGGAGGCAGGGGGGCCGAAATGCCTTGCGCCTGGCAACAGAGATGGAAGAATTGGGGCTGGTTGCCCATTTAGTCACCAAGgtaacaattcaactgtgtggactatgaatggggtaagataatagatgctg Alignment from Exonerate_protein2genome GA---CTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG cagagaagccacttaggatgattaccacacttctgttgtgtgctcttaagGAAAGCTATACCCTGTGCACCTGGCAGTACATGCGCGGAGCCCTGAATGTCTGGACCTCTTAGTTGACTGCGGAGCTGTAGTGGAGGCTCCAGGGAGGCAGGGGGGCCGAAATGCCTTGCGCCTGGCAACAGAGATGGAAGAATTGGGGCTGGTTGCCCATTTAGTCACCAAGgtaacaattcaactgtgtggactatgaatggggtaagataatagatgctg Alignment from Exonerate_coding2genome GA---CTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG cagagaagccacttaggatgattaccacacttctgttgtgtgctcttaagGAAAGCTATACCCTGTGCACCTGGCAGTACATGCGCGGAGCCCTGAATGTCTGGACCTCTTAGTTGACTGCGGAGCTGTAGTGGAGGCTCCAGGGAGGCAGGGGGGCCGAAATGCCTTGCGCCTGGCAACAGAGATGGAAGAATTGGGGCTGGTTGCCCATTTAGTCACCAAGgtaacaattcaactgtgtggactatgaatggggtaagataatagatgctg Alignment from GeneWise --GGACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG cagagaagccacttaggatgattaccacacttctgttgtgtgctcttaagGAAAGCTATACCCTGTGCACCTGGCAGTACATGCGCGGAGCCCTGAATGTCTGGACCTCTTAGTTGACTGCGGAGCTGTAGTGGAGGCTCCAGGGAGGCAGGGGGGCCGAAATGCCTTGCGCCTGGCAACAGAGATGGAAGAATTGGGGCTGGTTGCCCATTTAGTCACCAAGgtaacaattcaactgtgtggactatgaatggggtaagataatagatgctg #### Nfkb2_ID9842_20 --> 2 - 0 Original Alignment gg---CCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG acatgctcctgcatgtacattagactacttgatgtcttctttccccacagggATGCCAGGCCTGTCCCTAGGGGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGACGGTCCTGAAGCGCAAGGTAGCTGGGCAAAGCTAGCAGAGCGTCTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCATCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtatgacagttagacactatgctgaggcctcaatcagtcccacctcctgg Alignment from CESAR gg---CCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG acatgctcctgcatgtacattagactacttgatgtcttctttccccacagggATGCCAGGCCTGTCCCTAGGGGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGACGGTCCTGAAGCGCAAGGTAGCTGGGCAAAGCTAGCAGAGCGTCTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCATCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtatgacagttagacactatgctgaggcctcaatcacctcctttctctgc Alignment from Spaln_aa2Genome GGCCAGGGCTGTCC---CTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG acatgctcctgcatgtacattagactacttgatgtcttctttccccacagGGATGCCAGGCCTGTCCCTAGGGGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGACGGTCCTGAAGCGCAAGGTAGCTGGGCAAAGCTAGCAGAGCGTCTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCATCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtatgacagttagacactatgctgaggcctcaatcagtcccacctcctgg Alignment from Spaln_nt2Genome GG---CCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG acatgctcctgcatgtacattagactacttgatgtcttctttccccacagGGATGCCAGGCCTGTCCCTAGGGGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGACGGTCCTGAAGCGCAAGGTAGCTGGGCAAAGCTAGCAGAGCGTCTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCATCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtatgacagttagacactatgctgaggcctcaatcagtcccacctcctgg Alignment from Pairagon G---GCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG acatgctcctgcatgtacattagactacttgatgtcttctttccccacagGGATGCCAGGCCTGTCCCTAGGGGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGACGGTCCTGAAGCGCAAGGTAGCTGGGCAAAGCTAGCAGAGCGTCTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCATCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtatgacagttagacactatgctgaggcctcaatcagtcccacctcctgg Alignment from Exonerate_protein2genome GG---CCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG acatgctcctgcatgtacattagactacttgatgtcttctttccccacagGGATGCCAGGCCTGTCCCTAGGGGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGACGGTCCTGAAGCGCAAGGTAGCTGGGCAAAGCTAGCAGAGCGTCTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCATCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtatgacagttagacactatgctgaggcctcaatcagtcccacctcctgg Alignment from Exonerate_coding2genome GG---CCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG acatgctcctgcatgtacattagactacttgatgtcttctttccccacagGGATGCCAGGCCTGTCCCTAGGGGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGACGGTCCTGAAGCGCAAGGTAGCTGGGCAAAGCTAGCAGAGCGTCTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCATCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtatgacagttagacactatgctgaggcctcaatcagtcccacctcctgg Alignment from GeneWise --GGGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG acatgctcctgcatgtacattagactacttgatgtcttctttccccacagGGATGCCAGGCCTGTCCCTAGGGGATACAGCCCTCCAAAACTTGCAGCAACTGTTAGACGGTCCTGAAGCGCAAGGTAGCTGGGCAAAGCTAGCAGAGCGTCTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCATCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtatgacagttagacactatgctgaggcctcaatcagtcccacctcctgg #### Nmrk1_ID4439_5 --> 1 - 2 Original Alignment g---------CCTCTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGag gggaaatgggaggaacattgtcttgggctcttaacatgatgttctccaagaGATCGAGCACTTCTGGATACAATATGGAATAGGAGTTACTGCCTAACCGTTCAATATGACCAATGCAAGAGGAGAAGGaggtgagattggagactgactgtgaattgtaagcaggatcatgacccttaag Alignment from CESAR g---------CCTCTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGag gggaaatgggaggaacattgtcttgggctcttaacatgatgttctccaagaGATCGAGCACTTCTGGATACAATATGGAATAGGAGTTACTGCCTAACCGTTCAATATGACCAATGCAAGAGGAGAAGGaggtgagattggagactgactgtgaattgtaagcaggatcatgacccttaag Alignment from Spaln_aa2Genome CT---CTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGAG gggaaatgggaggaacattgtcttgggctcttaacatgatgttctccaagagatcgagCACTTCTGGATACAATATGGAATAGGAGTTACTGCCTAACCGTTCAATATGACCAATGCAAGAGGAGAAGGAGgtgagattggagactgactgtgaattgtaagcaggatcatgacccttaag Alignment from Spaln_nt2Genome GCCT-CTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGAG gggaaatgggaggaacattgtcttgggctcttaacatgatgttctccaagagatcgagCACTTCTGGATACAATATGGAATAGGAGTTACTGCCTAACCGTTCAATATGACCAATGCAAGAGGAGAAGGAGgtgagattggagactgactgtgaattgtaagcaggatcatgacccttaag Alignment from Pairagon ---------GCCTCTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGAG gggaaatgggaggaacattgtcttgggctcttaacatgatgttctccaagAGATCGAGCACTTCTGGATACAATATGGAATAGGAGTTACTGCCTAACCGTTCAATATGACCAATGCAAGAGGAGAAGGAGgtgagattggagactgactgtgaattgtaagcaggatcatgacccttaag Alignment from Exonerate_protein2genome ATAAGCCT---CTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGAG gggaaatgggaggaacattgtcttgggctcttaacatgatgttctccaagagATCGAGCACTTCTGGATACAATATGGAATAGGAGTTACTGCCTAACCGTTCAATATGACCAATGCAAGAGGAGAAGGAGgtgagattggagactgactgtgaattgtaagcaggatcatgacccttaag Alignment from Exonerate_coding2genome ATAAGCCT---CTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGAG gggaaatgggaggaacattgtcttgggctcttaacatgatgttctccaagagATCGAGCACTTCTGGATACAATATGGAATAGGAGTTACTGCCTAACCGTTCAATATGACCAATGCAAGAGGAGAAGGAGgtgagattggagactgactgtgaattgtaagcaggatcatgacccttaag Alignment from GeneWise --CCTCTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGAG gggaaatgggaggaacattgtcttgggctcttaacatgatgttctccaagagatcgagCACTTCTGGATACAATATGGAATAGGAGTTACTGCCTAACCGTTCAATATGACCAATGCAAGAGGAGAAGGAGgtgagattggagactgactgtgaattgtaagcaggatcatgacccttaag #### Noc3l_ID7659_16 --> 2 - 1 Original Alignment gt---------GATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAg ttggtctccctttcatttcactaaattttcttcttctatgctgatttcaggaTCTCCATCTGATGATTTGAATATTGACCCCATGAAATTTTATACCCCACTATTTCAGACACTATTTACATTGCATGCAggtaggacattgtagcttagagcctttttcttcagtggtggccagtattaa Alignment from CESAR gt---------GATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAg ttggtctccctttcatttcactaaattttcttcttctatgctgatttcaggaTCTCCATCTGATGATTTGAATATTGACCCCATGAAATTTTATACCCCACTATTTCAGACACTATTTACATTGCATGCAggtaggacattgtagcttagagcctttttcttcagtggtggccagtattaa Alignment from Spaln_aa2Genome GT---------GATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG ttggtctccctttcatttcactaaattttcttcttctatgctgatttcagGATCTCCATCTGATGATTTGAATATTGACCCCATGAAATTTTATACCCCACTATTTCAGACACTATTTACATTGCATGCAGgtaggacattgtagcttagagcctttttcttcagtggtggccagtattaa Alignment from Spaln_nt2Genome GTGATGTTTTAAATA---------TTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG ttggtctccctttcatttcactaaattttcttcttctatgctgatttcagGATCTCCATCTGATGATTTGAATATTGACCCCATGAAATTTTATACCCCACTATTTCAGACACTATTTACATTGCATGCAGgtaggacattgtagcttagagcctttttcttcagtggtggccagtattaa Alignment from Pairagon ------------------------------------------------------------TGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG TTGGTCTCCCTTTCATTTCACTAAATTTTCTTCTTCTATGCTGATTTCAGGATCTCCATCTGATGATTTGAATATTGACCCCATGAAATTTTATACCCCACTATTTCAGACACTATTTACATTGCATGCAGgtaggacattgtagcttagagcctttttcttcagtggtggccagtattaa Alignment from Exonerate_protein2genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG ttggtctccctttcatttcactaaattttcttcttctatgctgatttcaggatctccatCTGATGATTTGAATATTGACCCCATGAAATTTTATACCCCACTATTTCAGACACTATTTACATTGCATGCAGgtaggacattgtagcttagagcctttttcttcagtggtggccagtattaa Alignment from Exonerate_coding2genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG ttggtctccctttcatttcactaaattttcttcttctatgctgatttcaggatctccatCTGATGATTTGAATATTGACCCCATGAAATTTTATACCCCACTATTTCAGACACTATTTACATTGCATGCAGgtaggacattgtagcttagagcctttttcttcagtggtggccagtattaa Alignment from GeneWise --------GGTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG ttggtctccctttcatttcactaaattttcttcttctatgctgatttcagGATCTCCATCTGATGATTTGAATATTGACCCCATGAAATTTTATACCCCACTATTTCAGACACTATTTACATTGCATGCAGgtaggacattgtagcttagagcctttttcttcagtggtggccagtattaa #### Noc3l_ID7660_15 --> 0 - 1 Original Alignment GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAA---------------g gggatagaaagcatgcagttttgttcctgacacaatgcgtttttttccagGAACTTAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACCATTTGTCCCTTCTTGTggtaagcagtccatttggtctccctttcatttcactaaatttcctgtcttc Alignment from CESAR GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAA---------------g gggatagaaagcatgcagttttgttcctgacacaatgcgtttttttccagGAACTTAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACCATTTGTCCCTTCTTGTggtaagcagtccatttggtctccctttcatttcactaaatttcacccctct Alignment from Spaln_aa2Genome GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAA---------------G gggatagaaagcatgcagttttgttcctgacacaatgcgtttttttccagGAACTTAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACCATTTGTCCCTTCTTGTGgtaagcagtccatttggtctccctttcatttcactaaatttcctgtcttc Alignment from Spaln_nt2Genome GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG-- gggatagaaagcatgcagttttgttcctgacacaatgcgtttttttccagGAACTTAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACCATTTgtcccttcttgtggtaagcagtccatttggtctccctttcatttcactaaatttcctgtcttc Alignment from Pairagon GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACA------------------------------------------------------------------- gggatagaaagcatgcagttttgttcctgacacaatgcgtttttttccagGAACTTAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACCATTTGTCCCTTCTTGTGGTAAGCAGTCCATTTGGTCTCCCTTTCATTTCACTAAATTTCCTGTCTTC Alignment from Exonerate_protein2genome GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG gggatagaaagcatgcagttttgttcctgacacaatgcgtttttttccagGAACTTAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACCATttgtcccttcttgtggtaagcagtccatttggtctccctttcatttcactaaatttcctgtcttc Alignment from Exonerate_coding2genome GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG gggatagaaagcatgcagttttgttcctgacacaatgcgtttttttccagGAACTTAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACCATttgtcccttcttgtggtaagcagtccatttggtctccctttcatttcactaaatttcctgtcttc Alignment from GeneWise GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAA------------------------------------------------------------------ gggatagaaagcatgcagttttgttcctgacacaatgcgtttttttccagGAACTTAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACCATTTGTCCCTTCTTGTGGTAAGCAGTCCATTTGGTCTCCCTTTCATTTCACTAAATTTCCTGTCTTC #### Npas4_ID775_6 --> 2 - 2 Original Alignment tg---GCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCag gtggatggcctggtagcacttgaggtgtgccctctccttcatgtctctagttATTGCTGAAAGTGGAGATATCCAGGCTGAGATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGGCCAGAAGGACCTTTTACTGCCAATAATTACCCTAATaggtgagatgggagccaccagatgatgacaacagctgtgtttggtttaagaa Alignment from CESAR tg---GCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCag gtggatggcctggtagcacttgaggtgtgccctctccttcatgtctctagttATTGCTGAAAGTGGAGATATCCAGGCTGAGATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGGCCAGAAGGACCTTTTACTGCCAATAATTACCCTAATaggtgagatgggagccaccagatgatgacaacagctgtgtttggtttaagaa Alignment from Spaln_aa2Genome TG---GCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtggatggcctggtagcacttgaggtgtgccctctccttcatgtctctagTTATTGCTGAAAGTGGAGATATCCAGGCTGAGATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGGCCAGAAGGACCTTTTACTGCCAATAATTACCCTAATAGgtgagatgggagccaccagatgatgacaacagctgtgtttggtttaagaa Alignment from Spaln_nt2Genome -----GCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtggatggcctggtagcacttgaggtgtgccctctccttcatgtctctagTTATTGCTGAAAGTGGAGATATCCAGGCTGAGATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGGCCAGAAGGACCTTTTACTGCCAATAATTACCCTAATAGgtgagatgggagccaccagatgatgacaacagctgtgtttggtttaagaa Alignment from Pairagon ---TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtggatggcctggtagcacttgaggtgtgccctctccttcatgtctctagTTATTGCTGAAAGTGGAGATATCCAGGCTGAGATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGGCCAGAAGGACCTTTTACTGCCAATAATTACCCTAATAGgtgagatgggagccaccagatgatgacaacagctgtgtttggtttaagaa Alignment from Exonerate_protein2genome TG---GCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtggatggcctggtagcacttgaggtgtgccctctccttcatgtctctagTTATTGCTGAAAGTGGAGATATCCAGGCTGAGATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGGCCAGAAGGACCTTTTACTGCCAATAATTACCCTAATAGgtgagatgggagccaccagatgatgacaacagctgtgtttggtttaagaa Alignment from Exonerate_coding2genome TG---GCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtggatggcctggtagcacttgaggtgtgccctctccttcatgtctctagTTATTGCTGAAAGTGGAGATATCCAGGCTGAGATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGGCCAGAAGGACCTTTTACTGCCAATAATTACCCTAATAGgtgagatgggagccaccagatgatgacaacagctgtgtttggtttaagaa Alignment from GeneWise --TTGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtggatggcctggtagcacttgaggtgtgccctctccttcatgtctctagTTATTGCTGAAAGTGGAGATATCCAGGCTGAGATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGGCCAGAAGGACCTTTTACTGCCAATAATTACCCTAATAGgtgagatgggagccaccagatgatgacaacagctgtgtttggtttaagaa #### Npas4_ID776_5 --> 1 - 1 Original Alignment tGTCCTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCCGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGt atgaggctatatggaggttgaatggcttctgatttcccactctgctccagt------ATCTACCTTGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTACTACACCCTGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGcgtaagccttagtttctagtaggtcgtagcagtattctcatgaatctcata Alignment from CESAR tGTCCTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCCGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGt gagtggatgaggctatatggaggttcttctgatttcccactctgctccagt------ATCTACCTTGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTACTACACCCTGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGcgtaagccttagtttctagtaggtcgtagcagtattctcatgaatctcata Alignment from Spaln_aa2Genome TGTCCTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCCGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGT atgaggctatatggaggttgaatggcttctgatttcccactctgctccagT------ATCTACCTTGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTACTACACCCTGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGCgtaagccttagtttctagtaggtcgtagcagtattctcatgaatctcata Alignment from Spaln_nt2Genome TGTCCTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCCGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGT atgaggctatatggaggttgaatggcttctgatttcccactctgctccagT------ATCTACCTTGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTACTACACCCTGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGCgtaagccttagtttctagtaggtcgtagcagtattctcatgaatctcata Alignment from Pairagon TGTCCTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCCGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGT atgaggctatatggaggttgaatggcttctgatttcccactctgctccagT------ATCTACCTTGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTACTACACCCTGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGCgtaagccttagtttctagtaggtcgtagcagtattctcatgaatctcata Alignment from Exonerate_protein2genome TGTCCTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCCGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGT atgaggctatatggaggttgaatggcttctgatttcccactctgCTCCAGTATCTACCTTGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTACTACACCCTGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGCgtaagccttagtttctagtaggtcgtagcagtattctcatgaatctcata Alignment from Exonerate_coding2genome TGTCCTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCCGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGT atgaggctatatggaggttgaatggcttctgatttcccactctgCTCCAGTATCTACCTTGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTACTACACCCTGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGCgtaagccttagtttctagtaggtcgtagcagtattctcatgaatctcata Alignment from GeneWise TGTCCTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCCGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGT atgaggctatatggaggttgaatggcttctgatttcccactctgctccagT------ATCTACCTTGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTACTACACCCTGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGCgtaagccttagtttctagtaggtcgtagcagtattctcatgaatctcata #### Npas4_ID777_4 --> 2 - 2 Original Alignment atCGCCTTTTCCGTTGTCGATTCAACACCTCCAAGTCCCTCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAAag gtatctggtctttaataccctttttctttttgtttgctttttttctttagat---------CATTGCCGATTCAATGCTTCAAAGTCCCTCCGACGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAGTTCCATGCCCTCCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTTTGCACACCCCCAAAGCCAAGACCCCGC------CCTGGTCCTGGGCCTGGCTCAGGTCCTGCTTCTCTTTTCTTGGCCATGTTTCAGAGTCGGCATGCGAAGGACTTAGCCCTACTGGATGTTTCTGAGaggcaaggcttaagcaggatgcaggaaaaaagggcacactatattcacaatt Alignment from CESAR atCGCCTTTTCCGTTGTCGATTCAACACCTCCAAGTCCCTCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAAag ctgcccttagtatctggtctttaatctttttgtttgctttttttctttagat---------CATTGCCGATTCAATGCTTCAAAGTCCCTCCGACGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAGTTCCATGCCCTCCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTTTGCACACCCCCAAAGCCAAGACCCCGCCCT------GGTCCTGGGCCTGGCTCAGGTCCTGCTTCTCTTTTCTTGGCCATGTTTCAGAGTCGGCATGCGAAGGACTTAGCCCTACTGGATGTTTCTGAGaggcaaggcttaagcaggatgcaggaaaaaagggcacactatattcacaatt Alignment from Spaln_aa2Genome ATCGCCTTTTCCGTTGTCGATTCAACACCTCCAAGTCCCTCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAAAG gtatctggtctttaataccctttttctttttgtttgctttttttctttagAT---------CATTGCCGATTCAATGCTTCAAAGTCCCTCCGACGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAGTTCCATGCCCTCCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTTTGCACACCCCCAAAG------CCAAGACCCCGCCCTGGTCCTGGGCCTGGCTCAGGTCCTGCTTCTCTTTTCTTGGCCATGTTTCAGAGTCGGCATGCGAAGGACTTAGCCCTACTGGATGTTTCTGAGAGgcaaggcttaagcaggatgcaggaaaaaagggcacactatattcacaatt Alignment from Spaln_nt2Genome TTCCGTTGTCGATTCAACACCTCCAAGTCCCTCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAAAG gtatctggtctttaataccctttttctttttgtttgctttttttctttagAT-CATTGCCGATTCAATGCTTCAAAGTCCCTCCGACGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAGTTCCATGCCCTCCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTTTGCACACCCCCAAAGCCAAGACCCCGCCCTGGTCCTGGGCCTGGCTCAGGT------CCTGCTTCTCTTTTCTTGGCCATGTTTCAGAGTCGGCATGCGAAGGACTTAGCCCTACTGGATGTTTCTGAGAGgcaaggcttaagcaggatgcaggaaaaaagggcacactatattcacaatt Alignment from Pairagon ATCGCCTTTTCCGTTGTCGATTCAACACCTCCAAGTCCCTCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAAAG gtatctggtctttaataccctttttctttttgtttgctttttttctttagAT---------CATTGCCGATTCAATGCTTCAAAGTCCCTCCGACGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAGTTCCATGCCCTCCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTTTGCACACCCCCAAAGCCAAGACCCCGCCCT------GGTCCTGGGCCTGGCTCAGGTCCTGCTTCTCTTTTCTTGGCCATGTTTCAGAGTCGGCATGCGAAGGACTTAGCCCTACTGGATGTTTCTGAGAGgcaaggcttaagcaggatgcaggaaaaaagggcacactatattcacaatt Alignment from Exonerate_protein2genome ATCGCCTTTTCCGTTGTCGATTCAACACCTCCAAGTCCCTCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAAAG gtatctggtctttaataccctttttctttttgtttgctttttttctttagAT---------CATTGCCGATTCAATGCTTCAAAGTCCCTCCGACGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAGTTCCATGCCCTCCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTTTGCACACCC------CCAAAGCCAAGACCCCGCCCTGGTCCTGGGCCTGGCTCAGGTCCTGCTTCTCTTTTCTTGGCCATGTTTCAGAGTCGGCATGCGAAGGACTTAGCCCTACTGGATGTTTCTGAGAGgcaaggcttaagcaggatgcaggaaaaaagggcacactatattcacaatt Alignment from Exonerate_coding2genome ATCGCCTTTTCCGTTGTCGATTCAACACCTCCAAGTCCCTCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAAAG gtatctggtctttaataccctttttctttttgtttgctttttttctttagAT---------CATTGCCGATTCAATGCTTCAAAGTCCCTCCGACGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAGTTCCATGCCCTCCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTTTGCACACCC------CCAAAGCCAAGACCCCGCCCTGGTCCTGGGCCTGGCTCAGGTCCTGCTTCTCTTTTCTTGGCCATGTTTCAGAGTCGGCATGCGAAGGACTTAGCCCTACTGGATGTTTCTGAGAGgcaaggcttaagcaggatgcaggaaaaaagggcacactatattcacaatt Alignment from GeneWise ATCGCCTTTTCCGTTGTCGATTCAACACCTCCAAGTCCCTCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAA---------------------------------------------------- gtatctggtctttaataccctttttctttttgtttgctttttttctttagATCAT---------TGCCGATTCAATGCTTCAAAGTCCCTCCGACGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAGTTCCATGCCCTCCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTTTGCACACCC------CCAAAGCCAAGACCCCGCCCTGGTCCTGGGCCTGGCTCAGGTCCTGCTTCTCTTTTCTTGGCCATGTTTCAGAGTCGGCATGCGAAGGACTTAGCCCTACTGGATGTTTCTGAGAGGCAAGGCTTAAGCAGGATGCAGGAAAAAAGGGCACACTATATTCACAATT #### Npm3_ID9577_3 --> 0 - 0 Original Alignment CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG--------- tttctgcagccaatcatccctgaaggcacgctctgaccctgcgcccacagCTCTGCCTTACTGAGGCAGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGACTATGATAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGTCAACCGATGAGTTTAAATgtgagtttgaaccattcatttctgttgggccctaacaggattaataactt Alignment from CESAR CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG--------- tttctgcagccaatcatccctgaaggcacgctctgaccctgcgcccacagCTCTGCCTTACTGAGGCAGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGACTATGATAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGTCAACCGATGAGTTTAAATgtgagtttgaaccattcatttctgttgggccctaacaggattaataactt Alignment from Spaln_aa2Genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG--------- tttctgcagccaatcatccctgaaggcacgctctgaccctgcgcccacagCTCTGCCTTACTGAGGCAGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGACTATGATAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGTCAACCGATGAGTTTAAATgtgagtttgaaccattcatttctgttgggccctaacaggattaataactt Alignment from Spaln_nt2Genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG- tttctgcagccaatcatccctgaaggcacgctctgaccctgcgcccacagCTCTGCCTTACTGAGGCAGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGACTATGATAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGTCAACCGATGAgtttaaatgtgagtttgaaccattcatttctgttgggccctaacaggattaataactt Alignment from Pairagon CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG--------- tttctgcagccaatcatccctgaaggcacgctctgaccctgcgcccacagCTCTGCCTTACTGAGGCAGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGACTATGATAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGTCAACCGATGAGTTTAAATgtgagtttgaaccattcatttctgttgggccctaacaggattaataactt Alignment from Exonerate_protein2genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tttctgcagccaatcatccctgaaggcacgctctgaccctgcgcccacagCTCTGCCTTACTGAGGCAGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGACTATGATAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGTCAACCG---atgagtttaaatgtgagtttgaaccattcatttctgttgggccctaacaggattaataactt Alignment from Exonerate_coding2genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tttctgcagccaatcatccctgaaggcacgctctgaccctgcgcccacagCTCTGCCTTACTGAGGCAGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGACTATGATAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGTCAACCG---atgagtttaaatgtgagtttgaaccattcatttctgttgggccctaacaggattaataactt Alignment from GeneWise CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG--------- tttctgcagccaatcatccctgaaggcacgctctgaccctgcgcccacagCTCTGCCTTACTGAGGCAGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGACTATGATAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGTCAACCGATGAGTTTAAATgtgagtttgaaccattcatttctgttgggccctaacaggattaataactt #### Npm3_ID9578_2 --> 2 - 0 Original Alignment gtTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ttgttccagggtgaacctaggaggctgtccgtgcctcctcctcttcccaggt---GAGCTCTCTGATCACACACGCTCCTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAACATGgtgagggctacagaaggagtttgaggtcaggcacacctgtggtcttatct Alignment from CESAR gtTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttgttccagggtgaacctaggatgtccgtgcctcctcctcttcccaggt---GAGCTCTCTGATCACACACGCTCCTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAACATGgtgagggctacagaaggagtttgaggtcaggcacacctgtggtcttatct Alignment from Spaln_aa2Genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ttgttccagggtgaacctaggaggctgtccgtgcctcctcctcttcccagGT---GAGCTCTCTGATCACACACGCTCCTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAACATGgtgagggctacagaaggagtttgaggtcaggcacacctgtggtcttatct Alignment from Spaln_nt2Genome T- GTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG TTgttccagggtgaacctaggaggctgtccgtgcctcctcctcttcccagGTGAGCTCTCTGATCACACACGCTCCTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAACATGgtgagggctacagaaggagtttgaggtcaggcacacctgtggtcttatct Alignment from Pairagon GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ttgttccagggtgaacctaggaggctgtccgtgcctcctcctcttcccag---GTGAGCTCTCTGATCACACACGCTCCTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAACATGgtgagggctacagaaggagtttgaggtcaggcacacctgtggtcttatct Alignment from Exonerate_protein2genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ttgttccagggtgaacctaggaggctgtccgtgcctcctcctcttcccagGT---GAGCTCTCTGATCACACACGCTCCTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAACATGgtgagggctacagaaggagtttgaggtcaggcacacctgtggtcttatct Alignment from Exonerate_coding2genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ttgttccagggtgaacctaggaggctgtccgtgcctcctcctcttcccagGT---GAGCTCTCTGATCACACACGCTCCTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAACATGgtgagggctacagaaggagtttgaggtcaggcacacctgtggtcttatct Alignment from GeneWise GTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ttgttccagggtgaacctaggaggctgtccgtgcctcctcctcttcccagGTGAGCTCTCTGATCACACACGCTCCTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAACATGgtgagggctacagaaggagtttgaggtcaggcacacctgtggtcttatct #### Nt5c2_ID10040_13 --> 0 - 1 Original Alignment ---AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGg tgaataccagactaatgagaaagctgaacagaggcctctgtcttccacagTCCAAAACTGGAAAACTGAAGATTGGCTCCTACACAGGCCCTCTGCAGCAT---GTTGTATATTCCGGGggtatcgatgctgcttggcagcttcttattcttacaacaactctgtagtgt Alignment from CESAR ---AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGg tgaataccagactaatgagaaagctgaacagaggcctctgtcttccacagTCCAAAACTGGAAAACTGAAGATTGGCTCCTACACAGGCCCTCTGCAGCAT---GTTGTATATTCCGGGggtatcgatgctgcttggcagcttcttattcttacaacaactctgtagtgt Alignment from Spaln_aa2Genome AAAACTGGAAAA---CTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgaataccagactaatgagaaagctgaacagaggcctctgtcttccacagTCCAAAACTGGAAAACTGAAGATTGGCTCCTACACAGGCCCTCTGCAGCAT---GTTGTATATTCCGGGGgtatcgatgctgcttggcagcttcttattcttacaacaactctgtagtgt Alignment from Spaln_nt2Genome AAAACTGGA---AAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgaataccagactaatgagaaagctgaacagaggcctctgtcttccacagTCCAAAACTGGAAAACTGAAGATTGGCTCCTACACAGGCCCTCTGCAGCATG---TTGTATATTCCGGGGgtatcgatgctgcttggcagcttcttattcttacaacaactctgtagtgt Alignment from Pairagon ---AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgaataccagactaatgagaaagctgaacagaggcctctgtcttccacagTCCAAAACTGGAAAACTGAAGATTGGCTCCTACACAGGCCCTCTGCAGCATG---TTGTATATTCCGGGGgtatcgatgctgcttggcagcttcttattcttacaacaactctgtagtgt Alignment from Exonerate_protein2genome ---AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgaataccagactaatgagaaagctgaacagaggcctctgtcttccacagTCCAAAACTGGAAAACTGAAGATTGGCTCCTACACAGGCCCTCTGCAGCAT---GTTGTATATTCCGGGGgtatcgatgctgcttggcagcttcttattcttacaacaactctgtagtgt Alignment from Exonerate_coding2genome TGGACACTAAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgaataccagactaatgagaaagctgaacagaggcctctgtcttccacag-----TCCAAAACTGGAAAACTGAAGATTGGCTCCTACACAGGCCCTCTGCAGCAT---GTTGTATATTCCGGGGgtatcgatgctgcttggcagcttcttattcttacaacaactctgtagtgt Alignment from GeneWise ---AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgaataccagactaatgagaaagctgaacagaggcctctgtcttccacagTCCAAAACTGGAAAACTGAAGATTGGCTCCTACACAGGCCCTCTGCAGCAT---GTTGTATATTCCGGGGgtatcgatgctgcttggcagcttcttattcttacaacaactctgtagtgt #### Nudt22_ID1971_4 --> 1 - 0 Original Alignment gTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG------ ggattcagcaccacaaatatatcctgggatgtattttacttcccctttaggTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGACGGGGgtatgcgaatttaccttccagttggctgctagtacattcagggttattaa Alignment from CESAR gTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG------ ggattcagcaccacaaatatatcctgggatgtattttacttcccctttaggTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGACGGGGgtatgcgaatttaccttccagttggctgctagtacattcagggttattaa Alignment from Spaln_aa2Genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG------ ggattcagcaccacaaatatatcctgggatgtattttacttcccctttagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGACGGGGgtatgcgaatttaccttccagttggctgctagtacattcagggttattaa Alignment from Spaln_nt2Genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG------ ggattcagcaccacaaatatatcctgggatgtattttacttcccctttagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGACGGGGgtatgcgaatttaccttccagttggctgctagtacattcagggttattaa Alignment from Pairagon GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG------ ggattcagcaccacaaatatatcctgggatgtattttacttcccctttagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGACGGGGgtatgcgaatttaccttccagttggctgctagtacattcagggttattaa Alignment from Exonerate_protein2genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG ggattcagcaccacaaatatatcctgggatgtattttacttcccctttagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGacgggggtatgcgaatttaccttccagttggctgctagtacattcagggttattaa Alignment from Exonerate_coding2genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG ggattcagcaccacaaatatatcctgggatgtattttacttcccctttagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGacgggggtatgcgaatttaccttccagttggctgctagtacattcagggttattaa Alignment from GeneWise GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG------ ggattcagcaccacaaatatatcctgggatgtattttacttcccctttagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGACGGGGgtatgcgaatttaccttccagttggctgctagtacattcagggttattaa #### Nudt8_ID268_3 --> 0 - 0 Original Alignment GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG ttggcaaaggacatctggacctgattgcaccccagtttgttttctttcagGACAAGGCAATCTTAGTCCCTGTTCTTGCTAATGTGGGCCCATTGGATCTACAGAGCCTGAGGCCCAACCTT------gtgagtcatcatggtgtactttgaggatagggagacctaagagtggatgc Alignment from CESAR GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG ttggcaaaggacatctggacctgattgcaccccagtttgttttctttcagGACAAGGCAATCTTAGTCCCTGTTCTTGCTAATGTGGGCCCATTGGATCTACAGAGCCTGAGGCCCAACCTT------gtgagtcatcatggtgtactttgaggatagggagacctaagagt Alignment from Spaln_aa2Genome GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTT ttggcaaaggacatctggacctgattgcaccccagtttgttttctttcagGACAAGGCAATCTTAGTCCCTGTTCTTGCTAATGTGGGCCCATTGGATCTACAGAGCCTGAGGCCCAACCTTgtgagtcatcatggtgtactttgaggatagggagacctaagagtggatgc Alignment from Spaln_nt2Genome GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTT ttggcaaaggacatctggacctgattgcaccccagtttgttttctttcagGACAAGGCAATCTTAGTCCCTGTTCTTGCTAATGTGGGCCCATTGGATCTACAGAGCCTGAGGCCCAACCTTgtgagtcatcatggtgtactttgaggatagggagacctaagagtggatgc Alignment from Pairagon GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTT ttggcaaaggacatctggacctgattgcaccccagtttgttttctttcagGACAAGGCAATCTTAGTCCCTGTTCTTGCTAATGTGGGCCCATTGGATCTACAGAGCCTGAGGCCCAACCTTgtgagtcatcatggtgtactttgaggatagggagacctaagagtggatgc Alignment from Exonerate_protein2genome GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTT ttggcaaaggacatctggacctgattgcaccccagtttgttttctttcagGACAAGGCAATCTTAGTCCCTGTTCTTGCTAATGTGGGCCCATTGGATCTACAGAGCCTGAGGCCCAACCTTgtgagtcatcatggtgtactttgaggatagggagacctaagagtggatgc Alignment from Exonerate_coding2genome GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTT ttggcaaaggacatctggacctgattgcaccccagtttgttttctttcagGACAAGGCAATCTTAGTCCCTGTTCTTGCTAATGTGGGCCCATTGGATCTACAGAGCCTGAGGCCCAACCTTgtgagtcatcatggtgtactttgaggatagggagacctaagagtggatgc Alignment from GeneWise GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTT ttggcaaaggacatctggacctgattgcaccccagtttgttttctttcagGACAAGGCAATCTTAGTCCCTGTTCTTGCTAATGTGGGCCCATTGGATCTACAGAGCCTGAGGCCCAACCTTgtgagtcatcatggtgtactttgaggatagggagacctaagagtggatgc #### Nxf1_ID2347_7 --> 0 - 1 Original Alignment CTGATCATGAGCAAACGATATGATGGCAACCAACAAGCACTTGACCTCAAGGGGCTCCGCTCAGACCCAg cacatcagagtcatctaaagtgtctggttcatctcatttctgaaattcag---------AGCAAACAATATGACAGTAATCAGCAAGCACTGGACCTTAAGGAGCTTCGCTCAGACCCAggtacggcatgcctcagtagatcagattattgaggtgggagggctgggtct Alignment from CESAR CTGATCATGAGCAAACGATATGATGGCAACCAACAAGCACTTGACCTCAAGGGGCTCCGCTCAGACCCAg ccctcaacccacatcagagtcatctggttcatctcatttctgaaattcag---------AGCAAACAATATGACAGTAATCAGCAAGCACTGGACCTTAAGGAGCTTCGCTCAGACCCAggtacggcatgcctcagtagatcagattattgaggtgggagggctgggtct Alignment from Spaln_aa2Genome AGCAAACGATATGATGGCAACCAACAAGCACTTGACCTCAAGGGGCTCCGCTCAGACCCAG cacatcagagtcatctaaagtgtctggttcatctcatttctgaaattcagAGCAAACAATATGACAGTAATCAGCAAGCACTGGACCTTAAGGAGCTTCGCTCAGACCCAGgtacggcatgcctcagtagatcagattattgaggtgggagggctgggtct Alignment from Spaln_nt2Genome CTGATCATGAGCAAACGATATGATGGCAACCAACAAGCACTTGACCTCAAGGGGCTCCGCTCAGACCCAG cacatcagagtcatctaaagtgtctggttcatctcatttctgaaattcag---------AGCAAACAATATGACAGTAATCAGCAAGCACTGGACCTTAAGGAGCTTCGCTCAGACCCAGgtacggcatgcctcagtagatcagattattgaggtgggagggctgggtct Alignment from Pairagon CTGATCATGAGCAAACGATATGATGGCAACCAACAAGCACTTGACCTCAAGGGGCTCCGCTCAGACCCAG cacatcagagtcatctaaagtgtctggttcatctcatttctgaaattcag---------AGCAAACAATATGACAGTAATCAGCAAGCACTGGACCTTAAGGAGCTTCGCTCAGACCCAGgtacggcatgcctcagtagatcagattattgaggtgggagggctgggtct Alignment from Exonerate_protein2genome CTGATCATGAGCAAACGATATGATGGCAACCAACAAGCACTTGACCTCAAGGGGCTCCGCTCAGACCCAG cacatcagagtcatctaaagtgtctggttcatctcatttctGAAATTCAGAGCAAACAATATGACAGTAATCAGCAAGCACTGGACCTTAAGGAGCTTCGCTCAGACCCAGgtacggcatgcctcagtagatcagattattgaggtgggagggctgggtct Alignment from Exonerate_coding2genome CTGATCATGAGCAAACGATATGATGGCAACCAACAAGCACTTGACCTCAAGGGGCTCCGCTCAGACCCAG cacatcagagtcatctaaagtgtctggttcatctcatttctGAAATTCAGAGCAAACAATATGACAGTAATCAGCAAGCACTGGACCTTAAGGAGCTTCGCTCAGACCCAGgtacggcatgcctcagtagatcagattattgaggtgggagggctgggtct Alignment from GeneWise AGCAAACGATATGATGGCAACCAACAAGCACTTGACCTCAAGGGGCTCCGCTCAGACCCA- cacatcagagtcatctaaagtgtctggttcatctcatttctgaaattcagAGCAAACAATATGACAGTAATCAGCAAGCACTGGACCTTAAGGAGCTTCGCTCAGACCCAGgtacggcatgcctcagtagatcagattattgaggtgggagggctgggtct #### Nxf1_ID2349_9 --> 0 - 0 Original Alignment ------CTATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA tgtgaaatgaataggttaaaattagatagttccccctgctccttgtccagCCATTATTATTGTCTTTGAATTTGAGCAGCAACCGGCTATTCAAGCTGGATGACATGTCGGGCATTGTGCAAACAGCTCCAAATGTAAAAACTTTAAATCTTTCTGGAAAGGAAgtgtgtctggcatttaggataatctttttgtagtagtagttgaatggctg Alignment from CESAR ------CTATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA tgtgaaatgaataggttaaaattagatagttccccctgctccttgtccagCCATTATTATTGTCTTTGAATTTGAGCAGCAACCGGCTATTCAAGCTGGATGACATGTCGGGCATTGTGCAAACAGCTCCAAATGTAAAAACTTTAAATCTTTCTGGAAAGGAAgtgtgtctggcatttaggataatctttttgtagtagtagttgaatggctg Alignment from Spaln_aa2Genome ------CTATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGA tgtgaaatgaataggttaaaattagatagttccccctgctccttgtccagCCATTATTATTGTCTTTGAATTTGAGCAGCAACCGGCTATTCAAGCTGGATGACATGTCGGGCATTGTGCAAACAGCTCCAAATGTAAAAACTTTAAATCTTTCTGGAAAGGAAgtgtgtctggcatttaggataatctttttgtagtagtagttgaatggctg Alignment from Spaln_nt2Genome C------TATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA tgtgaaatgaataggttaaaattagatagttccccctgctccttgtccagCCATTATTATTGTCTTTGAATTTGAGCAGCAACCGGCTATTCAAGCTGGATGACATGTCGGGCATTGTGCAAACAGCTCCAAATGTAAAAACTTTAAATCTTTCTGGAAAGGAAgtgtgtctggcatttaggataatctttttgtagtagtagttgaatggctg Alignment from Pairagon C------TATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA tgtgaaatgaataggttaaaattagatagttccccctgctccttgtccagCCATTATTATTGTCTTTGAATTTGAGCAGCAACCGGCTATTCAAGCTGGATGACATGTCGGGCATTGTGCAAACAGCTCCAAATGTAAAAACTTTAAATCTTTCTGGAAAGGAAgtgtgtctggcatttaggataatctttttgtagtagtagttgaatggctg Alignment from Exonerate_protein2genome CTATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA tgtgaaatgaataggttaaaattagatagttccccctgctccttgtccagccattaTTATTGTCTTTGAATTTGAGCAGCAACCGGCTATTCAAGCTGGATGACATGTCGGGCATTGTGCAAACAGCTCCAAATGTAAAAACTTTAAATCTTTCTGGAAAGGAAgtgtgtctggcatttaggataatctttttgtagtagtagttgaatggctg Alignment from Exonerate_coding2genome CTATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA tgtgaaatgaataggttaaaattagatagttccccctgctccttgtccagccattaTTATTGTCTTTGAATTTGAGCAGCAACCGGCTATTCAAGCTGGATGACATGTCGGGCATTGTGCAAACAGCTCCAAATGTAAAAACTTTAAATCTTTCTGGAAAGGAAgtgtgtctggcatttaggataatctttttgtagtagtagttgaatggctg Alignment from GeneWise ------CTATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA tgtgaaatgaataggttaaaattagatagttccccctgctccttgtccagCCATTATTATTGTCTTTGAATTTGAGCAGCAACCGGCTATTCAAGCTGGATGACATGTCGGGCATTGTGCAAACAGCTCCAAATGTAAAAACTTTAAATCTTTCTGGAAAGGAAgtgtgtctggcatttaggataatctttttgtagtagtagttgaatggctg #### Nxf1_ID2352_12 --> 0 - 0 Original Alignment GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG tcatatcaagttttgacttcgacaatctggctcttgaaatttattttaag---------------CCCCCTCCAATTTCTTTCGATGTTGAAGCTCCTACAATGTTACCACCCTGTAAGgtgagagttgggttcaccttagaaatttgagagaagagatcactggtcat Alignment from CESAR GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG ctcaacaagcccaggtcatatcaagtctggctcttgaaatttattttaag---------------CCCCCTCCAATTTCTTTCGATGTTGAAGCTCCTACAATGTTACCACCCTGTAAGgtgagagttgggttcaccttagaaatttgagagaagagatcactggtcat Alignment from Spaln_aa2Genome GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG tcatatcaagttttgacttcgacaatctggctcttgaaatttattttaag---------------CCCCCTCCAATTTCTTTCGATGTTGAAGCTCCTACAATGTTACCACCCTGTAAGgtgagagttgggttcaccttagaaatttgagagaagagatcactggtcat Alignment from Spaln_nt2Genome CATGAGCTA CCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG CAT-ATCAAgttttgacttcgacaatctggctcttgaaatttattttaagCCCCCTCCAATTTCTTTCGATGTTGAAGCTCCTACAATGTTACCACCCTGTAAGgtgagagttgggttcaccttagaaatttgagagaagagatcactggtcat Alignment from Pairagon GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG tcatatcaagttttgacttcgacaatctggctcttgaaatttattttaag---------------CCCCCTCCAATTTCTTTCGATGTTGAAGCTCCTACAATGTTACCACCCTGTAAGgtgagagttgggttcaccttagaaatttgagagaagagatcactggtcat Alignment from Exonerate_protein2genome GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG tcatatcaagttttgacttcgacaatctggctcttGAAATTTATTTTAAGCCCCCTCCAATTTCTTTCGATGTTGAAGCTCCTACAATGTTACCACCCTGTAAGgtgagagttgggttcaccttagaaatttgagagaagagatcactggtcat Alignment from Exonerate_coding2genome GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG tcatatcaagttttgacttcgacaatctggctcttGAAATTTATTTTAAGCCCCCTCCAATTTCTTTCGATGTTGAAGCTCCTACAATGTTACCACCCTGTAAGgtgagagttgggttcaccttagaaatttgagagaagagatcactggtcat Alignment from GeneWise CCATTCGCGAACGATTTCCCAAGTTATTACGCCTGGATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG TTGACTTCGACAAT------------CTGGCTCTTGAAATTTATTTTAAGCCCCCTCCAATTTCTTTCGATGTTGAAGCTCCTACAATGTTACCACCCTGTAAGgtgagagttgggttcaccttagaaatttgagagaagagatcactggtcat #### Nxf1_ID2353_13 --> 0 - 2 Original Alignment GGAAGCTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAGca agaagagatcactggtcatatgattaataacaagacttttatccttccag---TGTTACTTTGGAACCGAGAATTTGAAAAGTCTGGTCCTACACTTCTTGCAGcagtaaacgccccacatgatagtcatcagggtaacaattggattatacatat Alignment from CESAR GGAAGCTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAGca gagagaagagatcactggtcatatgaataacaagacttttatccttccag---TGTTACTTTGGAACCGAGAATTTGAAAAGTCTGGTCCTACACTTCTTGCAGcagtaaacgccccacatgatagtcatcagggtaacaattggattatacatat Alignment from Spaln_aa2Genome GGAAGCTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAGCA agaagagatcactggtcatatgattaataacaagacttttatccttccagTGTTACTTTGGAACCGAGAAT---TTGAAAAGTCTGGTCCTACACTTCTTGCAGCAgtaaacgccccacatgatagtcatcagggtaacaattggattatacatat Alignment from Spaln_nt2Genome GCTATTTTGGAAC-CGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAGCA agaagagatcactggtcatatgattaataacaagacttttatccttccagTGTTACTTTGGAACCGAGAATTTGAAAAGTCTGGTCCTACACTTCTTGCAGCAgtaaacgccccacatgatagtcatcagggtaacaattggattatacatat Alignment from Pairagon -----------------------------------------------------TATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAGCA AGAAGAGATCACTGGTCATATGATTAATAACAAGACTTTTATCCTTCCAGTGTTACTTTGGAACCGAGAATTTGAAAAGTCTGGTCCTACACTTCTTGCAGCAgtaaacgccccacatgatagtcatcagggtaacaattggattatacatat Alignment from Exonerate_protein2genome AGCTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAGCA agaagagatcactggtcatatgattaataacaagacttttatccttccagTGTTACTTTGGAACCGAGAATTTGAAAAGTCTGGTCCTACACTTCTTGCAGCAgtaaacgccccacatgatagtcatcagggtaacaattggattatacatat Alignment from Exonerate_coding2genome AGCTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAGCA agaagagatcactggtcatatgattaataacaagacttttatccttccagTGTTACTTTGGAACCGAGAATTTGAAAAGTCTGGTCCTACACTTCTTGCAGCAgtaaacgccccacatgatagtcatcagggtaacaattggattatacatat Alignment from GeneWise GGAAGCTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAGCA agaagagatcactggtcatatgattaataacaagacttttatccttccagTGT---TACTTTGGAACCGAGAATTTGAAAAGTCTGGTCCTACACTTCTTGCAGCAgtaaacgccccacatgatagtcatcagggtaacaattggattatacatat #### Nxf1_ID2356_16 --> 2 - 0 Original Alignment cc---CAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gaaatctaattctaaagcctacaattggttaatgattgttctcaataaagccCGCCAGCGGTTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACCCAACATGATGTCAATGCCTTTGTAGTAGACATAAGTGCCCAAACAgtaagaatctgttttatgaaacctaacagtggggtgactattgtgctcac Alignment from CESAR cc---CAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gaaatctaattctaaagcctacaattggttaatgattgttctcaataaagccCGCCAGCGGTTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACCCAACATGATGTCAATGCCTTTGTAGTAGACATAAGTGCCCAAACAgtaagaatctgttttatgaaacctaacagtggggtgactattgtgctcac Alignment from Spaln_aa2Genome CCCAGCGGTTC---CGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gaaatctaattctaaagcctacaattggttaatgattgttctcaataaagCCCGCCAGCGGTTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACCCAACATGATGTCAATGCCTTTGTAGTAGACATAAGTGCCCAAACAgtaagaatctgttttatgaaacctaacagtggggtgactattgtgctcac Alignment from Spaln_nt2Genome CCC---AGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gaaatctaattctaaagcctacaattggttaatgattgttctcaataaagCCCGCCAGCGGTTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACCCAACATGATGTCAATGCCTTTGTAGTAGACATAAGTGCCCAAACAgtaagaatctgttttatgaaacctaacagtggggtgactattgtgctcac Alignment from Pairagon C---CCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gaaatctaattctaaagcctacaattggttaatgattgttctcaataaagCCCGCCAGCGGTTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACCCAACATGATGTCAATGCCTTTGTAGTAGACATAAGTGCCCAAACAgtaagaatctgttttatgaaacctaacagtggggtgactattgtgctcac Alignment from Exonerate_protein2genome CC---CAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gaaatctaattctaaagcctacaattggttaatgattgttctcaataaagCCCGCCAGCGGTTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACCCAACATGATGTCAATGCCTTTGTAGTAGACATAAGTGCCCAAACAgtaagaatctgttttatgaaacctaacagtggggtgactattgtgctcac Alignment from Exonerate_coding2genome CC---CAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gaaatctaattctaaagcctacaattggttaatgattgttctcaataaagCCCGCCAGCGGTTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACCCAACATGATGTCAATGCCTTTGTAGTAGACATAAGTGCCCAAACAgtaagaatctgttttatgaaacctaacagtggggtgactattgtgctcac Alignment from GeneWise --ACCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gaaatctaattctaaagcctacaattggttaatgattgttctcaataaagCCCGCCAGCGGTTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACCCAACATGATGTCAATGCCTTTGTAGTAGACATAAGTGCCCAAACAgtaagaatctgttttatgaaacctaacagtggggtgactattgtgctcac #### Nxf1_ID2357_17 --> 0 - 1 Original Alignment AGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAA---g acaaaagtaattctgagcctctctagtttgtcccctcccttttcccctagAGCACATTACTGTGTCTATCCTTAAATGAAGTCCTCAAGGAAGCAtgtgagttgtgataaacattgcatttctgccagtgtcttgctgtgtctcct Alignment from CESAR AGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAA---g acaaaagtaattctgagcctctctagtttgtcccctcccttttcccctagAGCACATTACTGTGTCTATCCTTAAATGAAGTCCTCAAGGAAGCAtgtgagttgtgataaacattgcatttctgccagtgtcttgctgtgtctcct Alignment from Spaln_aa2Genome AGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAAGTGG acaaaagtaattctgagcctctctagtttgtcccctcccttttcccctagAGCACATTACTGTGTCTATCCTTAAATGAAGTCCTCAAGGAAGCATgtgagttgtgataaacattgcatttctgccagtgtcttgctgtgtctcct Alignment from Spaln_nt2Genome AGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAAGTGG acaaaagtaattctgagcctctctagtttgtcccctcccttttcccctagAGCACATTACTGTGTCTATCCTTAAATGAAGTCCTCAAGGAAGCATgtgagttgtgataaacattgcatttctgccagtgtcttgctgtgtctcct Alignment from Pairagon AGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAAG--- acaaaagtaattctgagcctctctagtttgtcccctcccttttcccctagAGCACATTACTGTGTCTATCCTTAAATGAAGTCCTCAAGGAAGCATgtgagttgtgataaacattgcatttctgccagtgtcttgctgtgtctcct Alignment from Exonerate_protein2genome acaaaagtaattctgagcctctctagtttgtcccctcccttttcccctagagcacattactgtgtctatccttaaatgaagtcctcaaggaagcatgtgagttgtgataaacattgcatttctgccagtgtcttgctgtgtctcct Alignment from Exonerate_coding2genome AGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAAGTGG acaaaagtaattctgagcctctctagtttgtcccctcccttttcccctagAGCACATTACTGTGTCTATCCTTAAATGAAGTCCTCAAGGAAGCATgtgagttgtgataaacattgcatttctgccagtgtcttgctgtgtctcct Alignment from GeneWise acaaaagtaattctgagcctctctagtttgtcccctcccttttcccctagagcacattactgtgtctatccttaaatgaagtcctcaaggaagcatgtgagttgtgataaacattgcatttctgccagtgtcttgctgtgtctcct #### Osbp_ID3346_5 --> 2 - 2 Original Alignment at---------CAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCACaa tgttgggagttaagaaccaagagaaacatgtaattgtttctctcatacagatCTGGAAAGGCAATGCTGTTCTGGAAAGGGGGACATGAGTAAGGAAGATGATGAGAATGAATTTTTTGATGCACCAGAGATAATCACCATGCCTGAAAATCTGAGCCACaagtaagacctttggtgggaaaacaaaccgagagatatgcaggtgactcttt Alignment from CESAR at---------CAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCACaa tgttgggagttaagaaccaagagaaacatgtaattgtttctctcatacagatCTGGAAAGGCAATGCTGTTCTGGAAAGGGGGACATGAGTAAGGAAGATGATGAGAATGAATTTTTTGATGCACCAGAGATAATCACCATGCCTGAAAATCTGAGCCACaagtaagacctttggtgggaaaacaaaccgagagatatgcaggtgactcttt Alignment from Spaln_aa2Genome AT---------CAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCACAA tgttgggagttaagaaccaagagaaacatgtaattgtttctctcatacagATCTGGAAAGGCAATGCTGTTCTGGAAAGGGGGACATGAGTAAGGAAGATGATGAGAATGAATTTTTTGATGCACCAGAGATAATCACCATGCCTGAAAATCTGAGCCACAAgtaagacctttggtgggaaaacaaaccgagagatatgcaggtgactcttt Alignment from Spaln_nt2Genome ATCAG---------TGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCACAA tgttgggagttaagaaccaagagaaacatgtaattgtttctctcatacagATCTGGAAAGGCAATGCTGTTCTGGAAAGGGGGACATGAGTAAGGAAGATGATGAGAATGAATTTTTTGATGCACCAGAGATAATCACCATGCCTGAAAATCTGAGCCACAAgtaagacctttggtgggaaaacaaaccgagagatatgcaggtgactcttt Alignment from Pairagon AT---------CAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCACAA tgttgggagttaagaaccaagagaaacatgtaattgtttctctcatacagATCTGGAAAGGCAATGCTGTTCTGGAAAGGGGGACATGAGTAAGGAAGATGATGAGAATGAATTTTTTGATGCACCAGAGATAATCACCATGCCTGAAAATCTGAGCCACAAgtaagacctttggtgggaaaacaaaccgagagatatgcaggtgactcttt Alignment from Exonerate_protein2genome ATCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCACAA tgttgggagttaagaaccaagagaaacatgtaattgtttctctcatacagatctggaaaGGCAATGCTGTTCTGGAAAGGGGGACATGAGTAAGGAAGATGATGAGAATGAATTTTTTGATGCACCAGAGATAATCACCATGCCTGAAAATCTGAGCCACAAgtaagacctttggtgggaaaacaaaccgagagatatgcaggtgactcttt Alignment from Exonerate_coding2genome ATCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCACAA tgttgggagttaagaaccaagagaaacatgtaattgtttctctcatacagatctggaaaGGCAATGCTGTTCTGGAAAGGGGGACATGAGTAAGGAAGATGATGAGAATGAATTTTTTGATGCACCAGAGATAATCACCATGCCTGAAAATCTGAGCCACAAgtaagacctttggtgggaaaacaaaccgagagatatgcaggtgactcttt Alignment from GeneWise -CAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCACAA tgttgggagttaagaaccaagagaaacatgtaattgtttctctcatacagatctggaaagGCAATGCTGTTCTGGAAAGGGGGACATGAGTAAGGAAGATGATGAGAATGAATTTTTTGATGCACCAGAGATAATCACCATGCCTGAAAATCTGAGCCACAAgtaagacctttggtgggaaaacaaaccgagagatatgcaggtgactcttt #### Osbp_ID3347_6 --> 1 - 0 Original Alignment aCGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGATGAACAG--- gatgctgaatcctggatatagctcttttaccgtgttttcttctgacacagaCGTACTGGCAGCAATATCAGTGGGCCCAGCAGTGATGTCAGCCTTGATGAACAGTATgtgacacacccattgcaaattggcacatgcgaacggtctgggagtttgtt Alignment from CESAR aCGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGATGAACAG--- gatgctgaatcctggatatagctcttttaccgtgttttcttctgacacagaCGTACTGGCAGCAATATCAGTGGGCCCAGCAGTGATGTCAGCCTTGATGAACAGTATgtgacacacccattgcaaattggcacatgcgaacggtctgggagtttgtt Alignment from Spaln_aa2Genome ACGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGATGAACAG--- gatgctgaatcctggatatagctcttttaccgtgttttcttctgacacagACGTACTGGCAGCAATATCAGTGGGCCCAGCAGTGATGTCAGCCTTGATGAACAGTATgtgacacacccattgcaaattggcacatgcgaacggtctgggagtttgtt Alignment from Spaln_nt2Genome ACGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGATGAACA gatgctgaatcctggatatagctcttttaccgtgttttcttctgacacagACGTACTGGCAGCAATATCAGTGGGCCCAGCAGTGATGTCAGCCTTGATGAACAgtatgtgacacacccattgcaaattggcacatgcgaacggtctgggagtttgtt Alignment from Pairagon ACGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGATGAACA gatgctgaatcctggatatagctcttttaccgtgttttcttctgacacagACGTACTGGCAGCAATATCAGTGGGCCCAGCAGTGATGTCAGCCTTGATGAACAgtatgtgacacacccattgcaaattggcacatgcgaacggtctgggagtttgtt Alignment from Exonerate_protein2genome ACGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGATGAACAGTAC gatgctgaatcctggatatagctcttttaccgtgttttcttctgacacagACGTACTGGCAGCAATATCAGTGGGCCCAGCAGTGATGTCAGCCTTGATGAACAGTATgtgacacacccattgcaaattggcacatgcgaacggtctgggagtttgtt Alignment from Exonerate_coding2genome ACGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGATGAACAGTAC gatgctgaatcctggatatagctcttttaccgtgttttcttctgacacagACGTACTGGCAGCAATATCAGTGGGCCCAGCAGTGATGTCAGCCTTGATGAACAGTATgtgacacacccattgcaaattggcacatgcgaacggtctgggagtttgtt Alignment from GeneWise ACGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGATGAACAGTAC gatgctgaatcctggatatagctcttttaccgtgttttcttctgacacagACGTACTGGCAGCAATATCAGTGGGCCCAGCAGTGATGTCAGCCTTGATGAACAGTATgtgacacacccattgcaaattggcacatgcgaacggtctgggagtttgtt #### Pacs1_ID881_13 --> 1 - 0 Original Alignment cAAGGTGGAAGGGACACACACACCTCGGCAGAAGAGGAGCACTCCCCTGAAGGAGCGACAGCTCTCCAAGCCCCTGAGTGAGAGAACCAACAGCTCTGACAGTGAGCGATCTCCTGATCTGGGCCACAGCACACAG tgcacctgtgaggttgaaattggtggttctcacccaacctgtctctgcagtAAGGTGGAAGGGACACACACACCTCCACAGAAGAGAAGCACTCCTCTTAAGGAGCGACAGCTTCTAAAACCCCTGAGTGAGAGAACCAATAGTGCTGACAGTGAGAGGTCACCTGACCTGGGCCACAGCATA---gtcagtccactgtttccaactgtgtggtgaggaccaggggaggggttgct Alignment from CESAR cAAGGTGGAAGGGACACACACACCTCGGCAGAAGAGGAGCACTCCCCTGAAGGAGCGACAGCTCTCCAAGCCCCTGAGTGAGAGAACCAACAGCTCTGACAGTGAGCGATCTCCTGATCTGGGCCACAGCACACAG tgcacctgtgaggttgaaattggtggttctcacccaacctgtctctgcagtAAGGTGGAAGGGACACACACACCTCCACAGAAGAGAAGCACTCCTCTTAAGGAGCGACAGCTTCTAAAACCCCTGAGTGAGAGAACCAATAGTGCTGACAGTGAGAGGTCACCTGACCTGGGCCACAGCATA---gtcagtccactgtttccaactgtgtggtgaggaccaggggaggggtt Alignment from Spaln_aa2Genome CAAGGTGGAAGGGACACACACACCTCGGCAGAAGAGGAGCACTCCCCTGAAGGAGCGACAGCTCTCCAAGCCCCTGAGTGAGAGAACCAACAGCTCTGACAGTGAGCGATCTCCTGATCTGGGCCACAGCACA tgcacctgtgaggttgaaattggtggttctcacccaacctgtctctgcagTAAGGTGGAAGGGACACACACACCTCCACAGAAGAGAAGCACTCCTCTTAAGGAGCGACAGCTTCTAAAACCCCTGAGTGAGAGAACCAATAGTGCTGACAGTGAGAGGTCACCTGACCTGGGCCACAGCATAgtcagtccactgtttccaactgtgtggtgaggaccaggggaggggttgct Alignment from Spaln_nt2Genome CAAGGTGGAAGGGACACACACACCTCGGCAGAAGAGGAGCACTCCCCTGAAGGAGCGACAGCTCTCCAAGCCCCTGAGTGAGAGAACCAACAGCTCTGACAGTGAGCGATCTCCTGATCTGGGCCACAGCACA tgcacctgtgaggttgaaattggtggttctcacccaacctgtctctgcagTAAGGTGGAAGGGACACACACACCTCCACAGAAGAGAAGCACTCCTCTTAAGGAGCGACAGCTTCTAAAACCCCTGAGTGAGAGAACCAATAGTGCTGACAGTGAGAGGTCACCTGACCTGGGCCACAGCATAgtcagtccactgtttccaactgtgtggtgaggaccaggggaggggttgct Alignment from Pairagon CAAGGTGGAAGGGACACACACACCTCGGCAGAAGAGGAGCACTCCCCTGAAGGAGCGACAGCTCTCCAAGCCCCTGAGTGAGAGAACCAACAGCTCTGACAGTGAGCGATCTCCTGATCTGGGCCACAGCACA tgcacctgtgaggttgaaattggtggttctcacccaacctgtctctgcagTAAGGTGGAAGGGACACACACACCTCCACAGAAGAGAAGCACTCCTCTTAAGGAGCGACAGCTTCTAAAACCCCTGAGTGAGAGAACCAATAGTGCTGACAGTGAGAGGTCACCTGACCTGGGCCACAGCATAgtcagtccactgtttccaactgtgtggtgaggaccaggggaggggttgct Alignment from Exonerate_protein2genome CAAGGTGGAAGGGACACACACACCTCGGCAGAAGAGGAGCACTCCCCTGAAGGAGCGACAGCTCTCCAAGCCCCTGAGTGAGAGAACCAACAGCTCTGACAGTGAGCGATCTCCTGATCTGGGCCACAGCACA tgcacctgtgaggttgaaattggtggttctcacccaacctgtctctgcagTAAGGTGGAAGGGACACACACACCTCCACAGAAGAGAAGCACTCCTCTTAAGGAGCGACAGCTTCTAAAACCCCTGAGTGAGAGAACCAATAGTGCTGACAGTGAGAGGTCACCTGACCTGGGCCACAGCATAgtcagtccactgtttccaactgtgtggtgaggaccaggggaggggttgct Alignment from Exonerate_coding2genome CAAGGTGGAAGGGACACACACACCTCGGCAGAAGAGGAGCACTCCCCTGAAGGAGCGACAGCTCTCCAAGCCCCTGAGTGAGAGAACCAACAGCTCTGACAGTGAGCGATCTCCTGATCTGGGCCACAGCACA tgcacctgtgaggttgaaattggtggttctcacccaacctgtctctgcagTAAGGTGGAAGGGACACACACACCTCCACAGAAGAGAAGCACTCCTCTTAAGGAGCGACAGCTTCTAAAACCCCTGAGTGAGAGAACCAATAGTGCTGACAGTGAGAGGTCACCTGACCTGGGCCACAGCATAgtcagtccactgtttccaactgtgtggtgaggaccaggggaggggttgct Alignment from GeneWise CAAGGTGGAAGGGACACACACACCTCGGCAGAAGAGGAGCACTCCCCTGAAGGAGCGACAGCTCTCCAAGCCCCTGAGTGAGAGAACCAACAGCTCTGACAGTGAGCGATCTCCTGATCTGGGCCACAGCACACAGATT tgcacctgtgaggttgaaattggtggttctcacccaacctgtctctgcagTAAGGTGGAAGGGACACACACACCTCCACAGAAGAGAAGCACTCCTCTTAAGGAGCGACAGCTTCTAAAACCCCTGAGTGAGAGAACCAATAGTGCTGACAGTGAGAGGTCACCTGACCTGGGCCACAGC------ATAgtcagtccactgtttccaactgtgtggtgaggaccaggggaggggttgct #### Pacs1_ID885_9 --> 0 - 2 Original Alignment ---------GTGGGCTTTGGGCTAGAACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGACTTGGATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCTCaa ccaagtattgctggtgaggacctatagttgactcctacactctcttgtagGCTTGCAGAGTGGGTTTTGGGTTAGAACACGTGTCCCGGGAGCAAATTCGAGAAGTGGAGGAGGACTTAGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACCCCGAAGCCCAAACTCaagtacatccccaaagccctttccacccaagctccctaatcccgtttggatc Alignment from CESAR ---------GTGGGCTTTGGGCTAGAACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGACTTGGATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCTCaa ccaagtattgctggtgaggacctatagttgactcctacactctcttgtagGCTTGCAGAGTGGGTTTTGGGTTAGAACACGTGTCCCGGGAGCAAATTCGAGAAGTGGAGGAGGACTTAGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACCCCGAAGCCCAAACTCaagtacatccccaaagccctttccacccaagctccctaatcccgtttggatc Alignment from Spaln_aa2Genome GTGGGCTTTGGG---------CTAGAACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGACTTGGATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCTCAA ccaagtattgctggtgaggacctatagttgactcctacactctcttgtagGCTTGCAGAGTGGGTTTTGGGTTAGAACACGTGTCCCGGGAGCAAATTCGAGAAGTGGAGGAGGACTTAGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACCCCGAAGCCCAAACTCAAgtacatccccaaagccctttccacccaagctccctaatcccgtttggatc Alignment from Spaln_nt2Genome GTGGGCTTTGGGCTAG-AACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGACTTGGATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCTCAA ccaagtattgctggtgaggacctatagttgactcctacactctcttgtaggcttgcagAGTGGGTTTTGGGTTAGAACACGTGTCCCGGGAGCAAATTCGAGAAGTGGAGGAGGACTTAGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACCCCGAAGCCCAAACTCAAgtacatccccaaagccctttccacccaagctccctaatcccgtttggatc Alignment from Pairagon -GTGGGCTTTGGGCTAGAACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGACTTGGATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCTCAA ccaagtattgctggtgaggacctatagttgactcctacactctcttgtaggcttgcagAGTGGGTTTTGGGTTAGAACACGTGTCCCGGGAGCAAATTCGAGAAGTGGAGGAGGACTTAGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACCCCGAAGCCCAAACTCAAgtacatccccaaagccctttccacccaagctccctaatcccgtttggatc Alignment from Exonerate_protein2genome GTGGGCTTTGGGCTAGAACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGACTTGGATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCTCAA ccaagtattgctggtgaggacctatagttgactcctacactctcttgtaggcttgcagaGTGGGTTTTGGGTTAGAACACGTGTCCCGGGAGCAAATTCGAGAAGTGGAGGAGGACTTAGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACCCCGAAGCCCAAACTCAAgtacatccccaaagccctttccacccaagctccctaatcccgtttggatc Alignment from Exonerate_coding2genome GTGGGCTTTGGGCTAGAACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGACTTGGATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCTCAA ccaagtattgctggtgaggacctatagttgactcctacactctcttgtaggcttgcagaGTGGGTTTTGGGTTAGAACACGTGTCCCGGGAGCAAATTCGAGAAGTGGAGGAGGACTTAGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACCCCGAAGCCCAAACTCAAgtacatccccaaagccctttccacccaagctccctaatcccgtttggatc Alignment from GeneWise --GGCTTTGGGCTAGAACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGACTTGGATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCTCAA ccaagtattgctggtgaggacctatagttgactcctacactctcttgtaggcttgcagagTGGGTTTTGGGTTAGAACACGTGTCCCGGGAGCAAATTCGAGAAGTGGAGGAGGACTTAGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACCCCGAAGCCCAAACTCAAgtacatccccaaagccctttccacccaagctccctaatcccgtttggatc #### Pacs1_ID888_6 --> 2 - 0 Original Alignment atCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG cggatgttgcaaaaccctcattgcagtcattgcttctgaaacatttgcagatCGCTCCCCAGACATTGACAATTATTCAGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCAAGATGACACCGAT------------------gtaagtatctgacagtgtagtgacgtgccagggataacgagtcgaagcag Alignment from CESAR atCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG cggatgttgcaaaaccctcattgcagtcattgcttctgaaacatttgcagatCGCTCCCCAGACATTGACAATTATTCAGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCAAGATGACACCGAT------------------gtaagtatctgacagtgtagtgacgtgccagg Alignment from Spaln_aa2Genome ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACC cggatgttgcaaaaccctcattgcagtcattgcttctgaaacatttgcagATCGCTCCCCAGACATTGACAATTATTCAGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCAAGATGACACCGATGTAAgtatctgacagtgtagtgacgtgccagggataacgagtcgaagcag Alignment from Spaln_nt2Genome ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGAC cggatgttgcaaaaccctcattgcagtcattgcttctgaaacatttgcagATCGCTCCCCAGACATTGACAATTATTCAGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCAAGATGACACCGATgtaagtatctgacagtgtagtgacgtgccagggataacgagtcgaagcag Alignment from Pairagon ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGAC cggatgttgcaaaaccctcattgcagtcattgcttctgaaacatttgcagATCGCTCCCCAGACATTGACAATTATTCAGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCAAGATGACACCGATgtaagtatctgacagtgtagtgacgtgccagggataacgagtcgaagcag Alignment from Exonerate_protein2genome ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGC cggatgttgcaaaaccctcattgcagtcattgcttctgaaacatttgcagATCGCTCCCCAGACATTGACAATTATTCAGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCAAGATGACACCGATGTAAGTATCTgacagtgtagtgacgtgccagggataacgagtcgaagcag Alignment from Exonerate_coding2genome ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGC cggatgttgcaaaaccctcattgcagtcattgcttctgaaacatttgcagATCGCTCCCCAGACATTGACAATTATTCAGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCAAGATGACACCGATGTAAGTATCTgacagtgtagtgacgtgccagggataacgagtcgaagcag Alignment from GeneWise ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGAC cggatgttgcaaaaccctcattgcagtcattgcttctgaaacatttgcagATCGCTCCCCAGACATTGACAATTATTCAGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCAAGATGACACCGATgtaagtatctgacagtgtagtgacgtgccagggataacgagtcgaagcag #### Patl1_ID3333_18 --> 1 - 2 Original Alignment g------ACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGca tcggctttccccttttctgttctatttctcgatgttttattgcctcaaaggCTCTCAACAGAGGTGATGTTTATGGCAGCCCGAGAACTGGTCCGTATCCTGCAAGTGGCCCTTTCCAATCCAATTTCTATTCCTTCAAATCTAGTGTCATTCTTGTCCCGCTTTGTTGACCGACAGAAACTGAACTTGTTAGAGACCAAACTGcagtgcgttttgtcattcttttcctgctttgttggctgacagaaactgagtt Alignment from CESAR g------ACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGca tcggctttccccttttctgttctatttctcgatgttttattgcctcaaaggCTCTCAACAGAGGTGATGTTTATGGCAGCCCGAGAACTGGTCCGTATCCTGCAAGTGGCCCTTTCCAATCCAATTTCTATTCCTTCAAATCTAGTGTCATTCTTGTCCCGCTTTGTTGACCGACAGAAACTGAACTTGTTAGAGACCAAACTGcagtgcgttttgtcattcttttcctgctttgttggctgacagaaactgagtt Alignment from Spaln_aa2Genome GACAGAGGTGATGTTC------ATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA tcggctttccccttttctgttctatttctcgatgttttattgcctcaaagGCTCTCAACAGAGGTGATGTTTATGGCAGCCCGAGAACTGGTCCGTATCCTGCAAGTGGCCCTTTCCAATCCAATTTCTATTCCTTCAAATCTAGTGTCATTCTTGTCCCGCTTTGTTGACCGACAGAAACTGAACTTGTTAGAGACCAAACTGCAgtgcgttttgtcattcttttcctgctttgttggctgacagaaactgagtt Alignment from Spaln_nt2Genome GACAGAGGTG------ATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA tcggctttccccttttctgttctatttctcgatgttttattgcctcaaagGCTCTCAACAGAGGTGATGTTTATGGCAGCCCGAGAACTGGTCCGTATCCTGCAAGTGGCCCTTTCCAATCCAATTTCTATTCCTTCAAATCTAGTGTCATTCTTGTCCCGCTTTGTTGACCGACAGAAACTGAACTTGTTAGAGACCAAACTGCAgtgcgttttgtcattcttttcctgctttgttggctgacagaaactgagtt Alignment from Pairagon ---------------------------------------------------------ACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA TCGGCTTTCCCCTTTTCTGTTCTATTTCTCGATGTTTTATTGCCTCAAAGGCTCTCAACAGAGGTGATGTTTATGGCAGCCCGAGAACTGGTCCGTATCCTGCAAGTGGCCCTTTCCAATCCAATTTCTATTCCTTCAAATCTAGTGTCATTCTTGTCCCGCTTTGTTGACCGACAGAAACTGAACTTGTTAGAGACCAAACTGCAgtgcgttttgtcattcttttcctgctttgttggctgacagaaactgagtt Alignment from Exonerate_protein2genome G------ACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAGCTGGTT tcggctttccccttttctgttctatttctcgatgttttattgcctcaaagGCTCTCAACAGAGGTGATGTTTATGGCAGCCCGAGAACTGGTCCGTATCCTGCAAGTGGCCCTTTCCAATCCAATTTCTATTCCTTCAAATCTAGTGTCATTCTTGTCCCGCTTTGTTGACCGACAGAAACTGAACTTGTTAGAGACCAAACTGCAGTGCGTTttgtcattcttttcctgctttgttggctgacagaaactgagtt Alignment from Exonerate_coding2genome G------ACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAGCTGGTT tcggctttccccttttctgttctatttctcgatgttttattgcctcaaagGCTCTCAACAGAGGTGATGTTTATGGCAGCCCGAGAACTGGTCCGTATCCTGCAAGTGGCCCTTTCCAATCCAATTTCTATTCCTTCAAATCTAGTGTCATTCTTGTCCCGCTTTGTTGACCGACAGAAACTGAACTTGTTAGAGACCAAACTGCAGTGCGTTttgtcattcttttcctgctttgttggctgacagaaactgagtt Alignment from GeneWise ----TGGACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAGCTGGTTCAGGGGATACGG tcggctttccccttttctgttctatttctcgatgttttattgcctcaaagGCTCTCAACAGAGGTGATGTTTATGGCAGCCCGAGAACTGGTCCGTATCCTGCAAGTGGCCCTTTCCAATCCAATTTCTATTCCTTCAAATCTAGTGTCATTCTTGTCCCGCTTTGTTGACCGACAGAAACTGAACTTGTTAGAGACCAAACTGCAGTGCGTTTTGTCATTCTTTtcctgctttgttggctgacagaaactgagtt #### Pcnxl3_ID1159_34 --> 2 - 0 Original Alignment gcAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG ttataggtgagacatcatgctagcggctttctatatacatatatacccaggcAGCAGTGAGCAGCCCCTTCCACCAGGCCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGGGATGGGCGACCCCCTTCTCTGCTACAGTGGCCCCCCCCTCGGCTCCCAGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGACTGGGAGGAGCTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGA------------------gtgggtaacctgtggatattcttaatccccccgtttaaggagtctccctg Alignment from CESAR gcAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG ttataggtgagacatcatgctagcggctttctatatacatatatacccaggcAGCAGTGAGCAGCCCCTTCCACCAGGCCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGGGATGGGCGACCCCCTTCTCTGCTACAGTGGCCCCCCCCTCGGCTCCCAGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGACTGGGAGGAGCTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGA------------------gtgggtaacctgtggatattcttaatcccccc Alignment from Spaln_aa2Genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGA ttataggtgagacatcatgctagcggctttctatatacatatatacccagGCAGCAGTGAGCAGCCCCTTCCACCAGGCCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGGGATGGGCGACCCCCTTCTCTGCTACAGTGGCCCCCCCCTCGGCTCCCAGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGACTGGGAGGAGCTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGAgtgggtaacctgtggatattcttaatccccccgtttaaggagtctccctg Alignment from Spaln_nt2Genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGA GGCACCCCCAA ttataggtgagacatcatgctagcggctttctatatacatatatacccagGCAGCAGTGAGCAGCCCCTTCCACCAGGCCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGGGATGGGCGACCCCCTTCTCTGCTACAGTGGCCCCCCCCTCGGCTCCCAGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGACTGGGAGGAGCTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGAgtgggtaacctgtggatattcttaatccccccgtttaagGAGTCTCCCTG Alignment from Pairagon GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGA ttataggtgagacatcatgctagcggctttctatatacatatatacccagGCAGCAGTGAGCAGCCCCTTCCACCAGGCCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGGGATGGGCGACCCCCTTCTCTGCTACAGTGGCCCCCCCCTCGGCTCCCAGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGACTGGGAGGAGCTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGAgtgggtaacctgtggatattcttaatccccccgtttaaggagtctccctg Alignment from Exonerate_protein2genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCA ttataggtgagacatcatgctagcggctttctatatacatatatacccagGCAGCAGTGAGCAGCCCCTTCCACCAGGCCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGGGATGGGCGACCCCCTTCTCTGCTACAGTGGCCCCCCCCTCGGCTCCCAGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGACTGGGAGGAGCTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGAGTGGgtaacctgtggatattcttaatccccccgtttaaggagtctccctg Alignment from Exonerate_coding2genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCA ttataggtgagacatcatgctagcggctttctatatacatatatacccagGCAGCAGTGAGCAGCCCCTTCCACCAGGCCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGGGATGGGCGACCCCCTTCTCTGCTACAGTGGCCCCCCCCTCGGCTCCCAGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGACTGGGAGGAGCTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGAGTGGgtaacctgtggatattcttaatccccccgtttaaggagtctccctg Alignment from GeneWise CAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGA---------------------------------------GGCACCCCCAA ttataggtgagacatcatgctagcggctttctatatacatatatacccaggcagCAGTGAGCAGCCCCTTCCACCAGGCCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGGGATGGGCGACCCCCTTCTCTGCTACAGTGGCCCCCCCCTCGGCTCCCAGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCAGGCCCTGCTCTCCTTAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCAGAAGGGACTGGGAGGAGCTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGAGTGGGTAACCTGTGGATATTCTTAATCCCCCCGTTTAAGGAGTCTCCCTG #### Pcnxl3_ID1160_33 --> 1 - 1 Original Alignment aCTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCA------g taagccacagaatgcattaccatacacctttctcctgtattgctttttagaCTCCACAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATCTCGATGATGCAGATTGTGGTGGGGGTGGTGGCCTAGCTTCCCTCAGCAACCATCCTCCCTTGGTACATCCTACGCCTGATAATGTGGCAGAGTTGggtatttgcaaggttttagggaaattataggtgagacatcatgctagcggc Alignment from CESAR aCTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCA------g taagccacagaatgcattaccatacacctttctcctgtattgctttttagaCTCCACAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATCTCGATGATGCAGATTGTGGTGGGGGTGGTGGCCTAGCTTCCCTCAGCAACCATCCTCCCTTGGTACATCCTACGCCTGATAATGTGGCAGAGTTGggtatttgcaaggttttagggaaattataggtgagacatcatgctagcggc Alignment from Spaln_aa2Genome ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCA------G taagccacagaatgcattaccatacacctttctcctgtattgctttttagACTCCACAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATCTCGATGATGCAGATTGTGGTGGGGGTGGTGGCCTAGCTTCCCTCAGCAACCATCCTCCCTTGGTACATCCTACGCCTGATAATGTGGCAGAGTTGGgtatttgcaaggttttagggaaattataggtgagacatcatgctagcggc Alignment from Spaln_nt2Genome ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG- taagccacagaatgcattaccatacacctttctcctgtattgctttttagACTCCACAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATCTCGATGATGCAGATTGTGGTGGGGGTGGTGGCCTAGCTTCCCTCAGCAACCATCCTCCCTTGGTACATCCTACGCCTGATAATGTGGCAGAgttgggtatttgcaaggttttagggaaattataggtgagacatcatgctagcggc Alignment from Pairagon ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGC---------------------------------------------------------- taagccacagaatgcattaccatacacctttctcctgtattgctttttagACTCCACAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATCTCGATGATGCAGATTGTGGTGGGGGTGGTGGCCTAGCTTCCCTCAGCAACCATCCTCCCTTGGTACATCCTACGCCTGATAATGTGGCAGAGTTGGGTATTTGCAAGGTTTTAGGGAAATTATAGGTGAGACATCATGCTAGCGGC Alignment from Exonerate_protein2genome ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG taagccacagaatgcattaccatacacctttctcctgtattgctttttagACTCCACAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATCTCGATGATGCAGATTGTGGTGGGGGTGGTGGCCTAGCTTCCCTCAGCAACCATCCTCCCTTGGTACATCCTACGCCTGATAATGTGGCAGagttgggtatttgcaaggttttagggaaattataggtgagacatcatgctagcggc Alignment from Exonerate_coding2genome ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG taagccacagaatgcattaccatacacctttctcctgtattgctttttagACTCCACAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATCTCGATGATGCAGATTGTGGTGGGGGTGGTGGCCTAGCTTCCCTCAGCAACCATCCTCCCTTGGTACATCCTACGCCTGATAATGTGGCAGagttgggtatttgcaaggttttagggaaattataggtgagacatcatgctagcggc Alignment from GeneWise ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCA------G taagccacagaatgcattaccatacacctttctcctgtattgctttttagACTCCACAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATCTCGATGATGCAGATTGTGGTGGGGGTGGTGGCCTAGCTTCCCTCAGCAACCATCCTCCCTTGGTACATCCTACGCCTGATAATGTGGCAGAGTTGGgtatttgcaaggttttagggaaattataggtgagacatcatgctagcggc #### Pcnxl3_ID1161_32 --> 0 - 2 Original Alignment GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAG------ag gcctatgttgttctgttgccccccctcaaatgtcacaatttcttttgtagGTAAACTGGGAATGTGTACGAGGATTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGATATCCAATCTTTGTGTCACCATTGACCACATCTTTGCCTGGGACCCATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATAGCTGGGAAGTGGCCcggtaacctctgatagtcatgaattctgatagtccccaaaattggaaagctt Alignment from CESAR GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAG------ag gcctatgttgttctgttgccccccctcaaatgtcacaatttcttttgtagGTAAACTGGGAATGTGTACGAGGATTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGATATCCAATCTTTGTGTCACCATTGACCACATCTTTGCCTGGGACCCATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATAGCTGGGAAGTGGCCcggtaacctctgatagtcatgaattctgatagtccccaaaattggaaagctt Alignment from Spaln_aa2Genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAGA----- gcctatgttgttctgttgccccccctcaaatgtcacaatttcttttgtagGTAAACTGGGAATGTGTACGAGGATTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGATATCCAATCTTTGTGTCACCATTGACCACATCTTTGCCTGGGACCCATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATAGCTGGGAAGTGGCCCGgtaacctctgatagtcatgaattctgatagtccccaaaattggaaagctt Alignment from Spaln_nt2Genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGA-GAG gcctatgttgttctgttgccccccctcaaatgtcacaatttcttttgtagGTAAACTGGGAATGTGTACGAGGATTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGATATCCAATCTTTGTGTCACCATTGACCACATCTTTGCCTGGGACCCATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATAGCTGGGAAGTGgcccggtaacctctgatagtcatgaattctgatagtccccaaaattggaaagctt Alignment from Pairagon GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAG gcctatgttgttctgttgccccccctcaaatgtcacaatttcttttgtagGTAAACTGGGAATGTGTACGAGGATTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGATATCCAATCTTTGTGTCACCATTGACCACATCTTTGCCTGGGACCCATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATAGCTGGGAAgtggcccggtaacctctgatagtcatgaattctgatagtccccaaaattggaaagctt Alignment from Exonerate_protein2genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAG gcctatgttgttctgttgccccccctcaaatgtcacaatttcttttgtagGTAAACTGGGAATGTGTACGAGGATTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGATATCCAATCTTTGTGTCACCATTGACCACATCTTTGCCTGGGACCCATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATAGCTGGGAAgtggcccggtaacctctgatagtcatgaattctgatagtccccaaaattggaaagctt Alignment from Exonerate_coding2genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAG gcctatgttgttctgttgccccccctcaaatgtcacaatttcttttgtagGTAAACTGGGAATGTGTACGAGGATTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGATATCCAATCTTTGTGTCACCATTGACCACATCTTTGCCTGGGACCCATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATAGCTGGGAAgtggcccggtaacctctgatagtcatgaattctgatagtccccaaaattggaaagctt Alignment from GeneWise GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAG------AG gcctatgttgttctgttgccccccctcaaatgtcacaatttcttttgtagGTAAACTGGGAATGTGTACGAGGATTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGATATCCAATCTTTGTGTCACCATTGACCACATCTTTGCCTGGGACCCATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATAGCTGGGAAGTGGCCCGgtaacctctgatagtcatgaattctgatagtccccaaaattggaaagctt #### Pcnxl3_ID1167_26 --> 2 - 1 Original Alignment gcGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGG------------g aggcaatgggtttacttggtttacttgacctggcttacctctccccacaggaGCTGATGACAACAACCTCAATTTGCTCTTCTATCAACATTTGACGCGCTCACTGCAACACATGCTTTGTGGTGATCTGGTACTGGGCTGCTGGGGCAACTATGGTCCAGGAGATTGCTTCGTCCTGGCCCCAGACTACCTCAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGCCTCATCACCTACCAGCTCCATGGCCTCAAGTTCCGGCGGTTGGCTGAAggtaagtcagactgggatcgtacacaagttaggggcagagcatagatatat Alignment from CESAR gcGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGG------------g aggcaatgggtttacttggtttacttgacctggcttacctctccccacaggaGCTGATGACAACAACCTCAATTTGCTCTTCTATCAACATTTGACGCGCTCACTGCAACACATGCTTTGTGGTGATCTGGTACTGGGCTGCTGGGGCAACTATGGTCCAGGAGATTGCTTCGTCCTGGCCCCAGACTACCTCAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGCCTCATCACCTACCAGCTCCATGGCCTCAAGTTCCGGCGGTTGGCTGAAggtaagtcagactgggatcgtacacaagttaggggcagagcatagatatat Alignment from Spaln_aa2Genome GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGG------------G aggcaatgggtttacttggtttacttgacctggcttacctctccccacagGAGCTGATGACAACAACCTCAATTTGCTCTTCTATCAACATTTGACGCGCTCACTGCAACACATGCTTTGTGGTGATCTGGTACTGGGCTGCTGGGGCAACTATGGTCCAGGAGATTGCTTCGTCCTGGCCCCAGACTACCTCAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGCCTCATCACCTACCAGCTCCATGGCCTCAAGTTCCGGCGGTTGGCTGAAGgtaagtcagactgggatcgtacacaagttaggggcagagcatagatatat Alignment from Spaln_nt2Genome GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGG-G aggcaatgggtttacttggtttacttgacctggcttacctctccccacagGAGCTGATGACAACAACCTCAATTTGCTCTTCTATCAACATTTGACGCGCTCACTGCAACACATGCTTTGTGGTGATCTGGTACTGGGCTGCTGGGGCAACTATGGTCCAGGAGATTGCTTCGTCCTGGCCCCAGACTACCTCAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGCCTCATCACCTACCAGCTCCATGGCCTCAAGTTCCGGCGgttggctgaaggtaagtcagactgggatcgtacacaagttaggggcagagcatagatatat Alignment from Pairagon GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGG------------G aggcaatgggtttacttggtttacttgacctggcttacctctccccacagGAGCTGATGACAACAACCTCAATTTGCTCTTCTATCAACATTTGACGCGCTCACTGCAACACATGCTTTGTGGTGATCTGGTACTGGGCTGCTGGGGCAACTATGGTCCAGGAGATTGCTTCGTCCTGGCCCCAGACTACCTCAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGCCTCATCACCTACCAGCTCCATGGCCTCAAGTTCCGGCGGTTGGCTGAAGgtaagtcagactgggatcgtacacaagttaggggcagagcatagatatat Alignment from Exonerate_protein2genome GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCG aggcaatgggtttacttggtttacttgacctggcttacctctccccacagGAGCTGATGACAACAACCTCAATTTGCTCTTCTATCAACATTTGACGCGCTCACTGCAACACATGCTTTGTGGTGATCTGGTACTGGGCTGCTGGGGCAACTATGGTCCAGGAGATTGCTTCGTCCTGGCCCCAGACTACCTCAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGCCTCATCACCTACCAGCTCCATGGCCTCAAGTTCCGgcggttggctgaaggtaagtcagactgggatcgtacacaagttaggggcagagcatagatatat Alignment from Exonerate_coding2genome GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCG aggcaatgggtttacttggtttacttgacctggcttacctctccccacagGAGCTGATGACAACAACCTCAATTTGCTCTTCTATCAACATTTGACGCGCTCACTGCAACACATGCTTTGTGGTGATCTGGTACTGGGCTGCTGGGGCAACTATGGTCCAGGAGATTGCTTCGTCCTGGCCCCAGACTACCTCAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGCCTCATCACCTACCAGCTCCATGGCCTCAAGTTCCGgcggttggctgaaggtaagtcagactgggatcgtacacaagttaggggcagagcatagatatat Alignment from GeneWise CTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGG-- aggcaatgggtttacttggtttacttgacctggcttacctctccccacaggagCTGATGACAACAACCTCAATTTGCTCTTCTATCAACATTTGACGCGCTCACTGCAACACATGCTTTGTGGTGATCTGGTACTGGGCTGCTGGGGCAACTATGGTCCAGGAGATTGCTTCGTCCTGGCCCCAGACTACCTCAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGCCTCATCACCTACCAGCTCCATGGCCTCAAGTTCCGGCGgttggctgaaggtaagtcagactgggatcgtacacaagttaggggcagagcatagatatat #### Pcnxl3_ID1168_25 --> 1 - 1 Original Alignment c------ACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAg caccttcagactatgggagcagagtggacagagcttctctttctttgcagcGTCCTGACTAAACCTGTAGACCACTCTAACACTCGTCTAGTGACACAACTGGACCGGAACCCAggtagattacagcctgcccaggtcttcatagcaaggcaatgggtttacttg Alignment from CESAR c------ACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAg caccttcagactatgggagcagagtggacagagcttctctttctttgcagcGTCCTGACTAAACCTGTAGACCACTCTAACACTCGTCTAGTGACACAACTGGACCGGAACCCAggtagattacagcctgcccaggtcttcatagcaaggcaatgggtttacttg Alignment from Spaln_aa2Genome C------ACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAG caccttcagactatgggagcagagtggacagagcttctctttctttgcagCGTCCTGACTAAACCTGTAGACCACTCTAACACTCGTCTAGTGACACAACTGGACCGGAACCCAGgtagattacagcctgcccaggtcttcatagcaaggcaatgggtttacttg Alignment from Spaln_nt2Genome CACTAAACGTGT------GGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAG caccttcagactatgggagcagagtggacagagcttctctttctttgcagCGTCCTGACTAAACCTGTAGACCACTCTAACACTCGTCTAGTGACACAACTGGACCGGAACCCAGgtagattacagcctgcccaggtcttcatagcaaggcaatgggtttacttg Alignment from Pairagon C------ACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAG caccttcagactatgggagcagagtggacagagcttctctttctttgcagCGTCCTGACTAAACCTGTAGACCACTCTAACACTCGTCTAGTGACACAACTGGACCGGAACCCAGgtagattacagcctgcccaggtcttcatagcaaggcaatgggtttacttg Alignment from Exonerate_protein2genome C------ACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAG caccttcagactatgggagcagagtggacagagcttctctttctttgcagCGTCCTGACTAAACCTGTAGACCACTCTAACACTCGTCTAGTGACACAACTGGACCGGAACCCAGgtagattacagcctgcccaggtcttcatagcaaggcaatgggtttacttg Alignment from Exonerate_coding2genome C------ACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAG caccttcagactatgggagcagagtggacagagcttctctttctttgcagCGTCCTGACTAAACCTGTAGACCACTCTAACACTCGTCTAGTGACACAACTGGACCGGAACCCAGgtagattacagcctgcccaggtcttcatagcaaggcaatgggtttacttg Alignment from GeneWise ----AACACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAG caccttcagactatgggagcagagtggacagagcttctctttctttgcagCGTCCTGACTAAACCTGTAGACCACTCTAACACTCGTCTAGTGACACAACTGGACCGGAACCCAGgtagattacagcctgcccaggtcttcatagcaaggcaatgggtttacttg #### Pcnxl3_ID1169_24 --> 2 - 2 Original Alignment acTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTAC---------aa ggctacagaggagaggagagggaggcagccttcccttcctgtatcctcagacTCAGCTATGTTGTTCCTTCAAGCCTTGCTTTCAGGTCTTTTCTCTACCCCGCTCAATCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGACCCCTCAAGTTCTGGGAGAGAGACTACGTCAGAAAGaagtaagacagcgagggggagcactgttgtcccagagagaccttaaaggatt Alignment from CESAR acTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTAC---------aa ggctacagaggagaggagagggaggcagccttcccttcctgtatcctcagacTCAGCTATGTTGTTCCTTCAAGCCTTGCTTTCAGGTCTTTTCTCTACCCCGCTCAATCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGACCCCTCAAGTTCTGGGAGAGAGACTACGTCAGAAAGaagtaagacagcgagggggagcactgttgtcccagagagaccttaaaggatt Alignment from Spaln_aa2Genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAAC-------- ggctacagaggagaggagagggaggcagccttcccttcctgtatcctcagACTCAGCTATGTTGTTCCTTCAAGCCTTGCTTTCAGGTCTTTTCTCTACCCCGCTCAATCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGACCCCTCAAGTTCTGGGAGAGAGACTACGTCAGAAAGAAgtaagacagcgagggggagcactgttgtcccagagagaccttaaaggatt Alignment from Spaln_nt2Genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTAC ggctacagaggagaggagagggaggcagccttcccttcctgtatcctcagACTCAGCTATGTTGTTCCTTCAAGCCTTGCTTTCAGGTCTTTTCTCTACCCCGCTCAATCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGACCCCTCAAGTTCTGGGAGAGAGACTACgtcagaaagaagtaagacagcgagggggagcactgttgtcccagagagaccttaaaggatt Alignment from Pairagon ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTAC---------AA ggctacagaggagaggagagggaggcagccttcccttcctgtatcctcagACTCAGCTATGTTGTTCCTTCAAGCCTTGCTTTCAGGTCTTTTCTCTACCCCGCTCAATCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGACCCCTCAAGTTCTGGGAGAGAGACTACGTCAGAAAGAAgtaagacagcgagggggagcactgttgtcccagagagaccttaaaggatt Alignment from Exonerate_protein2genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTAC ggctacagaggagaggagagggaggcagccttcccttcctgtatcctcagACTCAGCTATGTTGTTCCTTCAAGCCTTGCTTTCAGGTCTTTTCTCTACCCCGCTCAATCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGACCCCTCAAGTTCTGGGAGAGAGACTACgtcagaaagaagtaagacagcgagggggagcactgttgtcccagagagaccttaaaggatt Alignment from Exonerate_coding2genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTAC ggctacagaggagaggagagggaggcagccttcccttcctgtatcctcagACTCAGCTATGTTGTTCCTTCAAGCCTTGCTTTCAGGTCTTTTCTCTACCCCGCTCAATCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGACCCCTCAAGTTCTGGGAGAGAGACTACgtcagaaagaagtaagacagcgagggggagcactgttgtcccagagagaccttaaaggatt Alignment from GeneWise ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTAC---------AA ggctacagaggagaggagagggaggcagccttcccttcctgtatcctcagACTCAGCTATGTTGTTCCTTCAAGCCTTGCTTTCAGGTCTTTTCTCTACCCCGCTCAATCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGACCCCTCAAGTTCTGGGAGAGAGACTACGTCAGAAAGAAgtaagacagcgagggggagcactgttgtcccagagagaccttaaaggatt #### Pcnxl3_ID1185_8 --> 1 - 1 Original Alignment c---AGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGTg tcccagtgcagaaggactgggtctcctatcagtgccttttccccccatagcGTTAGTCTG---AAAGCCCAGCGTGGCCAGGCTGCTTCTCACTGCAGGGCACTAACTCTGCCCTCTGCATTACACTTTGCATCTTCCTTGCTGCTCACCCGAGCAGGCCCCAATGTCCATGAAGCAAGCAATTTCCATGATACCTCCGAGGGTGCTGTCCACTATTCTTATGATGAGAGTggtaggaccttcccaagctgaccacttattaggcctgtttgtggtgactgc Alignment from CESAR c---AGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGTg tcccagtgcagaaggactgggtctcctatcagtgccttttccccccatagcGTTAGTCTGAAA---GCCCAGCGTGGCCAGGCTGCTTCTCACTGCAGGGCACTAACTCTGCCCTCTGCATTACACTTTGCATCTTCCTTGCTGCTCACCCGAGCAGGCCCCAATGTCCATGAAGCAAGCAATTTCCATGATACCTCCGAGGGTGCTGTCCACTATTCTTATGATGAGAGTggtaggaccttcccaagctgaccacttattaggcctgtttgtggtgactgc Alignment from Spaln_aa2Genome CAGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGTG tcccagtgcagaaggactgggtctcctatcagtgccttttccccccatagCGTTAGTCTGAAAGCCCAGCGTGGCCAGGCTGCTTCTCACTGCAGGGCACTAACTCTGCCCTCTGCATTACACTTTGCATCTTCCTTGCTGCTCACCCGAGCAGGCCCCAATGTCCATGAAGCAAGCAATTTCCATGATACCTCCGAGGGTGCTGTCCACTATTCTTATGATGAGAGTGgtaggaccttcccaagctgaccacttattaggcctgtttgtggtgactgc Alignment from Spaln_nt2Genome CAGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGTG tcccagtgcagaaggactgggtctcctatcagtgccttttccccccatagCGTTAGTCTGAAAGCCCAGCGTGGCCAGGCTGCTTCTCACTGCAGGGCACTAACTCTGCCCTCTGCATTACACTTTGCATCTTCCTTGCTGCTCACCCGAGCAGGCCCCAATGTCCATGAAGCAAGCAATTTCCATGATACCTCCGAGGGTGCTGTCCACTATTCTTATGATGAGAGTGgtaggaccttcccaagctgaccacttattaggcctgtttgtggtgactgc Alignment from Pairagon CAGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGTG tcccagtgcagaaggactgggtctcctatcagtgccttttccccccatagcgttagtctgaaag--------------CCCAGCGTGGCCAGGCTGCTTCTCACTGCAGGGCACTAACTCTGCCCTCTGCATTACACTTTGCATCTTCCTTGCTGCTCACCCGAGCAGGCCCCAATGTCCATGAAGCAAGCAATTTCCATGATACCTCCGAGGGTGCTGTCCACTATTCTTATGATGAGAGTGgtaggaccttcccaagctgaccacttattaggcctgtttgtggtgactgc Alignment from Exonerate_protein2genome CAGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGTG tcccagtgcagaaggactgggtctcctatcagtgccttttccccccatagCGTTAGTCTGAAAGCCCAGCGTGGCCAGGCTGCTTCTCACTGCAGGGCACTAACTCTGCCCTCTGCATTACACTTTGCATCTTCCTTGCTGCTCACCCGAGCAGGCCCCAATGTCCATGAAGCAAGCAATTTCCATGATACCTCCGAGGGTGCTGTCCACTATTCTTATGATGAGAGTGgtaggaccttcccaagctgaccacttattaggcctgtttgtggtgactgc Alignment from Exonerate_coding2genome CAGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGTG tcccagtgcagaaggactgggtctcctatcagtgccttttccccccatagCGTTAGTCTGAAAGCCCAGCGTGGCCAGGCTGCTTCTCACTGCAGGGCACTAACTCTGCCCTCTGCATTACACTTTGCATCTTCCTTGCTGCTCACCCGAGCAGGCCCCAATGTCCATGAAGCAAGCAATTTCCATGATACCTCCGAGGGTGCTGTCCACTATTCTTATGATGAGAGTGgtaggaccttcccaagctgaccacttattaggcctgtttgtggtgactgc Alignment from GeneWise CAGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGTG tcccagtgcagaaggactgggtctcctatcagtgccttttccccccatagCGTTAGTCTGAAAGCCCAGCGTGGCCAGGCTGCTTCTCACTGCAGGGCACTAACTCTGCCCTCTGCATTACACTTTGCATCTTCCTTGCTGCTCACCCGAGCAGGCCCCAATGTCCATGAAGCAAGCAATTTCCATGATACCTCCGAGGGTGCTGTCCACTATTCTTATGATGAGAGTGgtaggaccttcccaagctgaccacttattaggcctgtttgtggtgactgc #### Pcnxl3_ID1188_5 --> 2 - 1 Original Alignment acATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGa ccatgattgggagaaagccggttagaatcacaatctgtccttctccacagacATCAAGGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCAGGCCGTGAAATGCTGAGGCTCAGCTCCAAG---------agtgagtggtcaatgcacgaatctggcaagaacatctgctgtgagaacagt Alignment from CESAR acATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGa ccatgattgggagaaagccggttagaatcacaatctgtccttctccacagacATCAAGGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCAGGCCGTGAAATGCTGAGGCTCAGCTCCAAG---------agtgagtggtcaatgcacgaatctggcaagaacatctgctgtgagaacagt Alignment from Spaln_aa2Genome ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAA- ccatgattgggagaaagccggttagaatcacaatctgtccttctccacagACATCAAGGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCAGGCCGTGAAATGCTGAGGCTCAGCTCCAAGAgtgagtggtcaatgcacgaatctggcaagaacatctgctgtgagaacagt Alignment from Spaln_nt2Genome ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTG ccatgattgggagaaagccggttagaatcacaatctgtccttctccacagACATCAAGGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCAGGCCGTGAAATGCTGAGGCTCAGCT-CCAAGAGTGAGTGgtcaatgcacgaatctggcaagaacatctgctgtgagaacagt Alignment from Pairagon ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA ccatgattgggagaaagccggttagaatcacaatctgtccttctccacagACATCAAGGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCAGGCCGTGAAATGCTGAGGCTCAGCTCCAA---------GAgtgagtggtcaatgcacgaatctggcaagaacatctgctgtgagaacagt Alignment from Exonerate_protein2genome ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAG ccatgattgggagaaagccggttagaatcacaatctgtccttctccacagACATCAAGGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCAGGCCGTGAAATGCTGAGGCTCAGCTCCAAGAgtgagtggtcaatgcacgaatctggcaagaacatctgctgtgagaacagt Alignment from Exonerate_coding2genome ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAG ccatgattgggagaaagccggttagaatcacaatctgtccttctccacagACATCAAGGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCAGGCCGTGAAATGCTGAGGCTCAGCTCCAAGAgtgagtggtcaatgcacgaatctggcaagaacatctgctgtgagaacagt Alignment from GeneWise ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAG ccatgattgggagaaagccggttagaatcacaatctgtccttctccacagACATCAAGGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCAGGCCGTGAAATGCTGAGGCTCAGCTCCAAGAgtgagtggtcaatgcacgaatctggcaagaacatctgctgtgagaacagt #### Pcnxl3_ID1191_2 --> 0 - 2 Original Alignment GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCA---------------------------ag tctggtgaacaatactgtgagaagggtttttattgctgttcatattatagGTCCCACCCCCCAGTCTCATGGTGGCTGGAGTGTATTGCCTAGTGGTGGCTGTTATTTTTGCTACCATCAAGACTGTAAACTATCGCCTCCACGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCCAAACTTCCAGTAGATAGTACTGGCTGGaggtaagtagtaatcccaggctgtgtcaaagtcaggccttgctgtgaactta Alignment from CESAR GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCA---------------------------ag tctggtgaacaatactgtgagaagggtttttattgctgttcatattatagGTCCCACCCCCCAGTCTCATGGTGGCTGGAGTGTATTGCCTAGTGGTGGCTGTTATTTTTGCTACCATCAAGACTGTAAACTATCGCCTCCACGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCCAAACTTCCAGTAGATAGTACTGGCTGGaggtaagtagtaatcccaggctgtgtcaaagtcaggccttgctgtgaactta Alignment from Spaln_aa2Genome GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAAGGGACCCTGGTGTGG tctggtgaacaatactgtgagaagggtttttattgctgttcatattatagGTCCCACCCCCCAGTCTCATGGTGGCTGGAGTGTATTGCCTAGTGGTGGCTGTTATTTTTGCTACCATCAAGACTGTAAACTATCGCCTCCACGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCCAAACTTCCAGTAGATAgtactggctggaggtaagtagtaatcccaggctgtgtcaaagtcaggccttgctgtgaactta Alignment from Spaln_nt2Genome GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAAG------- tctggtgaacaatactgtgagaagggtttttattgctgttcatattatagGTCCCACCCCCCAGTCTCATGGTGGCTGGAGTGTATTGCCTAGTGGTGGCTGTTATTTTTGCTACCATCAAGACTGTAAACTATCGCCTCCACGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCCAAACTTCCAgtagatagtactggctggaggtaagtagtaatcccaggctgtgtcaaagtcaggccttgctgtgaactta Alignment from Pairagon GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCC---------------------------AAG tctggtgaacaatactgtgagaagggtttttattgctgttcatattatagGTCCCACCCCCCAGTCTCATGGTGGCTGGAGTGTATTGCCTAGTGGTGGCTGTTATTTTTGCTACCATCAAGACTGTAAACTATCGCCTCCACGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCCAAACTTCCAGTAGATAGTACTGGCTGGAGgtaagtagtaatcccaggctgtgtcaaagtcaggccttgctgtgaactta Alignment from Exonerate_protein2genome GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAAGG tctggtgaacaatactgtgagaagggtttttattgctgttcatattatagGTCCCACCCCCCAGTCTCATGGTGGCTGGAGTGTATTGCCTAGTGGTGGCTGTTATTTTTGCTACCATCAAGACTGTAAACTATCGCCTCCACGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCCAAActtccagtagatagtactggctggaggtaagtagtaatcccaggctgtgtcaaagtcaggccttgctgtgaactta Alignment from Exonerate_coding2genome GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAAGGGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGC tctggtgaacaatactgtgagaagggtttttattgctgttcatattatagGTCCCACCCCCCAGTCTCATGGTGGCTGGAGTGTATTGCCTAGTGGTGGCTGTTATTTTTGCTACCATCAAGACTGTAAACTATCGCCTCCACGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCCAAACTTCCA---GTAGATAGTACTGGCTGGAGGTAAGTAGTAATCCCAGGCTGTGTCAAAgtcaggccttgctgtgaactta Alignment from GeneWise GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAAGG-------------------------- tctggtgaacaatactgtgagaagggtttttattgctgttcatattatagGTCCCACCCCCCAGTCTCATGGTGGCTGGAGTGTATTGCCTAGTGGTGGCTGTTATTTTTGCTACCATCAAGACTGTAAACTATCGCCTCCACGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCCAAACTTCCAGTAGATAGTACTGGCTGGAGgtaagtagtaatcccaggctgtgtcaaagtcaggccttgctgtgaactta #### Pcsk5_ID4264_19 --> 2 - 2 Original Alignment gg---------GCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGag gggtatgacatgtactggccgctcgtctgggaaattatttgtggttctagggAAGATGGACGCTGGAGCAGATGGATTTATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTGTGAGTTACTACTTGGACCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAaggtactcttactaattgtggcccagccccaacactcagtatgagcggcctt Alignment from CESAR gg---------GCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGag gggtatgacatgtactggccgctcgtctgggaaattatttgtggttctagggAAGATGGACGCTGGAGCAGATGGATTTATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTGTGAGTTACTACTTGGACCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAaggtactcttactaattgtggcccagccccaacactcagtatgagcggcctt Alignment from Spaln_aa2Genome CTTGCTCTGGGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG gggtatgacatgtactggccgctcgtctgggaaattatttgtggttctagGGAAGATGGACGCTGGAGCAGATGGATTTATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTGTGAGTTACTACTTGGACCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtactcttactaattgtggcccagccccaacactcagtatgagcggcctt Alignment from Spaln_nt2Genome CTTGCTCTGGGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG gggtatgacatgtactggccgctcgtctgggaaattatttgtggttctagGGAAGATGGACGCTGGAGCAGATGGATTTATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTGTGAGTTACTACTTGGACCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtactcttactaattgtggcccagccccaacactcagtatgagcggcctt Alignment from Pairagon GG---------GCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG gggtatgacatgtactggccgctcgtctgggaaattatttgtggttctagGGAAGATGGACGCTGGAGCAGATGGATTTATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTGTGAGTTACTACTTGGACCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtactcttactaattgtggcccagccccaacactcagtatgagcggcctt Alignment from Exonerate_protein2genome CTTGCTCTGGGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG gggtatgacatgtactggccgctcgtctgggaaattatttgtggttctagGGAAGATGGACGCTGGAGCAGATGGATTTATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTGTGAGTTACTACTTGGACCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtactcttactaattgtggcccagccccaacactcagtatgagcggcctt Alignment from Exonerate_coding2genome CTTGCTCTGGGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG gggtatgacatgtactggccgctcgtctgggaaattatttgtggttctagGGAAGATGGACGCTGGAGCAGATGGATTTATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTGTGAGTTACTACTTGGACCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtactcttactaattgtggcccagccccaacactcagtatgagcggcctt Alignment from GeneWise CTTGCTCTGGGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG gggtatgacatgtactggccgctcgtctgggaaattatttgtggttctagGGAAGATGGACGCTGGAGCAGATGGATTTATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTGTGAGTTACTACTTGGACCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtactcttactaattgtggcccagccccaacactcagtatgagcggcctt #### Pcx_ID553_3 --> 2 - 0 Original Alignment gt---------GAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tttatctcaggcatgttcaggaagggctatcaggaattgcctgcccccaggtAATCGCCCTGAGATTGCAATCCGAGTCTTTCGTGCATGCAGGGAACTGGGCATCCGCACAGTGGCTGTGTATTCGGAGCAGGACACAGGGCTAATGCATAGGCAGAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAGCCTATCTGCACATTCCAGACATCATCAGGGTTGCCAAGgtatgaatgccagggtttctgccgacttggtagaactctgcatgtcttat Alignment from CESAR gt---------GAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tttatctcaggcatgttcaggaagggctatcaggaattgcctgcccccaggtAATCGCCCTGAGATTGCAATCCGAGTCTTTCGTGCATGCAGGGAACTGGGCATCCGCACAGTGGCTGTGTATTCGGAGCAGGACACAGGGCTAATGCATAGGCAGAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAGCCTATCTGCACATTCCAGACATCATCAGGGTTGCCAAGgtatgaatgccagggtttctgccgacttggtagaactctgcatgtcttat Alignment from Spaln_aa2Genome GTGAGATTGCCATC---------CGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tttatctcaggcatgttcaggaagggctatcaggaattgcctgcccccagGTAATCGCCCTGAGATTGCAATCCGAGTCTTTCGTGCATGCAGGGAACTGGGCATCCGCACAGTGGCTGTGTATTCGGAGCAGGACACAGGGCTAATGCATAGGCAGAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAGCCTATCTGCACATTCCAGACATCATCAGGGTTGCCAAGgtatgaatgccagggtttctgccgacttggtagaactctgcatgtcttat Alignment from Spaln_nt2Genome GT---------GAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tttatctcaggcatgttcaggaagggctatcaggaattgcctgcccccagGTAATCGCCCTGAGATTGCAATCCGAGTCTTTCGTGCATGCAGGGAACTGGGCATCCGCACAGTGGCTGTGTATTCGGAGCAGGACACAGGGCTAATGCATAGGCAGAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAGCCTATCTGCACATTCCAGACATCATCAGGGTTGCCAAGgtatgaatgccagggtttctgccgacttggtagaactctgcatgtcttat Alignment from Pairagon -------------------------------------------------------------GAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG TTTATCTCAGGCATGTTCAGGAAGGGCTATCAGGAATTGCCTGCCCCCAGGTAATCGCCCTGAGATTGCAATCCGAGTCTTTCGTGCATGCAGGGAACTGGGCATCCGCACAGTGGCTGTGTATTCGGAGCAGGACACAGGGCTAATGCATAGGCAGAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAGCCTATCTGCACATTCCAGACATCATCAGGGTTGCCAAGgtatgaatgccagggtttctgccgacttggtagaactctgcatgtcttat Alignment from Exonerate_protein2genome CCAACAGAGGTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tttatctcaggcatgttcaggaagggctatcaggaattgcctgcccccagGTAATCGCCCTGAGATTGCAATCCGAGTCTTTCGTGCATGCAGGGAACTGGGCATCCGCACAGTGGCTGTGTATTCGGAGCAGGACACAGGGCTAATGCATAGGCAGAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAGCCTATCTGCACATTCCAGACATCATCAGGGTTGCCAAGgtatgaatgccagggtttctgccgacttggtagaactctgcatgtcttat Alignment from Exonerate_coding2genome CCAACAGAGGTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tttatctcaggcatgttcaggaagggctatcaggaattgcctgcccccagGTAATCGCCCTGAGATTGCAATCCGAGTCTTTCGTGCATGCAGGGAACTGGGCATCCGCACAGTGGCTGTGTATTCGGAGCAGGACACAGGGCTAATGCATAGGCAGAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAGCCTATCTGCACATTCCAGACATCATCAGGGTTGCCAAGgtatgaatgccagggtttctgccgacttggtagaactctgcatgtcttat Alignment from GeneWise ---GCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tttatctcaggcatgttcaggaagggctatcaggaattgcctgcccccaggtaatcgccctgagATTGCAATCCGAGTCTTTCGTGCATGCAGGGAACTGGGCATCCGCACAGTGGCTGTGTATTCGGAGCAGGACACAGGGCTAATGCATAGGCAGAAAGCAGATGAGGGTTACCTTCTTGGTCGTGGCCTGGCACCTGTCCAAGCCTATCTGCACATTCCAGACATCATCAGGGTTGCCAAGgtatgaatgccagggtttctgccgacttggtagaactctgcatgtcttat #### Pcx_ID554_4 --> 0 - 1 Original Alignment GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCA------------------------g gattaaagagagtgaagaacatcagtaagtctgttgttcccttttcccagGAAAATGGTGAAGATGCAGTGCATCCAGGCTATGGATTTCTCTCAGAGCAGGCTGACTTTGCCCAGGCCTGCCAGGATACTGGGGTCCGATTCATTGGTCCAAGCCCAGAGGTTGTACTTAAAATGGGAGACAGGGTGGAAGCCCAGGCTGTTGCCATAGATGCAACCAACTTGCTGACCCTAACTGATggtatcataagaaacaaaacattgaacctggaagtacaggcattctgagcc Alignment from CESAR GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAg gattaaagagagtgaagaacatcagtaagtctgttgttcccttttcccagGAAAATGGTGAAGATGCAGTGCATCCAGGCTATGGATTTCTCTCAGAGCAGGCTGACTTTGCCCAGGCCTGCCAGGATACTGGGGTCCGATTCATTGGTCCAAGCCCAGAGGTTGTACTTAAAATGGGAGACAGGGTGGAAGCCCAGGCTGTTGCCATAGATGCAaccaacttgctgaccctaactgatggtatcataagaaacaaaacattgaacctggaagtacaggcattctgctca Alignment from Spaln_aa2Genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCA------------------------G gattaaagagagtgaagaacatcagtaagtctgttgttcccttttcccagGAAAATGGTGAAGATGCAGTGCATCCAGGCTATGGATTTCTCTCAGAGCAGGCTGACTTTGCCCAGGCCTGCCAGGATACTGGGGTCCGATTCATTGGTCCAAGCCCAGAGGTTGTACTTAAAATGGGAGACAGGGTGGAAGCCCAGGCTGTTGCCATAGATGCAACCAACTTGCTGACCCTAACTGATGgtatcataagaaacaaaacattgaacctggaagtacaggcattctgagcc Alignment from Spaln_nt2Genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCT gattaaagagagtgaagaacatcagtaagtctgttgttcccttttcccagGAAAATGGTGAAGATGCAGTGCATCCAGGCTATGGATTTCTCTCAGAGCAGGCTGACTTTGCCCAGGCCTGCCAGGATACTGGGGTCCGATTCATTGGTCCAAGCCCAGAGGTTGTACTTAAAATGGGAGACAGGGTGGAAGCCCAGGCTGTTGCCATAGATgcaaccaacttgctgaccctaactgatggtatcataagaaacaaaacattgaacctggaagtacaggcattctgagcc Alignment from Pairagon GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTG----------------------------------------------------------------------------- gattaaagagagtgaagaacatcagtaagtctgttgttcccttttcccagGAAAATGGTGAAGATGCAGTGCATCCAGGCTATGGATTTCTCTCAGAGCAGGCTGACTTTGCCCAGGCCTGCCAGGATACTGGGGTCCGATTCATTGGTCCAAGCCCAGAGGTTGTACTTAAAATGGGAGACAGGGTGGAAGCCCAGGCTGTTGCCATAGATGCAACCAACTTGCTGACCCTAACTGATGGTATCATAAGAAACAAAACATTGAACCTGGAAGTACAGGCATTCTGAGCC Alignment from Exonerate_protein2genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG gattaaagagagtgaagaacatcagtaagtctgttgttcccttttcccagGAAAATGGTGAAGATGCAGTGCATCCAGGCTATGGATTTCTCTCAGAGCAGGCTGACTTTGCCCAGGCCTGCCAGGATACTGGGGTCCGATTCATTGGTCCAAGCCCAGAGGTTGTACTTAAAATGGGAGACAGGGTGGAAGCCCAGGCTGTTGCCATAGATGCAAccaacttgctgaccctaactgatggtatcataagaaacaaaacattgaacctggaagtacaggcattctgagcc Alignment from Exonerate_coding2genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG gattaaagagagtgaagaacatcagtaagtctgttgttcccttttcccagGAAAATGGTGAAGATGCAGTGCATCCAGGCTATGGATTTCTCTCAGAGCAGGCTGACTTTGCCCAGGCCTGCCAGGATACTGGGGTCCGATTCATTGGTCCAAGCCCAGAGGTTGTACTTAAAATGGGAGACAGGGTGGAAGCCCAGGCTGTTGCCATAGATGCAAccaacttgctgaccctaactgatggtatcataagaaacaaaacattgaacctggaagtacaggcattctgagcc Alignment from GeneWise GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCA------------------------G gattaaagagagtgaagaacatcagtaagtctgttgttcccttttcccagGAAAATGGTGAAGATGCAGTGCATCCAGGCTATGGATTTCTCTCAGAGCAGGCTGACTTTGCCCAGGCCTGCCAGGATACTGGGGTCCGATTCATTGGTCCAAGCCCAGAGGTTGTACTTAAAATGGGAGACAGGGTGGAAGCCCAGGCTGTTGCCATAGATGCAACCAACTTGCTGACCCTAACTGATGgtatcataagaaacaaaacattgaacctggaagtacaggcattctgagcc #### Pcx_ID565_14 --> 1 - 0 Original Alignment g---TTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG aatgaatcataggagtcagaaatgtatcgttcatccctcctcaaaactaggATATTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCAGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATCTCCTACACTGGGGAAGTGGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGATCTCACATATTGTGTATTAAGgtaagagggctattcagtgtgtctctctcttttgatcataactgaagctt Alignment from CESAR g---TTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG aatgaatcataggagtcagaaatgtatcgttcatccctcctcaaaactaggATATTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCAGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATCTCCTACACTGGGGAAGTGGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGATCTCACATATTGTGTATTAAGgtaagagggctattcagtgtgtctctctcttttgatcataactatctgtg Alignment from Spaln_aa2Genome GTTCTGT---GAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG aatgaatcataggagtcagaaatgtatcgttcatccctcctcaaaactagGATATTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCAGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATCTCCTACACTGGGGAAGTGGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGATCTCACATATTGTGTATTAAGgtaagagggctattcagtgtgtctctctcttttgatcataactgaagctt Alignment from Spaln_nt2Genome GTTCTGTGAGG---TGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG aatgaatcataggagtcagaaatgtatcgttcatccctcctcaaaactagGATATTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCAGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATCTCCTACACTGGGGAAGTGGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGATCTCACATATTGTGTATTAAGgtaagagggctattcagtgtgtctctctcttttgatcataactgaagctt Alignment from Pairagon G-----------------------------------------TTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG aatgaatcatagGAGTCAGAAATGTATCGTTCATCCCTCCTCAAAACTAGGATATTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCAGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATCTCCTACACTGGGGAAGTGGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGATCTCACATATTGTGTATTAAGgtaagagggctattcagtgtgtctctctcttttgatcataactgaagctt Alignment from Exonerate_protein2genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG aatgaatcataggagtcagaaatgtatcgttcatccctcctcaaaactaggatATTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCAGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATCTCCTACACTGGGGAAGTGGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGATCTCACATATTGTGTATTAAGgtaagagggctattcagtgtgtctctctcttttgatcataactgaagctt Alignment from Exonerate_coding2genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG aatgaatcataggagtcagaaatgtatcgttcatccctcctcaaaactaggatATTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCAGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATCTCCTACACTGGGGAAGTGGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGATCTCACATATTGTGTATTAAGgtaagagggctattcagtgtgtctctctcttttgatcataactgaagctt Alignment from GeneWise -AAGTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG aatgaatcataggagtcagaaatgtatcgttcatccctcctcaaaactagGATATTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCAGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATCTCCTACACTGGGGAAGTGGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGATCTCACATATTGTGTATTAAGgtaagagggctattcagtgtgtctctctcttttgatcataactgaagctt #### Pcx_ID569_18 --> 0 - 0 Original Alignment GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG--------------- aggttggtcagggtggaaacaggtcttaacttgcctctgctcggtttcagGTGCTAAAGGACCTGCCAAGAATTGAAGGACGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGTTGGATAAGGGCCTGATTGATAGACACGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCGGCTATGTACCCATAT------ACACAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACACGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGCAATACTGCCGAAGGgtaagaggtttctatatttgtgtctactcatccccagggccttcagtttg Alignment from CESAR GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG--------------- aggttggtcagggtggaaacaggtcttaacttgcctctgctcggtttcagGTGCTAAAGGACCTGCCAAGAATTGAAGGACGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGTTGGATAAGGGCCTGATTGATAGACACGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCGGCTATGTACCCA------TATACACAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACACGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGCAATACTGCCGAAGGgtaagaggtttctatatttgtgtctactcatccccagggccttcagtttg Alignment from Spaln_aa2Genome GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG--------------- aggttggtcagggtggaaacaggtcttaacttgcctctgctcggtttcagGTGCTAAAGGACCTGCCAAGAATTGAAGGACGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGTTGGATAAGGGCCTGATTGATAGACACGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCGGCTATGTACCCA------TATACACAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACACGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGCAATACTGCCGAAGGgtaagaggtttctatatttgtgtctactcatccccagggccttcagtttg Alignment from Spaln_nt2Genome GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGA aggttggtcagggtggaaacaggtcttaacttgcctctgctcggtttcagGTGCTAAAGGACCTGCCAAGAATTGAAGGACGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGTTGGATAAGGGCCTGATTGATAGACACGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCGGCTATGTACCC------ATATACACAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACACGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAgcaatactgccgaagggtaagaggtttctatatttgtgtctactcatccccagggccttcagtttg Alignment from Pairagon GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG--------------- aggttggtcagggtggaaacaggtcttaacttgcctctgctcggtttcagGTGCTAAAGGACCTGCCAAGAATTGAAGGACGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGTTGGATAAGGGCCTGATTGATAGACACGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCGGCTATGTACCC------ATATACACAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACACGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGCAATACTGCCGAAGGgtaagaggtttctatatttgtgtctactcatccccagggccttcagtttg Alignment from Exonerate_protein2genome GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttggtcagggtggaaacaggtcttaacttgcctctgctcggtttcagGTGCTAAAGGACCTGCCAAGAATTGAAGGACGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGTTGGATAAGGGCCTGATTGATAGACACGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCGGCTATGTACCCA------TATACACAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACACGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGcaatactgccgaagggtaagaggtttctatatttgtgtctactcatccccagggccttcagtttg Alignment from Exonerate_coding2genome GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttggtcagggtggaaacaggtcttaacttgcctctgctcggtttcagGTGCTAAAGGACCTGCCAAGAATTGAAGGACGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGTTGGATAAGGGCCTGATTGATAGACACGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCGGCTATGTACCCA------TATACACAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACACGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGcaatactgccgaagggtaagaggtttctatatttgtgtctactcatccccagggccttcagtttg Alignment from GeneWise GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG--------------- aggttggtcagggtggaaacaggtcttaacttgcctctgctcggtttcagGTGCTAAAGGACCTGCCAAGAATTGAAGGACGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGTTGGATAAGGGCCTGATTGATAGACACGGTGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCGGCTATGTACCCA------TATACACAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACACGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGCAATACTGCCGAAGGgtaagaggtttctatatttgtgtctactcatccccagggccttcagtttg #### Pcx_ID570_19 --> 0 - 0 Original Alignment GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG--------------------------- ctgccaccaagacttagtcccccccccctgtccctctcttttcttcttagGTTGAGCTAGAGCAAGGAAAAACACTGCACATTAAAGCTTTGGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTTTGAACTCAATGGGCAGCTTCGATCCATTTTAGTCAAAGACACCCAGTCCATGAAGCGGGAAGAAATTGTCGACTGGTGGAGTgtaagtctaaatttgattccattaggtagtcacactactatgctccgtgt Alignment from CESAR GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG--------------------------- ctgccaccaagacttagtcccccccccctgtccctctcttttcttcttagGTTGAGCTAGAGCAAGGAAAAACACTGCACATTAAAGCTTTGGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTTTGAACTCAATGGGCAGCTTCGATCCATTTTAGTCAAAGACACCCAGTCCATGAAGCGGGAAGAAATTGTCGACTGGTGGAGTgtaagtctaaatttgattccattaggtagtcacacttgccgctgctctta Alignment from Spaln_aa2Genome GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG------------ ctgccaccaagacttagtcccccccccctgtccctctcttttcttcttagGTTGAGCTAGAGCAAGGAAAAACACTGCACATTAAAGCTTTGGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTTTGAACTCAATGGGCAGCTTCGATCCATTTTAGTCAAAGACACCCAGTCCATGAAGCGGGAAGAAATTgtcgactggtggagtgtaagtctaaatttgattccattaggtagtcacactactatgctccgtgt Alignment from Spaln_nt2Genome GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAA ctgccaccaagacttagtcccccccccctgtccctctcttttcttcttagGTTGAGCTAGAGCAAGGAAAAACACTGCACATTAAAGCTTTGGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTTTGAACTCAATGGGCAGCTTCGATCCATTTTAGTCAAAGACACCCAGTCCATGAAgcgggaagaaattgtcgactggtggagtgtaagtctaaatttgattccattaggtagtcacactactatgctccgtgt Alignment from Pairagon GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGA------------------------------------------------------------------------------- ctgccaccaagacttagtcccccccccctgtccctctcttttcttcttagGTTGAGCTAGAGCAAGGAAAAACACTGCACATTAAAGCTTTGGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTTTGAACTCAATGGGCAGCTTCGATCCATTTTAGTCAAAGACACCCAGTCCATGAAGCGGGAAGAAATTGTCGACTGGTGGAGTGTAAGTCTAAATTTGATTCCATTAGGTAGTCACACTACTATGCTCCGTGT Alignment from Exonerate_protein2genome GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG ctgccaccaagacttagtcccccccccctgtccctctcttttcttcttagGTTGAGCTAGAGCAAGGAAAAACACTGCACATTAAAGCTTTGGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTTTGAACTCAATGGGCAGCTTCGATCCATTTTAGTCAAAGACACCCAGTCCATGAAGcgggaagaaattgtcgactggtggagtgtaagtctaaatttgattccattaggtagtcacactactatgctccgtgt Alignment from Exonerate_coding2genome GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG ctgccaccaagacttagtcccccccccctgtccctctcttttcttcttagGTTGAGCTAGAGCAAGGAAAAACACTGCACATTAAAGCTTTGGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTTTGAACTCAATGGGCAGCTTCGATCCATTTTAGTCAAAGACACCCAGTCCATGAAGcgggaagaaattgtcgactggtggagtgtaagtctaaatttgattccattaggtagtcacactactatgctccgtgt Alignment from GeneWise GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG------------ ctgccaccaagacttagtcccccccccctgtccctctcttttcttcttagGTTGAGCTAGAGCAAGGAAAAACACTGCACATTAAAGCTTTGGCTATAAGTGACCTGAACCGCACTGGCCAGAGACAGGTGTTTTTTGAACTCAATGGGCAGCTTCGATCCATTTTAGTCAAAGACACCCAGTCCATGAAGCGGGAAGAAATTgtcgactggtggagtgtaagtctaaatttgattccattaggtagtcacactactatgctccgtgt #### Pdcd11_ID10129_23 --> 0 - 1 Original Alignment GTTCTGAAACACCCAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAg gaccccatgttcactaacaaatcttggttttgctttttgtttttacttagGTTCTCAAACACCCGGACAGAAAGTTCCAGGTAGGGCAGGCCATTGAGGCCACAGTTGTTGACCCAGAAGTCCCCAGGGCTTTTTTATGTCTG---------ggtgagtaatctgcctggtaatttggtttatgccagaatgagactgtgtgg Alignment from CESAR GTTCTGAAACACCCAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAg gaccccatgttcactaacaaatcttggttttgctttttgtttttacttagGTTCTCAAACACCCGGACAGAAAGTTCCAGGTAGGGCAGGCCATTGAGGCCACAGTTGTTGACCCAGAAGTCCCCAGGGCTTTTTTATGTCTG---------ggtgagtaatctgcctggtaatttggtttatgccagaatgagactgtgtgg Alignment from Spaln_aa2Genome GTTCTGAAACACCCAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTG- gaccccatgttcactaacaaatcttggttttgctttttgtttttacttagGTTCTCAAACACCCGGACAGAAAGTTCCAGGTAGGGCAGGCCATTGAGGCCACAGTTGTTGACCCAGAAGTCCCCAGGGCTTTTTTATGTCTGGgtgagtaatctgcctggtaatttggtttatgccagaatgagactgtgtgg Alignment from Spaln_nt2Genome GTTCTGAAACACCCAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGT gaccccatgttcactaacaaatcttggttttgctttttgtttttacttagGTTCTCAAACACCCGGACAGAAAGTTCCAGGTAGGGCAGGCCATTGAGGCCACAGTTGTTGACCCAGAAGTCCCCAGGGCTTTTTTATGTCTGGgtgagtaatctgcctggtaatttggtttatgccagaatgagactgtgtgg Alignment from Pairagon GTTCTGAAACACCCAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAG gaccccatgttcactaacaaatcttggttttgctttttgtttttacttagGTTCTCAAACACCCGGACAGAAAGTTCCAGGTAGGGCAGGCCATTGAGGCCACAGTTGTTGACCCAGAAGTCCCCAGGGCTTTTTTATGTCTG---------Ggtgagtaatctgcctggtaatttggtttatgccagaatgagactgtgtgg Alignment from Exonerate_protein2genome GTTCTGAAACACCCAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGT gaccccatgttcactaacaaatcttggttttgctttttgtttttacttagGTTCTCAAACACCCGGACAGAAAGTTCCAGGTAGGGCAGGCCATTGAGGCCACAGTTGTTGACCCAGAAGTCCCCAGGGCTTTTTTATGTCTGGgtgagtaatctgcctggtaatttggtttatgccagaatgagactgtgtgg Alignment from Exonerate_coding2genome GTTCTGAAACACCCAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGT gaccccatgttcactaacaaatcttggttttgctttttgtttttacttagGTTCTCAAACACCCGGACAGAAAGTTCCAGGTAGGGCAGGCCATTGAGGCCACAGTTGTTGACCCAGAAGTCCCCAGGGCTTTTTTATGTCTGGgtgagtaatctgcctggtaatttggtttatgccagaatgagactgtgtgg Alignment from GeneWise GTTCTGAAACACCCAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGT gaccccatgttcactaacaaatcttggttttgctttttgtttttacttagGTTCTCAAACACCCGGACAGAAAGTTCCAGGTAGGGCAGGCCATTGAGGCCACAGTTGTTGACCCAGAAGTCCCCAGGGCTTTTTTATGTCTGGgtgagtaatctgcctggtaatttggtttatgccagaatgagactgtgtgg #### Pdcd11_ID10134_28 --> 1 - 0 Original Alignment cGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG ggggtgcccggacaccttcttccccatcaagtatttgccttctcttttagcATCAACCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCAAGATGTTTCCCCTCCTGCCCCGGAACCAGAACAAGAGGAAGGTAGCGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAGAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCGCAGAAGTCACAGAGGGGTGGGCGAGGTAAGCGTGAGCATCAT------------------gtaagtcaggcagtatgtatttcgatatggccattgattgcctcatctca Alignment from CESAR cGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG ggggtgcccggacaccttcttccccatcaagtatttgccttctcttttagcATCAACCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCAAGATGTTTCCCCTCCTGCCCCGGAACCAGAACAAGAGGAAGGTAGCGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAGAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCGCAGAAGTCACAGAGGGGTGGGCGAGGTAAGCGTGAGCAT------------------CATgtaagtcaggcagtatgtatttcgatatggccattgattgcctcatctca Alignment from Spaln_aa2Genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGC ggggtgcccggacaccttcttccccatcaagtatttgccttctcttttagCATCAACCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCAAGATGTTTCCCCTCCTGCCCCGGAACCAGAACAAGAGGAAGGTAGCGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAGAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCGCAGAAGTCACAGAGGGGTGGGCGAGGTAAGCGTGAGCATCATGTAAGTCAGGCAgtatgtatttcgatatggccattgattgcctcatctca Alignment from Spaln_nt2Genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG ggggtgcccggacaccttcttccccatcaagtatttgccttctcttttagCATCAACCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCAAGATGTTTCCCCTCCTGCCCCGGAACCAGAACAAGAGGAAGGTAGCGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAGAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCGCAGAAGTCACAGAGGGGTGGGCGAGGTAAGCGTGAGCATCA--TGTAAGTCAGGCAGTATgtatttcgatatggccattgattgcctcatctca Alignment from Pairagon CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAG ggggtgcccggacaccttcttccccatcaagtatttgccttctcttttagCATCAACCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCAAGATGTTTCCCCTCCTGCCCCGGAACCAGAACAAGAGGAAGGTAGCGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAGAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCGCAGAAGTCACAGAGGGGTGGGCGAGGTAAGCGTGAGCATCATgtaagtcaggcagtatgtatttcgatatggccattgattgcctcatctca Alignment from Exonerate_protein2genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGC ggggtgcccggacaccttcttccccatcaagtatttgccttctcttttagCATCAACCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCAAGATGTTTCCCCTCCTGCCCCGGAACCAGAACAAGAGGAAGGTAGCGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAGAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCGCAGAAGTCACAGAGGGGTGGGCGAGGTAAGCGTGAGCATCATGTAAGTCAGGCAGTATgtatttcgatatggccattgattgcctcatctca Alignment from Exonerate_coding2genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGC ggggtgcccggacaccttcttccccatcaagtatttgccttctcttttagCATCAACCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCAAGATGTTTCCCCTCCTGCCCCGGAACCAGAACAAGAGGAAGGTAGCGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAGAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCGCAGAAGTCACAGAGGGGTGGGCGAGGTAAGCGTGAGCATCATGTAAGTCAGGCAGTATgtatttcgatatggccattgattgcctcatctca Alignment from GeneWise CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGC ggggtgcccggacaccttcttccccatcaagtatttgccttctcttttagCATCAACCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCAAGATGTTTCCCCTCCTGCCCCGGAACCAGAACAAGAGGAAGGTAGCGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAGAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCGCAGAAGTCACAGAGGGGTGGGCGAGGTAAGCGTGAGCATCATGTAAGTCAGGCAgtatgtatttcgatatggccattgattgcctcatctca #### Pdcd11_ID10139_33 --> 0 - 1 Original Alignment GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGG------GCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAc ctaatgcaagtaatgttctaagaaagggttttgccttttctttcgtgaagGAAGCCGGAGAGCTGTATAACCGAATGATCAAACGGTTCCAGGAAGAGGACGCTGTCTGTATCAAATATGGTTCCTTTGGTTTGGGAAGGAGCCAGGCTGGGGCTGGAGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCG---------cgtgagttctttgttctgctttgctggcacctgatcccacccaatttgcta Alignment from CESAR GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAc ctaatgcaagtaatgttctaagaaagggttttgccttttctttcgtgaagGAAGCCGGAGAGCTGTATAACCGAATGATCAAACGGTTCCAGGAAGAGGACGCTGTCTGTATCAAATATGGTTCCTTTGGTTTGGGAAGGAGCCAGGCTGGGGCTGGAGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCG---------cgtgagttctttgttctgctttgctggcacctgatcccacccaatttgcta Alignment from Spaln_aa2Genome GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCC- ctaatgcaagtaatgttctaagaaagggttttgccttttctttcgtgaagGAAGCCGGAGAGCTGTATAACCGAATGATCAAACGGTTCCAGGAAGAGGACGCTGTCTGTATCAAATATGGTTCCTTTGGTTTGGGAAGGAGCCAGGCTGGGGCTGGAGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCGCgtgagttctttgttctgctttgctggcacctgatcccacccaatttgcta Alignment from Spaln_nt2Genome GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC ctaatgcaagtaatgttctaagaaagggttttgccttttctttcgtgaagGAAGCCGGAGAGCTGTATAACCGAATGATCAAACGGTTCCAGGAAGAGGACGCTGTCTGTATCAAATATGGTTCCTTTGGTTTGGGAAGGAGCCAGGCTGGGGCTGGAGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCC---------GCgtgagttctttgttctgctttgctggcacctgatcccacccaatttgcta Alignment from Pairagon GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC ctaatgcaagtaatgttctaagaaagggttttgccttttctttcgtgaagGAAGCCGGAGAGCTGTATAACCGAATGATCAAACGGTTCCAGGAAGAGGACGCTGTCTGTATCAAATATGGTTCCTTTGGTTTGGGAAGGAGCCAGGCTGGGGCTGGAGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCC---------GCgtgagttctttgttctgctttgctggcacctgatcccacccaatttgcta Alignment from Exonerate_protein2genome GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC ctaatgcaagtaatgttctaagaaagggttttgccttttctttcgtgaagGAAGCCGGAGAGCTGTATAACCGAATGATCAAACGGTTCCAGGAAGAGGACGCTGTCTGTATCAAATATGGTTCCTTTGGTTTGGGAAGGAGCCAGGCTGGGGCTGGAGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCGCGTGAGTTCTttgttctgctttgctggcacctgatcccacccaatttgcta Alignment from Exonerate_coding2genome GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC ctaatgcaagtaatgttctaagaaagggttttgccttttctttcgtgaagGAAGCCGGAGAGCTGTATAACCGAATGATCAAACGGTTCCAGGAAGAGGACGCTGTCTGTATCAAATATGGTTCCTTTGGTTTGGGAAGGAGCCAGGCTGGGGCTGGAGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCGCGTGAGTTCTttgttctgctttgctggcacctgatcccacccaatttgcta Alignment from GeneWise GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCG ctaatgcaagtaatgttctaagaaagggttttgccttttctttcgtgaagGAAGCCGGAGAGCTGTATAACCGAATGATCAAACGGTTCCAGGAAGAGGACGCTGTCTGTATCAAATATGGTTCCTTTGGTTTGGGAAGGAGCCAGGCTGGGGCTGGAGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCGCgtgagttctttgttctgctttgctggcacctgatcccacccaatttgcta #### Pitpnm1_ID306_3 --> 1 - 1 Original Alignment gTACACCTGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTG------g tttaaaatacatgaccttgagacctgaatccagtttgtttgtgttcccaggTACACCTGCCCCTTCATTGAGAAGTTCTCGATTGAAATAGAGACCTACTACTTGCCGGATGGGGGTCAGCAACCTAATGTCCTCAAC---AGCGGGGCTGAGAGAAGACAGCGAATTGTTTTCGGCggtagggccttccaggtcactatgtctcagcacgatgtgaaccgaggtctt Alignment from CESAR gTACACCTGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTG------g tttaaaatacatgaccttgagacctgaatccagtttgtttgtgttcccaggTACACCTGCCCCTTCATTGAGAAGTTCTCGATTGAAATAGAGACCTACTACTTGCCGGATGGGGGTCAGCAACCTAATGTCCTCAAC---AGCGGGGCTGAGAGAAGACAGCGAATTGTTTTCGGCggtagggccttccaggtcactatgtctcagcacgatgtgaaccgaggtctt Alignment from Spaln_aa2Genome GTACACCTGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTG------G tttaaaatacatgaccttgagacctgaatccagtttgtttgtgttcccagGTACACCTGCCCCTTCATTGAGAAGTTCTCGATTGAAATAGAGACCTACTACTTGCCGGATGGGGGTCAGCAACCTAATGTCCTCAAC---AGCGGGGCTGAGAGAAGACAGCGAATTGTTTTCGGCGgtagggccttccaggtcactatgtctcagcacgatgtgaaccgaggtctt Alignment from Spaln_nt2Genome GTACACCTGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTG------G tttaaaatacatgaccttgagacctgaatccagtttgtttgtgttcccagGTACACCTGCCCCTTCATTGAGAAGTTCTCGATTGAAATAGAGACCTACTACTTGCCGGATGGGGGTCAGCAACCTAATGTCCTCAAC---AGCGGGGCTGAGAGAAGACAGCGAATTGTTTTCGGCGgtagggccttccaggtcactatgtctcagcacgatgtgaaccgaggtctt Alignment from Pairagon GTACACCTGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGT------GG tttaaaatacatgaccttgagacctgaatccagtttgtttgtgttcccagGTACACCTGCCCCTTCATTGAGAAGTTCTCGATTGAAATAGAGACCTACTACTTGCCGGATGGGGGTCAGCAACCTAATGTCCTCAAC---AGCGGGGCTGAGAGAAGACAGCGAATTGTTTTCGGCGgtagggccttccaggtcactatgtctcagcacgatgtgaaccgaggtctt Alignment from Exonerate_protein2genome GTACACCTGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTG------G tttaaaatacatgaccttgagacctgaatccagtttgtttgtgttcccagGTACACCTGCCCCTTCATTGAGAAGTTCTCGATTGAAATAGAGACCTACTACTTGCCGGATGGGGGTCAGCAACCTAATGTCCTCAAC---AGCGGGGCTGAGAGAAGACAGCGAATTGTTTTCGGCGgtagggccttccaggtcactatgtctcagcacgatgtgaaccgaggtctt Alignment from Exonerate_coding2genome GTACACCTGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTG------G tttaaaatacatgaccttgagacctgaatccagtttgtttgtgttcccagGTACACCTGCCCCTTCATTGAGAAGTTCTCGATTGAAATAGAGACCTACTACTTGCCGGATGGGGGTCAGCAACCTAATGTCCTCAAC---AGCGGGGCTGAGAGAAGACAGCGAATTGTTTTCGGCGgtagggccttccaggtcactatgtctcagcacgatgtgaaccgaggtctt Alignment from GeneWise GTACACCTGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTG------G tttaaaatacatgaccttgagacctgaatccagtttgtttgtgttcccagGTACACCTGCCCCTTCATTGAGAAGTTCTCGATTGAAATAGAGACCTACTACTTGCCGGATGGGGGTCAGCAACCTAATGTCCTCAAC---AGCGGGGCTGAGAGAAGACAGCGAATTGTTTTCGGCGgtagggccttccaggtcactatgtctcagcacgatgtgaaccgaggtctt #### Pitpnm1_ID313_10 --> 1 - 0 Original Alignment cCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG tggacctgatatgtttgtattacctctatccctgttgcttgatattgcagt---AGTCCTTACAGCCATGATGGAGACTGTCTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTTCTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTCACCACCGTCATTGCTCACACCAACCAGGCCTTCGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaggtggctgactgtgttcacaaaagttagtcaatacttatgctgccgc Alignment from CESAR cCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG gagtggacctgatatgtttgtattactatccctgttgcttgatattgcagt---AGTCCTTACAGCCATGATGGAGACTGTCTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTTCTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTCACCACCGTCATTGCTCACACCAACCAGGCCTTCGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaggtggctgactgtgttcacaaaagttagtcaatacttatgctgccgc Alignment from Spaln_aa2Genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG tggacctgatatgtttgtattacctctatccctgttgcttgatattgcagT---AGTCCTTACAGCCATGATGGAGACTGTCTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTTCTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTCACCACCGTCATTGCTCACACCAACCAGGCCTTCGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaggtggctgactgtgttcacaaaagttagtcaatacttatgctgccgc Alignment from Spaln_nt2Genome -AGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG tggacctgatatgtttgtattacctctatccctgttgcttgatattgcagTAGTCCTTACAGCCATGATGGAGACTGTCTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTTCTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTCACCACCGTCATTGCTCACACCAACCAGGCCTTCGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaggtggctgactgtgttcacaaaagttagtcaatacttatgctgccgc Alignment from Pairagon CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG tggacctgatatgtttgtattacctctatccctgttgcttgatattgcag---TAGTCCTTACAGCCATGATGGAGACTGTCTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTTCTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTCACCACCGTCATTGCTCACACCAACCAGGCCTTCGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaggtggctgactgtgttcacaaaagttagtcaatacttatgctgccgc Alignment from Exonerate_protein2genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG tggacctgatatgtttgtattacctctatccctgttgcttgatattgCAGTAGTCCTTACAGCCATGATGGAGACTGTCTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTTCTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTCACCACCGTCATTGCTCACACCAACCAGGCCTTCGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaggtggctgactgtgttcacaaaagttagtcaatacttatgctgccgc Alignment from Exonerate_coding2genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG tggacctgatatgtttgtattacctctatccctgttgcttgatattgCAGTAGTCCTTACAGCCATGATGGAGACTGTCTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTTCTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTCACCACCGTCATTGCTCACACCAACCAGGCCTTCGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaggtggctgactgtgttcacaaaagttagtcaatacttatgctgccgc Alignment from GeneWise CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG tggacctgatatgtttgtattacctctatccctgttgcttgatattgcagT---AGTCCTTACAGCCATGATGGAGACTGTCTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTTCTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTCACCACCGTCATTGCTCACACCAACCAGGCCTTCGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaggtggctgactgtgttcacaaaagttagtcaatacttatgctgccgc #### Pitpnm1_ID319_16 --> 2 - 0 Original Alignment tcCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG--------- gttgaagactgcagtctgctttggactctgtttgctttttcactaaaaagtcCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGAGCCTGCTAgtgaggaaacccagggtgtggcccaacactgagctgagacaacagggact Alignment from CESAR tcCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG--------- gttgaagactgcagtctgctttggactctgtttgctttttcactaaaaagtcCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGAGCCTGCTAgtgaggaaacccagggtgtggcccaacactgagctgagacaacagggact Alignment from Spaln_aa2Genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG--------- gttgaagactgcagtctgctttggactctgtttgctttttcactaaaaagTCCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGAGCCTGCTAgtgaggaaacccagggtgtggcccaacactgagctgagacaacagggact Alignment from Spaln_nt2Genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG- gttgaagactgcagtctgctttggactctgtttgctttttcactaaaaagTCCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGAgcctgctagtgaggaaacccagggtgtggcccaacactgagctgagacaacagggact Alignment from Pairagon TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG--------- gttgaagactgcagtctgctttggactctgtttgctttttcactaaaaagTCCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGAGCCTGCTAgtgaggaaacccagggtgtggcccaacactgagctgagacaacagggact Alignment from Exonerate_protein2genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gttgaagactgcagtctgctttggactctgtttgctttttcactaaaaagTCCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGagcctgctagtgaggaaacccagggtgtggcccaacactgagctgagacaacagggact Alignment from Exonerate_coding2genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gttgaagactgcagtctgctttggactctgtttgctttttcactaaaaagTCCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGagcctgctagtgaggaaacccagggtgtggcccaacactgagctgagacaacagggact Alignment from GeneWise TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG--------- gttgaagactgcagtctgctttggactctgtttgctttttcactaaaaagTCCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGAGCCTGCTAgtgaggaaacccagggtgtggcccaacactgagctgagacaacagggact #### Pitpnm1_ID320_17 --> 0 - 0 Original Alignment ------GTCATTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG gatggtcacatataggtggatcttgtatctagcatgtgattgtcttgcagGACTGCATCATCGAAAAGGAGTGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGGAAAAATGGCAGTGCAAGCGAACACAGGTCAAGATCCGGgtatgaatcttactgtcctgtactagctaaagtgtgtcccttggatgctt Alignment from CESAR ------GTCATTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG gatggtcacatataggtggatcttgtatctagcatgtgattgtcttgcagGACTGCATCATCGAAAAGGAGTGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGGAAAAATGGCAGTGCAAGCGAACACAGGTCAAGATCCGGgtatgaatcttactgtcctgtactagctaaagtgtgtcccttggatgctt Alignment from Spaln_aa2Genome GTCATTGAGAAGGAG------CGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG gatggtcacatataggtggatcttgtatctagcatgtgattgtcttgcagGACTGCATCATCGAAAAGGAGTGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGGAAAAATGGCAGTGCAAGCGAACACAGGTCAAGATCCGGgtatgaatcttactgtcctgtactagctaaagtgtgtcccttggatgctt Alignment from Spaln_nt2Genome GTCATTGAGAAGGAG------CGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG gatggtcacatataggtggatcttgtatctagcatgtgattgtcttgcagGACTGCATCATCGAAAAGGAGTGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGGAAAAATGGCAGTGCAAGCGAACACAGGTCAAGATCCGGgtatgaatcttactgtcctgtactagctaaagtgtgtcccttggatgctt Alignment from Pairagon G------TCATTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG gatggtcacatataggtggatcttgtatctagcatgtgattgtcttgcagGACTGCATCATCGAAAAGGAGTGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGGAAAAATGGCAGTGCAAGCGAACACAGGTCAAGATCCGGgtatgaatcttactgtcctgtactagctaaagtgtgtcccttggatgctt Alignment from Exonerate_protein2genome ------GTCATTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG gatggtcacatataggtggatcttgtatctagcatgtgattgtcttgcagGACTGCATCATCGAAAAGGAGTGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGGAAAAATGGCAGTGCAAGCGAACACAGGTCAAGATCCGGgtatgaatcttactgtcctgtactagctaaagtgtgtcccttggatgctt Alignment from Exonerate_coding2genome ------GTCATTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG gatggtcacatataggtggatcttgtatctagcatgtgattgtcttgcagGACTGCATCATCGAAAAGGAGTGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGGAAAAATGGCAGTGCAAGCGAACACAGGTCAAGATCCGGgtatgaatcttactgtcctgtactagctaaagtgtgtcccttggatgctt Alignment from GeneWise ------GTCATTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG gatggtcacatataggtggatcttgtatctagcatgtgattgtcttgcagGACTGCATCATCGAAAAGGAGTGGCCACAATTAACTGAGTGTCAAGAACCATCCATCTACAGCCCTGCCTTCCCTAAGGAAAAATGGCAGTGCAAGCGAACACAGGTCAAGATCCGGgtatgaatcttactgtcctgtactagctaaagtgtgtcccttggatgctt #### Pitpnm1_ID321_18 --> 0 - 0 Original Alignment AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAG------ GTGGATGTCTACGTCATGACACAGC caacttactttgctttcagccttcttgtcctaacttcctctctcctgtagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGGTATGTGAGGGCCATCCCCAGGTGCTCAATGGCCATTTCATGTATGGACCATTGGATGTAGTTACACTCACCGGAGAAGAGAGCTGCgtacggtttgctgcttcctctgcagGTTGATGTCTATGTCATGACACAGC Alignment from CESAR AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAG------ GTGGATGTCTACGTCATGACACAGC caacttactttgctttcagccttcttgtcctaacttcctctctcctgtagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGGTATGTGAGGGCCATCCCCAGGTGCTCAATGGCCATTTCATGTATGGACCATTGGATGTAGTTACACTCACCGGAGAAGAGAGCTGCgtctgactattgtgttttgttctagGTTGATGTCTATGTCATGACACAGC Alignment from Spaln_aa2Genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAG-------------------------------AAGGTGGATGTCTACGTCATGACACAGC caacttactttgctttcagccttcttgtcctaacttcctctctcctgtagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGGTATGTGAGGGCCATCCCCAGGTGCTCAATGGCCATTTCATGTATGGACCATTGGATGTAGTTACACTCACCGGAGAAGAGAGCTGCGTACGGTTTGCTGCTTCCTCTgCAGGTTGATGTCTATGTCATGACACAGC Alignment from Spaln_nt2Genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGA-------------------------------GAAGGTGGATGTCTACGTCATGACACAGC caacttactttgctttcagccttcttgtcctaacttcctctctcctgtagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGGTATGTGAGGGCCATCCCCAGGTGCTCAATGGCCATTTCATGTATGGACCATTGGATGTAGTTACACTCACCGGAGAAGAGAGCTGCGTACGGTTTGCTGCTTCCTCTGCAGGTTGATGTCTATGTCATGACACAGC Alignment from Pairagon AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGA-------------------------------GAAGGTGGATGTCTACGTCATGACACAGC caacttactttgctttcagccttcttgtcctaacttcctctctcctgtagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGGTATGTGAGGGCCATCCCCAGGTGCTCAATGGCCATTTCATGTATGGACCATTGGATGTAGTTACACTCACCGGAGAAGAGAGCTGCGTACGGTTTGCTGCTTCCTCTGCAGGTTGATGTCTATGTCATGACACAGC Alignment from Exonerate_protein2genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGC caacttactttgctttcagccttcttgtcctaacttcctctctcctgtagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGGTATGTGAGGGCCATCCCCAGGTGCTCAATGGCCATTTCATGTATGGACCATTGGATGTAGTTACACTCACCGGAGAAGAGagctgcgtacggtttgctgcttcctctgcagGTTGATGTCTATGTCATGACACAGC Alignment from Exonerate_coding2genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGC caacttactttgctttcagccttcttgtcctaacttcctctctcctgtagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGGTATGTGAGGGCCATCCCCAGGTGCTCAATGGCCATTTCATGTATGGACCATTGGATGTAGTTACACTCACCGGAGAAGAGagctgcgtacggtttgctgcttcctctgcagGTTGATGTCTATGTCATGACACAGC Alignment from GeneWise AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAG---------------------------------AAGGTGGATGTCTACGTCATGACACA caacttactttgctttcagccttcttgtcctaacttcctctctcctgtagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGGTATGTGAGGGCCATCCCCAGGTGCTCAATGGCCATTTCATGTATGGACCATTGGATGTAGTTACACTCACCGGAGAAGAGAGCTGCGTACGGTTTGCTGCTTCCT--CTGCAGGTTGATGTCTATGTCATGACACA #### Pitpnm1_ID322_19 --> 0 - 2 Original Alignment TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCag TGTAGTTACACTCACCGGAGAAGAGgtaagactattgtgttttgttctagGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACTAACAGTTCTGGCCATCTTACCTTCCCAGTGTCATCAGAACATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTG---aggtaagtagcaagttagcaggtaactcagctcctgtgaaacaccaacttac Alignment from CESAR TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCag TGTAGTTACACTCACCGGAGAAGAGgtctgactattgtgttttgttctagGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACTAACAGTTCTGGCCATCTTACCTTCCCAGTGTCATCAGAACATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTG---aggtaagtagcaagttagcaggtaactcagctcctgtgaaacaccaacttat Alignment from Spaln_aa2Genome TGTGGTCACGCTCACTGGAGAGAAG-------------------------GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCGGAGAAGAGGTAAGACTATTGTGTTTTGTTCTAgGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACTAACAGTTCTGGCCATCTTACCTTCCCAGTGTCATCAGAACATGCACTGGGCATTGGTGTCTACCCTTTGCACATG---GTGAGgtaagtagcaagttagcaggtaactcagctcctgtgaaacaccaacttac Alignment from Spaln_nt2Genome TGTGGTCACGCTCACTGGAGA--------GA-----------------AGGTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCGGAGAAGAGGTAAGACTATTGTGTTTTGTTCTAGGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACTAACAGTTCTGGCCATCTTACCTTCCCAGTGTCATCAGAACATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTG---AGgtaagtagcaagttagcaggtaactcagctcctgtgaaacaccaacttac Alignment from Pairagon TGTGGTCACGCTCACTGGAGAGAAG-------------------------GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTG---------------------------------------------------- TGTAGTTACACTCACCGGAGAAGAGGTAAGACTATTGTGTTTTGTTCTAGGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACTAACAGTTCTGGCCATCTTACCTTCCCAGTGTCATCAGAACATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGAGGTAAGTAGCAAGTTAGCAGGTAACTCAGCTCCTGTGAAACACCAACTTAC Alignment from Exonerate_protein2genome TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGT TGTAGTTACACTCACCGGAGAAGAGgtaagactattgtgttttgttctaggttgatGTC------TATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACTAACAGTTCTGGCCATCTTACCTTCCCAGTGTCATCAGAACATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGAGgtaagtagcaagttagcaggtaactcagctcctgtgaaacaccaacttac Alignment from Exonerate_coding2genome TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGT TGTAGTTACACTCACCGGAGAAGAGgtaagactattgtgttttgttctaggttgatGTC------TATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACTAACAGTTCTGGCCATCTTACCTTCCCAGTGTCATCAGAACATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGAGgtaagtagcaagttagcaggtaactcagctcctgtgaaacaccaacttac Alignment from GeneWise TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCGGAGAAGAGgtaagactattgtgttttgttctagGTTGATGTCTATGTCATGACACAGCCCCTGTCAGGCAAGTGGATTCATTTTGGCACAGAGGTCACTAACAGTTCTGGCCATCTTACCTTCCCAGTGTCATCAGAACATGCACTGGGCATTGGTGTCTACCCTTTGCACATG---GTGAGgtaagtagcaagttagcaggtaactcagctcctgtgaaacaccaacttac #### Pitpnm1_ID323_20 --> 1 - 2 Original Alignment gGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCag cctgtgaaacaccaacttactctgtctggatcatcagctcccacctgcagg---GACCACACATATGCTGAATGCTGCTTAACCATTGTGTCCAGAGGTGCAGAAGCGGTGGTTTTCAGCATCGATGGTTCTTTCACTGCGAGTGTCTCAATCATGGGCAGTGACCCCAAGGTGCGAGCTGGAGCAGTAGATGTGGTGaggtaagtcctgcatagactgcagggccatatattgacctgccgtctgtgac Alignment from CESAR gGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCag gctcctgtgaaacaccaacttactcctggatcatcagctcccacctgcagg---GACCACACATATGCTGAATGCTGCTTAACCATTGTGTCCAGAGGTGCAGAAGCGGTGGTTTTCAGCATCGATGGTTCTTTCACTGCGAGTGTCTCAATCATGGGCAGTGACCCCAAGGTGCGAGCTGGAGCAGTAGATGTGGTGaggtaagtcctgcatagactgcagggccatatattgacctgccgtctgtgac Alignment from Spaln_aa2Genome GGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG cctgtgaaacaccaacttactctgtctggatcatcagctcccacctgcagG---GACCACACATATGCTGAATGCTGCTTAACCATTGTGTCCAGAGGTGCAGAAGCGGTGGTTTTCAGCATCGATGGTTCTTTCACTGCGAGTGTCTCAATCATGGGCAGTGACCCCAAGGTGCGAGCTGGAGCAGTAGATGTGGTGAGgtaagtcctgcatagactgcagggccatatattgacctgccgtctgtgac Alignment from Spaln_nt2Genome GGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG cctgtgaaacaccaacttactctgtctggatcatcagctcccacctgcagG---GACCACACATATGCTGAATGCTGCTTAACCATTGTGTCCAGAGGTGCAGAAGCGGTGGTTTTCAGCATCGATGGTTCTTTCACTGCGAGTGTCTCAATCATGGGCAGTGACCCCAAGGTGCGAGCTGGAGCAGTAGATGTGGTGAGgtaagtcctgcatagactgcagggccatatattgacctgccgtctgtgac Alignment from Pairagon GGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG cctgtgaaacaccaacttactctgtctggatcatcagctcccacctgcagG---GACCACACATATGCTGAATGCTGCTTAACCATTGTGTCCAGAGGTGCAGAAGCGGTGGTTTTCAGCATCGATGGTTCTTTCACTGCGAGTGTCTCAATCATGGGCAGTGACCCCAAGGTGCGAGCTGGAGCAGTAGATGTGGTGAGgtaagtcctgcatagactgcagggccatatattgacctgccgtctgtgac Alignment from Exonerate_protein2genome cctgtgaaacaccaacttactctgtctggatcatcagctcccacctgcagggaccacacatatgctgaatgctgcttaaccattgtgtccagaggtgcagaagcggtggttttcagcatcgatggttctttcactgcgagtgtctcaatcatgggcagtgaccccaaggtgcgagctggagcagtagatgtggtgaggtaagtcctgcatagactgcagggccatatattgacctgccgtctgtgac Alignment from Exonerate_coding2genome CAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAGGGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGC-AGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG CCTGTGAAACACCAACTTACTCTGTCTGGATCATCAGCTCCCACCTGCAGGGACCACAC--ATATGCTGAATGCTGCTTAACCATTGTGTCCAGAGGTGCAGAAGCGGTGGTTTTCAGCATCGATGGTTCTTTCACTGCGAGTGTCTCAATCAT-GGGCAGTGACCCCAAGGTGCGAGCTGGAGCAGTAGATGTGGTGAGgtaagtcctgcatagactgcagggccatatattgacctgccgtctgtgac Alignment from GeneWise GGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG cctgtgaaacaccaacttactctgtctggatcatcagctcccacctgcagG---GACCACACATATGCTGAATGCTGCTTAACCATTGTGTCCAGAGGTGCAGAAGCGGTGGTTTTCAGCATCGATGGTTCTTTCACTGCGAGTGTCTCAATCATGGGCAGTGACCCCAAGGTGCGAGCTGGAGCAGTAGATGTGGTGAGgtaagtcctgcatagactgcagggccatatattgacctgccgtctgtgac #### Pitpnm1_ID325_22 --> 0 - 0 Original Alignment GTAGAACTGAACATCGTGGCTGGATATGGGTCACCAAAAGATGTGGCAGTGTATGCAGCACTGGGGCTCTCTCCGAGCCAGACCTACATTGTTGGCCGTGCTGTGCGCAAACTGCAGGCACAGTGTCAG------ tgtgacatccttgggaaaatgactctgttaccctacctctgtgcccttagGTTGATCTAAACATCATAGCTGGATATGGGTCCCCAAAAGATGTAGCAGTTTATGCAGCATTAGGACTCTCTCCAAGTCATACCTATATTATTGGCCGTGGCATCCGTACATTGCAGGCCCAGTGCCAGAGGTGGgtaactgatttaaggaagagtagccaacgtagtccccagtcaagtgtaaa Alignment from CESAR GTAGAACTGAACATCGTGGCTGGATATGGGTCACCAAAAGATGTGGCAGTGTATGCAGCACTGGGGCTCTCTCCGAGCCAGACCTACATTGTTGGCCGTGCTGTGCGCAAACTGCAGGCACAGTGTCAG------ tgtgacatccttgggaaaatgactctgttaccctacctctgtgcccttagGTTGATCTAAACATCATAGCTGGATATGGGTCCCCAAAAGATGTAGCAGTTTATGCAGCATTAGGACTCTCTCCAAGTCATACCTATATTATTGGCCGTGGCATCCGTACATTGCAGGCCCAGTGCCAGAGGTGGgtaactgatttaaggaagagtagccaacgtagtccccagtcaagtgtaaa Alignment from Spaln_aa2Genome GTAGAACTGAACATCGTGGCTGGATATGGGTCACCAAAAGATGTGGCAGTGTATGCAGCACTGGGGCTCTCTCCGAGCCAGACCTACATTGTTGGCCGTGCTGTGCGCAAACTGCAGGCACAGTGTCAG------ tgtgacatccttgggaaaatgactctgttaccctacctctgtgcccttagGTTGATCTAAACATCATAGCTGGATATGGGTCCCCAAAAGATGTAGCAGTTTATGCAGCATTAGGACTCTCTCCAAGTCATACCTATATTATTGGCCGTGGCATCCGTACATTGCAGGCCCAGTGCCAGAGGTGGgtaactgatttaaggaagagtagccaacgtagtccccagtcaagtgtaaa Alignment from Spaln_nt2Genome GTAGAACTGAACATCGTGGCTGGATATGGGTCACCAAAAGATGTGGCAGTGTATGCAGCACTGGGGCTCTCTCCGAGCCAGACCTACATTGTTGGCCGTGCTGTGCGCAAACTGCAGGCACAGTGTCAG-- tgtgacatccttgggaaaatgactctgttaccctacctctgtgcccttagGTTGATCTAAACATCATAGCTGGATATGGGTCCCCAAAAGATGTAGCAGTTTATGCAGCATTAGGACTCTCTCCAAGTCATACCTATATTATTGGCCGTGGCATCCGTACATTGCAGGCCCAGTGCCAGAGgtgggtaactgatttaaggaagagtagccaacgtagtccccagtcaagtgtaaa Alignment from Pairagon GTAGAACTGAACATCGTGGCTGGATATGGGTCACCAAAAGATGTGGCAGTGTATGCAGCACTGGGGCTCTCTCCGAGCCAGACCTACATTGTTGGCCGTGCTGTGCGCAAACTGCAGGCACAGTGTCAG-- tgtgacatccttgggaaaatgactctgttaccctacctctgtgcccttagGTTGATCTAAACATCATAGCTGGATATGGGTCCCCAAAAGATGTAGCAGTTTATGCAGCATTAGGACTCTCTCCAAGTCATACCTATATTATTGGCCGTGGCATCCGTACATTGCAGGCCCAGTGCCAGAGgtgggtaactgatttaaggaagagtagccaacgtagtccccagtcaagtgtaaa Alignment from Exonerate_protein2genome tgtgacatccttgggaaaatgactctgttaccctacctctgtgcccttaggttgatctaaacatcatagctggatatgggtccccaaaagatgtagcagtttatgcagcattaggactctctccaagtcatacctatattattggccgtggcatccgtacattgcaggcccagtgccagaggtgggtaactgatttaaggaagagtagccaacgtagtccccagtcaagtgtaaa Alignment from Exonerate_coding2genome tgtgacatccttgggaaaatgactctgttaccctacctctgtgcccttaggttgatctaaacatcatagctggatatgggtccccaaaagatgtagcagtttatgcagcattaggactctctccaagtcatacctatattattggccgtggcatccgtacattgcaggcccagtgccagaggtgggtaactgatttaaggaagagtagccaacgtagtccccagtcaagtgtaaa Alignment from GeneWise GTAGAACTGAACATCGTGGCTGGATATGGGTCACCAAAAGATGTGGCAGTGTATGCAGCACTGGGGCTCTCTCCGAGCCAGACCTACATTGTTGGCCGTGCTGTGCGCAAACTGCAGGCACAGTGTCAG------ tgtgacatccttgggaaaatgactctgttaccctacctctgtgcccttagGTTGATCTAAACATCATAGCTGGATATGGGTCCCCAAAAGATGTAGCAGTTTATGCAGCATTAGGACTCTCTCCAAGTCATACCTATATTATTGGCCGTGGCATCCGTACATTGCAGGCCCAGTGCCAGAGGTGGgtaactgatttaaggaagagtagccaacgtagtccccagtcaagtgtaaa #### Plcb3_ID1901_30 --> 0 - 0 Original Alignment ---CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tttcccaatcattgctctgccttcagccacaacatatgactttattccagTTTTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGGAAGAGAAACCCAAGgtaagtcctggcggggttgcatatacaggccaataggggagcaggtcaac Alignment from CESAR ---CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tttcccaatcattgctctgccttcagccacaacatatgactttattccagTTTTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGGAAGAGAAACCCAAGgtaagtcctggcggggttgcatatacaggccaataggggagcaggtcaac Alignment from Spaln_aa2Genome ---CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tttcccaatcattgctctgccttcagccacaacatatgactttattccagTTTTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGGAAGAGAAACCCAAGgtaagtcctggcggggttgcatatacaggccaataggggagcaggtcaac Alignment from Spaln_nt2Genome CT---GGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tttcccaatcattgctctgccttcagccacaacatatgactttattccagTTTTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGGAAGAGAAACCCAAGgtaagtcctggcggggttgcatatacaggccaataggggagcaggtcaac Alignment from Pairagon ---CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tttcccaatcattgctctgccttcagccacaacatatgactttattccagTTTTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGGAAGAGAAACCCAAGgtaagtcctggcggggttgcatatacaggccaataggggagcaggtcaac Alignment from Exonerate_protein2genome ---CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tttcccaatcattgctctgccttcagccacaacatatgactttattccagTTTTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGGAAGAGAAACCCAAGgtaagtcctggcggggttgcatatacaggccaataggggagcaggtcaac Alignment from Exonerate_coding2genome ---CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tttcccaatcattgctctgccttcagccacaacatatgactttattccagTTTTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGGAAGAGAAACCCAAGgtaagtcctggcggggttgcatatacaggccaataggggagcaggtcaac Alignment from GeneWise ---CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tttcccaatcattgctctgccttcagccacaacatatgactttattccagTTTTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGGAAGAGAAACCCAAGgtaagtcctggcggggttgcatatacaggccaataggggagcaggtcaac #### Plcb3_ID1903_28 --> 1 - 2 Original Alignment gGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAG---------------gt agtatgaccccctttacccaatctctgagtcctccctctgtccactgcaggGAGAAAAAGGAGCCTCAAAAGATCCTGGATAGGGAGCGCAACAATAGCATTTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTGTAT---------gtgtgagtgctactattcttctgagatgcagggcaaattgtaattttctttc Alignment from CESAR gGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGgt agtatgaccccctttacccaatctctgagtcctccctctgtccactgcaggGAGAAAAAGGAGCCTCAAAAGATCCTGGATAGGGAGCGCAACAATAGCATTTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAgtgtatgtgtgagtgctactattcttctgagatgcagggagcagttctactttgcctc Alignment from Spaln_aa2Genome GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT agtatgaccccctttacccaatctctgagtcctccctctgtccactgcagGGAGAAAAAGGAGCCTCAAAAGATCCTGGATAGGGAGCGCAACAATAGCATTTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatgtgtgagtgctactattcttctgagatgcagggcaaattgtaattttctttc Alignment from Spaln_nt2Genome GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT agtatgaccccctttacccaatctctgagtcctccctctgtccactgcagGGAGAAAAAGGAGCCTCAAAAGATCCTGGATAGGGAGCGCAACAATAGCATTTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatgtgtgagtgctactattcttctgagatgcagggcaaattgtaattttctttc Alignment from Pairagon GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT agtatgaccccctttacccaatctctgagtcctccctctgtccactgcagGGAGAAAAAGGAGCCTCAAAAGATCCTGGATAGGGAGCGCAACAATAGCATTTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatgtgtgagtgctactattcttctgagatgcagggcaaattgtaattttctttc Alignment from Exonerate_protein2genome GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT agtatgaccccctttacccaatctctgagtcctccctctgtccactgcagGGAGAAAAAGGAGCCTCAAAAGATCCTGGATAGGGAGCGCAACAATAGCATTTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatgtgtgagtgctactattcttctgagatgcagggcaaattgtaattttctttc Alignment from Exonerate_coding2genome GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT agtatgaccccctttacccaatctctgagtcctccctctgtccactgcagGGAGAAAAAGGAGCCTCAAAAGATCCTGGATAGGGAGCGCAACAATAGCATTTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatgtgtgagtgctactattcttctgagatgcagggcaaattgtaattttctttc Alignment from GeneWise GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT agtatgaccccctttacccaatctctgagtcctccctctgtccactgcagGGAGAAAAAGGAGCCTCAAAAGATCCTGGATAGGGAGCGCAACAATAGCATTTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatgtgtgagtgctactattcttctgagatgcagggcaaattgtaattttctttc #### Plcb3_ID1904_27 --> 0 - 2 Original Alignment GACAG GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAag GACAGgtaagtcggtggggggcggttttccctttccccttcctttctaag---CATCAGTGGGTCAAGGAGGTTGTCCTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAACTGAAAGAAaggtgggtacaagtagaaaatcagtatgaccccctttacccaatctctgagc Alignment from CESAR GACAG GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAag GACAGgtaaccgatcggtggggggctttccctttccccttcctttctaag---CATCAGTGGGTCAAGGAGGTTGTCCTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAACTGAAAGAAaggtgggtacaagtagaaaatcagtatgaccccctttacccaatctctgagt Alignment from Spaln_aa2Genome GACAG GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG GACAGgtaagtcggtggggggcggttttccctttccccttcctttctaag---CATCAGTGGGTCAAGGAGGTTGTCCTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAACTGAAAGAAAGgtgggtacaagtagaaaatcagtatgaccccctttacccaatctctgagc Alignment from Spaln_nt2Genome GACAG GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG GACAGgtaagtcggtggggggcggttttccctttccccttcctttctaag---CATCAGTGGGTCAAGGAGGTTGTCCTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAACTGAAAGAAAGgtgggtacaagtagaaaatcagtatgaccccctttacccaatctctgagc Alignment from Pairagon GACAG GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG GACAGgtaagtcggtggggggcggttttccctttccccttcctttctaag---CATCAGTGGGTCAAGGAGGTTGTCCTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAACTGAAAGAAAGgtgggtacaagtagaaaatcagtatgaccccctttacccaatctctgagc Alignment from Exonerate_protein2genome GACAG GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG GACAGgtaagtcggtggggggcggttttccctttccccttcctttctAAGCATCAGTGGGTCAAGGAGGTTGTCCTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAACTGAAAGAAAGgtgggtacaagtagaaaatcagtatgaccccctttacccaatctctgagc Alignment from Exonerate_coding2genome GACAG GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG GACAGgtaagtcggtggggggcggttttccctttccccttcctttctAAGCATCAGTGGGTCAAGGAGGTTGTCCTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAACTGAAAGAAAGgtgggtacaagtagaaaatcagtatgaccccctttacccaatctctgagc Alignment from GeneWise GACAGGCT------------------------------------------CATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG GACAGGTAAGTCGGTGGGGGGCGGTTTTCCCTTTCCCCTTCCTTTCTAAGCATCAGTGGGTCAAGGAGGTTGTCCTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAACTGAAAGAAAGgtgggtacaagtagaaaatcagtatgaccccctttacccaatctctgagc #### Plcb3_ID1905_26 --> 1 - 0 Original Alignment g------GGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA ttatgacaagttgtgtcagtcagagagtgtgtgctccttcttactcataggACACTTGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCTTGTTGGAGCTGAGAGAAGCCCAGGGTGATGTGGAAACCAACCGCAAGCTGGAACATCTACGACAGgtaaccgatcggtggggggcggttcctaatatgtttgtcctgcagGCGCA Alignment from CESAR g------GGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA ttatgacaagttgtgtcagtcagagagtgtgtgctccttcttactcataggACACTTGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCTTGTTGGAGCTGAGAGAAGCCCAGGGTGATGTGGAAACCAACCGCAAGCTGGAACATCTACGACAGgtaaccgatcggtggggggcggtttttattgtcctttcttcacagGCGCA Alignment from Spaln_aa2Genome -GCCCTGGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA ttatgacaagttgtgtcagtcagagagtgtgtgctccttcttactcatagGACACTTGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCTTGTTGGAGCTGAGAGAAGCCCAGGGTGATGTGGAAACCAACCGCAAGCTGGAACATCTACGACAGgtaaccgatcggtggggggcggttcctaatatgtttgtcctgcagGCGCA Alignment from Spaln_nt2Genome GGGCAAGGC------CACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA ttatgacaagttgtgtcagtcagagagtgtgtgctccttcttactcatagGACACTTGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCTTGTTGGAGCTGAGAGAAGCCCAGGGTGATGTGGAAACCAACCGCAAGCTGGAACATCTACGACAGgtaaccgatcggtggggggcggttcctaatatgtttgtcctgcagGCGCA Alignment from Pairagon G------GGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA ttatgacaagttgtgtcagtcagagagtgtgtgctccttcttactcatagGACACTTGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCTTGTTGGAGCTGAGAGAAGCCCAGGGTGATGTGGAAACCAACCGCAAGCTGGAACATCTACGACAGgtaaccgatcggtggggggcggttcctaatatgtttgtcctgcagGCGCA Alignment from Exonerate_protein2genome TGCCCTGGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA ttatgacaagttgtgtcagtcagagagtgtgtgctccttcttactcatagGACACTTGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCTTGTTGGAGCTGAGAGAAGCCCAGGGTGATGTGGAAACCAACCGCAAGCTGGAACATCTACGACAGgtaaccgatcggtggggggcggttcctaatatgtttgtcctgcagGCGCA Alignment from Exonerate_coding2genome TGCCCTGGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA ttatgacaagttgtgtcagtcagagagtgtgtgctccttcttactcatagGACACTTGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCTTGTTGGAGCTGAGAGAAGCCCAGGGTGATGTGGAAACCAACCGCAAGCTGGAACATCTACGACAGgtaaccgatcggtggggggcggttcctaatatgtttgtcctgcagGCGCA Alignment from GeneWise ----CTGGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGA---------------------------------------------CAGGCTCA ttatgacaagttgtgtcagtcagagagtgtgtgctccttcttactcatagGACACTTGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCTTGTTGGAGCTGAGAGAAGCCCAGGGTGATGTGGAAACCAACCGCAAGCTGGAACATCTACGACAGGTAACCGATCGGTGGGGGGCGGTTCCTAATATGTTTGTCCTGCAGGCGCA #### Plcb3_ID1906_25 --> 2 - 2 Original Alignment agGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCct atccctcaacagccacaccaattggtgtagtgtggtgtgtttgcttgtagaa---ATCCCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGGCTATAGCCCTCACACGCCGTTTGCTGGATGGCCTAGCCCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCTCCCAGTGTCctgtaagcgtacttcactgtgctgtaacttggcagtgtgtacttactggcat Alignment from CESAR agGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCct ggcatccctcaacagccacaccaattgtagtgtggtgtgtttgcttgtagaaATC---CCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGGCTATAGCCCTCACACGCCGTTTGCTGGATGGCCTAGCCCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCTCCCAGTGTCctgtaagcgtacttcactgtgctgtaacttggcagtgtgtacttactggcat Alignment from Spaln_aa2Genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT atccctcaacagccacaccaattggtgtagtgtggtgtgtttgcttgtagAAATC---CCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGGCTATAGCCCTCACACGCCGTTTGCTGGATGGCCTAGCCCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCTCCCAGTGTCCTgtaagcgtacttcactgtgctgtaacttggcagtgtgtacttactggcat Alignment from Spaln_nt2Genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT atccctcaacagccacaccaattggtgtagtgtggtgtgtttgcttgtagA---AATCCCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGGCTATAGCCCTCACACGCCGTTTGCTGGATGGCCTAGCCCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCTCCCAGTGTCCTgtaagcgtacttcactgtgctgtaacttggcagtgtgtacttactggcat Alignment from Pairagon TGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT atccctcaacagccacaccaattggtgtagtgtggtgtgtttgcttgtagAAATCCCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGGCTATAGCCCTCACACGCCGTTTGCTGGATGGCCTAGCCCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCTCCCAGTGTCCTgtaagcgtacttcactgtgctgtaacttggcagtgtgtacttactggcat Alignment from Exonerate_protein2genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT atccctcaacagccacaccaattggtgtagtgtggtgtgtttgcttgtagAAATC---CCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGGCTATAGCCCTCACACGCCGTTTGCTGGATGGCCTAGCCCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCTCCCAGTGTCCTgtaagcgtacttcactgtgctgtaacttggcagtgtgtacttactggcat Alignment from Exonerate_coding2genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT atccctcaacagccacaccaattggtgtagtgtggtgtgtttgcttgtagAAATC---CCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGGCTATAGCCCTCACACGCCGTTTGCTGGATGGCCTAGCCCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCTCCCAGTGTCCTgtaagcgtacttcactgtgctgtaacttggcagtgtgtacttactggcat Alignment from GeneWise GATTGCCAGCATCCTCTCTGAGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT atccctcaacagccacaccaattggtgtagTGTGGTGTGTTTGCTTGTAGAAATC---CCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGGCTATAGCCCTCACACGCCGTTTGCTGGATGGCCTAGCCCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCTCCCAGTGTCCTgtaagcgtacttcactgtgctgtaacttggcagtgtgtacttactggcat #### Plcb3_ID1912_19 --> 0 - 0 Original Alignment ------GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG gatttgaaatccctctcattaacttccattttttttttttttcttttcagCTGTACGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTGGGTATCTATGTTGAGGTGGACATGTTTGGCCTTCCAGTGGATACAAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTATGGGAAGAAGAACCTTTTGACTTCCCCAAGgtaaggcctaggaacggctgatacaccaagtctatgttccgatagcagtg Alignment from CESAR ------GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG gatttgaaatccctctcattaacttccattttttttttttttcttttcagCTGTACGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTGGGTATCTATGTTGAGGTGGACATGTTTGGCCTTCCAGTGGATACAAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTATGGGAAGAAGAACCTTTTGACTTCCCCAAGgtaaggcctaggaacggctgatacaccaagtctatgttccgatagcagtg Alignment from Spaln_aa2Genome ----GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG gatttgaaatccctctcattaacttccattttttttttttttcttttcagCTGTACGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTGGGTATCTATGTTGAGGTGGACATGTTTGGCCTTCCAGTGGATACAAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTATGGGAAGAAGAACCTTTTGACTTCCCCAAGgtaaggcctaggaacggctgatacaccaagtctatgttccgatagcagtg Alignment from Spaln_nt2Genome ------GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG gatttgaaatccctctcattaacttccattttttttttttttcttttcagCTGTACGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTGGGTATCTATGTTGAGGTGGACATGTTTGGCCTTCCAGTGGATACAAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTATGGGAAGAAGAACCTTTTGACTTCCCCAAGgtaaggcctaggaacggctgatacaccaagtctatgttccgatagcagtg Alignment from Pairagon ------GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG gatttgaaatccctctcattaacttccattttttttttttttcttttcagCTGTACGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTGGGTATCTATGTTGAGGTGGACATGTTTGGCCTTCCAGTGGATACAAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTATGGGAAGAAGAACCTTTTGACTTCCCCAAGgtaaggcctaggaacggctgatacaccaagtctatgttccgatagcagtg Alignment from Exonerate_protein2genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG gatttgaaatccctctcattaacttccattttttttttttttcttttcagctgtacGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTGGGTATCTATGTTGAGGTGGACATGTTTGGCCTTCCAGTGGATACAAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTATGGGAAGAAGAACCTTTTGACTTCCCCAAGgtaaggcctaggaacggctgatacaccaagtctatgttccgatagcagtg Alignment from Exonerate_coding2genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG gatttgaaatccctctcattaacttccattttttttttttttcttttcagctgtacGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTGGGTATCTATGTTGAGGTGGACATGTTTGGCCTTCCAGTGGATACAAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTATGGGAAGAAGAACCTTTTGACTTCCCCAAGgtaaggcctaggaacggctgatacaccaagtctatgttccgatagcagtg Alignment from GeneWise ------GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG gatttgaaatccctctcattaacttccattttttttttttttcttttcagCTGTACGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTGGGTATCTATGTTGAGGTGGACATGTTTGGCCTTCCAGTGGATACAAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTATGGGAAGAAGAACCTTTTGACTTCCCCAAGgtaaggcctaggaacggctgatacaccaagtctatgttccgatagcagtg #### Plcb3_ID1914_17 --> 1 - 1 Original Alignment a---------TACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGg cctcctggctgctggaacctcaggagaatactttaaaattgtttttccagaGGGCCCACCTACAACAGACAACAGCTCAGCCAGATTTACACCAGGAGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGCTGCCAACTTGTTGCCCTCAATTTCCAGAGTCTGggtaaggaagcactggccctggcttaggagtttgtgcaagtagagtaattt Alignment from CESAR a---------TACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGg cctcctggctgctggaacctcaggagaatactttaaaattgtttttccagaGGGCCCACCTACAACAGACAACAGCTCAGCCAGATTTACACCAGGAGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGCTGCCAACTTGTTGCCCTCAATTTCCAGAGTCTGggtaaggaagcactggccctggcttaggagtttgtgcaagtagagtaattt Alignment from Spaln_aa2Genome A----------TACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggaacctcaggagaatactttaaaattgtttttccagAGGGCCCACCTACAACAGACAACAGCTCAGCCAGATTTACACCAGGAGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGCTGCCAACTTGTTGCCCTCAATTTCCAGAGTCTGGgtaaggaagcactggccctggcttaggagtttgtgcaagtagagtaattt Alignment from Spaln_nt2Genome ATACAACAAACAGCA---------GCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggaacctcaggagaatactttaaaattgtttttccagAGGGCCCACCTACAACAGACAACAGCTCAGCCAGATTTACACCAGGAGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGCTGCCAACTTGTTGCCCTCAATTTCCAGAGTCTGGgtaaggaagcactggccctggcttaggagtttgtgcaagtagagtaattt Alignment from Pairagon A---------TACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggaacctcaggagaatactttaaaattgtttttccagAGGGCCCACCTACAACAGACAACAGCTCAGCCAGATTTACACCAGGAGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGCTGCCAACTTGTTGCCCTCAATTTCCAGAGTCTGGgtaaggaagcactggccctggcttaggagtttgtgcaagtagagtaattt Alignment from Exonerate_protein2genome GTTTGTGGAATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggaacctcaggagaatactttaaaattgtttttccagAGGGCCCACCTACAACAGACAACAGCTCAGCCAGATTTACACCAGGAGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGCTGCCAACTTGTTGCCCTCAATTTCCAGAGTCTGGgtaaggaagcactggccctggcttaggagtttgtgcaagtagagtaattt Alignment from Exonerate_coding2genome GTTTGTGGAATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggaacctcaggagaatactttaaaattgtttttccagAGGGCCCACCTACAACAGACAACAGCTCAGCCAGATTTACACCAGGAGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGCTGCCAACTTGTTGCCCTCAATTTCCAGAGTCTGGgtaaggaagcactggccctggcttaggagtttgtgcaagtagagtaattt Alignment from GeneWise -------GAATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG cctcctggctgctggaacctcaggagaatactttaaaattgtttttccagAGGGCCCACCTACAACAGACAACAGCTCAGCCAGATTTACACCAGGAGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGCTGCCAACTTGTTGCCCTCAATTTCCAGAGTCTGGgtaaggaagcactggccctggcttaggagtttgtgcaagtagagtaattt #### Plcb3_ID1919_12 --> 1 - 0 Original Alignment gGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG--- tttaatgacactagaccaatgcagagcaaacatcactttcattttctcagaGCAAAGCAGCAC---AAGATGGCTGAGTACTGCCGGTCTATCTTTGGGGATGCGCTACTTATTGACCCTCTTGACAAATACCCAGAGgtaaacgacagcctggaccgcatccaggtgcatgtgggggagggcagcct Alignment from CESAR gGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG--- tttaatgacactagaccaatgcagagcaaacatcactttcattttctcagaGCAAAGCAGCAC---AAGATGGCTGAGTACTGCCGGTCTATCTTTGGGGATGCGCTACTTATTGACCCTCTTGACAAATACCCAGAGgtaaacgacagcctggaccgcatccaggtgcatgtgggggagggcagcct Alignment from Spaln_aa2Genome GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG--- tttaatgacactagaccaatgcagagcaaacatcactttcattttctcagAGCAAAGCAGCAC---AAGATGGCTGAGTACTGCCGGTCTATCTTTGGGGATGCGCTACTTATTGACCCTCTTGACAAATACCCAGAGgtaaacgacagcctggaccgcatccaggtgcatgtgggggagggcagcct Alignment from Spaln_nt2Genome GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCC---G tttaatgacactagaccaatgcagagcaaacatcactttcattttctcagAGCAAAGCAGCA---CAAGATGGCTGAGTACTGCCGGTCTATCTTTGGGGATGCGCTACTTATTGACCCTCTTGACAAATACCCAGAGgtaaacgacagcctggaccgcatccaggtgcatgtgggggagggcagcct Alignment from Pairagon GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCC---G tttaatgacactagaccaatgcagagcaaacatcactttcattttctcagAGCAAAGCAGCA---CAAGATGGCTGAGTACTGCCGGTCTATCTTTGGGGATGCGCTACTTATTGACCCTCTTGACAAATACCCAGAGgtaaacgacagcctggaccgcatccaggtgcatgtgggggagggcagcct Alignment from Exonerate_protein2genome GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG--- tttaatgacactagaccaatgcagagcaaacatcactttcattttctcagAGCAAAGCAGCAC---AAGATGGCTGAGTACTGCCGGTCTATCTTTGGGGATGCGCTACTTATTGACCCTCTTGACAAATACCCAGAGgtaaacgacagcctggaccgcatccaggtgcatgtgggggagggcagcct Alignment from Exonerate_coding2genome GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG--- tttaatgacactagaccaatgcagagcaaacatcactttcattttctcagAGCAAAGCAGCAC---AAGATGGCTGAGTACTGCCGGTCTATCTTTGGGGATGCGCTACTTATTGACCCTCTTGACAAATACCCAGAGgtaaacgacagcctggaccgcatccaggtgcatgtgggggagggcagcct Alignment from GeneWise GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCGCTA tttaatgacactagaccaatgcagagcaaacatcactttcattttctcagAGCAAAGCAGCAC---AAGATGGCTGAGTACTGCCGGTCTATCTTTGGGGATGCGCTACTTATTGACCCTCTTGACAAATACCCAGAGgtaaacgacagcctggaccgcatccaggtgcatgtgggggagggcagcct #### Plcb3_ID1928_3 --> 0 - 0 Original Alignment ---------GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtactgagcacgaccttgtacctttagtatttttgatttgtccctcagAAATCAGATGAGGTGGACACACTGGATATTAGCTCAATCAGAGACACAAGAACAGGTCGTTATGCTCGCCTGCCCAAAgtaatacagctagctttgcagtatacaaataccacaacacttacaaggat Alignment from CESAR ---------GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtactgagcacgaccttgtacctttagtatttttgatttgtccctcagAAATCAGATGAGGTGGACACACTGGATATTAGCTCAATCAGAGACACAAGAACAGGTCGTTATGCTCGCCTGCCCAAAgtaatacagctagctttgcagtatacaaataccacaacacttacaaggat Alignment from Spaln_aa2Genome GAGGTGGACACA---------CTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtactgagcacgaccttgtacctttagtatttttgatttgtccctcagAAATCAGATGAGGTGGACACACTGGATATTAGCTCAATCAGAGACACAAGAACAGGTCGTTATGCTCGCCTGCCCAAAgtaatacagctagctttgcagtatacaaataccacaacacttacaaggat Alignment from Spaln_nt2Genome GAGGTGGACA--CACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtactgagcacgaccttgtacctttagtatttttgatttgtccctcagaaatcagATGAGGTGGACACACTGGATATTAGCTCAATCAGAGACACAAGAACAGGTCGTTATGCTCGCCTGCCCAAAgtaatacagctagctttgcagtatacaaataccacaacacttacaaggat Alignment from Pairagon ---------GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtactgagcacgaccttgtacctttagtatttttgatttgtccctcagAAATCAGATGAGGTGGACACACTGGATATTAGCTCAATCAGAGACACAAGAACAGGTCGTTATGCTCGCCTGCCCAAAgtaatacagctagctttgcagtatacaaataccacaacacttacaaggat Alignment from Exonerate_protein2genome GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtactgagcacgaccttgtacctttagtatttttgatttgtccctcagaaatcagatGAGGTGGACACACTGGATATTAGCTCAATCAGAGACACAAGAACAGGTCGTTATGCTCGCCTGCCCAAAgtaatacagctagctttgcagtatacaaataccacaacacttacaaggat Alignment from Exonerate_coding2genome tagtactgagcacgaccttgtacctttagtatttttgatttgtccctcagaaatcagatgaggtggacacactggatattagctcaatcagagacacaagaacaggtcgttatgctcgcctgcccaaagtaatacagctagctttgcagtatacaaataccacaacacttacaaggat Alignment from GeneWise ---------GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtactgagcacgaccttgtacctttagtatttttgatttgtccctcagAAATCAGATGAGGTGGACACACTGGATATTAGCTCAATCAGAGACACAAGAACAGGTCGTTATGCTCGCCTGCCCAAAgtaatacagctagctttgcagtatacaaataccacaacacttacaaggat #### Plce1_ID7626_12 --> 1 - 1 Original Alignment cATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAg tatttttattcataaaggctactctctaaactgtttagttgactccccagc------AGCCGAAAGGACCTGAAGGACATCTTCGACATCTACACTGTG---------AGATCTACCTCGGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGggtatgtttgttggcccactgctgcccatgaagcaggaaagtaattttgat Alignment from CESAR cATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAg gttgtatatttttattcataaaggcctaaactgtttagttgactccccagc------AGCCGAAAGGACCTGAAGGACATCTTCGACATCTACACTGTG---------AGATCTACCTCGGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGggtatgtttgttggcccactgctgcccatgaagcaggaaagtaattttgat Alignment from Spaln_aa2Genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG tatttttattcataaaggctactctctaaactgtttagttgactccccagC------AGCCGAAAGGACCTGAAGGACATCTTCGACATCTACACTGTG---------AGATCTACCTCGGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtatgtttgttggcccactgctgcccatgaagcaggaaagtaattttgat Alignment from Spaln_nt2Genome ------CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG tatttttattcataaaggctactctctaaactgtttagTTGACTCCCCAGCAGCCGAAAGGACCTGAAGGACATCTTCGACATCTACACTGT---------GAGATCTACCTCGGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtatgtttgttggcccactgctgcccatgaagcaggaaagtaattttgat Alignment from Pairagon CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG tatttttattcataaaggctactctctaaactgtttagttgactccccagC------AGCCGAAAGGACCTGAAGGACATCTTCGACATCTACACTGTG---------AGATCTACCTCGGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtatgtttgttggcccactgctgcccatgaagcaggaaagtaattttgat Alignment from Exonerate_protein2genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG tatttttattcataaaggctactctctaaactgtttagttgactccccagC------AGCCGAAAGGACCTGAAGGACATCTTCGACATCTACACTGTG---------AGATCTACCTCGGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtatgtttgttggcccactgctgcccatgaagcaggaaagtaattttgat Alignment from Exonerate_coding2genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG tatttttattcataaaggctactctctaaactgtttagttgactccccagC------AGCCGAAAGGACCTGAAGGACATCTTCGACATCTACACTGTG---------AGATCTACCTCGGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtatgtttgttggcccactgctgcccatgaagcaggaaagtaattttgat Alignment from GeneWise CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG tatttttattcataaaggctactctctaaactgtttagttgactccccagC------AGCCGAAAGGACCTGAAGGACATCTTCGACATCTACACTGTG---------AGATCTACCTCGGAGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGAGCTTCAGCCAGACCTGGgtatgtttgttggcccactgctgcccatgaagcaggaaagtaattttgat #### Pnlip_ID12752_11 --> 1 - 2 Original Alignment g---------GGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAgt tctagtggactaaacaaatggctcaaggattacattttgctattccacaggGCCCAGGAC------------------------GATGGCAATGAATTTGACTCTGAA------GTTGGAGATTTGCAGAAGGTTAAATTTATCTGC---AACAATGTCATTAACCCAACACTGCCAAAAGTGGGAGCATCAGGGATTACAGTAGAAAGAAATGATGGCAGAgtgtttggtactcatgtaccaaaagccagcaggacccgtgacttgaattcat Alignment from CESAR gGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAgt tctagtggactaaacaaatggctcaaggattacattttgctattccacaggGCC------CAGGACGAT---------GGCAATGAATTTGACTCT------GAAGTTGGAGATTTGCAGAAGGTTAAATTTATC---TGCAACAATGTCATTAACCCAACACTGCCAAAAGTGGGAGCATCAGGGATTACAGTAGAAAGAAATGATGGCAGAgtgtttggtactcatgtaccaaaagccagcaggacccgtgacttgaattcat Alignment from Spaln_aa2Genome AGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT tctagtggactaaacaaatggctcaaggattacattttgctattccacagGGCCCAGGACGATGGCAATGAATTTGACTCT------GAAGTTGGAGATTTGCAGAAGGTTAAATTTATC---TGCAACAATGTCATTAACCCAACACTGCCAAAAGTGGGAGCATCAGGGATTACAGTAGAAAGAAATGATGGCAGAGTgtttggtactcatgtaccaaaagccagcaggacccgtgacttgaattcat Alignment from Spaln_nt2Genome AGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT tctagtggactaaacaaatggctcaaggattacattttgctattccacagGGCCCAGGAC----GATGGCAATGAATTTGACTCT------GAAGTTGGAGATTTGCAGAAGGTTAAATTTATCTG---CAACAATGTCATTAACCCAACACTGCCAAAAGTGGGAGCATCAGGGATTACAGTAGAAAGAAATGATGGCAGAGTgtttggtactcatgtaccaaaagccagcaggacccgtgacttgaattcat Alignment from Pairagon -------------GGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT tctagtggactaaacaaatggctcaaggattacattttgctattccacagGGCCCAGGACGATGG----------------------------CAATGAATTTGACTCT------GAAGTTGGAGATTTGCAGAAGGTTAAATTTATCTG---CAACAATGTCATTAACCCAACACTGCCAAAAGTGGGAGCATCAGGGATTACAGTAGAAAGAAATGATGGCAGAGTgtttggtactcatgtaccaaaagccagcaggacccgtgacttgaattcat Alignment from Exonerate_protein2genome GTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT tctagtggactaaacaaatggctcaaggattacattttgctattccacagggcccagGACGATGGCAATGAATTTGACTCTGAAGTTGGAGATTTGCAGAAGGTTAAATTTATC---TGCAACAATGTCATTAACCCAACACTGCCAAAAGTGGGAGCATCAGGGATTACAGTAGAAAGAAATGATGGCAGAGTgtttggtactcatgtaccaaaagccagcaggacccgtgacttgaattcat Alignment from Exonerate_coding2genome GTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT tctagtggactaaacaaatggctcaaggattacattttgctattccacagggcccagGACGATGGCAATGAATTTGACTCTGAAGTTGGAGATTTGCAGAAGGTTAAATTTATC---TGCAACAATGTCATTAACCCAACACTGCCAAAAGTGGGAGCATCAGGGATTACAGTAGAAAGAAATGATGGCAGAGTgtttggtactcatgtaccaaaagccagcaggacccgtgacttgaattcat Alignment from GeneWise ---------AATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT tctagtggactaaacaaatggctcaaggattacattttgctattccacagggcccagGACGATGGCAATGAATTTGACTCTGAAGTT------GGAGATTTGCAGAAGGTTAAATTTATCTGC---AACAATGTCATTAACCCAACACTGCCAAAAGTGGGAGCATCAGGGATTACAGTAGAAAGAAATGATGGCAGAGTgtttggtactcatgtaccaaaagccagcaggacccgtgacttgaattcat #### Pold4_ID437_2 --> 2 - 1 Original Alignment gg---------GAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAg gtaagaaggtttaggtggagcagggggagagcctttgctcctgcccacagggGCCAGGCTGGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGTACAggtaagtatcccctgtaaccatccttcattcaatcttacatgaaggacttt Alignment from CESAR gg---------GAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAg gtaagaaggtttaggtggagcagggggagagcctttgctcctgcccacagggGCCAGGCTGGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGTACAggtaagtatcccctgtaaccatccttcattcaatcttacatgaaggacttt Alignment from Spaln_aa2Genome GGGAAGACACCCAGTCCCTC---------AGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG gtaagaaggtttaggtggagcagggggagagcctttgctcctgcccacagGGGCCAGGCTGGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGTACAGgtaagtatcccctgtaaccatccttcattcaatcttacatgaaggacttt Alignment from Spaln_nt2Genome GGGAAGACAC--CCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG gtaagaaggtttaggtggagcagggggagagcctttgctcctgcccacaggggccagGCTGGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGTACAGgtaagtatcccctgtaaccatccttcattcaatcttacatgaaggacttt Alignment from Pairagon G---------GGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG gtaagaaggtttaggtggagcagggggagagcctttgctcctgcccacagGGGCCAGGCTGGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGTACAGgtaagtatcccctgtaaccatccttcattcaatcttacatgaaggacttt Alignment from Exonerate_protein2genome GG---------GAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG gtaagaaggtttaggtggagcagggggagagcctttgctcctgcccacagGGGCCAGGCTGGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGTACAGgtaagtatcccctgtaaccatccttcattcaatcttacatgaaggacttt Alignment from Exonerate_coding2genome GG---------GAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG gtaagaaggtttaggtggagcagggggagagcctttgctcctgcccacagGGGCCAGGCTGGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGTACAGgtaagtatcccctgtaaccatccttcattcaatcttacatgaaggacttt Alignment from GeneWise ----GAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG gtaagaaggtttaggtggagcagggggagagcctttgctcctgcccacaggggccagGCTGGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGTACAGgtaagtatcccctgtaaccatccttcattcaatcttacatgaaggacttt #### Pold4_ID438_3 --> 2 - 2 Original Alignment gt---ATCACAAGG---CTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCag catgccactaccaccccctgcttgtcccaatccaactctcttctgtccaggtAACATCTCAAGGTTGTTGCAGCGC---AGCCGCGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAGCACACCCTGAAGACCCTCACTACCGGTGTacgtgtgtacagccccagagagctttctactgcctatctgggagctcacctg Alignment from CESAR gt---ATCACAAGGCTG---CAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCag catgccactaccaccccctgcttgtcccaatccaactctcttctgtccaggtAACATCTCAAGGTTGTTGCAGCGC---AGCCGCGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAGCACACCCTGAAGACCCTCACTACCGGTGTacgtgtgtacagccccagagagctttctactgcctatctgggagctcacctg Alignment from Spaln_aa2Genome GT---ATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG catgccactaccaccccctgcttgtcccaatccaactctcttctgtccagGTAACATCTCAAGGTTGTTGCAGCGCAGCCGCGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAGCACACCCTGAAGACCCTCACTACCGGTGTACgtgtgtacagccccagagagctttctactgcctatctgggagctcacctg Alignment from Spaln_nt2Genome GTATCA---CAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG catgccactaccaccccctgcttgtcccaatccaactctcttctgtccagGTAACATCTCAAGGTTGTTGCAGCGCAGCCGCGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAGCACACCCTGAAGACCCTCACTACCGGTGTACgtgtgtacagccccagagagctttctactgcctatctgggagctcacctg Alignment from Pairagon GTATCA---CAAG---GCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG catgccactaccaccccctgcttgtcccaatccaactctcttctgtccagGTAACATCTCAAGGTTGTTGCAGCGC---AGCCGCGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAGCACACCCTGAAGACCCTCACTACCGGTGTACgtgtgtacagccccagagagctttctactgcctatctgggagctcacctg Alignment from Exonerate_protein2genome GT---ATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG catgccactaccaccccctgcttgtcccaatccaactctcttctgtccagGTAACATCTCAAGGTTGTTGCAGCGCAGCCGCGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAGCACACCCTGAAGACCCTCACTACCGGTGTACgtgtgtacagccccagagagctttctactgcctatctgggagctcacctg Alignment from Exonerate_coding2genome GT---ATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAGC catgccactaccaccccctgcttgtcccaatccaactctcttctgtccagGTAACATCTCAAGGTTGTTGCAGCGCAGCCGCGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAGCACACCCTGAAGACCCTCACTACCGGTGTACGtgtgtacagccccagagagctttctactgcctatctgggagctcacctg Alignment from GeneWise --GGTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAGCCTGTGGCATCTCTACCCACTC catgccactaccaccccctgcttgtcccaatccaactctcttctgtccagGTAACATCTCAAGGTTGTTGCAGCGCAGCCGCGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAGCACACCCTGAAGACCCTCACTACCGGTGTACGTGT------GTACAGCCCCAGagagctttctactgcctatctgggagct #### Poll_ID9484_3 --> 1 - 0 Original Alignment g------TCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttgaatagctcccactatttttttccccttgacaggCAGTTCTCCTTAGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACTCAGTGGGATTTGCCCAGAACCACACTCTCTCTTTCCCCTCCCCACCCCCGAGCAGTATCACCTCCTCCAACAGCAGAAAAGCCATCCAGAACTCGAGCCCAAgtgagttggcatgccacttgaggccgctgacgatagaaaatgcaagaatc Alignment from CESAR g------TCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttgaatagctcccactatttttttccccttgacaggCAGTTCTCCTTAGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACTCAGTGGGATTTGCCCAGAACCACACTCTCTCTTTCCCCTCCCCACCCCCGAGCAGTATCACCTCCTCCAACAGCAGAAAAGCCATCCAGAACTCGAGCCCAAgtgagttggcatgccacttgaggccgctgacgatagaaaatgcaagaatc Alignment from Spaln_aa2Genome GTCCTTGGATGAA------CCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttgaatagctcccactatttttttccccttgacagGCAGTTCTCCTTAGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACTCAGTGGGATTTGCCCAGAACCACACTCTCTCTTTCCCCTCCCCACCCCCGAGCAGTATCACCTCCTCCAACAGCAGAAAAGCCATCCAGAACTCGAGCCCAAgtgagttggcatgccacttgaggccgctgacgatagaaaatgcaagaatc Alignment from Spaln_nt2Genome GTCCTTGGATGAACC------ACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttgaatagctcccactatttttttccccttgacagGCAGTTCTCCTTAGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACTCAGTGGGATTTGCCCAGAACCACACTCTCTCTTTCCCCTCCCCACCCCCGAGCAGTATCACCTCCTCCAACAGCAGAAAAGCCATCCAGAACTCGAGCCCAAgtgagttggcatgccacttgaggccgctgacgatagaaaatgcaagaatc Alignment from Pairagon G------TCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttgaatagctcccactatttttttccccttgacagGCAGTTCTCCTTAGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACTCAGTGGGATTTGCCCAGAACCACACTCTCTCTTTCCCCTCCCCACCCCCGAGCAGTATCACCTCCTCCAACAGCAGAAAAGCCATCCAGAACTCGAGCCCAAgtgagttggcatgccacttgaggccgctgacgatagaaaatgcaagaatc Alignment from Exonerate_protein2genome G------TCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttgaatagctcccactatttttttccccttgacagGCAGTTCTCCTTAGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACTCAGTGGGATTTGCCCAGAACCACACTCTCTCTTTCCCCTCCCCACCCCCGAGCAGTATCACCTCCTCCAACAGCAGAAAAGCCATCCAGAACTCGAGCCCAAgtgagttggcatgccacttgaggccgctgacgatagaaaatgcaagaatc Alignment from Exonerate_coding2genome G------TCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttgaatagctcccactatttttttccccttgacagGCAGTTCTCCTTAGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACTCAGTGGGATTTGCCCAGAACCACACTCTCTCTTTCCCCTCCCCACCCCCGAGCAGTATCACCTCCTCCAACAGCAGAAAAGCCATCCAGAACTCGAGCCCAAgtgagttggcatgccacttgaggccgctgacgatagaaaatgcaagaatc Alignment from GeneWise ----AGGTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttgaatagctcccactatttttttccccttgacagGCAGTTCTCCTTAGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACTCAGTGGGATTTGCCCAGAACCACACTCTCTCTTTCCCCTCCCCACCCCCGAGCAGTATCACCTCCTCCAACAGCAGAAAAGCCATCCAGAACTCGAGCCCAAgtgagttggcatgccacttgaggccgctgacgatagaaaatgcaagaatc #### Polr2g_ID2377_6 --> 0 - 0 Original Alignment GACATTGTGATTCAGCAG---GACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT--------- tctgataagaagcctgagctggctgacctgccgaccctctttgattacagGGCATATTGATTCAGCTGGATGAG------ATACGGCTAAAGATTGTAGGAACACATGTAGATAAAAATGATGTTACCCTTATCgtgcggcgagctaggcttttgttctttgtttatatgacatcacagatcca Alignment from CESAR GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGAC---------ATT tctgataagaagcctgagctggctgacctgccgaccctctttgattacagGGCATATTGATTCAGCTG---GATGAGATACGGCTAAAGATTGTAGGAACACATGTAGATAAAAATGATGTTACCCTTATCgtgcggcgagctaggcttttgttctttgtttatatgacatcacagatcca Alignment from Spaln_aa2Genome GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGAC---------ATT tctgataagaagcctgagctggctgacctgccgaccctctttgattacagGGCATATTGATTCAGCTG---GATGAGATACGGCTAAAGATTGTAGGAACACATGTAGATAAAAATGATGTTACCCTTATCgtgcggcgagctaggcttttgttctttgtttatatgacatcacagatcca Alignment from Spaln_nt2Genome GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGA- tctgataagaagcctgagctggctgacctgccgaccctctttgattacagGGCATATTGATTCAGCTG---GATGAGATACGGCTAAAGATTGTAGGAACACATGTAGATAAAAATGATgttacccttatcgtgcggcgagctaggcttttgttctttgtttatatgacatcacagatcca Alignment from Pairagon GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGA tctgataagaagcctgagctggctgacctgccgaccctctttgattacagGGCATATTGATTCAGCTG---GATGAGATACGGCTAAAGATTGTAGGAACACATGTAGATAAAAATGAtgttacccttatcgtgcggcgagctaggcttttgttctttgtttatatgacatcacagatcca Alignment from Exonerate_protein2genome GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGAC tctgataagaagcctgagctggctgacctgccgaccctctttgattacagGGCATATTGATTCAGCTG---GATGAGATACGGCTAAAGATTGTAGGAACACATGTAGATAAAAATGATgttacccttatcgtgcggcgagctaggcttttgttctttgtttatatgacatcacagatcca Alignment from Exonerate_coding2genome tctgataagaagcctgagctggctgacctgccgaccctctttgattacagggcatattgattcagctggatgagatacggctaaagattgtaggaacacatgtagataaaaatgatgttacccttatcgtgcggcgagctaggcttttgttctttgtttatatgacatcacagatcca Alignment from GeneWise GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATTTTTGCCATT tctgataagaagcctgagctggctgacctgccgaccctctttgattacagGGCATATTGATTCAGCTGGAT---GAGATACGGCTAAAGATTGTAGGAACACATGTAGATAAAAATGATGTTACCCTTATCgtgcggcgagctaggcttttgttctttgtttatatgacatcacagatcca #### Polr2g_ID2378_5 --> 0 - 0 Original Alignment ---TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG cgctaaagtttcttgttcctggaagtcatgtcatttctctgtggctgcagGATTCCATACCCTCAGAAATGGAGTTTGACCCAAATTCAAACCCCCCCTGTTATAAGACCATGGATGAAgtatgtgagcatggattggagggtgagatgaagggtgagggaagcaaatc Alignment from CESAR ---TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG gtctaaagtttcttgttcctggaagtcatgtcatttctctgtggctgcagGATTCCATACCCTCAGAAATGGAGTTTGACCCAAATTCAAACCCCCCCTGTTATAAGACCATGGATGAAgtatgtgagcatggattggagggtgagatgaagggtgagggaagcaaatc Alignment from Spaln_aa2Genome TCCATCCCTTCAGAG---ATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG cgctaaagtttcttgttcctggaagtcatgtcatttctctgtggctgcagGATTCCATACCCTCAGAAATGGAGTTTGACCCAAATTCAAACCCCCCCTGTTATAAGACCATGGATGAAgtatgtgagcatggattggagggtgagatgaagggtgagggaagcaaatc Alignment from Spaln_nt2Genome ATTCCATCCCTTCAG-AGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG cgctaaagtttcttgttcctggaagtcatgtcatttctctgtggctgcagGATTCCATACCCTCAGAAATGGAGTTTGACCCAAATTCAAACCCCCCCTGTTATAAGACCATGGATGAAgtatgtgagcatggattggagggtgagatgaagggtgagggaagcaaatc Alignment from Pairagon ---------------------------------------------------ATTCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG CGCTAAAGTTTCTTGTTCCTGGAAGTCATGTCATTTCTCTGTGGCTGCAGGATTCCATACCCTCAGAAATGGAGTTTGACCCAAATTCAAACCCCCCCTGTTATAAGACCATGGATGAAgtatgtgagcatggattggagggtgagatgaagggtgagggaagcaaatc Alignment from Exonerate_protein2genome ---TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG cgctaaagtttcttgttcctggaagtcatgtcatttctctgtggctgcagGATTCCATACCCTCAGAAATGGAGTTTGACCCAAATTCAAACCCCCCCTGTTATAAGACCATGGATGAAgtatgtgagcatggattggagggtgagatgaagggtgagggaagcaaatc Alignment from Exonerate_coding2genome ---TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG cgctaaagtttcttgttcctggaagtcatgtcatttctctgtggctgcagGATTCCATACCCTCAGAAATGGAGTTTGACCCAAATTCAAACCCCCCCTGTTATAAGACCATGGATGAAgtatgtgagcatggattggagggtgagatgaagggtgagggaagcaaatc Alignment from GeneWise -----------------------------------------------------TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG CGCTAAAGTTTCTTGTTCCTGGAAGTCATGTCATTTCTCTGTGGCTGCAGGATTCCATACCCTCAGAAATGGAGTTTGACCCAAATTCAAACCCCCCCTGTTATAAGACCATGGATGAAgtatgtgagcatggattggagggtgagatgaagggtgagggaagcaaatc #### Ppp1ca_ID409_3 --> 2 - 1 Original Alignment gtGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATC---AACCGCATTTATGGCTTCTATGATGAAt acacagctttactgaatatacttcattaacacagcgtttcctttcctcaggtGACATCCAGGGACAGCACTATGACCTTCTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTTAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACCTATAAGATCAGATATTTAGAGAATTTCTATGTATTTCATGGAAATCATGAGTGTGCCAGCATTATTAACCGCATTTATGGGTTC---------tgtaatagattggtggttatggtaccctgacgtcttactggatcatttaat Alignment from CESAR gtGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATC---AACCGCATTTATGGCTTCTATGATGAAt acacagctttactgaatatacttcattaacacagcgtttcctttcctcaggtGACATCCAGGGACAGCACTATGACCTTCTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTTAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACCTATAAGATCAGATATTTAGAGAATTTCTATGTATTTCATGGAAATCATGAGTGTGCCAGCATTATTAACCGCATTTATGGGTTC---------tgtaatagattggtggttatggtaccctgacgtcttactggatcatttaat Alignment from Spaln_aa2Genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCTATGATGAATGCAAG acacagctttactgaatatacttcattaacacagcgtttcctttcctcagGTGACATCCAGGGACAGCACTATGACCTTCTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTTAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACCTATAAGATCAGATATTTAGAGAATTTCTATGTATTTCATGGAAATCATGAGTGTGCCAGCATTATTAACCGCATTTATGGGTTCTGTAATAGATTGGTGgttatggtaccctgacgtcttactggatcatttaat Alignment from Spaln_nt2Genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATCA---ACCGCATTTATGGCTTCTATGATGAAT-- acacagctttactgaatatacttcattaacacagcgtttcctttcctcagGTGACATCCAGGGACAGCACTATGACCTTCTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTTAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACCTATAAGATCAGATATTTAGAGAATTTCTATGTATTTCATGGAAATCATGAGTGTGCCAGCATTATTAACCGCATTTATGGGTTCTGTAATAGATTGgtggttatggtaccctgacgtcttactggatcatttaat Alignment from Pairagon GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCT acacagctttactgaatatacttcattaacacagcgtttcctttcctcagGTGACATCCAGGGACAGCACTATGACCTTCTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTTAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACCTATAAGATCAGATATTTAGAGAATTTCTATGTATTTCATGGAAATCATGAGTGTGCCAGCATTATTAACCGCATTTATGGGTTCTgtaatagattggtggttatggtaccctgacgtcttactggatcatttaat Alignment from Exonerate_protein2genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCTATGATGAAT acacagctttactgaatatacttcattaacacagcgtttcctttcctcagGTGACATCCAGGGACAGCACTATGACCTTCTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTTAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACCTATAAGATCAGATATTTAGAGAATTTCTATGTATTTCATGGAAATCATGAGTGTGCCAGCATTATTAACCGCATTTATGGGTTCTGTAATAGATtggtggttatggtaccctgacgtcttactggatcatttaat Alignment from Exonerate_coding2genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCTATGATGAAT acacagctttactgaatatacttcattaacacagcgtttcctttcctcagGTGACATCCAGGGACAGCACTATGACCTTCTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTTAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACCTATAAGATCAGATATTTAGAGAATTTCTATGTATTTCATGGAAATCATGAGTGTGCCAGCATTATTAACCGCATTTATGGGTTCTGTAATAGATtggtggttatggtaccctgacgtcttactggatcatttaat Alignment from GeneWise GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATC---AACCGCATTTATGGCTTCTATGATGAATGCAAG acacagctttactgaatatacttcattaacacagcgtttcctttcctcagGTGACATCCAGGGACAGCACTATGACCTTCTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTTAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACCTATAAGATCAGATATTTAGAGAATTTCTATGTATTTCATGGAAATCATGAGTGTGCCAGCATTATTAACCGCATTTATGGGTTCTGTAATAGATTGGTGgttatggtaccctgacgtcttactggatcatttaat #### Ppp1r32_ID2842_9 --> 0 - 0 Original Alignment GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG gaatatatgtgaaagtgtaccttgcgaaacctgacttgtttattttgcag---CCTGCCTCAGCTCCCCAATCTGCCAGCATGAGTCACAGATCCTACCGCCCCCCCCAGCGAATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAATAAAgtgagtattctaacactaatcctagtcccaggctatcttcccaaattctg Alignment from CESAR GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG ctggaatatatgtgaaagtgtacctgaaacctgacttgtttattttgcag---CCTGCCTCAGCTCCCCAATCTGCCAGCATGAGTCACAGATCCTACCGCCCCCCCCAGCGAATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAATAAAgtgagtattctaacactaatcctagtcccaggctatcttcccaaattctg Alignment from Spaln_aa2Genome CCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG gaatatatgtgaaagtgtaccttgcgaaacctgacttgtttattttgcagcctgcctcagCTCCCCAATCTGCCAGCATGAGTCACAGATCCTACCGCCCCCCCCAGCGAATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAATAAAgtgagtattctaacactaatcctagtcccaggctatcttcccaaattctg Alignment from Spaln_nt2Genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG gaatatatgtgaaagtgtaccttgcgaaacctgacttgtttattttgcag---CCTGCCTCAGCTCCCCAATCTGCCAGCATGAGTCACAGATCCTACCGCCCCCCCCAGCGAATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAATAAAgtgagtattctaacactaatcctagtcccaggctatcttcccaaattctg Alignment from Pairagon CCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG gaatatatgtgaaagtgtaccttgcgaaacctgacttgtttattttgcagCCTGCCTCAGCTCCCCAATCTGCCAGCATGAGTCACAGATCCTACCGCCCCCCCCAGCGAATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAATAAAgtgagtattctaacactaatcctagtcccaggctatcttcccaaattctg Alignment from Exonerate_protein2genome CCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG gaatatatgtgaaagtgtaccttgcgaaacctgacttgtttattttgcagcctgcctcagCTCCCCAATCTGCCAGCATGAGTCACAGATCCTACCGCCCCCCCCAGCGAATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAATAAAgtgagtattctaacactaatcctagtcccaggctatcttcccaaattctg Alignment from Exonerate_coding2genome CCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG gaatatatgtgaaagtgtaccttgcgaaacctgacttgtttattttgcagcctgcctcagCTCCCCAATCTGCCAGCATGAGTCACAGATCCTACCGCCCCCCCCAGCGAATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAATAAAgtgagtattctaacactaatcctagtcccaggctatcttcccaaattctg Alignment from GeneWise CCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG gaatatatgtgaaagtgtaccttgcgaaacctgacttgtttattttgcagcctgcctcagCTCCCCAATCTGCCAGCATGAGTCACAGATCCTACCGCCCCCCCCAGCGAATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAATAAAgtgagtattctaacactaatcctagtcccaggctatcttcccaaattctg #### Pprc1_ID9716_4 --> 0 - 0 Original Alignment CCCCTCGGGAGAGCTCCTCT ---------CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG CAGCTTGGGAGAGTTCATCTgtaacagacacactcttctccctattccagTACTATCCGTTGCACAAGCTCCTGAATCTATCTCGCACACCCCCAGAATGTGATCTTGTCACCCCAATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTGGTgttagcaatctagggcccttctgactctgacagagagcaagggtgtggtt Alignment from CESAR CCCCTCGGGAGAGCTCCTCT ---------CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG CAGCTTGGGAGAGTTCATCTgtagctgacacactcttctccctattccagTACTATCCGTTGCACAAGCTCCTGAATCTATCTCGCACACCCCCAGAATGTGATCTTGTCACCCCAATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTGGTgttagcaatctagggcccttctgactctgacagagagcaagggtgtggtt Alignment from Spaln_aa2Genome CCCCTCGGGAGAGCTCCTCT---------------------------------------CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG CAGCTTGGGAGAGTTCATCTGTAACAGACACACTCTTCTCCCTATTCCAGTACTATCCGTTGCACAAGCTCCTGAATCTATCTCGCACACCCCCAGAATGTGATCTTGTCACCCCAATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTGGTgttagcaatctagggcccttctgactctgacagagagcaagggtgtggtt Alignment from Spaln_nt2Genome CCCCTCGGGAGA G-CTCCTCTCTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG CAGCTTGGGAGAgttcatctgtaacagacacactcttctccctattccagTACTATCCGTTGCACAAGCTCCTGAATCTATCTCGCACACCCCCAGAATGTGATCTTGTCACCCCAATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTGGTgttagcaatctagggcccttctgactctgacagagagcaagggtgtggtt Alignment from Pairagon CCCCTCGGGAGAGCTCCTCT---------------------------------------CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG CAGCTTGGGAGAGTTCATCTGTAACAGACACACTCTTCTCCCTATTCCAGTACTATCCGTTGCACAAGCTCCTGAATCTATCTCGCACACCCCCAGAATGTGATCTTGTCACCCCAATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTGGTgttagcaatctagggcccttctgactctgacagagagcaagggtgtggtt Alignment from Exonerate_protein2genome CCCCTCGGGAGAGCTCCTCT CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG CAGCTTGGGAGAGTTCATCTgtaacagacacactcttctccctattccagtactatccgTTGCACAAGCTCCTGAATCTATCTCGCACACCCCCAGAATGTGATCTTGTCACCCCAATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTGGTgttagcaatctagggcccttctgactctgacagagagcaagggtgtggtt Alignment from Exonerate_coding2genome CCCCTCGGGAGAGCTCCTCT CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG CAGCTTGGGAGAGTTCATCTgtaacagacacactcttctccctattccagtactatccgTTGCACAAGCTCCTGAATCTATCTCGCACACCCCCAGAATGTGATCTTGTCACCCCAATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTGGTgttagcaatctagggcccttctgactctgacagagagcaagggtgtggtt Alignment from GeneWise CCCCTCGGGAGAGCTCCTCT---------------------------------------CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG CAGCTTGGGAGAGTTCATCTGTAACAGACACACTCTTCTCCCTATTCCAGTACTATCCGTTGCACAAGCTCCTGAATCTATCTCGCACACCCCCAGAATGTGATCTTGTCACCCCAATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTGGTgttagcaatctagggcccttctgactctgacagagagcaagggtgtggtt #### Prdx5_ID1854_3 --> 0 - 0 Original Alignment ---------ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG gcttaaaatatctgtacaaatttttctttcttttcaattttgtctcacagTCACGACTGGCCCACCTGCCTGGCTTGGTGGAGCAGGCTGGAGCTCGGAAAGCCAAGGGAGCACAAGTAGTGGCATGTCTAAGTGTTAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCCCATGAAGCAGAAGGTAAAgtgagtaatcctgcagctagttgtgatggcctagggccaggtagcaatcc Alignment from CESAR ---------ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG gcttaaaatatctgtacaaatttttctttcttttcaattttgtctcacagTCACGACTGGCCCACCTGCCTGGCTTGGTGGAGCAGGCTGGAGCTCGGAAAGCCAAGGGAGCACAAGTAGTGGCATGTCTAAGTGTTAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCCCATGAAGCAGAAGGTAAAgtgagtaatcctgcagctagttgtgatggcctagggccaggtagcaatcc Alignment from Spaln_aa2Genome ---------ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG gcttaaaatatctgtacaaatttttctttcttttcaattttgtctcacagTCACGACTGGCCCACCTGCCTGGCTTGGTGGAGCAGGCTGGAGCTCGGAAAGCCAAGGGAGCACAAGTAGTGGCATGTCTAAGTGTTAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCCCATGAAGCAGAAGGTAAAgtgagtaatcctgcagctagttgtgatggcctagggccaggtagcaatcc Alignment from Spaln_nt2Genome --------GACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG gcttaaaatatctgtacaaatttttctttcttttcaattttgtctcacagTCACGACTGGCCCACCTGCCTGGCTTGGTGGAGCAGGCTGGAGCTCGGAAAGCCAAGGGAGCACAAGTAGTGGCATGTCTAAGTGTTAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCCCATGAAGCAGAAGGTAAAgtgagtaatcctgcagctagttgtgatggcctagggccaggtagcaatcc Alignment from Pairagon ---------ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG gcttaaaatatctgtacaaatttttctttcttttcaattttgtctcacagTCACGACTGGCCCACCTGCCTGGCTTGGTGGAGCAGGCTGGAGCTCGGAAAGCCAAGGGAGCACAAGTAGTGGCATGTCTAAGTGTTAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCCCATGAAGCAGAAGGTAAAgtgagtaatcctgcagctagttgtgatggcctagggccaggtagcaatcc Alignment from Exonerate_protein2genome ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG gcttaaaatatctgtacaaatttttctttcttttcaattttgtctcacagtcacgactgGCCCACCTGCCTGGCTTGGTGGAGCAGGCTGGAGCTCGGAAAGCCAAGGGAGCACAAGTAGTGGCATGTCTAAGTGTTAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCCCATGAAGCAGAAGGTAAAgtgagtaatcctgcagctagttgtgatggcctagggccaggtagcaatcc Alignment from Exonerate_coding2genome ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG gcttaaaatatctgtacaaatttttctttcttttcaattttgtctcacagtcacgactgGCCCACCTGCCTGGCTTGGTGGAGCAGGCTGGAGCTCGGAAAGCCAAGGGAGCACAAGTAGTGGCATGTCTAAGTGTTAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCCCATGAAGCAGAAGGTAAAgtgagtaatcctgcagctagttgtgatggcctagggccaggtagcaatcc Alignment from GeneWise ---------ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG gcttaaaatatctgtacaaatttttctttcttttcaattttgtctcacagTCACGACTGGCCCACCTGCCTGGCTTGGTGGAGCAGGCTGGAGCTCGGAAAGCCAAGGGAGCACAAGTAGTGGCATGTCTAAGTGTTAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCCCATGAAGCAGAAGGTAAAgtgagtaatcctgcagctagttgtgatggcctagggccaggtagcaatcc #### Prpf19_ID3047_6 --> 0 - 0 Original Alignment GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGTGGGA---ATGACCCCTGAGATTATCCAGAAG ttgttgtagggagtttgccatgcgctctttttctccactttatcttgtagGGAGCTGGAGATGCCATGGACTTGGGTGAGCTGGTTGGGGGAATGACCCCTGAGATT---------gtaagatgatatccacgtgacccatccaccatgaaactgcaacctcatca Alignment from CESAR GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGTG---GGAATGACCCCTGAGATTATCCAGAAG ttgttgtagggagtttgccatgcgctctttttctccactttatcttgtagGGAGCTGGAGATGCCATGGACTTGGGTGAGCTGGTTGGGGGAATGACCCCTGAGATT---------gtaagatgatatccacgtgacccatccaccatgaaactgca Alignment from Spaln_aa2Genome GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGTG---GGAATGACCCCTGAGATT ttgttgtagggagtttgccatgcgctctttttctccactttatcttgtagGGAGCTGGAGATGCCATGGACTTGGGTGAGCTGGTTGGGGGAATGACCCCTGAGATTgtaagatgatatccacgtgacccatccaccatgaaactgcaacctcatca Alignment from Spaln_nt2Genome GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGTG---GGAATGACCCCTGAGATT ttgttgtagggagtttgccatgcgctctttttctccactttatcttgtagGGAGCTGGAGATGCCATGGACTTGGGTGAGCTGGTTGGGGGAATGACCCCTGAGATTgtaagatgatatccacgtgacccatccaccatgaaactgcaacctcatca Alignment from Pairagon GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGT---GGGAATGACCCCTGAGATT ttgttgtagggagtttgccatgcgctctttttctccactttatcttgtagGGAGCTGGAGATGCCATGGACTTGGGTGAGCTGGTTGGGGGAATGACCCCTGAGATTgtaagatgatatccacgtgacccatccaccatgaaactgcaacctcatca Alignment from Exonerate_protein2genome GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGTG---GGAATGACCCCTGAGATT ttgttgtagggagtttgccatgcgctctttttctccactttatcttgtagGGAGCTGGAGATGCCATGGACTTGGGTGAGCTGGTTGGGGGAATGACCCCTGAGATTgtaagatgatatccacgtgacccatccaccatgaaactgcaacctcatca Alignment from Exonerate_coding2genome GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGTG---GGAATGACCCCTGAGATT ttgttgtagggagtttgccatgcgctctttttctccactttatcttgtagGGAGCTGGAGATGCCATGGACTTGGGTGAGCTGGTTGGGGGAATGACCCCTGAGATTgtaagatgatatccacgtgacccatccaccatgaaactgcaacctcatca Alignment from GeneWise GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGTGGGA---ATGACCCCTGAGATT ttgttgtagggagtttgccatgcgctctttttctccactttatcttgtagGGAGCTGGAGATGCCATGGACTTGGGTGAGCTGGTTGGGGGAATGACCCCTGAGATTgtaagatgatatccacgtgacccatccaccatgaaactgcaacctcatca #### Prpf19_ID3048_7 --> 0 - 0 Original Alignment CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAG------ gaaatacagcccactctataattattcgaccctacttgattcatttctagCTTCAAGACAAGGCCACTGTGTTAACCACAGAACAAAAGAAACGGATCgtaccactggccattatgtggatatctgcatctttggagagaagtgtgcg Alignment from CESAR CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAG------ gaaatacagcccactctataattattcgaccctacttgattcatttctagCTTCAAGACAAGGCCACTGTGTTAACCACAGAACAAAAGAAACGGATCgtaccactggccattatgtggatatctgcatctttggagagaagtgtgcg Alignment from Spaln_aa2Genome CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAG------ gaaatacagcccactctataattattcgaccctacttgattcatttctagCTTCAAGACAAGGCCACTGTGTTAACCACAGAACAAAAGAAACGGATCgtaccactggccattatgtggatatctgcatctttggagagaagtgtgcg Alignment from Spaln_nt2Genome CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAG------ gaaatacagcccactctataattattcgaccctacttgattcatttctagCTTCAAGACAAGGCCACTGTGTTAACCACAGAACAAAAGAAACGGATCgtaccactggccattatgtggatatctgcatctttggagagaagtgtgcg Alignment from Pairagon CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGA---------------------------------------------------------- gaaatacagcccactctataattattcgaccctacttgattcatttctagCTTCAAGACAAGGCCACTGTGTTAACCACAGAACAAAAGAAACGGATCGTACCACTGGCCATTATGTGGATATCTGCATCTTTGGAGAGAAGTGTGCG Alignment from Exonerate_protein2genome CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAGAG gaaatacagcccactctataattattcgaccctacttgattcatttctagCTTCAAGACAAGGCCACTGTGTTAACCACAGAACAAAAGAAACGgatcgtaccactggccattatgtggatatctgcatctttggagagaagtgtgcg Alignment from Exonerate_coding2genome CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAGAG gaaatacagcccactctataattattcgaccctacttgattcatttctagCTTCAAGACAAGGCCACTGTGTTAACCACAGAACAAAAGAAACGgatcgtaccactggccattatgtggatatctgcatctttggagagaagtgtgcg Alignment from GeneWise CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAGAGA--- gaaatacagcccactctataattattcgaccctacttgattcatttctagCTTCAAGACAAGGCCACTGTGTTAACCACAGAACAAAAGAAACGGATCgtaccactggccattatgtggatatctgcatctttggagagaagtgtgcg #### Prpf19_ID3049_8 --> 0 - 0 Original Alignment AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG--- tactttatttgttgctggttggggctttgtgctcccttctttcttcctagAGAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGGGCgtaagtggtaagtgctaagtgactcccactgttcccaacaacatggatgg Alignment from CESAR AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG--- tactttatttgttgctggttggggctttgtgctcccttctttcttcctagAGAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGGGCgtaagtggtaagtgctaagtgactcccactgttcccaacaacatggatgg Alignment from Spaln_aa2Genome AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG--- tactttatttgttgctggttggggctttgtgctcccttctttcttcctagAGAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGGGCgtaagtggtaagtgctaagtgactcccactgttcccaacaacatggatgg Alignment from Spaln_nt2Genome AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG--- tactttatttgttgctggttggggctttgtgctcccttctttcttcctagAGAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGGGCgtaagtggtaagtgctaagtgactcccactgttcccaacaacatggatgg Alignment from Pairagon AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG--- tactttatttgttgctggttggggctttgtgctcccttctttcttcctagAGAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGGGCgtaagtggtaagtgctaagtgactcccactgttcccaacaacatggatgg Alignment from Exonerate_protein2genome AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG--- tactttatttgttgctggttggggctttgtgctcccttctttcttcctagAGAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGGGCgtaagtggtaagtgctaagtgactcccactgttcccaacaacatggatgg Alignment from Exonerate_coding2genome AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG--- tactttatttgttgctggttggggctttgtgctcccttctttcttcctagAGAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGGGCgtaagtggtaagtgctaagtgactcccactgttcccaacaacatggatgg Alignment from GeneWise AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGGGT tactttatttgttgctggttggggctttgtgctcccttctttcttcctagAGAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGGGCgtaagtggtaagtgctaagtgactcccactgttcccaacaacatggatgg #### Prpf19_ID3053_12 --> 0 - 1 Original Alignment TACTGGGCCTTCTCTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCCGGCTGC---t tttaaggcaccagaccatatttggattgactcagggatttgttccgccagTACTGGGCCTTCTTTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCTGGCTGCCAAtgtaagagattactgaaacacttttctattttggcagtagtttcacagtgt Alignment from CESAR TACTGGGCCTTCTCTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCCGGCTGC---t tttaaggcaccagaccatatttggattgactcagggatttgttccgccagTACTGGGCCTTCTTTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCTGGCTGCCAAtgtaagagattactgaaacacttttctattttggcagtagtttcacagtgt Alignment from Spaln_aa2Genome TACTGGGCCTTCTCTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCCGGCTGC---T tttaaggcaccagaccatatttggattgactcagggatttgttccgccagTACTGGGCCTTCTTTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCTGGCTGCCAATgtaagagattactgaaacacttttctattttggcagtagtttcacagtgt Alignment from Spaln_nt2Genome TACTGGGCCTTCTCTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCCGGCTGC---T tttaaggcaccagaccatatttggattgactcagggatttgttccgccagTACTGGGCCTTCTTTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCTGGCTGCCAATgtaagagattactgaaacacttttctattttggcagtagtttcacagtgt Alignment from Pairagon TACTGGGCCTTCTCTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCCGGCTGC---T tttaaggcaccagaccatatttggattgactcagggatttgttccgccagTACTGGGCCTTCTTTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCTGGCTGCCAATgtaagagattactgaaacacttttctattttggcagtagtttcacagtgt Alignment from Exonerate_protein2genome TACTGGGCCTTCTCTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCCGGCTGC---T tttaaggcaccagaccatatttggattgactcagggatttgttccgccagTACTGGGCCTTCTTTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCTGGCTGCCAATgtaagagattactgaaacacttttctattttggcagtagtttcacagtgt Alignment from Exonerate_coding2genome TACTGGGCCTTCTCTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCCGGCTGC---T tttaaggcaccagaccatatttggattgactcagggatttgttccgccagTACTGGGCCTTCTTTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCTGGCTGCCAATgtaagagattactgaaacacttttctattttggcagtagtttcacagtgt Alignment from GeneWise TACTGGGCCTTCTCTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCCGGCTGCTCT- tttaaggcaccagaccatatttggattgactcagggatttgttccgccagTACTGGGCCTTCTTTGACATCCAGACAGGGCGTGTGCTCACTAAGGTGACAGATGAGACCTCTGGCTGCCAATgtaagagattactgaaacacttttctattttggcagtagtttcacagtgt #### Prpf19_ID3054_13 --> 2 - 0 Original Alignment ctCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG--------------------------- agtatccttgggacgttatctgtgcaaattgtttgtttggttttttttagccCTTACCTGTGCACAGTTCCACCCTGATGGGCTCACCTTTGGAACTGGGACTATGGACTCCCAAATTAAGATTTGGGACCTAAAGTGGACTCAGAATGATCTTCAGGAGAATgtgagtggacatatagacatgaacaaagggatgtagtggtggggaattga Alignment from CESAR ctCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG--------------------------- agtatccttgggacgttatctgtgcaaattgtttgtttggttttttttagccCTTACCTGTGCACAGTTCCACCCTGATGGGCTCACCTTTGGAACTGGGACTATGGACTCCCAAATTAAGATTTGGGACCTAAAGTGGACTCAGAATGATCTTCAGGAGAATgtgagtggacatatagacatgaacaaagggatgtagtggtggggaattga Alignment from Spaln_aa2Genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAA GGAG agtatccttgggacgttatctgtgcaaattgtttgtttggttttttttagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCTCACCTTTGGAACTGGGACTATGGACTCCCAAATTAAGATTTGGGACCTAAAgtggactcagaatgatcttcaggagaatgtgagtggacatatagacatgaacaaagGGATgtagtggtggggaattga Alignment from Spaln_nt2Genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAA agtatccttgggacgttatctgtgcaaattgtttgtttggttttttttagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCTCACCTTTGGAACTGGGACTATGGACTCCCAAATTAAGATTTGGGACCTAAAgtggactcagaatgatcttcaggagaatgtgagtggacatatagacatgaacaaagggatgtagtggtggggaattga Alignment from Pairagon CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG--------------------------- agtatccttgggacgttatctgtgcaaattgtttgtttggttttttttagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCTCACCTTTGGAACTGGGACTATGGACTCCCAAATTAAGATTTGGGACCTAAAGTGGACTCAGAATGATCTTCAGGAGAATgtgagtggacatatagacatgaacaaagggatgtagtggtggggaattga Alignment from Exonerate_protein2genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG agtatccttgggacgttatctgtgcaaattgtttgtttggttttttttagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCTCACCTTTGGAACTGGGACTATGGACTCCCAAATTAAGATTTGGGACCTAAAGtggactcagaatgatcttcaggagaatgtgagtggacatatagacatgaacaaagggatgtagtggtggggaattga Alignment from Exonerate_coding2genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG agtatccttgggacgttatctgtgcaaattgtttgtttggttttttttagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCTCACCTTTGGAACTGGGACTATGGACTCCCAAATTAAGATTTGGGACCTAAAGtggactcagaatgatcttcaggagaatgtgagtggacatatagacatgaacaaagggatgtagtggtggggaattga Alignment from GeneWise CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG--------------------------- agtatccttgggacgttatctgtgcaaattgtttgtttggttttttttagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCTCACCTTTGGAACTGGGACTATGGACTCCCAAATTAAGATTTGGGACCTAAAGTGGACTCAGAATGATCTTCAGGAGAATgtgagtggacatatagacatgaacaaagggatgtagtggtggggaattga #### Pygm_ID1678_2 --> 0 - 0 Original Alignment AGGATCTACTACCTGTCTTTGGAGTTCTACATGGGCCGGACACTGCAGAACACCATGGTGAACCTGGCCTTGGAGAACGCCTGTGATGAGGCCACTTACCAG atggagacccataaattgagacctttcgtgaatgttctttcttcttacagAGGATTTATTATCTGTCTTTGGAGTTCTACATGGGCCGGACACTACAAAACACCATGGTAAATCTTGCCCTAGGGAATGCCTGTGATGAGGCT---------gtaagtgatatagcgcagaaagcggcgtctatgtaagcattggttccttt Alignment from CESAR AGGATCTACTACCTGTCTTTGGAGTTCTACATGGGCCGGACACTGCAGAACACCATGGTGAACCTGGCCTTGGAGAACGCCTGTGATGAGGCCACTTACCAG atggagacccataaattgagacctttcgtgaatgttctttcttcttacagAGGATTTATTATCTGTCTTTGGAGTTCTACATGGGCCGGACACTACAAAACACCATGGTAAATCTTGCCCTAGGGAATGCCTGTGATGAGGCT---------gtaagtgatatagcgcagaaagcggcgtctatgtaagctta Alignment from Spaln_aa2Genome AGGATCTACTACCTGTCTTTGGAGTTCTACATGGGCCGGACACTGCAGAACACCATGGTGAACCTGGCCTTGGAGAACGCCTGTGATGAGGCC atggagacccataaattgagacctttcgtgaatgttctttcttcttacagAGGATTTATTATCTGTCTTTGGAGTTCTACATGGGCCGGACACTACAAAACACCATGGTAAATCTTGCCCTAGGGAATGCCTGTGATGAGGCTgtaagtgatatagcgcagaaagcggcgtctatgtaagcattggttccttt Alignment from Spaln_nt2Genome AGGATCTACTACCTGTCTTTGGAGTTCTACATGGGCCGGACACTGCAGAACACCATGGTGAACCTGGCCTTGGAGAACGCCTGTGATGAGGCC atggagacccataaattgagacctttcgtgaatgttctttcttcttacagAGGATTTATTATCTGTCTTTGGAGTTCTACATGGGCCGGACACTACAAAACACCATGGTAAATCTTGCCCTAGGGAATGCCTGTGATGAGGCTgtaagtgatatagcgcagaaagcggcgtctatgtaagcattggttccttt Alignment from Pairagon AGGATCTACTACCTGTCTTTGGAGTTCTACATGGGCCGGACACTGCAGAACACCATGGTGAACCTGGCCTTGGAGAACGCCTGTGATGAGGCC atggagacccataaattgagacctttcgtgaatgttctttcttcttacagAGGATTTATTATCTGTCTTTGGAGTTCTACATGGGCCGGACACTACAAAACACCATGGTAAATCTTGCCCTAGGGAATGCCTGTGATGAGGCTgtaagtgatatagcgcagaaagcggcgtctatgtaagcattggttccttt Alignment from Exonerate_protein2genome AGGATCTACTACCTGTCTTTGGAGTTCTACATGGGCCGGACACTGCAGAACACCATGGTGAACCTGGCCTTGGAGAACGCCTGTGATGAGGCC atggagacccataaattgagacctttcgtgaatgttctttcttcttacagAGGATTTATTATCTGTCTTTGGAGTTCTACATGGGCCGGACACTACAAAACACCATGGTAAATCTTGCCCTAGGGAATGCCTGTGATGAGGCTgtaagtgatatagcgcagaaagcggcgtctatgtaagcattggttccttt Alignment from Exonerate_coding2genome atggagacccataaattgagacctttcgtgaatgttctttcttcttacagaggatttattatctgtctttggagttctacatgggccggacactacaaaacaccatggtaaatcttgccctagggaatgcctgtgatgaggctgtaagtgatatagcgcagaaagcggcgtctatgtaagcattggttccttt Alignment from GeneWise AGGATCTACTACCTGTCTTTGGAGTTCTACATGGGCCGGACACTGCAGAACACCATGGTGAACCTGGCCTTGGAGAACGCCTGTGATGAGGCCACT- ------------- atggagacccataaattgagacctttcgtgaatgttctttcttcttacagAGGATTTATTATCTGTCTTTGGAGTTCTACATGGGCCGGACACTACAAAACACCATGGTAAATCTTGCCCTAGGGAATGCCTGTGATGAGGCTGTAAgtgatatagcgcagaaagcggcgtctatgtaagCATTGGTTCCTTT #### Pygm_ID1679_3 --> 0 - 1 Original Alignment CTGGGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCAg cgtctatgtaagcatttgggttttatgttatgtgttccctcgcccggcag---GGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTAGCAggtaagactactgcttacagaggtgtggtatttgcagcctttaggtttata Alignment from CESAR CTGGGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCAg cggcgtctatgtaagcatttgggtttgttatgtgttccctcgcccggcag---GGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTAGCAggtaagactactgcttacagaggtgtggtatttgcagcctttaggtttata Alignment from Spaln_aa2Genome CTGGGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCAG cgtctatgtaagcatttgggttttatgttatgtgttccctcgcccggcag---GGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTAGCAGgtaagactactgcttacagaggtgtggtatttgcagcctttaggtttata Alignment from Spaln_nt2Genome GGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCAG cgtctatgtaagcatttgggttttatgttatgtgttccctcgcccggcagGGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTAGCAGgtaagactactgcttacagaggtgtggtatttgcagcctttaggtttata Alignment from Pairagon -------------------------------------------------GGGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCAG CGTCTATGTAAGCATTTGGGTTTTATGTTATGTGTTCCCTCGCCCGGCAGGGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTAGCAGgtaagactactgcttacagaggtgtggtatttgcagcctttaggtttata Alignment from Exonerate_protein2genome CTGGGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCAG cgtctatgtaagcatttgggttttatgttatgtgttccctcgcccggCAGGGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTAGCAGgtaagactactgcttacagaggtgtggtatttgcagcctttaggtttata Alignment from Exonerate_coding2genome cgtctatgtaagcatttgggttttatgttatgtgttccctcgcccggcagggcttggacatggaggagttggaggagattgaggaggatgcagggttgggcaatgggggcctgggacgcctagcaggtaagactactgcttacagaggtgtggtatttgcagcctttaggtttata Alignment from GeneWise GGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCAG cgtctatgtaagcatttgggttttatgttatgtgttccctcgcccggcagGGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTAGCAGgtaagactactgcttacagaggtgtggtatttgcagcctttaggtttata #### Pygm_ID1683_7 --> 2 - 0 Original Alignment tcAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT--- aagtccatctcttgcagttaacactgagtgtatgtatgtaatgttcacagtcAATGTTGGTGGCTACATTCTGGCTGTGCTGGACCGGAACCTAGCTGAGAACATCTCCCGTGTATTATACCCCAATGATAATGATgtaaagcaccctccaccagaggcaataaacctagggaaccatgaaggggt Alignment from CESAR tcAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT--- gagtccatctcttgcagttaacactgagtgtatgtatgtaatgttcacagtcAATGTTGGTGGCTACATTCTGGCTGTGCTGGACCGGAACCTAGCTGAGAACATCTCCCGTGTATTATACCCCAATGATAATGATgtaaagcaccctccaccagaggcaataaacctagggaaccatgaaggggt Alignment from Spaln_aa2Genome TCAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT--- aagtccatctcttgcagttaacactgagtgtatgtatgtaatgttcacagTCAATGTTGGTGGCTACATTCTGGCTGTGCTGGACCGGAACCTAGCTGAGAACATCTCCCGTGTATTATACCCCAATGATAATGATgtaaagcaccctccaccagaggcaataaacctagggaaccatgaaggggt Alignment from Spaln_nt2Genome TCAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT--- aagtccatctcttgcagttaacactgagtgtatgtatgtaatgttcacagTCAATGTTGGTGGCTACATTCTGGCTGTGCTGGACCGGAACCTAGCTGAGAACATCTCCCGTGTATTATACCCCAATGATAATGATgtaaagcaccctccaccagaggcaataaacctagggaaccatgaaggggt Alignment from Pairagon TCAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT--- aagtccatctcttgcagttaacactgagtgtatgtatgtaatgttcacagTCAATGTTGGTGGCTACATTCTGGCTGTGCTGGACCGGAACCTAGCTGAGAACATCTCCCGTGTATTATACCCCAATGATAATGATgtaaagcaccctccaccagaggcaataaacctagggaaccatgaaggggt Alignment from Exonerate_protein2genome TCAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT--- aagtccatctcttgcagttaacactgagtgtatgtatgtaatgttcacagTCAATGTTGGTGGCTACATTCTGGCTGTGCTGGACCGGAACCTAGCTGAGAACATCTCCCGTGTATTATACCCCAATGATAATGATgtaaagcaccctccaccagaggcaataaacctagggaaccatgaaggggt Alignment from Exonerate_coding2genome TCAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT--- aagtccatctcttgcagttaacactgagtgtatgtatgtaatgttcacagTCAATGTTGGTGGCTACATTCTGGCTGTGCTGGACCGGAACCTAGCTGAGAACATCTCCCGTGTATTATACCCCAATGATAATGATgtaaagcaccctccaccagaggcaataaacctagggaaccatgaaggggt Alignment from GeneWise TCAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAATTTC aagtccatctcttgcagttaacactgagtgtatgtatgtaatgttcacagTCAATGTTGGTGGCTACATTCTGGCTGTGCTGGACCGGAACCTAGCTGAGAACATCTCCCGTGTATTATACCCCAATGATAATGATgtaaagcaccctccaccagaggcaataaacctagggaaccatgaaggggt #### Pygm_ID1684_8 --> 0 - 0 Original Alignment TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG--- atataatttgctgccgttcattgttggttaacctctctcctacctcatagTTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTGGTGGTGGCTGCCAGCCTCCAAGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGGAAgtgagctttggttcaagctgttactctacccaacatctcataacatggca Alignment from CESAR TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG--- atataatttgctgccgttcattgttggttaacctctctcctacctcatagTTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTGGTGGTGGCTGCCAGCCTCCAAGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGGAAgtgagctttggttcaagctgttactctacccaacatctcataacatggca Alignment from Spaln_aa2Genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG--- atataatttgctgccgttcattgttggttaacctctctcctacctcatagTTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTGGTGGTGGCTGCCAGCCTCCAAGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGGAAgtgagctttggttcaagctgttactctacccaacatctcataacatggca Alignment from Spaln_nt2Genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAGG-- atataatttgctgccgttcattgttggttaacctctctcctacctcatagTTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTGGTGGTGGCTGCCAGCCTCCAAGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGGAAgtgagctttggttcaagctgttactctacccaacatctcataacatggca Alignment from Pairagon TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG--- atataatttgctgccgttcattgttggttaacctctctcctacctcatagTTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTGGTGGTGGCTGCCAGCCTCCAAGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGGAAgtgagctttggttcaagctgttactctacccaacatctcataacatggca Alignment from Exonerate_protein2genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG atataatttgctgccgttcattgttggttaacctctctcctacctcatagTTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTGGTGGTGGCTGCCAGCCTCCAAGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgaagtgagctttggttcaagctgttactctacccaacatctcataacatggca Alignment from Exonerate_coding2genome TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG atataatttgctgccgttcattgttggttaacctctctcctacctcatagTTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTGGTGGTGGCTGCCAGCCTCCAAGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgaagtgagctttggttcaagctgttactctacccaacatctcataacatggca Alignment from GeneWise TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAGGTG atataatttgctgccgttcattgttggttaacctctctcctacctcatagTTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTGGTGGTGGCTGCCAGCCTCCAAGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGGAAgtgagctttggttcaagctgttactctacccaacatctcataacatggca #### Pygm_ID1685_9 --> 0 - 0 Original Alignment ---------GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTG---GCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG atggggtattcactagaaacccctctgcaccctttttattggtgtgacagTTTGATTTTGTGGTGATCCAACTCAATGACACACGTCATTCTTTGGCCACCATTCCAGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGACTGGGACAAAgtaaaacttgtcatcatcaagcacctgttccacaacaggttgtcctccag Alignment from CESAR ---------GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCC---ATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG atggggtattcactagaaacccctctgcaccctttttattggtgtgacagTTTGATTTTGTGGTGATCCAACTCAATGACACACGTCATTCTTTGGCCACCATTCCAGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGACTGGGACAAAgtaaaacttgtcatcatcaagcacctgttccacaacaggttgtcctccag Alignment from Spaln_aa2Genome ---------GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCC---ATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG atggggtattcactagaaacccctctgcaccctttttattggtgtgacagTTTGATTTTGTGGTGATCCAACTCAATGACACACGTCATTCTTTGGCCACCATTCCAGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGACTGGGACAAAgtaaaacttgtcatcatcaagcacctgttccacaacaggttgtcctccag Alignment from Spaln_nt2Genome ---------GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCCATC---CCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG atggggtattcactagaaacccctctgcaccctttttattggtgtgacagTTTGATTTTGTGGTGATCCAACTCAATGACACACGTCATTCTTTGGCCACCATTCCAGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGACTGGGACAAAgtaaaacttgtcatcatcaagcacctgttccacaacaggttgtcctccag Alignment from Pairagon ---------GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCCATC---CCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG atggggtattcactagaaacccctctgcaccctttttattggtgtgacagTTTGATTTTGTGGTGATCCAACTCAATGACACACGTCATTCTTTGGCCACCATTCCAGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGACTGGGACAAAgtaaaacttgtcatcatcaagcacctgttccacaacaggttgtcctccag Alignment from Exonerate_protein2genome GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCC---ATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG atggggtattcactagaaacccctctgcaccctttttattggtgtgacagtttgattttGTGGTGATCCAACTCAATGACACACGTCATTCTTTGGCCACCATTCCAGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGACTGGGACAAAgtaaaacttgtcatcatcaagcacctgttccacaacaggttgtcctccag Alignment from Exonerate_coding2genome GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCC---ATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG atggggtattcactagaaacccctctgcaccctttttattggtgtgacagtttgattttGTGGTGATCCAACTCAATGACACACGTCATTCTTTGGCCACCATTCCAGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGACTGGGACAAAgtaaaacttgtcatcatcaagcacctgttccacaacaggttgtcctccag Alignment from GeneWise ---------GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCC---ATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG atggggtattcactagaaacccctctgcaccctttttattggtgtgacagTTTGATTTTGTGGTGATCCAACTCAATGACACACGTCATTCTTTGGCCACCATTCCAGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGACTGGGACAAAgtaaaacttgtcatcatcaagcacctgttccacaacaggttgtcctccag #### Pygm_ID1687_11 --> 0 - 2 Original Alignment CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCat gaagacttctgaagcaggggtcaagcaatctatctccttcccctactcag------GCAGCTGCATCCCCAGGGGATGTAGATAGGTTGTGGCGCATGTCACTTGTAGAGGATGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTGTGGCTCGAATCCATTCAGAGATCCTCAAAAAAACCatgtaggtgtaacttcatctagattgagtggggcaacagggccacaaggtag Alignment from CESAR CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCat gaaggggaagacttctgaagcagggcaatctatctccttcccctactcag------GCAGCTGCATCCCCAGGGGATGTAGATAGGTTGTGGCGCATGTCACTTGTAGAGGATGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTGTGGCTCGAATCCATTCAGAGATCCTCAAAAAAACCatgtaggtgtaacttcatctagattgagtggggcaacagggccacaaggtag Alignment from Spaln_aa2Genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gaagacttctgaagcaggggtcaagcaatctatctccttcccctactcag------GCAGCTGCATCCCCAGGGGATGTAGATAGGTTGTGGCGCATGTCACTTGTAGAGGATGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTGTGGCTCGAATCCATTCAGAGATCCTCAAAAAAACCATgtaggtgtaacttcatctagattgagtggggcaacagggccacaaggtag Alignment from Spaln_nt2Genome GCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gaagacttctgaagcaggggtcaagcaatctatctccttcccctactcagGCAGCTGCATCCCCAGGGGATGTAGATAGGTTGTGGCGCATGTCACTTGTAGAGGATGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTGTGGCTCGAATCCATTCAGAGATCCTCAAAAAAACCATgtaggtgtaacttcatctagattgagtggggcaacagggccacaaggtag Alignment from Pairagon CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gaagacttctgaagcaggggtcaagcaatctatctccttcccctactcag------GCAGCTGCATCCCCAGGGGATGTAGATAGGTTGTGGCGCATGTCACTTGTAGAGGATGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTGTGGCTCGAATCCATTCAGAGATCCTCAAAAAAACCATgtaggtgtaacttcatctagattgagtggggcaacagggccacaaggtag Alignment from Exonerate_protein2genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gaagacttctgaagcaggggtcaagcaatctatctccttcccctACTCAGGCAGCTGCATCCCCAGGGGATGTAGATAGGTTGTGGCGCATGTCACTTGTAGAGGATGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTGTGGCTCGAATCCATTCAGAGATCCTCAAAAAAACCATgtaggtgtaacttcatctagattgagtggggcaacagggccacaaggtag Alignment from Exonerate_coding2genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gaagacttctgaagcaggggtcaagcaatctatctccttcccctACTCAGGCAGCTGCATCCCCAGGGGATGTAGATAGGTTGTGGCGCATGTCACTTGTAGAGGATGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTGTGGCTCGAATCCATTCAGAGATCCTCAAAAAAACCATgtaggtgtaacttcatctagattgagtggggcaacagggccacaaggtag Alignment from GeneWise CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gaagacttctgaagcaggggtcaagcaatctatctccttcccctactcagGCA------GCTGCATCCCCAGGGGATGTAGATAGGTTGTGGCGCATGTCACTTGTAGAGGATGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTGTGGCTCGAATCCATTCAGAGATCCTCAAAAAAACCATgtaggtgtaacttcatctagattgagtggggcaacagggccacaaggtag #### Pygm_ID1695_19 --> 1 - 0 Original Alignment gTTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG--- aacctaacatttcctcttacagatctgcacttctaaatgtgtatttctagaTTTAAAGTGTTTGTGGATCACGAGGAGTATATTAAATGTCAGGACAAAGTCAGTGGGTTATATAATCTCgtatggtagtgttcagtaaccagggatggggaagacccattgctcttggc Alignment from CESAR gTTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG--- aacctaacatttcctcttacagatctgcacttctaaatgtgtatttctagaTTTAAAGTGTTTGTGGATCACGAGGAGTATATTAAATGTCAGGACAAAGTCAGTGGGTTATATAATCTCgtatggtagtgttcagtaaccagggatggggaagacccattgctcttggc Alignment from Spaln_aa2Genome GTTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG--- aacctaacatttcctcttacagatctgcacttctaaatgtgtatttctagATTTAAAGTGTTTGTGGATCACGAGGAGTATATTAAATGTCAGGACAAAGTCAGTGGGTTATATAATCTCgtatggtagtgttcagtaaccagggatggggaagacccattgctcttggc Alignment from Spaln_nt2Genome GTTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG--- aacctaacatttcctcttacagatctgcacttctaaatgtgtatttctagATTTAAAGTGTTTGTGGATCACGAGGAGTATATTAAATGTCAGGACAAAGTCAGTGGGTTATATAATCTCgtatggtagtgttcagtaaccagggatggggaagacccattgctcttggc Alignment from Pairagon GTTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACA------------------------------------------------------- aacctaacatttcctcttacagatctgcacttctaaatgtgtatttctagATTTAAAGTGTTTGTGGATCACGAGGAGTATATTAAATGTCAGGACAAAGTCAGTGGGTTATATAATCTCGTATGGTAGTGTTCAGTAACCAGGGATGGGGAAGACCCATTGCTCTTGGC Alignment from Exonerate_protein2genome GTTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG--- aacctaacatttcctcttacagatctgcacttctaaatgtgtatttctagATTTAAAGTGTTTGTGGATCACGAGGAGTATATTAAATGTCAGGACAAAGTCAGTGGGTTATATAATCTCgtatggtagtgttcagtaaccagggatggggaagacccattgctcttggc Alignment from Exonerate_coding2genome GTTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG--- aacctaacatttcctcttacagatctgcacttctaaatgtgtatttctagATTTAAAGTGTTTGTGGATCACGAGGAGTATATTAAATGTCAGGACAAAGTCAGTGGGTTATATAATCTCgtatggtagtgttcagtaaccagggatggggaagacccattgctcttggc Alignment from GeneWise GTTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAGAAC aacctaacatttcctcttacagatctgcacttctaaatgtgtatttctagATTTAAAGTGTTTGTGGATCACGAGGAGTATATTAAATGTCAGGACAAAGTCAGTGGGTTATATAATCTCgtatggtagtgttcagtaaccagggatggggaagacccattgctcttggc #### Rab3il1_ID2648_4 --> 0 - 0 Original Alignment ------------------GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctatttctgtccaggtttttttagtgactttccttctgtttttatgcagAACCGCCGATGGAAAAACGAAGCCCACAAAATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAGCAGTTGAAGGAAGCTTGGGGCAAGgtaatggctagtgccatgcaccttacactgtgcgcctatgcagccctgtt Alignment from CESAR ------------------GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctatttctgtccaggtttttttagtgactttccttctgtttttatgcagAACCGCCGATGGAAAAACGAAGCCCACAAAATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAGCAGTTGAAGGAAGCTTGGGGCAAGgtaatggctagtgccatgcaccttacactgtgcgcctatgcagccctgtt Alignment from Spaln_aa2Genome GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctatttctgtccaggtttttttagtgactttccttctgtttttatgcagaaccgccgatggaaaaacGAAGCCCACAAAATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAGCAGTTGAAGGAAGCTTGGGGCAAGgtaatggctagtgccatgcaccttacactgtgcgcctatgcagccctgtt Alignment from Spaln_nt2Genome GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctatttctgtccaggtttttttagtgactttccttctgtttttatgcagaaccgccgatggaaaaacgaag----CCCACAAAATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAGCAGTTGAAGGAAGCTTGGGGCAAGgtaatggctagtgccatgcaccttacactgtgcgcctatgcagccctgtt Alignment from Pairagon --------------------------------------------------------------------GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG CCTATTTCTGTCCAGGTTTTTTTAGTGACTTTCCTTCTGTTTTTATGCAGAACCGCCGATGGAAAAACGAAGCCCACAAAATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAGCAGTTGAAGGAAGCTTGGGGCAAGgtaatggctagtgccatgcaccttacactgtgcgcctatgcagccctgtt Alignment from Exonerate_protein2genome GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctatttctgtccaggtttttttagtgactttccttctgtttttatgcagaaccgccgatggaaaaacGAAGCCCACAAAATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAGCAGTTGAAGGAAGCTTGGGGCAAGgtaatggctagtgccatgcaccttacactgtgcgcctatgcagccctgtt Alignment from Exonerate_coding2genome GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctatttctgtccaggtttttttagtgactttccttctgtttttatgcagaaccgccgatggaaaaacGAAGCCCACAAAATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAGCAGTTGAAGGAAGCTTGGGGCAAGgtaatggctagtgccatgcaccttacactgtgcgcctatgcagccctgtt Alignment from GeneWise ------------------GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG cctatttctgtccaggtttttttagtgactttccttctgtttttatgcagAACCGCCGATGGAAAAACGAAGCCCACAAAATGGTGCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAGCAGTTGAAGGAAGCTTGGGGCAAGgtaatggctagtgccatgcaccttacactgtgcgcctatgcagccctgtt #### Rasgrp2_ID1710_9 --> 0 - 0 Original Alignment ---GTGTCCCTGGATCAGTATCAGACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG agcaaaagggaaagagcaggcggggtgcggtataacgtctgtctctctagCGAGTGTCCCTGGAACAGTATCAGACAGAGGATGAGCTGTACCAACTCTCATTGCAGCGGGAGCCATGCTCCAAGTCATGGgtgagatagcccatccatctccccattgtagcactctatttttttgggct Alignment from CESAR ---GTGTCCCTGGATCAGTATCAGACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG agcaaaagggaaagagcaggcggggtgcggtataacgtctgtctctctagCGAGTGTCCCTGGAACAGTATCAGACAGAGGATGAGCTGTACCAACTCTCATTGCAGCGGGAGCCATGCTCCAAGTCATGGgtgagatagcccatccatctccccattgtagcactctatttttttgggct Alignment from Spaln_aa2Genome GTGTCCCTGGATCAGTAT---CAGACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG agcaaaagggaaagagcaggcggggtgcggtataacgtctgtctctctagCGAGTGTCCCTGGAACAGTATCAGACAGAGGATGAGCTGTACCAACTCTCATTGCAGCGGGAGCCATGCTCCAAGTCATGGgtgagatagcccatccatctccccattgtagcactctatttttttgggct Alignment from Spaln_nt2Genome GGTGTCCCTG--GATCAGTATCAGACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG agcaaaagggaaagagcaggcggggtgcggtataacgtctgtctctctagCGAGTGTCCCTGGAACAGTATCAGACAGAGGATGAGCTGTACCAACTCTCATTGCAGCGGGAGCCATGCTCCAAGTCATGGgtgagatagcccatccatctccccattgtagcactctatttttttgggct Alignment from Pairagon ---GTGTCCCTGGATCAGTATCAGACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG agcaaaagggaaagagcaggcggggtgcggtataacgtctgtctctctagCGAGTGTCCCTGGAACAGTATCAGACAGAGGATGAGCTGTACCAACTCTCATTGCAGCGGGAGCCATGCTCCAAGTCATGGgtgagatagcccatccatctccccattgtagcactctatttttttgggct Alignment from Exonerate_protein2genome GTGTCCCTGGATCAGTATCAGACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG agcaaaagggaaagagcaggcggggtgcggtataacgtctgtctctctagcgaGTGTCCCTGGAACAGTATCAGACAGAGGATGAGCTGTACCAACTCTCATTGCAGCGGGAGCCATGCTCCAAGTCATGGgtgagatagcccatccatctccccattgtagcactctatttttttgggct Alignment from Exonerate_coding2genome GTGTCCCTGGATCAGTATCAGACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG agcaaaagggaaagagcaggcggggtgcggtataacgtctgtctctctagcgaGTGTCCCTGGAACAGTATCAGACAGAGGATGAGCTGTACCAACTCTCATTGCAGCGGGAGCCATGCTCCAAGTCATGGgtgagatagcccatccatctccccattgtagcactctatttttttgggct Alignment from GeneWise ---GTGTCCCTGGATCAGTATCAGACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG agcaaaagggaaagagcaggcggggtgcggtataacgtctgtctctctagCGAGTGTCCCTGGAACAGTATCAGACAGAGGATGAGCTGTACCAACTCTCATTGCAGCGGGAGCCATGCTCCAAGTCATGGgtgagatagcccatccatctccccattgtagcactctatttttttgggct #### Rasgrp2_ID1711_10 --> 0 - 0 Original Alignment CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG cttccactacaactctctggctatcctggagtgtgactttctgtttacag------AGTCCGACGAGCTGTATGTCACCTCCTCGACCCCCAGTGTTAGAAGAGTGGACATCAGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaggcgtgtactggtttttctgaagctctacccggcacccaatggtcca Alignment from CESAR CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG ggttgacttccactacaactctctgctggagtgtgactttctgtttacag------AGTCCGACGAGCTGTATGTCACCTCCTCGACCCCCAGTGTTAGAAGAGTGGACATCAGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaggcgtgtactggtttttctgaagctctacccggcacccaatggtcca Alignment from Spaln_aa2Genome CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG cttccactacaactctctggctatcctggagtgtgactttctgtttacag------AGTCCGACGAGCTGTATGTCACCTCCTCGACCCCCAGTGTTAGAAGAGTGGACATCAGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaggcgtgtactggtttttctgaagctctacccggcacccaatggtcca Alignment from Spaln_nt2Genome AGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG cttccactacaactctctggctatcctggagtgtgactttctgtttacagAGTCCGACGAGCTGTATGTCACCTCCTCGACCCCCAGTGTTAGAAGAGTGGACATCAGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaggcgtgtactggtttttctgaagctctacccggcacccaatggtcca Alignment from Pairagon CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG cttccactacaactctctggctatcctggagtgtgactttctgtttacag------AGTCCGACGAGCTGTATGTCACCTCCTCGACCCCCAGTGTTAGAAGAGTGGACATCAGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaggcgtgtactggtttttctgaagctctacccggcacccaatggtcca Alignment from Exonerate_protein2genome AGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG cttccactacaactctctggctatcctggagtgtgactttctgtttacagAGTCCGACGAGCTGTATGTCACCTCCTCGACCCCCAGTGTTAGAAGAGTGGACATCAGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaggcgtgtactggtttttctgaagctctacccggcacccaatggtcca Alignment from Exonerate_coding2genome AGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG cttccactacaactctctggctatcctggagtgtgactttctgtttacagAGTCCGACGAGCTGTATGTCACCTCCTCGACCCCCAGTGTTAGAAGAGTGGACATCAGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaggcgtgtactggtttttctgaagctctacccggcacccaatggtcca Alignment from GeneWise AGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG cttccactacaactctctggctatcctggagtgtgactttctgtttacagAGTCCGACGAGCTGTATGTCACCTCCTCGACCCCCAGTGTTAGAAGAGTGGACATCAGCTGCTAAACCTAATCTTGATCAAGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtaggcgtgtactggtttttctgaagctctacccggcacccaatggtcca #### Rce1_ID575_7 --> 2 - 1 Original Alignment cgTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAg ggtgggtgggatcttgtgctggattcctcctacttgggcatgtttttcagca---------TCGTACACCGCCATATTTGGTGCTTATACAGCCTTCCTCTTCATCCGCACAggtgtgttcccaccccgtcatgaacaaaagcaaaaggttgagatcaccatc Alignment from CESAR cgTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAg tgagggtgtggtgggtgggatcttgcctcctacttgggcatgtttttcagca---------TCGTACACCGCCATATTTGGTGCTTATACAGCCTTCCTCTTCATCCGCACAggtgtgttcccaccccgtcatgaacaaaagcaaaaggttgagatcaccatc Alignment from Spaln_aa2Genome CGTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG ggtgggtgggatcttgtgctggattcctcctacttgggcatgtttttcagCA---------TCGTACACCGCCATATTTGGTGCTTATACAGCCTTCCTCTTCATCCGCACAGgtgtgttcccaccccgtcatgaacaaaagcaaaaggttgagatcaccatc Alignment from Spaln_nt2Genome TCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG ggtgggtgggatcttgtgctggattcctcctacttgggcatgtttttcagCATCGTACACCGCCATATTTGGTGCTTATACAGCCTTCCTCTTCATCCGCACAGgtgtgttcccaccccgtcatgaacaaaagcaaaaggttgagatcaccatc Alignment from Pairagon CGTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG ggtgggtgggatcttgtgctggattcctcctacttgggcatgtttttcagCA---------TCGTACACCGCCATATTTGGTGCTTATACAGCCTTCCTCTTCATCCGCACAGgtgtgttcccaccccgtcatgaacaaaagcaaaaggttgagatcaccatc Alignment from Exonerate_protein2genome CGTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG ggtgggtgggatcttgtgctggattcctcctacttgggcatGTTTTTCAGCATCGTACACCGCCATATTTGGTGCTTATACAGCCTTCCTCTTCATCCGCACAGgtgtgttcccaccccgtcatgaacaaaagcaaaaggttgagatcaccatc Alignment from Exonerate_coding2genome CGTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG ggtgggtgggatcttgtgctggattcctcctacttgggcatGTTTTTCAGCATCGTACACCGCCATATTTGGTGCTTATACAGCCTTCCTCTTCATCCGCACAGgtgtgttcccaccccgtcatgaacaaaagcaaaaggttgagatcaccatc Alignment from GeneWise CGTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG ggtgggtgggatcttgtgctggattcctcctacttgggcatgtttttcagCA---------TCGTACACCGCCATATTTGGTGCTTATACAGCCTTCCTCTTCATCCGCACAGgtgtgttcccaccccgtcatgaacaaaagcaaaaggttgagatcaccatc #### Rce1_ID576_6 --> 2 - 1 Original Alignment CCCACTCTTTTTTGGAGTCg cc---CATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAg CCCACTTTTTTTTGGGGTTggtgagcctctcactttgaacctgtctgtagccGAACATTTTCAGCACATTATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAggtaggcgggaaatgtactgagttgactaaggggacaaagggttggatctg Alignment from CESAR CCCACTCTTTTTTGGAGTCg cc---CATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAg CCCACTTTTTTTTGGGGTTggtaagcctctcactttgaacctgtctgtagccGAACATTTTCAGCACATTATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAggtaggcgggaaatgtactgagttgactaaggggacaaagggttggatctg Alignment from Spaln_aa2Genome CCCACTCTTTTTTGGAGTCGCC---------------------------------CATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CCCACTTTTTTTTGGGGTTGGTGAGCCTCTCACTTTGAACCTGTCTGTAGCCGAACATTTTCAGCACATTATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAGgtaggcgggaaatgtactgagttgactaaggggacaaagggttggatctg Alignment from Spaln_nt2Genome CCACTCTTTTTTGGAG TCGCCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CCACTTTTTTTTGG-GgttggtgagcctctcactttgaacctgtctgtagCCGAACATTTTCAGCACATTATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAGgtaggcgggaaatgtactgagttgactaaggggacaaagggttggatctg Alignment from Pairagon CCCACTCTTTTTTGG---------------------------------AGTCGCCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CCCACTTTTTTTTGGGGTTGGTGAGCCTCTCACTTTGAACCTGTCTGTAGCCGAACATTTTCAGCACATTATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAGgtaggcgggaaatgtactgagttgactaaggggacaaagggttggatctg Alignment from Exonerate_protein2genome CCCACTCTTTTTTGGAGTCG CCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CCCACTTTTTTTTGGGGTTGgtgagcctctcactttgaacctgtctgtagccgAACATTTTCAGCACATTATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAGgtaggcgggaaatgtactgagttgactaaggggacaaagggttggatctg Alignment from Exonerate_coding2genome CCCACTCTTTTTTGGAGTCG CCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CCCACTTTTTTTTGGGGTTGgtgagcctctcactttgaacctgtctgtagccgAACATTTTCAGCACATTATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAGgtaggcgggaaatgtactgagttgactaaggggacaaagggttggatctg Alignment from GeneWise CCCACTCTTTTTTGGAGTCGCC---------------------------------CATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CCCACTTTTTTTTGGGGTTGGTGAGCCTCTCACTTTGAACCTGTCTGTAGCCGAACATTTTCAGCACATTATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAGgtaggcgggaaatgtactgagttgactaaggggacaaagggttggatctg #### Rce1_ID577_5 --> 2 - 1 Original Alignment cc---CCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCg ccCATTTTCACCACATTATT cgaatagatatggaagtcagggctagctctttttgtccactgtgttacagccGCACCTTGTTCATGGGCTCAATGCCTCACTGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCCGTGTTCACATGCCCACTTTTTTTTGGGGTTggtaagtctcttgcatttgtttggggtatagccCATTTTCAGCACATTATA Alignment from CESAR cc---CCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCg ccCATTTTCACCACATTATT cgaatagatatggaagtcagggctagctctttttgtccactgtgttacagccGCACCTTGTTCATGGGCTCAATGCCTCACTGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCCGTGTTCACATGCCCACTTTTTTTTGGGGTTggtaagccttcttgctttcatttttcaacagccCATTTTCAGCACATTATA Alignment from Spaln_aa2Genome GCCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGA------------------------------GTCGCCCATTTTCACCACATTATTGA cgaatagatatggaagtcagggctagctctttttgtccactgtgttacagCCGCACCTTGTTCATGGGCTCAATGCCTCACTGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCCGTGTTCACATGCCCACTTTTTTTTGGGGTTGGTAAGTCTCTTGCATTTGTTTGGGGTATAGCCCATTTTCAGCACATTATA Alignment from Spaln_nt2Genome CC---CCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTT------------------------------GGAGTCGCCCATTTTCACCACATTATT cgaatagatatggaagtcagggctagctctttttgtccactgtgttacagCCGCACCTTGTTCATGGGCTCAATGCCTCACTGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCCGTGTTCACATGCCCACTTTTTTTTGGGGTTGGTAAGTCTCTTGCATTTGTTTGGGGTATAGCCCATTTTCAGCACATTATA Alignment from Pairagon CC---CCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCACATTATT cgaatagatatggaagtcagggctagctctttttgtccactgtgttacagCCGCACCTTGTTCATGGGCTCAATGCCTCACTGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCCGTGTTCACATGCCCACTTTTTTTTGGGGTTGgtaagtctcttgcatttgtttggggtatagCCCATTTTCAGCACATTATA Alignment from Exonerate_protein2genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCACATTATT cgaatagatatggaagtcagggctagctctttttgtccactgtgttacagccgCACCTTGTTCATGGGCTCAATGCCTCACTGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCCGTGTTCACATGCCCACTTTTTTTTGGGGTTGgtaagtctcttgcatttgtttggggtatagCCCATTTTCAGCACATTATA Alignment from Exonerate_coding2genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCACATTATT cgaatagatatggaagtcagggctagctctttttgtccactgtgttacagccgCACCTTGTTCATGGGCTCAATGCCTCACTGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCCGTGTTCACATGCCCACTTTTTTTTGGGGTTGgtaagtctcttgcatttgtttggggtatagCCCATTTTCAGCACATTATA Alignment from GeneWise --GCCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTC------------------------------GCCCATTTTCACCACATTATT cgaatagatatggaagtcagggctagctctttttgtccactgtgttacagCCGCACCTTGTTCATGGGCTCAATGCCTCACTGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCCGTGTTCACATGCCCACTTTTTTTTGGGGTTGGTAAGTCTCTTGCATTTGTTTGGGGTATAGCCCATTTTCAGCACATTATA #### Rce1_ID579_3 --> 0 - 0 Original Alignment CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG aatcttttgctcacaaaagcacaaccaacgtttcctcctttatgtttcagCCTGGAACATCACTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCACTGCTGCCA---------------gtaggtcatgcttgggcctggctgatggagtatttttactgcattattgt Alignment from CESAR CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG aatcttttgctcacaaaagcacaaccaacgtttcctcctttatgtttcagCCTGGAACATCACTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCACTGCTGCCA---------------gtaggtcatgcttgggcctggctgatggagtattt Alignment from Spaln_aa2Genome CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG aatcttttgctcacaaaagcacaaccaacgtttcctcctttatgtttcagCCTGGAACATCACTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCACTGCTGCCAGTAGGTCATGCTTGGgcctggctgatggagtatttttactgcattattgt Alignment from Spaln_nt2Genome CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCC aatcttttgctcacaaaagcacaaccaacgtttcctcctttatgtttcagCCTGGAACATCACTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCACTGCTGCCAgtaggtcatgcttgggcctggctgatggagtatttttactgcattattgt Alignment from Pairagon CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCC aatcttttgctcacaaaagcacaaccaacgtttcctcctttatgtttcagCCTGGAACATCACTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCACTGCTGCCAgtaggtcatgcttgggcctggctgatggagtatttttactgcattattgt Alignment from Exonerate_protein2genome CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG aatcttttgctcacaaaagcacaaccaacgtttcctcctttatgtttcagCCTGGAACATCACTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCACTGCTGCCAGTAGGTCATGCTTGGgcctggctgatggagtatttttactgcattattgt Alignment from Exonerate_coding2genome CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG aatcttttgctcacaaaagcacaaccaacgtttcctcctttatgtttcagCCTGGAACATCACTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCACTGCTGCCAGTAGGTCATGCTTGGgcctggctgatggagtatttttactgcattattgt Alignment from GeneWise CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCC aatcttttgctcacaaaagcacaaccaacgtttcctcctttatgtttcagCCTGGAACATCACTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCACTGCTGCCAgtaggtcatgcttgggcctggctgatggagtatttttactgcattattgt #### Rcor2_ID2093_4 --> 0 - 0 Original Alignment GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG agcattggcatgcgcagtcctatttgtctctcaattcaatttctctatag------GGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagactgtaattagtcccccttgaatacttcccagccctttatgcaga Alignment from CESAR GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG taacttagcattggcatgcgcagtcgtctctcaattcaatttctctatag------GGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagactgtaattagtcccccttgaatacttcccagccctttatgcaga Alignment from Spaln_aa2Genome GGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG agcattggcatgcgcagtcctatttgtctctcaattcaatttctctatagGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagactgtaattagtcccccttgaatacttcccagccctttatgcaga Alignment from Spaln_nt2Genome GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG agcattggcatgcgcagtcctatttgtctctcaattcaatttctctatag------GGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagactgtaattagtcccccttgaatacttcccagccctttatgcaga Alignment from Pairagon GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG agcattggcatgcgcagtcctatttgtctctcaattcaatttctctatag------GGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagactgtaattagtcccccttgaatacttcccagccctttatgcaga Alignment from Exonerate_protein2genome GGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG agcattggcatgcgcagtcctatttgtctctcaattcaatttctctatagGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagactgtaattagtcccccttgaatacttcccagccctttatgcaga Alignment from Exonerate_coding2genome GGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG agcattggcatgcgcagtcctatttgtctctcaattcaatttctctatagGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagactgtaattagtcccccttgaatacttcccagccctttatgcaga Alignment from GeneWise GGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG agcattggcatgcgcagtcctatttgtctctcaattcaatttctctatagGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagactgtaattagtcccccttgaatacttcccagccctttatgcaga #### Rcor2_ID2094_5 --> 0 - 2 Original Alignment CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACag acttgaggggtgagtcttatttggcctctgtggtccttttctcctcccagCTTCCTGATAAGATCATTCCCAGCCTGGTGAAATATTACTACTCTTGGAAGAAGACACGTAGTCAAACTAGTGTGATGGATAGGCAGGCCAGGCGGTTGAGTGGCCGCAAGGACAAAGAA---aggtaagcaaaagtgtagtttctgacttagggaaatggatggggggcgaaaa Alignment from CESAR CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACag acttgaggggtgagtcttatttggcctctgtggtccttttctcctcccagCTTCCTGATAAGATCATTCCCAGCCTGGTGAAATATTACTACTCTTGGAAGAAGACACGTAGTCAAACTAGTGTGATGGATAGGCAGGCCAGGCGGTTGAGTGGCCGCAAGGACAAAGAA---aggtaagcaaaagtgtagtttctgacttagggaaatggatggggggcgaaaa Alignment from Spaln_aa2Genome CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGA acttgaggggtgagtcttatttggcctctgtggtccttttctcctcccagCTTCCTGATAAGATCATTCCCAGCCTGGTGAAATATTACTACTCTTGGAAGAAGACACGTAGTCAAACTAGTGTGATGGATAGGCAGGCCAGGCGGTTGAGTGGCCGCAAGGACAAAGAAAGgtaagcaaaagtgtagtttctgacttagggaaatggatggggggcgaaaa Alignment from Spaln_nt2Genome CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAA-GACAG acttgaggggtgagtcttatttggcctctgtggtccttttctcctcccagCTTCCTGATAAGATCATTCCCAGCCTGGTGAAATATTACTACTCTTGGAAGAAGACACGTAGTCAAACTAGTGTGATGGATAGGCAGGCCAGGCGGTTGAGTGGCCGCAAGGACAAAGAAAGGTAAgcaaaagtgtagtttctgacttagggaaatggatggggggcgaaaa Alignment from Pairagon CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAG--------------------------------------------------- acttgaggggtgagtcttatttggcctctgtggtccttttctcctcccagCTTCCTGATAAGATCATTCCCAGCCTGGTGAAATATTACTACTCTTGGAAGAAGACACGTAGTCAAACTAGTGTGATGGATAGGCAGGCCAGGCGGTTGAGTGGCCGCAAGGACAAAGAAAGGTAAGCAAAAGTGTAGTTTCTGACTTAGGGAAATGGATGGGGGGCGAAAA Alignment from Exonerate_protein2genome CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAG acttgaggggtgagtcttatttggcctctgtggtccttttctcctcccagCTTCCTGATAAGATCATTCCCAGCCTGGTGAAATATTACTACTCTTGGAAGAAGACACGTAGTCAAACTAGTGTGATGGATAGGCAGGCCAGGCGGTTGAGTGGCCGCAAGGACAAAGAA---AGgtaagcaaaagtgtagtttctgacttagggaaatggatggggggcgaaaa Alignment from Exonerate_coding2genome CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAG acttgaggggtgagtcttatttggcctctgtggtccttttctcctcccagCTTCCTGATAAGATCATTCCCAGCCTGGTGAAATATTACTACTCTTGGAAGAAGACACGTAGTCAAACTAGTGTGATGGATAGGCAGGCCAGGCGGTTGAGTGGCCGCAAGGACAAAGAA---AGgtaagcaaaagtgtagtttctgacttagggaaatggatggggggcgaaaa Alignment from GeneWise CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGA acttgaggggtgagtcttatttggcctctgtggtccttttctcctcccagCTTCCTGATAAGATCATTCCCAGCCTGGTGAAATATTACTACTCTTGGAAGAAGACACGTAGTCAAACTAGTGTGATGGATAGGCAGGCCAGGCGGTTGAGTGGCCGCAAGGACAAAGAAAGgtaagcaaaagtgtagtttctgacttagggaaatggatggggggcgaaaa #### Rcor2_ID2095_6 --> 1 - 0 Original Alignment t---GATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tgggtaggtatgatcctccctcattttctcctctttctctgtcttcacagtGATGATGAAGTAGAAGAGGGACAGGGAGCTGTGAGTGAGGGGGAGCCAGATACTGGAGACCCCAAGCAGAAGgtaagttccatgcgatattgtgtcctatgcagtactaaccttcttgctgg Alignment from CESAR t---GATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tgggtaggtatgatcctccctcattttctcctctttctctgtcttcacagtGATGATGAAGTAGAAGAGGGACAGGGAGCTGTGAGTGAGGGGGAGCCAGATACTGGAGACCCCAAGCAGAAGgtaagttccatgcgatattgtgtcctatgcagtactaaccttcttgctgg Alignment from Spaln_aa2Genome T----GATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tgggtaggtatgatcctccctcattttctcctctttctctgtcttcacagTGATGATGAAGTAGAAGAGGGACAGGGAGCTGTGAGTGAGGGGGAGCCAGATACTGGAGACCCCAAGCAGAAGgtaagttccatgcgatattgtgtcctatgcagtactaaccttcttgctgg Alignment from Spaln_nt2Genome TGATGA---ACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tgggtaggtatgatcctccctcattttctcctctttctctgtcttcacagTGATGATGAAGTAGAAGAGGGACAGGGAGCTGTGAGTGAGGGGGAGCCAGATACTGGAGACCCCAAGCAGAAGgtaagttccatgcgatattgtgtcctatgcagtactaaccttcttgctgg Alignment from Pairagon ---TGATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tgggtaggtatgatcctccctcattttctcctctttctctgtcttcacagTGATGATGAAGTAGAAGAGGGACAGGGAGCTGTGAGTGAGGGGGAGCCAGATACTGGAGACCCCAAGCAGAAGgtaagttccatgcgatattgtgtcctatgcagtactaaccttcttgctgg Alignment from Exonerate_protein2genome T---GATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tgggtaggtatgatcctccctcattttctcctctttctctgtcttcacagTGATGATGAAGTAGAAGAGGGACAGGGAGCTGTGAGTGAGGGGGAGCCAGATACTGGAGACCCCAAGCAGAAGgtaagttccatgcgatattgtgtcctatgcagtactaaccttcttgctgg Alignment from Exonerate_coding2genome T---GATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tgggtaggtatgatcctccctcattttctcctctttctctgtcttcacagTGATGATGAAGTAGAAGAGGGACAGGGAGCTGTGAGTGAGGGGGAGCCAGATACTGGAGACCCCAAGCAGAAGgtaagttccatgcgatattgtgtcctatgcagtactaaccttcttgctgg Alignment from GeneWise -AGTGATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tgggtaggtatgatcctccctcattttctcctctttctctgtcttcacagTGATGATGAAGTAGAAGAGGGACAGGGAGCTGTGAGTGAGGGGGAGCCAGATACTGGAGACCCCAAGCAGAAGgtaagttccatgcgatattgtgtcctatgcagtactaaccttcttgctgg #### Rcor2_ID2098_9 --> 0 - 1 Original Alignment GCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTTCAAg cttcccccattttttgctttcattgatggctccacatcttgtccttgcagGCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGGAACTTCTAGCAGTT---ggtaggaagtgacgctatcgtgagactccaaaaatctggggatgtttggga Alignment from CESAR GCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTTCAAg cttcccccattttttgctttcattgatggctccacatcttgtccttgcagGCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGGAACTTCTAGCAGTT---ggtaggaagtgacgctatcgtgagactccaaaaatctggggatgtttggga Alignment from Spaln_aa2Genome GCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTT- cttcccccattttttgctttcattgatggctccacatcttgtccttgcagGCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGGAACTTCTAGCAGTTGgtaggaagtgacgctatcgtgagactccaaaaatctggggatgtttggga Alignment from Spaln_nt2Genome GCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTTCAAG cttcccccattttttgctttcattgatggctccacatcttgtccttgcagGCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGGAACTTCTAGCAGTT---Ggtaggaagtgacgctatcgtgagactccaaaaatctggggatgtttggga Alignment from Pairagon GCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTTCAAG cttcccccattttttgctttcattgatggctccacatcttgtccttgcagGCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGGAACTTCTAGCAGTT---Ggtaggaagtgacgctatcgtgagactccaaaaatctggggatgtttggga Alignment from Exonerate_protein2genome GCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTTCAAG cttcccccattttttgctttcattgatggctccacatcttgtccttgcagGCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGGAACTTCTAGCAGTTGGTAggaagtgacgctatcgtgagactccaaaaatctggggatgtttggga Alignment from Exonerate_coding2genome cttcccccattttttgctttcattgatggctccacatcttgtccttgcaggctaataccaagttcaactcccgctggaccactgatgaggaacttctagcagttggtaggaagtgacgctatcgtgagactccaaaaatctggggatgtttggga Alignment from GeneWise GCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTTC cttcccccattttttgctttcattgatggctccacatcttgtccttgcagGCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGGAACTTCTAGCAGTTGgtaggaagtgacgctatcgtgagactccaaaaatctggggatgtttggga #### Rela_ID1126_3 --> 2 - 0 Original Alignment agCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG aaggggctgtatacaaactgtatcacctcttttctttctctttgcttcagaa---------------------------------ATCAAACAACCAAAGCAACAAGGC---CGTTTCCGCTATAAATCTGAGGGGCGCTCTGAAGGTGGTATCCCTGGTGAGAGAAGCACGGATACCAAAAAGACACATCCCACTATAAAGgtatgtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtgtc Alignment from CESAR agCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG ccggaggctaaggcacactgtatcacctcttttctttctctttgcttcagaa---------------------------------ATCAAACAACCAAAGCAACAAGGC---CGTTTCCGCTATAAATCTGAGGGGCGCTCTGAAGGTGGTATCCCTGGTGAGAGAAGCACGGATACCAAAAAGACACATCCCACTATAAAGgtatgtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtgtc Alignment from Spaln_aa2Genome TCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG aaggggctgtatacaaactgtatcacctcttttctttctctttgcttcagAAATCAAACAACCAAAGCAACAAGGC---CGTTTCCGCTATAAATCTGAGGGGCGCTCTGAAGGTGGTATCCCTGGTGAGAGAAGCACGGATACCAAAAAGACACATCCCACTATAAAGgtatgtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtgtc Alignment from Spaln_nt2Genome ATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG aaggggctgtatacaaactgtatcacctcttttctttctctttgcttcagA-AATCAAACAACCAAAGCAACAAGGC---CGTTTCCGCTATAAATCTGAGGGGCGCTCTGAAGGTGGTATCCCTGGTGAGAGAAGCACGGATACCAAAAAGACACATCCCACTATAAAGgtatgtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtgtc Alignment from Pairagon AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG aaggggctgtatacaaactgtatcacctcttttctttctctttgcttcagAA---------------------------------ATCAAACAACCAAAGCAACAAGGC---CGTTTCCGCTATAAATCTGAGGGGCGCTCTGAAGGTGGTATCCCTGGTGAGAGAAGCACGGATACCAAAAAGACACATCCCACTATAAAGgtatgtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtgtc Alignment from Exonerate_protein2genome TATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG aaggggctgtatacaaactgtatcacctcttttctttctcTTTGCTTCAGAAATCAAACAACCAAAGCAACAAGGC---CGTTTCCGCTATAAATCTGAGGGGCGCTCTGAAGGTGGTATCCCTGGTGAGAGAAGCACGGATACCAAAAAGACACATCCCACTATAAAGgtatgtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtgtc Alignment from Exonerate_coding2genome TATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG aaggggctgtatacaaactgtatcacctcttttctttctcTTTGCTTCAGAAATCAAACAACCAAAGCAACAAGGC---CGTTTCCGCTATAAATCTGAGGGGCGCTCTGAAGGTGGTATCCCTGGTGAGAGAAGCACGGATACCAAAAAGACACATCCCACTATAAAGgtatgtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtgtc Alignment from GeneWise ATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG aaggggctgtatacaaactgtatcacctcttttctttctctttgcttcagaaATCAAACAACCAAAGCAACAAGGC---CGTTTCCGCTATAAATCTGAGGGGCGCTCTGAAGGTGGTATCCCTGGTGAGAGAAGCACGGATACCAAAAAGACACATCCCACTATAAAGgtatgtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtgtc #### Rela_ID1130_7 --> 2 - 1 Original Alignment ggGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAAg ggggctaaggcacccatgctatgagcccaataactttttctttctttcaggg------AACACTTCTGAGCTTAAAATCTGCAGAGTAAACAGGAACTCTGGGAGCTGTCTCGGAGGGGAAGAGATTTTCCTTCTGTGTGACAGGGTGCAAAAGggtaatcagtgaactacacataaagagggggggcagaagtggagttcgagg Alignment from CESAR ggGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAAg atggtgggggctaaggcacccatgccccaataactttttctttctttcaggg------AACACTTCTGAGCTTAAAATCTGCAGAGTAAACAGGAACTCTGGGAGCTGTCTCGGAGGGGAAGAGATTTTCCTTCTGTGTGACAGGGTGCAAAAGggtaatcagtgaactacacataaagagggggggcagaagtggagttcgagg Alignment from Spaln_aa2Genome GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAAG ggggctaaggcacccatgctatgagcccaataactttttctttctttcagGG------AACACTTCTGAGCTTAAAATCTGCAGAGTAAACAGGAACTCTGGGAGCTGTCTCGGAGGGGAAGAGATTTTCCTTCTGTGTGACAGGGTGCAAAAGGgtaatcagtgaactacacataaagagggggggcagaagtggagttcgagg Alignment from Spaln_nt2Genome GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAAG ggggctaaggcacccatgctatgagcccaataactttttctttctttcagGG------AACACTTCTGAGCTTAAAATCTGCAGAGTAAACAGGAACTCTGGGAGCTGTCTCGGAGGGGAAGAGATTTTCCTTCTGTGTGACAGGGTGCAAAAGGgtaatcagtgaactacacataaagagggggggcagaagtggagttcgagg Alignment from Pairagon GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAAG ggggctaaggcacccatgctatgagcccaataactttttctttctttcagGG------AACACTTCTGAGCTTAAAATCTGCAGAGTAAACAGGAACTCTGGGAGCTGTCTCGGAGGGGAAGAGATTTTCCTTCTGTGTGACAGGGTGCAAAAGGgtaatcagtgaactacacataaagagggggggcagaagtggagttcgagg Alignment from Exonerate_protein2genome CCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAAG ggggctaaggcacccatgctatgagcccaataactttttctttctttcagGGAACACTTCTGAGCTTAAAATCTGCAGAGTAAACAGGAACTCTGGGAGCTGTCTCGGAGGGGAAGAGATTTTCCTTCTGTGTGACAGGGTGCAAAAGGgtaatcagtgaactacacataaagagggggggcagaagtggagttcgagg Alignment from Exonerate_coding2genome CCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAAG ggggctaaggcacccatgctatgagcccaataactttttctttctttcagGGAACACTTCTGAGCTTAAAATCTGCAGAGTAAACAGGAACTCTGGGAGCTGTCTCGGAGGGGAAGAGATTTTCCTTCTGTGTGACAGGGTGCAAAAGGgtaatcagtgaactacacataaagagggggggcagaagtggagttcgagg Alignment from GeneWise GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAAG ggggctaaggcacccatgctatgagcccaataactttttctttctttcagGG------AACACTTCTGAGCTTAAAATCTGCAGAGTAAACAGGAACTCTGGGAGCTGTCTCGGAGGGGAAGAGATTTTCCTTCTGTGTGACAGGGTGCAAAAGGgtaatcagtgaactacacataaagagggggggcagaagtggagttcgagg #### Rin1_ID810_5 --> 1 - 1 Original Alignment aGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGg tggagacttttccctaggctgtgatattaattgtcttctaccctctgtagg---------CAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGggtaaggaaccctgtcttttatataaaacgtgttggggttacctggttaag Alignment from CESAR aGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGg cttcctccctggagacttttccctaattaattgtcttctaccctctgtagg---------CAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGggtaaggaaccctgtcttttatataaaacgtgttggggttacctggttaag Alignment from Spaln_aa2Genome AGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG tggagacttttccctaggctgtgatattaattgtcttctaccctctgtagG---------CAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtaaggaaccctgtcttttatataaaacgtgttggggttacctggttaag Alignment from Spaln_nt2Genome -CAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG tggagacttttccctaggctgtgatattaattgtcttctaccctctgtagGCAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtaaggaaccctgtcttttatataaaacgtgttggggttacctggttaag Alignment from Pairagon AGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG tggagacttttccctaggctgtgatattaattgtcttctaccctctgtag---------GCAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtaaggaaccctgtcttttatataaaacgtgttggggttacctggttaag Alignment from Exonerate_protein2genome AGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG tggagacttttccctaggctgtgatattaattgtcttctacCCTCTGTAGGCAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtaaggaaccctgtcttttatataaaacgtgttggggttacctggttaag Alignment from Exonerate_coding2genome AGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG tggagacttttccctaggctgtgatattaattgtcttctacCCTCTGTAGGCAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtaaggaaccctgtcttttatataaaacgtgttggggttacctggttaag Alignment from GeneWise AGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG tggagacttttccctaggctgtgatattaattgtcttctaccctctgtagG---------CAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtaaggaaccctgtcttttatataaaacgtgttggggttacctggttaag #### Rin1_ID811_6 --> 2 - 1 Original Alignment agTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGg agaatcaactatgggcacccctcccttgtgtggtggcatctcttctgcagag---TGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCTATCCCTCAGCTAAAGGCTCGCTCCCCGCAGGACCTGGCCCAGGGGTCTGGAGCTGCCCTCTGCTTCTTCAACCCTCTCTTATCAGGAGATCTAGGCCCCACTAGACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCTACTGATACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTGCTCCCAGGGACATCTTCAAGCCAAACTGAACGACTACCC---CGACAGTTGCAACAGAGGGAAGGCTCAGTGGGATATCATGTTCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCACTGCCATCCCTCCAGGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCGGGC---CCTACAACCTCACCATGTCTGAGCCGCCCAAGGCAGCGGCAACCTCTACTCAGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTAATACCAGAACGGCAGGTCGGCTGGGCTGCCACAACACTGATGCAAAACCGATGCACAGTTGTGGGTCAGCTGGTTCAAGACACCCTGACTCAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCCCTAAGTCGGGCACGAGCTATGCTAAGTGCAGAGCTGGGGCCAGAAGAGCTACTGCTACCAGAGTGGCTCagtgagacacttcaaaagtatgatttcacaccaactcccctggatctcatt Alignment from CESAR agTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGg gctagaatcaactatgggcacccctttgtgtggtggcatctcttctgcagag---TGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCTATCCCTCAGCTAAAGGCTCGCTCCCCGCAGGACCTGGCCCAGGGGTCTGGAGCTGCCCTCTGCTTCTTCAACCCTCTCTTATCAGGAGATCTAGGCCCCACTAGACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCTACTGATACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTGCTCCCAGGGACATCTTCAAGCCAAACTGAACGACTACCC---CGACAGTTGCAACAGAGGGAAGGCTCAGTGGGATATCATGTTCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCACTGCCATCCCTCCAGGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCGGGC---CCTACAACCTCACCATGTCTGAGCCGCCCAAGGCAGCGGCAACCTCTACTCAGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTAATACCAGAACGGCAGGTCGGCTGGGCTGCCACAACACTGATGCAAAACCGATGCACAGTTGTGGGTCAGCTGGTTCAAGACACCCTGACTCAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCCCTAAGTCGGGCACGAGCTATGCTAAGTGCAGAGCTGGGGCCAGAAGAGCTACTGCTACCAGAGTGGCTCagtgagacacttcaaaagtatgatttcacaccaactcccctggatctcctt Alignment from Spaln_aa2Genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG agaatcaactatgggcacccctcccttgtgtggtggcatctcttctgcagAG---TGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCTATCCCTCAGCTAAAGGCTCGCTCCCCGCAGGACCTGGCCCAGGGGTCTGGAGCTGCCCTCTGCTTCTTCAACCCTCTCTTATCAGGAGATCTAGGCCCCACTAGACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCTACTGATACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTGCTCCCAGGGACATCTTCAAGCCAAACTGAACGACTA---CCCCGACAGTTGCAACAGAGGGAAGGCTCAGTGGGATATCATGTTCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCACTGCCATCCCTCCAGGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCGGGC---CCTACAACCTCACCATGTCTGAGCCGCCCAAGGCAGCGGCAACCTCTACTCAGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTAATACCAGAACGGCAGGTCGGCTGGGCTGCCACAACACTGATGCAAAACCGATGCACAGTTGTGGGTCAGCTGGTTCAAGACACCCTGACTCAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCCCTAAGTCGGGCACGAGCTATGCTAAGTGCAGAGCTGGGGCCAGAAGAGCTACTGCTACCAGAGTGGCTCAgtgagacacttcaaaagtatgatttcacaccaactcccctggatctcatt Alignment from Spaln_nt2Genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG agaatcaactatgggcacccctcccttgtgtggtggcatctcttctgcagAG---TGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCTATCCCTCAGCTAAAGGCTCGCTCCCCGCAGGACCTGGCCCAGGGGTCTGGAGCTGCCCTCTGCTTCTTCAACCCTCTCTTATCAGGAGATCTAGGCCCCACTAGACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCTACTGATACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTGCTCCCAGGGACATCTTCAAGCCAAACTGAACGACTACCC---CGACAGTTGCAACAGAGGGAAGGCTCAGTGGGATATCATGTTCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCACTGCCATCCCTCCAGGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCGG---GCCCTACAACCTCACCATGTCTGAGCCGCCCAAGGCAGCGGCAACCTCTACTCAGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTAATACCAGAACGGCAGGTCGGCTGGGCTGCCACAACACTGATGCAAAACCGATGCACAGTTGTGGGTCAGCTGGTTCAAGACACCCTGACTCAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCCCTAAGTCGGGCACGAGCTATGCTAAGTGCAGAGCTGGGGCCAGAAGAGCTACTGCTACCAGAGTGGCTCAgtgagacacttcaaaagtatgatttcacaccaactcccctggatctcatt Alignment from Pairagon AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG agaatcaactatgggcacccctcccttgtgtggtggcatctcttctgcagAG---TGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCTATCCCTCAGCTAAAGGCTCGCTCCCCGCAGGACCTGGCCCAGGGGTCTGGAGCTGCCCTCTGCTTCTTCAACCCTCTCTTATCAGGAGATCTAGGCCCCACTAGACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCTACTGATACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTGCTCCCAGGGACATCTTCAAGCCAAACTGAACGACTACCC---CGACAGTTGCAACAGAGGGAAGGCTCAGTGGGATATCATGTTCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCACTGCCATCCCTCCAGGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCGG---GCCCTACAACCTCACCATGTCTGAGCCGCCCAAGGCAGCGGCAACCTCTACTCAGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTAATACCAGAACGGCAGGTCGGCTGGGCTGCCACAACACTGATGCAAAACCGATGCACAGTTGTGGGTCAGCTGGTTCAAGACACCCTGACTCAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCCCTAAGTCGGGCACGAGCTATGCTAAGTGCAGAGCTGGGGCCAGAAGAGCTACTGCTACCAGAGTGGCTCAgtgagacacttcaaaagtatgatttcacaccaactcccctggatctcatt Alignment from Exonerate_protein2genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG agaatcaactatgggcacccctcccttgtgtggtggcatctcttctgcagAG---TGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCTATCCCTCAGCTAAAGGCTCGCTCCCCGCAGGACCTGGCCCAGGGGTCTGGAGCTGCCCTCTGCTTCTTCAACCCTCTCTTATCAGGAGATCTAGGCCCCACTAGACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCTACTGATACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTGCTCCCAGGGACATCTTCAAGCCAAACTGAACGACTA---CCCCGACAGTTGCAACAGAGGGAAGGCTCAGTGGGATATCATGTTCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCACTGCCATCCCTCCAGGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCGGGC---CCTACAACCTCACCATGTCTGAGCCGCCCAAGGCAGCGGCAACCTCTACTCAGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTAATACCAGAACGGCAGGTCGGCTGGGCTGCCACAACACTGATGCAAAACCGATGCACAGTTGTGGGTCAGCTGGTTCAAGACACCCTGACTCAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCCCTAAGTCGGGCACGAGCTATGCTAAGTGCAGAGCTGGGGCCAGAAGAGCTACTGCTACCAGAGTGGCTCAgtgagacacttcaaaagtatgatttcacaccaactcccctggatctcatt Alignment from Exonerate_coding2genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG agaatcaactatgggcacccctcccttgtgtggtggcatctcttctgcagAG---TGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCTATCCCTCAGCTAAAGGCTCGCTCCCCGCAGGACCTGGCCCAGGGGTCTGGAGCTGCCCTCTGCTTCTTCAACCCTCTCTTATCAGGAGATCTAGGCCCCACTAGACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCTACTGATACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTGCTCCCAGGGACATCTTCAAGCCAAACTGAACGACTA---CCCCGACAGTTGCAACAGAGGGAAGGCTCAGTGGGATATCATGTTCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCACTGCCATCCCTCCAGGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCGGGC---CCTACAACCTCACCATGTCTGAGCCGCCCAAGGCAGCGGCAACCTCTACTCAGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTAATACCAGAACGGCAGGTCGGCTGGGCTGCCACAACACTGATGCAAAACCGATGCACAGTTGTGGGTCAGCTGGTTCAAGACACCCTGACTCAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCCCTAAGTCGGGCACGAGCTATGCTAAGTGCAGAGCTGGGGCCAGAAGAGCTACTGCTACCAGAGTGGCTCAgtgagacacttcaaaagtatgatttcacaccaactcccctggatctcatt Alignment from GeneWise AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG agaatcaactatgggcacccctcccttgtgtggtggcatctcttctgcagAG---TGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTCCTGAAGCCTCACCTATCCCTCAGCTAAAGGCTCGCTCCCCGCAGGACCTGGCCCAGGGGTCTGGAGCTGCCCTCTGCTTCTTCAACCCTCTCTTATCAGGAGATCTAGGCCCCACTAGACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCTACTGATACCTCCAGCCCCTTGTCCCTACCTGCTGTACCTCCTCCTCCTGTCCATGTGCTCCCAGGGACATCTTCAAGCCAAACTGAACGACTA---CCCCGACAGTTGCAACAGAGGGAAGGCTCAGTGGGATATCATGTTCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCACTGCCATCCCTCCAGGAAGTGGACTGCTGCTCTCCTAGCAGTTCAGAGGAGGAAGGCTCCTCGGGC---CCTACAACCTCACCATGTCTGAGCCGCCCAAGGCAGCGGCAACCTCTACTCAGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTAATACCAGAACGGCAGGTCGGCTGGGCTGCCACAACACTGATGCAAAACCGATGCACAGTTGTGGGTCAGCTGGTTCAAGACACCCTGACTCAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCATCCAAGAGGCCCTAAGTCGGGCACGAGCTATGCTAAGTGCAGAGCTGGGGCCAGAAGAGCTACTGCTACCAGAGTGGCTCAgtgagacacttcaaaagtatgatttcacaccaactcccctggatctcatt #### Rom1_ID2497_2 --> 1 - 0 Original Alignment cCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG--- ttcagtcctccttcactacatctcattttgtctcacctttgcattttcagtCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATGGGGTTCCTTTCTCCTGCTGTAATCCCCACTCACCA------TGCCTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCTT---CCTCAGCAGCCAAACCTAAACCTGTGGGCCCAAGGATGCCACAAAGTGCTGTTGGAACGCCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGTGCgtgggacatcaaggtccctaacttccatactctatttttagacctaaaac Alignment from CESAR cCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG--- ttcagtcctccttcactacatctcattttgtctcacctttgcattttcagtCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATGGGGTTCCTTTCTCCTGCTGTAATCCCCACTCA------CCATGCCTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCTT---CCTCAGCAGCCAAACCTAAACCTGTGGGCCCAAGGATGCCACAAAGTGCTGTTGGAACGCCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGTGCgtgggacatcaaggtccctaacttccatactctatttttagacctaaaac Alignment from Spaln_aa2Genome CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG--- ttcagtcctccttcactacatctcattttgtctcacctttgcattttcagTCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATGGGGTTCCTTTCTCCTGCTGTAATCCCCACTCA------CCATGCCTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCTT---CCTCAGCAGCCAAACCTAAACCTGTGGGCCCAAGGATGCCACAAAGTGCTGTTGGAACGCCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGTGCgtgggacatcaaggtccctaacttccatactctatttttagacctaaaac Alignment from Spaln_nt2Genome CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCA ttcagtcctccttcactacatctcattttgtctcacctttgcattttcagTCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATGGGGTTCCTTTCTCCTGCTGTAATCCCCACTCA------CCATGCCTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCT---TCCTCAGCAGCCAAACCTAAACCTGTGGGCCCAAGGATGCCACAAAGTGCTGTTGGAACGCCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAgtgcgtgggacatcaaggtccctaacttccatactctatttttagacctaaaac Alignment from Pairagon CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGC------------------------------------------------------- ttcagtcctccttcactacatctcattttgtctcacctttgcattttcagTCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATGGGGTTCCTTTCTCCTGCTGTAATCCCCACTCACCA------TGCCTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCT---TCCTCAGCAGCCAAACCTAAACCTGTGGGCCCAAGGATGCCACAAAGTGCTGTTGGAACGCCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGTGCGTGGGACATCAAGGTCCCTAACTTCCATACTCTATTTTTAGACCTAAAAC Alignment from Exonerate_protein2genome CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCA ttcagtcctccttcactacatctcattttgtctcacctttgcattttcagTCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATGGGGTTCCTTTCTCCTGCTGTAATCCCCACTCA------CCATGCCTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCTT---CCTCAGCAGCCAAACCTAAACCTGTGGGCCCAAGGATGCCACAAAGTGCTGTTGGAACGCCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAgtgcgtgggacatcaaggtccctaacttccatactctatttttagacctaaaac Alignment from Exonerate_coding2genome CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCA ttcagtcctccttcactacatctcattttgtctcacctttgcattttcagTCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATGGGGTTCCTTTCTCCTGCTGTAATCCCCACTCA------CCATGCCTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCTT---CCTCAGCAGCCAAACCTAAACCTGTGGGCCCAAGGATGCCACAAAGTGCTGTTGGAACGCCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAgtgcgtgggacatcaaggtccctaacttccatactctatttttagacctaaaac Alignment from GeneWise CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAGATT ttcagtcctccttcactacatctcattttgtctcacctttgcattttcagTCAGATTCCAAGCAATATAGAAGGATTATACCTGATTGATGGGGTTCCTTTCTCCTGCTGTAATCCCCACTCACCA------TGCCTGCAAAGCCAACTCTCAGACCCCTATGCTCATCCACTTCTT---CCTCAGCAGCCAAACCTAAACCTGTGGGCCCAAGGATGCCACAAAGTGCTGTTGGAACGCCTGCAGGGTTTATCTGGGACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGTGCgtgggacatcaaggtccctaacttccatactctatttttagacctaaaac #### Rpp30_ID7088_8 --> 0 - 0 Original Alignment AATGTAATTCTGTCCAGTGCTGCAGAAAGG--- tagtatgcagctgatcattgatttctcctaaatatgttatcactttctagAATGTAATTCTGTCAAGTACTGCAGCGAGATTTgtgagtatagggcaactctactggctgtggttaggacacttaacataggc Alignment from CESAR AATGTAATTCTGTCCAGTGCTGCAGAAAGG--- tagtatgcagctgatcattgatttctcctaaatatgttatcactttctagAATGTAATTCTGTCAAGTACTGCAGCGAGATTTgtgagtatagggcaactctactggctgtggttaggacacttaacataggc Alignment from Spaln_aa2Genome AATGTAATTCTGTCCAGTGCTGCAGAAAGG--- tagtatgcagctgatcattgatttctcctaaatatgttatcactttctagAATGTAATTCTGTCAAGTACTGCAGCGAGATTTgtgagtatagggcaactctactggctgtggttaggacacttaacataggc Alignment from Spaln_nt2Genome AATGTAATTCTGTCCAGTGCTGCAGAAAGG--- tagtatgcagctgatcattgatttctcctaaatatgttatcactttctagAATGTAATTCTGTCAAGTACTGCAGCGAGATTTgtgagtatagggcaactctactggctgtggttaggacacttaacataggc Alignment from Pairagon AATGTAATTCTGTCCAGTGCTGCAGAAAGG--- tagtatgcagctgatcattgatttctcctaaatatgttatcactttctagAATGTAATTCTGTCAAGTACTGCAGCGAGATTTgtgagtatagggcaactctactggctgtggttaggacacttaacataggc Alignment from Exonerate_protein2genome AATGTAATTCTGTCCAGTGCTGCAGAAAGG--- tagtatgcagctgatcattgatttctcctaaatatgttatcactttctagAATGTAATTCTGTCAAGTACTGCAGCGAGATTTgtgagtatagggcaactctactggctgtggttaggacacttaacataggc Alignment from Exonerate_coding2genome tagtatgcagctgatcattgatttctcctaaatatgttatcactttctagaatgtaattctgtcaagtactgcagcgagatttgtgagtatagggcaactctactggctgtggttaggacacttaacataggc Alignment from GeneWise tagtatgcagctgatcattgatttctcctaaatatgttatcactttctagaatgtaattctgtcaagtactgcagcgagatttgtgagtatagggcaactctactggctgtggttaggacacttaacataggc #### Rps6ka4_ID1804_16 --> 2 - 0 Original Alignment ggCTACTGACAGTCGACCCCGCCAAGCGGCTGAAGCTGGAGGGGCTGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCGCGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCCGGGCTCAATGCCACTTTCATG taggactcacattcatgcttgttttgagcaaccctgtgtgtctgtcctaggg---------------------------------------------CGTAGCAGCTCGTGGCTACAGGATGGTAGTGCACGCTCCTCACCACCACTACGCACTCCAGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCTGGGCTCAATGCCACATTTATGgtcagtgtaatatggcaggtaggtagatgatcctgtatttcccaaggtag Alignment from CESAR ggCTACTGACAGTCGACCCCGCCAAGCGGCTGAAGCTGGAGGGGCTGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCGCGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCCGGGCTCAATGCCACTTTCATG ttagactcacattcatgcttgttttgagcaaccctgtgtgtctgtcctaggg---------------------------------------------CGTAGCAGCTCGTGGCTACAGGATGGTAGTGCACGCTCCTCACCACCACTACGCACTCCAGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCTGGGCTCAATGCCACATTTATGgtcagtgtaatatggcaggtaggtagatgatcctgtatttcccaaggtag Alignment from Spaln_aa2Genome GCCAAGCGGCTGAAGCTGGAGGGGCTGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCGCGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCCGGGCTCAATGCCACTTTCATG taggactcacattcatgcttgttttgagCAACCCTGTGTGTCTGTCCTAGGG---CGTAGCAGCTCGTGGCTACAGGATGGTAGTGCACGCTCCTCACCACCACTACGCACTCCAGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCTGGGCTCAATGCCACATTTATGgtcagtgtaatatggcaggtaggtagatgatcctgtatttcccaaggtag Alignment from Spaln_nt2Genome CAAGCGGCTGAAGCTGGAGGGGCTGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCGCGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCCGGGCTCAATGCCACTTTCATG taggactcacattcatgcttgttttgagCAACCCTGTGTGTCTGTCCTAG-GGCGTAGCAGCTCGTGGCTACAGGATGGTAGTGCACGCTCCTCACCACCACTACGCACTCCAGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCTGGGCTCAATGCCACATTTATGgtcagtgtaatatggcaggtaggtagatgatcctgtatttcccaaggtag Alignment from Pairagon GTCCGAGGGCTACTGACAGTCGACCCCGCCAAGCGGCTGAAGCTGGAGGGGCTGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCGCGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCCGGGCTCAATGCCACTTTCATG taggactcacattcatgcttgttttgagcaaccctgtgtgtctgtcctagG----------------------------------------------------GCGTAGCAGCTCGTGGCTACAGGATGGTAGTGCACGCTCCTCACCACCACTACGCACTCCAGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCTGGGCTCAATGCCACATTTATGgtcagtgtaatatggcaggtaggtagatgatcctgtatttcccaaggtag Alignment from Exonerate_protein2genome TGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCGCGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCCGGGCTCAATGCCACTTTCATG taggactcacattcatgcttgttttgagcaaccctgtgtgtctgtcctagGGCGTAGCAGCTCGTGGCTACAGGATGGTAGTGCACGCTCCTCACCACCACTACGCACTCCAGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCTGGGCTCAATGCCACATTTATGgtcagtgtaatatggcaggtaggtagatgatcctgtatttcccaaggtag Alignment from Exonerate_coding2genome TGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCGCGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCCGGGCTCAATGCCACTTTCATG taggactcacattcatgcttgttttgagcaaccctgtgtgtctgtcctagGGCGTAGCAGCTCGTGGCTACAGGATGGTAGTGCACGCTCCTCACCACCACTACGCACTCCAGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCTGGGCTCAATGCCACATTTATGgtcagtgtaatatggcaggtaggtagatgatcctgtatttcccaaggtag Alignment from GeneWise CAGCTCGTGGCTTCAGGACGGCAGCGCGCGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCCGGGCTCAATGCCACTTTCATG taggactcacattcatgcttgttttgagcaaccctgtgtgtctgtcctagggcgtagCAGCTCGTGGCTACAGGATGGTAGTGCACGCTCCTCACCACCACTACGCACTCCAGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCTGGGCTCAATGCCACATTTATGgtcagtgtaatatggcaggtaggtagatgatcctgtatttcccaaggtag #### Rps6ka4_ID1805_15 --> 0 - 1 Original Alignment TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGA---g tgaccatgtgttctacgtgcgggcaatgcttgtacctttttctttttcagTACATGATGCTCTCTAGCCAGGTTCCATTCCAAGGCGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCACGTTTTTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTAGTTAGGCAGggtgagttgttggaggataggatctgattaaggaaggagcaatgtaggatc Alignment from CESAR TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGA---g tgaccatgtgttctacgtgcgggcaatgcttgtacctttttctttttcagTACATGATGCTCTCTAGCCAGGTTCCATTCCAAGGCGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCACGTTTTTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTAGTTAGGCAGggtgagttgttggaggataggatctgattaaggaaggagcaatgtaggatc Alignment from Spaln_aa2Genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGA---G tgaccatgtgttctacgtgcgggcaatgcttgtacctttttctttttcagTACATGATGCTCTCTAGCCAGGTTCCATTCCAAGGCGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCACGTTTTTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTAGTTAGGCAGGgtgagttgttggaggataggatctgattaaggaaggagcaatgtaggatc Alignment from Spaln_nt2Genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGA---G tgaccatgtgttctacgtgcgggcaatgcttgtacctttttctttttcagTACATGATGCTCTCTAGCCAGGTTCCATTCCAAGGCGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCACGTTTTTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTAGTTAGGCAGGgtgagttgttggaggataggatctgattaaggaaggagcaatgtaggatc Alignment from Pairagon TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCG------------------------------------------------------- tgaccatgtgttctacgtgcgggcaatgcttgtacctttttctttttcagTACATGATGCTCTCTAGCCAGGTTCCATTCCAAGGCGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCACGTTTTTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTAGTTAGGCAGGGTGAGTTGTTGGAGGATAGGATCTGATTAAGGAAGGAGCAATGTAGGATC Alignment from Exonerate_protein2genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGA---G tgaccatgtgttctacgtgcgggcaatgcttgtacctttttctttttcagTACATGATGCTCTCTAGCCAGGTTCCATTCCAAGGCGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCACGTTTTTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTAGTTAGGCAGGgtgagttgttggaggataggatctgattaaggaaggagcaatgtaggatc Alignment from Exonerate_coding2genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGA---G tgaccatgtgttctacgtgcgggcaatgcttgtacctttttctttttcagTACATGATGCTCTCTAGCCAGGTTCCATTCCAAGGCGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCACGTTTTTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTAGTTAGGCAGGgtgagttgttggaggataggatctgattaaggaaggagcaatgtaggatc Alignment from GeneWise TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGAGGG- tgaccatgtgttctacgtgcgggcaatgcttgtacctttttctttttcagTACATGATGCTCTCTAGCCAGGTTCCATTCCAAGGCGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCACGTTTTTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTAGTTAGGCAGGgtgagttgttggaggataggatctgattaaggaaggagcaatgtaggatc #### Rps6ka4_ID1809_11 --> 0 - 2 Original Alignment GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCTCAGCCGCag cattttggcttcgtgagtgtgtaaaaatttcttaccttgttaatcattagGACTCACCCTTGTTACAGCAGTACGAGCTTGACCTTTGGGAACCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACGGCGTCAGACTGGCCGGGAGTTTGCTGTTAAGATT---------aggtgagggcattagtgcctaccttctatgagcagaggcctcccaagaggac Alignment from CESAR GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCTCAGCCGCag cattttggcttcgtgagtgtgtaaaaatttcttaccttgttaatcattagGACTCACCCTTGTTACAGCAGTACGAGCTTGACCTTTGGGAACCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACGGCGTCAGACTGGCCGGGAGTTTGCTGTTAAGATT---------aggtgagggcattagtgcctaccttctatgagcagaggcctcccaagaggac Alignment from Spaln_aa2Genome GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCT cattttggcttcgtgagtgtgtaaaaatttcttaccttgttaatcattagGACTCACCCTTGTTACAGCAGTACGAGCTTGACCTTTGGGAACCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACGGCGTCAGACTGGCCGGGAGTTTGCTGTTAAGATTAGgtgagggcattagtgcctaccttctatgagcagaggcctcccaagaggac Alignment from Spaln_nt2Genome GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCTCAG cattttggcttcgtgagtgtgtaaaaatttcttaccttgttaatcattagGACTCACCCTTGTTACAGCAGTACGAGCTTGACCTTTGGGAACCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACGGCGTCAGACTGGCCGGGAGTTTGCTGTTAAGA---TTAGgtgagggcattagtgcctaccttctatgagcagaggcctcccaagaggac Alignment from Pairagon GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCTCAGCCGCAG cattttggcttcgtgagtgtgtaaaaatttcttaccttgttaatcattagGACTCACCCTTGTTACAGCAGTACGAGCTTGACCTTTGGGAACCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACGGCGTCAGACTGGCCGGGAGTTTGCTGTTAAGAT---------TAGgtgagggcattagtgcctaccttctatgagcagaggcctcccaagaggac Alignment from Exonerate_protein2genome GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCT cattttggcttcgtgagtgtgtaaaaatttcttaccttgttaatcattagGACTCACCCTTGTTACAGCAGTACGAGCTTGACCTTTGGGAACCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACGGCGTCAGACTGGCCGGGAGTTTGCTGTTAAGATTAGgtgagggcattagtgcctaccttctatgagcagaggcctcccaagaggac Alignment from Exonerate_coding2genome GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCT cattttggcttcgtgagtgtgtaaaaatttcttaccttgttaatcattagGACTCACCCTTGTTACAGCAGTACGAGCTTGACCTTTGGGAACCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACGGCGTCAGACTGGCCGGGAGTTTGCTGTTAAGATTAGgtgagggcattagtgcctaccttctatgagcagaggcctcccaagaggac Alignment from GeneWise GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCT cattttggcttcgtgagtgtgtaaaaatttcttaccttgttaatcattagGACTCACCCTTGTTACAGCAGTACGAGCTTGACCTTTGGGAACCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACGGCGTCAGACTGGCCGGGAGTTTGCTGTTAAGATTAGgtgagggcattagtgcctaccttctatgagcagaggcctcccaagaggac #### Rps6ka4_ID1813_7 --> 0 - 2 Original Alignment GCTGTGGACTGGTGGAGCCTGGGTATCCTGCTCTTCGAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTCC---cg taagctgctttggtggacaaaggttgtgtttgtctccgctttgtaaccagGCTGTGGACTGGTGGAGCCTTGGTATACTTCTCTTTGGGTTGCTTACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTATCTCCAcggtaaattagatttgctattgagcttgccagatttagcatagcagtgctgt Alignment from CESAR GCTGTGGACTGGTGGAGCCTGGGTATCCTGCTCTTCGAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTCC---cg tgaggtgctttggtggacaaaggttgtgtttgtctccgctttgtaaccagGCTGTGGACTGGTGGAGCCTTGGTATACTTCTCTTTGGGTTGCTTACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTATCTCCAcggtaaattagatttgctattgagcttgccagatttagcatagcagtgctgg Alignment from Spaln_aa2Genome GCTGTGGACTGGTGGAGCCTGGGTATCCTGCTCTTCGAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTCCCGA-- taagctgctttggtggacaaaggttgtgtttgtctccgctttgtaaccagGCTGTGGACTGGTGGAGCCTTGGTATACTTCTCTTTGGGTTGCTTACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTATCTCCACGgtaaattagatttgctattgagcttgccagatttagcatagcagtgctgt Alignment from Spaln_nt2Genome GCTGTGGACTGGTGGAGCCTGGGTATCCTGCTCTTCGAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTCCCGACG taagctgctttggtggacaaaggttgtgtttgtctccgctttgtaaccagGCTGTGGACTGGTGGAGCCTTGGTATACTTCTCTTTGGGTTGCTTACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTATCTCCACGgtaaattagatttgctattgagcttgccagatttagcatagcagtgctgt Alignment from Pairagon GCTGTGGACTGGTGGAGCCTGGGTATCCTGCTCTTCGAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTCCC------------------------------------------------------ taagctgctttggtggacaaaggttgtgtttgtctccgctttgtaaccagGCTGTGGACTGGTGGAGCCTTGGTATACTTCTCTTTGGGTTGCTTACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTATCTCCACGGTAAATTAGATTTGCTATTGAGCTTGCCAGATTTAGCATAGCAGTGCTGT Alignment from Exonerate_protein2genome GCTGTGGACTGGTGGAGCCTGGGTATCCTGCTCTTCGAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTCC---CG taagctgctttggtggacaaaggttgtgtttgtctccgctttgtaaccagGCTGTGGACTGGTGGAGCCTTGGTATACTTCTCTTTGGGTTGCTTACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTATCTCCACGgtaaattagatttgctattgagcttgccagatttagcatagcagtgctgt Alignment from Exonerate_coding2genome CAAGGCTGTGGACTGGTGGAGCCTGGGTATCCTGCTCTTCGAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTCC---CG taagctgctttggtggacaaaggttgtgtttgtctccgctttgtaaCCAGGCTGTGGACTGGTGGAGCCTTGGTATACTTCTCTTTGGGTTGCTTACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTATCTCCACGgtaaattagatttgctattgagcttgccagatttagcatagcagtgctgt Alignment from GeneWise --------------------------------------------------GCTGTGGACTGGTGGAGCCTGGGTATCCTGCTCTTCGAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTCCCGA-- TAAGCTGCTTTGGTGGACAAAGGTTGTGTTTGTCTCCGCTTTGTAACCAGGCTGTGGACTGGTGGAGCCTTGGTATACTTCTCTTTGGGTTGCTTACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTATCTCCACGgtaaattagatttgctattgagcttgccagatttagcatagcagtgctgt #### Rps6ka4_ID1814_6 --> 0 - 0 Original Alignment AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAAG gtgggggcaagaattgactaagcttgattgtctttatcctgcttttgtagAAAGAGTGGACCTTTTCCTTCTGTGGTACAGTTGAATACATGGCTCCTGAAATTGTCCGTAGCAAAGCTGGA---------gtatggtgctatgcaatatttggtggacaccggtgacttgcgtgtcccca Alignment from CESAR AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAAG gtgggggcaagaattgactaagcttgattgtctttatcctgcttttgtagAAAGAGTGGACCTTTTCCTTCTGTGGTACAGTTGAATACATGGCTCCTGAAATTGTCCGTAGCAAAGCTGGA---------gtatggtgctatgcaatatttggtgggtgtttgtctccgct Alignment from Spaln_aa2Genome AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGA gtgggggcaagaattgactaagcttgattgtctttatcctgcttttgtagAAAGAGTGGACCTTTTCCTTCTGTGGTACAGTTGAATACATGGCTCCTGAAATTGTCCGTAGCAAAGCTGGAgtatggtgctatgcaatatttggtggacaccggtgacttgcgtgtcccca Alignment from Spaln_nt2Genome AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAAG gtgggggcaagaattgactaagcttgattgtctttatcctgcttttgtagAAAGAGTGGACCTTTTCCTTCTGTGGTACAGTTGAATACATGGCTCCTGAAATTGTCCGTAGCAAAGCTGGA----GTATGgtgctatgcaatatttggtggacaccggtgacttgcgtgtc Alignment from Pairagon AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGA gtgggggcaagaattgactaagcttgattgtctttatcctgcttttgtagAAAGAGTGGACCTTTTCCTTCTGTGGTACAGTTGAATACATGGCTCCTGAAATTGTCCGTAGCAAAGCTGGAgtatggtgctatgcaatatttggtggacaccggtgacttgcgtgtcccca Alignment from Exonerate_protein2genome AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGA CATGGCAA gtgggggcaagaattgactaagcttgattgtctttatcctgcttttgtagAAAGAGTGGACCTTTTCCTTCTGTGGTACAGTTGAATACATGGCTCCTGAAATTGTCCGTAGCAAAGCTGGAgtatggtgctatgcaatatttggtggacaccggtgacttgcgTGTCCCCA Alignment from Exonerate_coding2genome gtgggggcaagaattgactaagcttgattgtctttatcctgcttttgtagaaagagtggaccttttccttctgtggtacagttgaatacatggctcctgaaattgtccgtagcaaagctggagtatggtgctatgcaatatttggtggacaccggtgacttgcgtgtcccca Alignment from GeneWise AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGA gtgggggcaagaattgactaagcttgattgtctttatcctgcttttgtagAAAGAGTGGACCTTTTCCTTCTGTGGTACAGTTGAATACATGGCTCCTGAAATTGTCCGTAGCAAAGCTGGAgtatggtgctatgcaatatttggtggacaccggtgacttgcgtgtcccca #### Rps6kb2_ID375_7 --> 1 - 1 Original Alignment cTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGg tgtgtggtagatattaagctctgcctactaatcatatgtaactgttacagtTTCTACCTTGCAGAGATCACACTGGCACTAGGCCATCTCCATTTCCATAGCATCATTTACCGTGACCGCAAGCCTGAAAACATAATGCTCACCAGT---ggtaagtagggggatgtgagcatgcctgtgtgttaaaccttcagttttgct Alignment from CESAR cTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGg tgtgtggtagatattaagctctgcctactaatcatatgtaactgttacagtTTCTACCTTGCAGAGATCACACTGGCACTAGGCCATCTCCATTTCCATAGCATCATTTACCGTGACCGCAAGCCTGAAAACATAATGCTCACCAGT---ggtaagtagggggatgtgagcatgcctgtgtgttaaaccttcagttttgct Alignment from Spaln_aa2Genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGC- tgtgtggtagatattaagctctgcctactaatcatatgtaactgttacagTTTCTACCTTGCAGAGATCACACTGGCACTAGGCCATCTCCATTTCCATAGCATCATTTACCGTGACCGCAAGCCTGAAAACATAATGCTCACCAGTGgtaagtagggggatgtgagcatgcctgtgtgttaaaccttcagttttgct Alignment from Spaln_nt2Genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGG tgtgtggtagatattaagctctgcctactaatcatatgtaactgttacagTTTCTACCTTGCAGAGATCACACTGGCACTAGGCCATCTCCATTTCCATAGCATCATTTACCGTGACCGCAAGCCTGAAAACATAATGCTCACCAG---TGgtaagtagggggatgtgagcatgcctgtgtgttaaaccttcagttttgct Alignment from Pairagon CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGG tgtgtggtagatattaagctctgcctactaatcatatgtaactgttacagTTTCTACCTTGCAGAGATCACACTGGCACTAGGCCATCTCCATTTCCATAGCATCATTTACCGTGACCGCAAGCCTGAAAACATAATGCTCACCAGT---Ggtaagtagggggatgtgagcatgcctgtgtgttaaaccttcagttttgct Alignment from Exonerate_protein2genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGG tgtgtggtagatattaagctctgcctactaatcatatgtaactgttacagTTTCTACCTTGCAGAGATCACACTGGCACTAGGCCATCTCCATTTCCATAGCATCATTTACCGTGACCGCAAGCCTGAAAACATAATGCTCACCAGT---Ggtaagtagggggatgtgagcatgcctgtgtgttaaaccttcagttttgct Alignment from Exonerate_coding2genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGG tgtgtggtagatattaagctctgcctactaatcatatgtaactgttacagTTTCTACCTTGCAGAGATCACACTGGCACTAGGCCATCTCCATTTCCATAGCATCATTTACCGTGACCGCAAGCCTGAAAACATAATGCTCACCAGT---Ggtaagtagggggatgtgagcatgcctgtgtgttaaaccttcagttttgct Alignment from GeneWise CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCC tgtgtggtagatattaagctctgcctactaatcatatgtaactgttacagTTTCTACCTTGCAGAGATCACACTGGCACTAGGCCATCTCCATTTCCATAGCATCATTTACCGTGACCGCAAGCCTGAAAACATAATGCTCACCAGTGgtaagtagggggatgtgagcatgcctgtgtgttaaaccttcagttttgct #### Rps6kb2_ID380_2 --> 0 - 2 Original Alignment GACGTGTGTCCCCTTGGCGAATTAAGGGCTGCTGGCCTGga gagctgatgttaggagaatgtatactttgattttttttttcccttgttagGATGTGTGTCCACTTGGCAAACTAAGGGCTGCT------gagtgagctttggatgaggtctagtgtagagtagaggctaggggtcgaaaag Alignment from CESAR GACGTGTGTCCCCTTGGCGAATTAAGGGCTGCTGGCCTGga gagctgatgttaggagaatgtatactttgattttttttttcccttgttagGATGTGTGTCCACTTGGCAAACTAAGGGCTGCT------gagtgagctttggatgaggtctagtgtagagtagaggctaggggtcgaaaag Alignment from Spaln_aa2Genome GACGTGTGTCCCCTTGGCGAATTAAGGGCTGCTGG gagctgatgttaggagaatgtatactttgattttttttttcccttgttagGATGTGTGTCCACTTGGCAAACTAAGGGCTGCTGAgtgagctttggatgaggtctagtgtagagtagaggctaggggtcgaaaag Alignment from Spaln_nt2Genome GACGTGTGTCCCCTTGGCGAATTAAGGGCTGCTGGCCTGGA gagctgatgttaggagaatgtatactttgattttttttttcccttgttagGATGTGTGTCCACTTGGCAAACTAAGGGCTGCT------GAgtgagctttggatgaggtctagtgtagagtagaggctaggggtcgaaaag Alignment from Pairagon GACGTGTGTCCCCTTGGCGAATTAAGGGCTGCTGGCCTGGA gagctgatgttaggagaatgtatactttgattttttttttcccttgttagGATGTGTGTCCACTTGGCAAACTAAGGGCTGCT------GAgtgagctttggatgaggtctagtgtagagtagaggctaggggtcgaaaag Alignment from Exonerate_protein2genome GACGTGTGTCCCCTTGGCGAATTAAGGGCTGCTGGCCTGGA gagctgatgttaggagaatgtatactttgattttttttttcccttgttagGATGTGTGTCCACTTGGCAAACTAAGGGCTGCTGAGTGAGCtttggatgaggtctagtgtagagtagaggctaggggtcgaaaag Alignment from Exonerate_coding2genome gagctgatgttaggagaatgtatactttgattttttttttcccttgttaggatgtgtgtccacttggcaaactaagggctgctgagtgagctttggatgaggtctagtgtagagtagaggctaggggtcgaaaag Alignment from GeneWise GACGTGTGTCCCCTTGGCGAATTAAGGGCTGCTGG gagctgatgttaggagaatgtatactttgattttttttttcccttgttagGATGTGTGTCCACTTGGCAAACTAAGGGCTGCTGAgtgagctttggatgaggtctagtgtagagtagaggctaggggtcgaaaag #### Rrp12_ID8295_28 --> 1 - 1 Original Alignment cATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTg agctggggttgggtagcctcattatttgttctttctttctttccctccagcATTGAGGAAATTTCAGCTGACTCAGAGGACGAGTTTGAGGAAGAACAAAGAGGCCGGGGCAAAGAGCAG------TTGGCACAGCAGAGGAGCCGAGCATGG---AAGGATGGAGGTGGT---GCGCCTCTCAATTTC------CCAAAAGTTGCACAT---------ggtaggatagctagtaaatggtaaagttacccccctttgtcgatggggtca Alignment from CESAR cATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCAT---CGAGTCCTTg agctggggttgggtagcctcattatttgttctttctttctttccctccagcATTGAGGAAATTTCAGCTGACTCAGAGGACGAGTTTGAGGAAGAACAAAGAGGCCGGGGCAAAGAGCAG------TTGGCACAGCAGAGGAGCCGAGCATGG---AAGGATGGAGGTGGT---GCGCCTCTCAATTTC------CCAAAAGTTGCACATGGTAGGATAGCTagtaaatggtaaagttacccccctttgtcgatggggtca Alignment from Spaln_aa2Genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCAT---CGAGTCCTTG agctggggttgggtagcctcattatttgttctttctttctttccctccagCATTGAGGAAATTTCAGCTGACTCAGAGGACGAGTTTGAGGAAGAACAAAGAGGCCGGGGCAAAGAGCAG------TTGGCACAGCAGAGGAGCCGAGCATGG---AAGGATGGAGGTGGT---GCGCCTCTCAATTTC------CCAAAAGTTGCACATGGTAGGATAGCTAgtaaatggtaaagttacccccctttgtcgatggggtca Alignment from Spaln_nt2Genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGAT----CCCAAGGTGGCCCATCGAGTCCTTG agctggggttgggtagcctcattatttgttctttctttctttccctccagCATTGAGGAAATTTCAGCTGACTCAGAGGACGAGTTTGAGGAAGAACAAAGAGGCCGGGGCAAAGAGC------AGTTGGCACAGCAGAGGAGCCGAGCATG---GAAGGATGGAGGTGG---TGCGCCTCTCAATTTCCCAAAAGTTGCACATGGTAGGATAGCTAGTAAATGgtaaagttacccccctttgtcgatggggtca Alignment from Pairagon CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTG agctggggttgggtagcctcattatttgttctttctttctttccctccagCATTGAGGAAATTTCAGCTGACTCAGAGGACGAGTTTGAGGAAGAACAAAGAGGCCGGGGCAAAGAGC------AGTTGGCACAGCAGAGGAGCCGAGCATG---GAAGGATGGAGGTGgtgcgcctctcaatttcccaaaagttgcacatggtaggatagctagtaaatggtaaagttacccccctttgtcgatggggtca Alignment from Exonerate_protein2genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATC agctggggttgggtagcctcattatttgttctttctttctttccctccagCATTGAGGAAATTTCAGCTGACTCAGAGGACGAGTTTGAGGAAGAACAAAGAGGCCGGGGCAAAGAGCAG------TTGGCACAGCAGAGGAGCCGAGCATGG---AAGGATGGAGGTGGT---GCGCCTCTCAATTTC------CCAAAAGTTGCACATGgtaggatagctagtaaatggtaaagttacccccctttgtcgatggggtca Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTGCC- agctggggttgggtagcctcattatttgttctttctttctttccctccagCATTGAGGAAATTTCAGCTGACTCAGAGGACGAGTTTGAGGAAGAACAAAGAGGCCGGGGCAAAGAGCAG------TTGGCACAGCAGAGGAGCCGAGCATGG---AAGGATGGAGGTGGT---GCGCCTCTCAATTTC------CCAAAAGTTGCACATGGTAGGATAGCTAgtaaatggtaaagttacccccctttgtcgatggggtca #### Sart1_ID957_18 --> 0 - 0 Original Alignment GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG cccacttctagtgggttcactcacccttcacgtctgcttcttcctcacagGCTTTCCGGCAACTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAAACTGAGCGGTGGATGAAGAAGCTGGATGAGGAG---gtgagcaggcctgaagccaggtggccaatctccattcctgtgaaatataa Alignment from CESAR cccacttctagtgggttcactcacccttctgcttggattacagctatgaggctttccggcaactgtcccaccgcttccatggaaagggctcaggcaagatgaaaactgagcggtggatgaagaagctggatgaggaggcagttcgtcttgaagccaggtggccaatctccatacacctcagcatata Alignment from Spaln_aa2Genome cccacttctagtgggttcactcacccttctgcttggattacagctatgaggctttccggcaactgtcccaccgcttccatggaaagggctcaggcaagatgaaaactgagcggtggatgaagaagctggatgaggaggcagttcgtcttgaagccaggtggccaatctccatacacctcagcatata Alignment from Spaln_nt2Genome cccacttctagtgggttcactcacccttctgcttggattacagctatgaggctttccggcaactgtcccaccgcttccatggaaagggctcaggcaagatgaaaactgagcggtggatgaagaagctggatgaggaggcagttcgtcttgaagccaggtggccaatctccatacacctcagcatata Alignment from Pairagon GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG cccacttctagtgggttcactcacccttctgcttggattacagctatgagGCTTTCCGGCAACTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAAACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCAgttcgtcttgaagccaggtggccaatctccatacacctcagcatata Alignment from Exonerate_protein2genome cccacttctagtgggttcactcacccttctgcttggattacagctatgaggctttccggcaactgtcccaccgcttccatggaaagggctcaggcaagatgaaaactgagcggtggatgaagaagctggatgaggaggcagttcgtcttgaagccaggtggccaatctccatacacctcagcatata Alignment from Exonerate_coding2genome cccacttctagtgggttcactcacccttctgcttggattacagctatgaggctttccggcaactgtcccaccgcttccatggaaagggctcaggcaagatgaaaactgagcggtggatgaagaagctggatgaggaggcagttcgtcttgaagccaggtggccaatctccatacacctcagcatata Alignment from GeneWise GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG cccacttctagtgggttcactcacccttctgcttggattacagctatgagGCTTTCCGGCAACTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAAACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCAgttcgtcttgaagccaggtggccaatctccatacacctcagcatata #### Sart1_ID958_17 --> 1 - 0 Original Alignment g---------------------------GCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAGGAG gatgcaagaagtcttcagaggacctgatacccctttgtatgtgtttgcaggAATTCCTCAGAGGTTGAAGACTGTAATGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACCCAGGACTTTAAGGAGAGAGACGGGTATAAGCCTGACGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACTCCCAAAAAGgtgagttgagactctggaaataatcaatccacttgcaacagtgtatggga Alignment from CESAR g---------------------------GCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAGGAG gatgcaagaagtcttcagaggacctgatacccctttgtatgtgtttgcaggAATTCCTCAGAGGTTGAAGACTGTAATGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACCCAGGACTTTAAGGAGAGAGACGGGTATAAGCCTGACGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACTCCCAAAAAGgtgagttgagactctggaaataatcaatccacttgcaacagtgtatggga Alignment from Spaln_aa2Genome G---------------------------GCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAGGAG gatgcaagaagtcttcagaggacctgatacccctttgtatgtgtttgcagGAATTCCTCAGAGGTTGAAGACTGTAATGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACCCAGGACTTTAAGGAGAGAGACGGGTATAAGCCTGACGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACTCCCAAAAAGgtgagttgagactctggaaataatcaatccacttgcaacagtgtatggga Alignment from Spaln_nt2Genome GGCCATTGAT-------GACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAGGAG gatgcaagaagtcttcagaggacctgatacccctttgtatgtgtttgcaggaattcctcagaggttgaagACTGTAATGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACCCAGGACTTTAAGGAGAGAGACGGGTATAAGCCTGACGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACTCCCAAAAAGgtgagttgagactctggaaataatcaatccacttgcaacagtgtatggga Alignment from Pairagon G---------------------------GCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAGGAG gatgcaagaagtcttcagaggacctgatacccctttgtatgtgtttgcagGAATTCCTCAGAGGTTGAAGACTGTAATGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACCCAGGACTTTAAGGAGAGAGACGGGTATAAGCCTGACGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACTCCCAAAAAGgtgagttgagactctggaaataatcaatccacttgcaacagtgtatggga Alignment from Exonerate_protein2genome GGCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAGGAG gatgcaagaagtcttcagaggacctgatacccctttgtatgtgtttgcaggaattcctcagaggttgaagactgtaaTGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACCCAGGACTTTAAGGAGAGAGACGGGTATAAGCCTGACGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACTCCCAAAAAGgtgagttgagactctggaaataatcaatccacttgcaacagtgtatggga Alignment from Exonerate_coding2genome GGCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAGGAG gatgcaagaagtcttcagaggacctgatacccctttgtatgtgtttgcaggaattcctcagaggttgaagactgtaaTGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACCCAGGACTTTAAGGAGAGAGACGGGTATAAGCCTGACGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACTCCCAAAAAGgtgagttgagactctggaaataatcaatccacttgcaacagtgtatggga Alignment from GeneWise -------------------------ATGGCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAGGAG gatgcaagaagtcttcagaggacctgatacccctttgtatgtgtttgcagGAATTCCTCAGAGGTTGAAGACTGTAATGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACCCAGGACTTTAAGGAGAGAGACGGGTATAAGCCTGACGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACTCCCAAAAAGgtgagttgagactctggaaataatcaatccacttgcaacagtgtatggga #### Sart1_ID959_16 --> 2 - 2 Original Alignment ga---------------------CTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGat agggctcaagaatttcctgttcccaggacttctgctcttgtcgccggtaggaTCTATTATTAGCAGAAGATTTCTGCTAGAAACCACAGTACAAAAGGTTGCCTGGGTGGAGGCTCCCAATAGGACCTTGCCTTCAGCAGTGTACTGCATAGAGGATAAGatgtacgttttatcaaggcaaaatgccatagtaactgctatgaacatgggga Alignment from CESAR ga---------------------CTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGat agggctcaagaatttcctgttcccaggacttctgctcttgtcgccggtaggaTCTATTATTAGCAGAAGATTTCTGCTAGAAACCACAGTACAAAAGGTTGCCTGGGTGGAGGCTCCCAATAGGACCTTGCCTTCAGCAGTGTACTGCATAGAGGATAAGatgtacgttttatcaaggcaaaatgccatagtaactgctatgaacatgggga Alignment from Spaln_aa2Genome -AAAGGACTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT agggctcaagaatttcctgttcccaggacttctgctcttgtcgccggtaggatctattattagcagAAGATTTCTGCTAGAAACCACAGTACAAAAGGTTGCCTGGGTGGAGGCTCCCAATAGGACCTTGCCTTCAGCAGTGTACTGCATAGAGGATAAGATgtacgttttatcaaggcaaaatgccatagtaactgctatgaacatgggga Alignment from Spaln_nt2Genome GACTGCTGGAGACCA-----CAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT agggctcaagaatttcctgttcccaggacttctgctcttgtcgccggtaggatctattattagcagAAGATTTCTGCTAGAAACCACAGTACAAAAGGTTGCCTGGGTGGAGGCTCCCAATAGGACCTTGCCTTCAGCAGTGTACTGCATAGAGGATAAGATgtacgttttatcaaggcaaaatgccatagtaactgctatgaacatgggga Alignment from Pairagon GA---------------------------------------------CTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT agggctcaagaatttcctgttcccagGACTTCTGCTCTTGTCGCCGGTAGGATCTATTATTAGCAGAAGATTTCTGCTAGAAACCACAGTACAAAAGGTTGCCTGGGTGGAGGCTCCCAATAGGACCTTGCCTTCAGCAGTGTACTGCATAGAGGATAAGATgtacgttttatcaaggcaaaatgccatagtaactgctatgaacatgggga Alignment from Exonerate_protein2genome GA-----CTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT agggctcaagaatttcctgttcccaggacttctgctcttgtcgccggtaggatctattattagcagAAGATTTCTGCTAGAAACCACAGTACAAAAGGTTGCCTGGGTGGAGGCTCCCAATAGGACCTTGCCTTCAGCAGTGTACTGCATAGAGGATAAGATgtacgttttatcaaggcaaaatgccatagtaactgctatgaacatgggga Alignment from Exonerate_coding2genome GA-----CTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT agggctcaagaatttcctgttcccaggacttctgctcttgtcgccggtaggatctattattagcagAAGATTTCTGCTAGAAACCACAGTACAAAAGGTTGCCTGGGTGGAGGCTCCCAATAGGACCTTGCCTTCAGCAGTGTACTGCATAGAGGATAAGATgtacgttttatcaaggcaaaatgccatagtaactgctatgaacatgggga Alignment from GeneWise ----CTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT agggctcaagaatttcctgttcccaggacttctgctcttgtcgccggtaggatctattattagcagaagATTTCTGCTAGAAACCACAGTACAAAAGGTTGCCTGGGTGGAGGCTCCCAATAGGACCTTGCCTTCAGCAGTGTACTGCATAGAGGATAAGATgtacgttttatcaaggcaaaatgccatagtaactgctatgaacatgggga #### Sart1_ID960_15 --> 0 - 1 Original Alignment ---TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAg tggcagggggatatggggccaccttttccttaactttatcttccacccagTACTTCTCTGCTTCTTCTACGACTATCTTGGATGAGGAGCCCATTGTGAACCGAGGGCTAGCTGCTGCCCTGCTCCTATGTCAGAACAGAggtgagagtttgggggggctgctattgcagttgtatattttatctatcatg Alignment from CESAR ---TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAg tggcagggggatatggggccaccttttccttaactttatcttccacccagTACTTCTCTGCTTCTTCTACGACTATCTTGGATGAGGAGCCCATTGTGAACCGAGGGCTAGCTGCTGCCCTGCTCCTATGTCAGAACAGAggtgagagtttgggggggctgctattgcagttgtatattttatctatcatg Alignment from Spaln_aa2Genome CAGGATTTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAG tggcagggggatatggggccaccttttccttaactttatcttccacccagTAC---TTCTCTGCTTCTTCTACGACTATCTTGGATGAGGAGCCCATTGTGAACCGAGGGCTAGCTGCTGCCCTGCTCCTATGTCAGAACAGAGgtgagagtttgggggggctgctattgcagttgtatattttatctatcatg Alignment from Spaln_nt2Genome CAGGATTTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAG tggcagggggatatggggccaccttttccttaactttatcttccacccag---TACTTCTCTGCTTCTTCTACGACTATCTTGGATGAGGAGCCCATTGTGAACCGAGGGCTAGCTGCTGCCCTGCTCCTATGTCAGAACAGAGgtgagagtttgggggggctgctattgcagttgtatattttatctatcatg Alignment from Pairagon ---TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAG tggcagggggatatggggccaccttttccttaactttatcttccacccagTACTTCTCTGCTTCTTCTACGACTATCTTGGATGAGGAGCCCATTGTGAACCGAGGGCTAGCTGCTGCCCTGCTCCTATGTCAGAACAGAGgtgagagtttgggggggctgctattgcagttgtatattttatctatcatg Alignment from Exonerate_protein2genome CAGGATTTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAG tggcagggggatatggggccaccttttccttaactttatcttccaccCAGTACTTCTCTGCTTCTTCTACGACTATCTTGGATGAGGAGCCCATTGTGAACCGAGGGCTAGCTGCTGCCCTGCTCCTATGTCAGAACAGAGgtgagagtttgggggggctgctattgcagttgtatattttatctatcatg Alignment from Exonerate_coding2genome CAGGATTTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAG tggcagggggatatggggccaccttttccttaactttatcttccaccCAGTACTTCTCTGCTTCTTCTACGACTATCTTGGATGAGGAGCCCATTGTGAACCGAGGGCTAGCTGCTGCCCTGCTCCTATGTCAGAACAGAGgtgagagtttgggggggctgctattgcagttgtatattttatctatcatg Alignment from GeneWise ---TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAG tggcagggggatatggggccaccttttccttaactttatcttccacccagTACTTCTCTGCTTCTTCTACGACTATCTTGGATGAGGAGCCCATTGTGAACCGAGGGCTAGCTGCTGCCCTGCTCCTATGTCAGAACAGAGgtgagagtttgggggggctgctattgcagttgtatattttatctatcatg #### Sart1_ID964_11 --> 1 - 1 Original Alignment gCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAg gaaattcaaaagacataatttacacggacctttcctcctctctcccccagg---CGGGGCCGGGGTAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGACCTCGTGGCCAAACCACCTCCATCAGATGACACTCGAGTC------ATGGACATCAGCGATGAAggtaacttgttgagtaataggggccggggtaaatctgcaggcaagggtatc Alignment from CESAR gCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAg ggagaaattcaaaagacataatttaggacctttcctcctctctcccccagg---CGGGGCCGGGGTAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGACCTCGTGGCCAAACCACCTCCATCAGATGACACTCGAGTC------ATGGACATCAGCGATGAAggtaacttgttgagtaataggggccggggtaaatctgcaggcaagggtatc Alignment from Spaln_aa2Genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAG gaaattcaaaagacataatttacacggacctttcctcctctctcccccagG---CGGGGCCGGGGTAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGACCTCGTGGCCAAACCACCTCCATCAGATGACACTCGAGTC------ATGGACATCAGCGATGAAGgtaacttgttgagtaataggggccggggtaaatctgcaggcaagggtatc Alignment from Spaln_nt2Genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAG gaaattcaaaagacataatttacacggacctttcctcctctctcccccagG---CGGGGCCGGGGTAGGCACCAAGTTCC------CAAGGAGGAGACACTTGAGGATGAGGAGAAGGACCTCGTGGCCAAACCACCTCCATCAGATGACACTCGAGT------CATGGACATCAGCGATGAAGgtaacttgttgagtaataggggccggggtaaatctgcaggcaagggtatc Alignment from Pairagon GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAG gaaattcaaaagacataatttacacggacctttcctcctctctcccccagG---CGGGGCCGGGGTAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGACCTCGTGGCCAAACCACCTCCATCAGATGACACTCGAGT------CATGGACATCAGCGATGAAGgtaacttgttgagtaataggggccggggtaaatctgcaggcaagggtatc Alignment from Exonerate_protein2genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAG gaaattcaaaagacataatttacacggacctttcctcctctctcccccagG---CGGGGCCGGGGTAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGACCTCGTGGCCAAACCACCTCCATCAGATGACACTCGAGTC------ATGGACATCAGCGATGAAGgtaacttgttgagtaataggggccggggtaaatctgcaggcaagggtatc Alignment from Exonerate_coding2genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAG gaaattcaaaagacataatttacacggacctttcctcctctctcccccagG---CGGGGCCGGGGTAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGACCTCGTGGCCAAACCACCTCCATCAGATGACACTCGAGTC------ATGGACATCAGCGATGAAGgtaacttgttgagtaataggggccggggtaaatctgcaggcaagggtatc Alignment from GeneWise GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAG gaaattcaaaagacataatttacacggacctttcctcctctctcccccagG---CGGGGCCGGGGTAGGCACCAAGTTCCCAAG------GAGGAGACACTTGAGGATGAGGAGAAGGACCTCGTGGCCAAACCACCTCCATCAGATGACACTCGAGTC------ATGGACATCAGCGATGAAGgtaacttgttgagtaataggggccggggtaaatctgcaggcaagggtatc #### Sart1_ID967_8 --> 2 - 0 Original Alignment ggGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG CAAA gatgcttaagggtagaacatgattgttgcacttgtcctcccaccctgcaggg---CTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCTGATCAAAATGTGGAGCTTCGGAAAGAGAAGGCTGATTACCTGAGCTATGTGGAAGATGAGGGTGTGGATGACTTAGCACAGgtgagcctagtaagtctgagagaatttttatttatgcttgctgtagCAAA Alignment from CESAR ggGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG CAAA tgggatgcttaagggtagaacatgattgcacttgtcctcccaccctgcaggg---CTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCTGATCAAAATGTGGAGCTTCGGAAAGAGAAGGCTGATTACCTGAGCTATGTGGAAGATGAGGGTGTGGATGACTTAGCACAGgtgagcctagtaagtctgagagaaaagccttcttcttccttcttagCAAA Alignment from Spaln_aa2Genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG CAAA gatgcttaagggtagaacatgattgttgcacttgtcctcccaccctgcagGG---CTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCTGATCAAAATGTGGAGCTTCGGAAAGAGAAGGCTGATTACCTGAGCTATGTGGAAGATGAGGGTGTGGATGACTTAGCACAGgtgagcctagtaagtctgagagaatttttatttatgcttgctgtagCAAA Alignment from Spaln_nt2Genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG CAAA gatgcttaagggtagaacatgattgttgcacttgtcctcccaccctgcagGG---CTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCTGATCAAAATGTGGAGCTTCGGAAAGAGAAGGCTGATTACCTGAGCTATGTGGAAGATGAGGGTGTGGATGACTTAGCACAGgtgagcctagtaagtctgagagaatttttatttatgcttgctgtagCAAA Alignment from Pairagon GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG CAAA gatgcttaagggtagaacatgattgttgcacttgtcctcccaccctgcagGG---CTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCTGATCAAAATGTGGAGCTTCGGAAAGAGAAGGCTGATTACCTGAGCTATGTGGAAGATGAGGGTGTGGATGACTTAGCACAGgtgagcctagtaagtctgagagaatttttatttatgcttgctgtagCAAA Alignment from Exonerate_protein2genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG CAAA gatgcttaagggtagaacatgattgttgcacttgtcctcccaccctgcagGG---CTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCTGATCAAAATGTGGAGCTTCGGAAAGAGAAGGCTGATTACCTGAGCTATGTGGAAGATGAGGGTGTGGATGACTTAGCACAGgtgagcctagtaagtctgagagaatttttatttatgcttgctgtagCAAA Alignment from Exonerate_coding2genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG CAAA gatgcttaagggtagaacatgattgttgcacttgtcctcccaccctgcagGG---CTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCTGATCAAAATGTGGAGCTTCGGAAAGAGAAGGCTGATTACCTGAGCTATGTGGAAGATGAGGGTGTGGATGACTTAGCACAGgtgagcctagtaagtctgagagaatttttatttatgcttgctgtagCAAA Alignment from GeneWise GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG CAAA gatgcttaagggtagaacatgattgttgcacttgtcctcccaccctgcagGG---CTCCAGGATGGAGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCTGATCAAAATGTGGAGCTTCGGAAAGAGAAGGCTGATTACCTGAGCTATGTGGAAGATGAGGGTGTGGATGACTTAGCACAGgtgagcctagtaagtctgagagaatttttatttatgcttgctgtagCAAA #### Sec31b_ID9030_22 --> 0 - 0 Original Alignment ---------CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG tggttagttgtttagatggttgtccctgttttatttttgttttattttagACTTCAACTCTGCCTGAGGCATTCATGACTCCAGCACCAACTACAGCCCCACTTAGAAGCCCTGGGCCGGACTCACAACAGGCCCTGCTATCAAAACCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCTCCAAGAGAATGCAGCTTGCAAgtacgagactgtctgcccctgccctgatgccacaaaaaggttggggttac Alignment from CESAR ---------CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG tggttagttgtttagatggttgtccctgttttatttttgttttattttagACTTCAACTCTGCCTGAGGCATTCATGACTCCAGCACCAACTACAGCCCCACTTAGAAGCCCTGGGCCGGACTCACAACAGGCCCTGCTATCAAAACCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCTCCAAGAGAATGCAGCTTGCAAgtacgagactgtctgcccctgccctgatgccacaaaaaggttggggttac Alignment from Spaln_aa2Genome ---------CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCA tggttagttgtttagatggttgtccctgttttatttttgttttattttagACTTCAACTCTGCCTGAGGCATTCATGACTCCAGCACCAACTACAGCCCCACTTAGAAGCCCTGGGCCGGACTCACAACAGGCCCTGCTATCAAAACCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCTCCAAGAGAATGCAGCTTGCAAgtacgagactgtctgcccctgccctgatgccacaaaaaggttggggttac Alignment from Spaln_nt2Genome ---------CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG tggttagttgtttagatggttgtccctgttttatttttgttttattttagACTTCAACTCTGCCTGAGGCATTCATGACTCCAGCACCAACTACAGCCCCACTTAGAAGCCCTGGGCCGGACTCACAACAGGCCCTGCTATCAAAACCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCTCCAAGAGAATGCAGCTTGCAAgtacgagactgtctgcccctgccctgatgccacaaaaaggttggggttac Alignment from Pairagon ---------CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG tggttagttgtttagatggttgtccctgttttatttttgttttattttagACTTCAACTCTGCCTGAGGCATTCATGACTCCAGCACCAACTACAGCCCCACTTAGAAGCCCTGGGCCGGACTCACAACAGGCCCTGCTATCAAAACCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCTCCAAGAGAATGCAGCTTGCAAgtacgagactgtctgcccctgccctgatgccacaaaaaggttggggttac Alignment from Exonerate_protein2genome CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG tggttagttgtttagatggttgtccctgttttatttttgttttattttagacttcaactCTGCCTGAGGCATTCATGACTCCAGCACCAACTACAGCCCCACTTAGAAGCCCTGGGCCGGACTCACAACAGGCCCTGCTATCAAAACCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCTCCAAGAGAATGCAGCTTGCAAgtacgagactgtctgcccctgccctgatgccacaaaaaggttggggttac Alignment from Exonerate_coding2genome CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG tggttagttgtttagatggttgtccctgttttatttttgttttattttagacttcaactCTGCCTGAGGCATTCATGACTCCAGCACCAACTACAGCCCCACTTAGAAGCCCTGGGCCGGACTCACAACAGGCCCTGCTATCAAAACCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCTCCAAGAGAATGCAGCTTGCAAgtacgagactgtctgcccctgccctgatgccacaaaaaggttggggttac Alignment from GeneWise ---------CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG tggttagttgtttagatggttgtccctgttttatttttgttttattttagACTTCAACTCTGCCTGAGGCATTCATGACTCCAGCACCAACTACAGCCCCACTTAGAAGCCCTGGGCCGGACTCACAACAGGCCCTGCTATCAAAACCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCTCCAAGAGAATGCAGCTTGCAAgtacgagactgtctgcccctgccctgatgccacaaaaaggttggggttac #### Sec31b_ID9031_21 --> 2 - 0 Original Alignment gaCCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAACCTCCAAAGGAAAAAG------ agattgttaaagttgttaatgcctagaataatgggttcacctctcaccaggaCCCCAAGACTCATGGAAAGTCTCCCCTGCCTCCCAGGGAAACCTTCAAAGGAAGAAAAATTCCgtggcggccattccataaccattaacctattccaaccccatcttcttaca Alignment from CESAR gaCCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAACCTCCAAAGGAAAAAG------ agattgttaaagttgttaatgcctagaataatgggttcacctctcaccaggaCCCCAAGACTCATGGAAAGTCTCCCCTGCCTCCCAGGGAAACCTTCAAAGGAAGAAAAATTCCgtggcggccattccataaccattaacctattccaaccccatcttcttaca Alignment from Spaln_aa2Genome GACCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAACCTCCAAAGGAAAAAG------ agattgttaaagttgttaatgcctagaataatgggttcacctctcaccagGACCCCAAGACTCATGGAAAGTCTCCCCTGCCTCCCAGGGAAACCTTCAAAGGAAGAAAAATTCCgtggcggccattccataaccattaacctattccaaccccatcttcttaca Alignment from Spaln_nt2Genome GACCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAACCTCCAAAGGAAAAAG------ agattgttaaagttgttaatgcctagaataatgggttcacctctcaccagGACCCCAAGACTCATGGAAAGTCTCCCCTGCCTCCCAGGGAAACCTTCAAAGGAAGAAAAATTCCgtggcggccattccataaccattaacctattccaaccccatcttcttaca Alignment from Pairagon GACCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAACCTCCAAAGGAAAAAG------ agattgttaaagttgttaatgcctagaataatgggttcacctctcaccagGACCCCAAGACTCATGGAAAGTCTCCCCTGCCTCCCAGGGAAACCTTCAAAGGAAGAAAAATTCCgtggcggccattccataaccattaacctattccaaccccatcttcttaca Alignment from Exonerate_protein2genome GACCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAACCTCCAAAGGAAAAAG agattgttaaagttgttaatgcctagaataatgggttcacctctcaccagGACCCCAAGACTCATGGAAAGTCTCCCCTGCCTCCCAGGGAAACCTTCAAAGG---AAGaaaaattccgtggcggccattccataaccattaacctattccaaccccatcttcttaca Alignment from Exonerate_coding2genome GACCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAACCTCCAAAGGAAAAAG agattgttaaagttgttaatgcctagaataatgggttcacctctcaccagGACCCCAAGACTCATGGAAAGTCTCCCCTGCCTCCCAGGGAAACCTTCAAAGG---AAGaaaaattccgtggcggccattccataaccattaacctattccaaccccatcttcttaca Alignment from GeneWise GACCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAACCTCCAAAGGAAAAAG------ agattgttaaagttgttaatgcctagaataatgggttcacctctcaccagGACCCCAAGACTCATGGAAAGTCTCCCCTGCCTCCCAGGGAAACCTTCAAAGGAAGAAAAATTCCgtggcggccattccataaccattaacctattccaaccccatcttcttaca #### Sec31b_ID9037_15 --> 0 - 1 Original Alignment CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTg tttccatgctatgcaccagcctgagggtagcagaaagttttattttgcagTTCCTGGCCTGTGTTATAAAAAAGAATTGGAAAGACCTTGTGTGTGCATTTCGCCTG---AACTGGAGAGAGACACTGGCCTTGCTACTAACATATTCAGGGCCAGAAAAGTTCCCTGAACTT---ggtgagtactgtgagattaacatgattcattgtactgatgccaagtagagg Alignment from CESAR CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTg tttccatgctatgcaccagcctgagggtagcagaaagttttattttgcagTTCCTGGCCTGTGTTATAAAAAAGAATTGGAAAGACCTTGTGTGTGCATTTCGCCTG---AACTGGAGAGAGACACTGGCCTTGCTACTAACATATTCAGGGCCAGAAAAGTTCCCTGAACTT---ggtgagtactgtgagattaacatgattcattgtactgatgccaagtagagg Alignment from Spaln_aa2Genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG tttccatgctatgcaccagcctgagggtagcagaaagttttattttgcagTTCCTGGCCTGTGTTATAAAAAAGAATTGGAAAGACCTTGTGTGTGCATTTCGCCTG---AACTGGAGAGAGACACTGGCCTTGCTACTAACATATTCAGGGCCAGAAAAGTTCCCTGAACTT---Ggtgagtactgtgagattaacatgattcattgtactgatgccaagtagagg Alignment from Spaln_nt2Genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG tttccatgctatgcaccagcctgagggtagcagaaagttttattttgcagTTCCTGGCCTGTGTTATAAAAAAGAATTGGAAAGACCTTGTGTGTGCATTTCGCCT---GAACTGGAGAGAGACACTGGCCTTGCTACTAACATATTCAGGGCCAGAAAAGTTCCCTGAACT---TGgtgagtactgtgagattaacatgattcattgtactgatgccaagtagagg Alignment from Pairagon CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG tttccatgctatgcaccagcctgagggtagcagaaagttttattttgcagTTCCTGGCCTGTGTTATAAAAAAGAATTGGAAAGACCTTGTGTGTGCATTTCGCCT---GAACTGGAGAGAGACACTGGCCTTGCTACTAACATATTCAGGGCCAGAAAAGTTCCCTGAACT---TGgtgagtactgtgagattaacatgattcattgtactgatgccaagtagagg Alignment from Exonerate_protein2genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG tttccatgctatgcaccagcctgagggtagcagaaagttttattttgcagTTCCTGGCCTGTGTTATAAAAAAGAATTGGAAAGACCTTGTGTGTGCATTTCGCCTG---AACTGGAGAGAGACACTGGCCTTGCTACTAACATATTCAGGGCCAGAAAAGTTCCCTGAACTT---Ggtgagtactgtgagattaacatgattcattgtactgatgccaagtagagg Alignment from Exonerate_coding2genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG tttccatgctatgcaccagcctgagggtagcagaaagttttattttgcagTTCCTGGCCTGTGTTATAAAAAAGAATTGGAAAGACCTTGTGTGTGCATTTCGCCTG---AACTGGAGAGAGACACTGGCCTTGCTACTAACATATTCAGGGCCAGAAAAGTTCCCTGAACTT---Ggtgagtactgtgagattaacatgattcattgtactgatgccaagtagagg Alignment from GeneWise CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCT tttccatgctatgcaccagcctgagggtagcagaaagttttattttgcagTTCCTGGCCTGTGTTATAAAAAAGAATTGGAAAGACCTTGTGTGTGCATTTCGCCTG---AACTGGAGAGAGACACTGGCCTTGCTACTAACATATTCAGGGCCAGAAAAGTTCCCTGAACTTGgtgagtactgtgagattaacatgattcattgtactgatgccaagtagagg #### Sec31b_ID9038_14 --> 2 - 0 Original Alignment acACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG tgatttcaggaagcaactgggtgagtgtccctgttctcctctgctttcagatACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAACGATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAATGGACCCAAGAGCGGTAT------------------------------gtatgtcctgtcatccataattgtggagagattacattcttttcctcccc Alignment from CESAR acACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG tgatttcaggaagcaactgggtgagtgtccctgttctcctctgctttcagatACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAACGATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAATGGACCCAAGAGCGGTAT------------------------------gtatgtcctgtcatccataa Alignment from Spaln_aa2Genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG tgatttcaggaagcaactgggtgagtgtccctgttctcctctgctttcagATACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAACGATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAATGGACCCAAGAGCGGTATGTATGTCCTGTCATCCATAATTGTGGAGAGattacattcttttcctcccc Alignment from Spaln_nt2Genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACG tgatttcaggaagcaactgggtgagtgtccctgttctcctctgctttcagATACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAACGATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAATGGACCCAAGAGCGgtatgtatgtcctgtcatccataattgtggagagattacattcttttcctcccc Alignment from Pairagon ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACG tgatttcaggaagcaactgggtgagtgtccctgttctcctctgctttcagATACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAACGATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAATGGACCCAAGAGCGgtatgtatgtcctgtcatccataattgtggagagattacattcttttcctcccc Alignment from Exonerate_protein2genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG tgatttcaggaagcaactgggtgagtgtccctgttctcctctgctttcagATACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAACGATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAATGGACCCAAGAGCGGTATGTATGTCCTGTCATCCATAATTGTGGAGAGattacattcttttcctcccc Alignment from Exonerate_coding2genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG tgatttcaggaagcaactgggtgagtgtccctgttctcctctgctttcagATACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAACGATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAATGGACCCAAGAGCGGTATGTATGTCCTGTCATCCATAATTGTGGAGAGattacattcttttcctcccc Alignment from GeneWise ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG tgatttcaggaagcaactgggtgagtgtccctgttctcctctgctttcagATACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAACGATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAATGGACCCAAGAGCGGTATGTATGT---------------------CCTgtcatccataattgtggaga #### Sec31b_ID9040_12 --> 0 - 0 Original Alignment GTGGACACTTGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGACCTCAAAAGTGACAGAGCACACAGCCCTTGCGCCCAG cttgggtgatccagctggttaacagtgccccttctgcacttctttttaag---------TGCCTAAAAAGTGACTCAAAATCACAGGAGAGCCCTCAGCTTGAGGCAGTTGACCTCAAAAGTGACAGAGCACATAGCCCTTGTGCTCAGgtgggtttgaagtccttgcttcttgcttttgggagccaacatgttcccta Alignment from CESAR GTGGACACTTGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGACCTCAAAAGTGACAGAGCACACAGCCCTTGCGCCCAG cgcaggccacttgggtgatccagcttgccccttctgcacttctttttaag---------TGCCTAAAAAGTGACTCAAAATCACAGGAGAGCCCTCAGCTTGAGGCAGTTGACCTCAAAAGTGACAGAGCACATAGCCCTTGTGCTCAGgtgggtttgaagtccttgcttcttgcttttgggagccaacatgttcccta Alignment from Spaln_aa2Genome GTGGACACTTGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGACCTCAAAAGTGACAGAGCACACAGCCCTTGCGCCCAG cttgggtgatccagctggttaacagtgccccttctgcacttctttttaag---------TGCCTAAAAAGTGACTCAAAATCACAGGAGAGCCCTCAGCTTGAGGCAGTTGACCTCAAAAGTGACAGAGCACATAGCCCTTGTGCTCAGgtgggtttgaagtccttgcttcttgcttttgggagccaacatgttcccta Alignment from Spaln_nt2Genome TGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGACCTCAAAAGTGACAGAGCACACAGCCCTTGCGCCCAG cttgggtgatccagctggttaacagtgccccttctgcacttctttttaagTGCCTAAAAAGTGACTCAAAATCACAGGAGAGCCCTCAGCTTGAGGCAGTTGACCTCAAAAGTGACAGAGCACATAGCCCTTGTGCTCAGgtgggtttgaagtccttgcttcttgcttttgggagccaacatgttcccta Alignment from Pairagon GTGGACACTTGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGACCTCAAAAGTGACAGAGCACACAGCCCTTGCGCCCAG cttgggtgatccagctggttaacagtgccccttctgcacttctttttaag---------TGCCTAAAAAGTGACTCAAAATCACAGGAGAGCCCTCAGCTTGAGGCAGTTGACCTCAAAAGTGACAGAGCACATAGCCCTTGTGCTCAGgtgggtttgaagtccttgcttcttgcttttgggagccaacatgttcccta Alignment from Exonerate_protein2genome TGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGACCTCAAAAGTGACAGAGCACACAGCCCTTGCGCCCAG cttgggtgatccagctggttaacagtgccccttctgcacttctttttaagTGCCTAAAAAGTGACTCAAAATCACAGGAGAGCCCTCAGCTTGAGGCAGTTGACCTCAAAAGTGACAGAGCACATAGCCCTTGTGCTCAGgtgggtttgaagtccttgcttcttgcttttgggagccaacatgttcccta Alignment from Exonerate_coding2genome TGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGACCTCAAAAGTGACAGAGCACACAGCCCTTGCGCCCAG cttgggtgatccagctggttaacagtgccccttctgcacttctttttaagTGCCTAAAAAGTGACTCAAAATCACAGGAGAGCCCTCAGCTTGAGGCAGTTGACCTCAAAAGTGACAGAGCACATAGCCCTTGTGCTCAGgtgggtttgaagtccttgcttcttgcttttgggagccaacatgttcccta Alignment from GeneWise TGCCTGAAGAGTGACTCAAAATCACAGGAAAGCCCTCAGCTTGAGGCGGTTGACCTCAAAAGTGACAGAGCACACAGCCCTTGCGCCCAG cttgggtgatccagctggttaacagtgccccttctgcacttctttttaagTGCCTAAAAAGTGACTCAAAATCACAGGAGAGCCCTCAGCTTGAGGCAGTTGACCTCAAAAGTGACAGAGCACATAGCCCTTGTGCTCAGgtgggtttgaagtccttgcttcttgcttttgggagccaacatgttcccta #### Sec31b_ID9044_8 --> 0 - 0 Original Alignment ---------GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG ggttagtgcccctgacatgtgttctctatccattccaccttgttcctcagAGTACTATTATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTTTATGTTCTGTGACAGGAAGAAGCTGGGAAGCGCAGCATATGAGGCAGGCTGACGAGgtaggaagcggttgttttaataggggggggacttgcagaaaagtgaactt Alignment from CESAR ---------GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG ggttagtgcccctgacatgtgttctctatccattccaccttgttcctcagAGTACTATTATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTTTATGTTCTGTGACAGGAAGAAGCTGGGAAGCGCAGCATATGAGGCAGGCTGACGAGgtaggaagcggttgttttaataggggggggacttgcagaaaagtgaactt Alignment from Spaln_aa2Genome GTGGTCTACAAG---------CTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG ggttagtgcccctgacatgtgttctctatccattccaccttgttcctcagAGTACTATTATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTTTATGTTCTGTGACAGGAAGAAGCTGGGAAGCGCAGCATATGAGGCAGGCTGACGAGgtaggaagcggttgttttaataggggggggacttgcagaaaagtgaactt Alignment from Spaln_nt2Genome G TGG----------TCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG GgttagtgcccctgacatgtgttctctatccattccaccttgttcctcagAGTACTATTATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTTTATGTTCTGTGACAGGAAGAAGCTGGGAAGCGCAGCATATGAGGCAGGCTGACGAGgtaggaagcggttgttttaataggggggggacttgcagaaaagtgaactt Alignment from Pairagon ------------------------------------------------------------TGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG GGTTAGTGCCCCTGACATGTGTTCTCTATCCATTCCACCTTGTTCCTCAGAGTACTATTATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTTTATGTTCTGTGACAGGAAGAAGCTGGGAAGCGCAGCATATGAGGCAGGCTGACGAGgtaggaagcggttgttttaataggggggggacttgcagaaaagtgaactt Alignment from Exonerate_protein2genome CAGTGAGGTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG ggttagtgcccctgacatgtgttctctatccattccaccttgttcctcagagTACTATTATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTTTATGTTCTGTGACAGGAAGAAGCTGGGAAGCGCAGCATATGAGGCAGGCTGACGAGgtaggaagcggttgttttaataggggggggacttgcagaaaagtgaactt Alignment from Exonerate_coding2genome CAGTGAGGTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG ggttagtgcccctgacatgtgttctctatccattccaccttgttcctcagagTACTATTATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTTTATGTTCTGTGACAGGAAGAAGCTGGGAAGCGCAGCATATGAGGCAGGCTGACGAGgtaggaagcggttgttttaataggggggggacttgcagaaaagtgaactt Alignment from GeneWise ---------GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG ggttagtgcccctgacatgtgttctctatccattccaccttgttcctcagAGTACTATTATAATCTACAAGTTGCCCACACAGAGCAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTTTCTGCTGTCTCTTTTGATGGCTGGATCAGTTTATGTTCTGTGACAGGAAGAAGCTGGGAAGCGCAGCATATGAGGCAGGCTGACGAGgtaggaagcggttgttttaataggggggggacttgcagaaaagtgaactt #### Sec31b_ID9047_5 --> 0 - 0 Original Alignment AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGCAGCAGG--- tcttggtgggacaatatggacagtatcctggctccttcctccatcggcagAACCCCCCAGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAACCCATCATAAAGGTCTGTAGTCACAGTAGTAGGGAGgtgagtaatggttgagcaaatacagtaatcagccgtcaaagttacagaaa Alignment from CESAR AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGCAGCAGG--- tcttggtgggacaatatggacagtatcctggctccttcctccatcggcagAACCCCCCAGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAACCCATCATAAAGGTCTGTAGTCACAGTAGTAGGGAGgtgagtaatggttgagcaaatacagtaatcagccgtcaaagttacagaaa Alignment from Spaln_aa2Genome AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGCAGCAGG--- tcttggtgggacaatatggacagtatcctggctccttcctccatcggcagAACCCCCCAGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAACCCATCATAAAGGTCTGTAGTCACAGTAGTAGGGAGgtgagtaatggttgagcaaatacagtaatcagccgtcaaagttacagaaa Alignment from Spaln_nt2Genome AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGCAGCAGG--- tcttggtgggacaatatggacagtatcctggctccttcctccatcggcagAACCCCCCAGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAACCCATCATAAAGGTCTGTAGTCACAGTAGTAGGGAGgtgagtaatggttgagcaaatacagtaatcagccgtcaaagttacagaaa Alignment from Pairagon AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGCAGCAGG--- tcttggtgggacaatatggacagtatcctggctccttcctccatcggcagAACCCCCCAGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAACCCATCATAAAGGTCTGTAGTCACAGTAGTAGGGAGgtgagtaatggttgagcaaatacagtaatcagccgtcaaagttacagaaa Alignment from Exonerate_protein2genome AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGCAGCAGG--- tcttggtgggacaatatggacagtatcctggctccttcctccatcggcagAACCCCCCAGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAACCCATCATAAAGGTCTGTAGTCACAGTAGTAGGGAGgtgagtaatggttgagcaaatacagtaatcagccgtcaaagttacagaaa Alignment from Exonerate_coding2genome AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGCAGCAGG--- tcttggtgggacaatatggacagtatcctggctccttcctccatcggcagAACCCCCCAGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAACCCATCATAAAGGTCTGTAGTCACAGTAGTAGGGAGgtgagtaatggttgagcaaatacagtaatcagccgtcaaagttacagaaa Alignment from GeneWise AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGCAGCAGGATG tcttggtgggacaatatggacagtatcctggctccttcctccatcggcagAACCCCCCAGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAACCCATCATAAAGGTCTGTAGTCACAGTAGTAGGGAGgtgagtaatggttgagcaaatacagtaatcagccgtcaaagttacagaaa #### Sema4g_ID9251_9 --> 1 - 0 Original Alignment gAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG gggttggaggtattcaaattcctgcccagttttcttttctttgtttccagg---------GAGGCTTCAGCCATCTGCCGATATGACCTGGCAGAGATTCAAGCTGTCTTT---AGCCCTTTTATGGAGTACCAGGATGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACATCAACCCCGACCTGGCTTAgtaagaactccaagtttggaccctacattaatcggacatagggagttggg Alignment from CESAR gAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG cataggtgtgggttggaggtattcaccagttttcttttctttgtttccagg---------GAGGCTTCAGCCATCTGCCGATATGACCTGGCAGAGATTCAAGCTGTCTTT---AGCCCTTTTATGGAGTACCAGGATGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACATCAACCCCGACCTGGCTTAgtaagaactccaagtttggaccctacattaatcggacatagggagttggg Alignment from Spaln_aa2Genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG gggttggaggtattcaaattcctgcccagttttcttttctttgtttccagG---------GAGGCTTCAGCCATCTGCCGATATGACCTGGCAGAGATTCAAGCTGTCTTTAGC---CCTTTTATGGAGTACCAGGATGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACATCAACCCCGACCTGGCTTAgtaagaactccaagtttggaccctacattaatcggacatagggagttggg Alignment from Spaln_nt2Genome CTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG gggttggaggtattcaaattcctgcccagttttcttttctttgtttccag--GGAGGCTTCAGCCATCTGCCGATATGACCTGGCAGAGATTCAAGCTGTCTTTA---GCCCTTTTATGGAGTACCAGGATGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACATCAACCCCGACCTGGCTTAgtaagaactccaagtttggaccctacattaatcggacatagggagttggg Alignment from Pairagon GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG gggttggaggtattcaaattcctgcccagttttcttttctttgtttccag---------GGAGGCTTCAGCCATCTGCCGATATGACCTGGCAGAGATTCAAGCTGTCTTTA---GCCCTTTTATGGAGTACCAGGATGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACATCAACCCCGACCTGGCTTAgtaagaactccaagtttggaccctacattaatcggacatagggagttggg Alignment from Exonerate_protein2genome GGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG gggttggaggtattcaaattcctgcccagttttcttttctttgtttccagGGAGGCTTCAGCCATCTGCCGATATGACCTGGCAGAGATTCAAGCTGTCTTTAGC---CCTTTTATGGAGTACCAGGATGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACATCAACCCCGACCTGGCTTAgtaagaactccaagtttggaccctacattaatcggacatagggagttggg Alignment from Exonerate_coding2genome GGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG gggttggaggtattcaaattcctgcccagttttcttttctttgtttccagGGAGGCTTCAGCCATCTGCCGATATGACCTGGCAGAGATTCAAGCTGTCTTTAGC---CCTTTTATGGAGTACCAGGATGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACATCAACCCCGACCTGGCTTAgtaagaactccaagtttggaccctacattaatcggacatagggagttggg Alignment from GeneWise ----------TGGAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG gggttggaggtattcaaattcctgcccagTTTTCTTTTCTTTGTTTCCAGGGAGGCTTCAGCCATCTGCCGATATGACCTGGCAGAGATTCAAGCTGTCTTTAGC---CCTTTTATGGAGTACCAGGATGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACATCAACCCCGACCTGGCTTAgtaagaactccaagtttggaccctacattaatcggacatagggagttggg #### Sema4g_ID9253_11 --> 2 - 0 Original Alignment ctGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG------ gcacccatcagacgcccagttaaagagttaacccttttcttctctcttagcaGATGGCTGGATTCACAAAGCTGTAGTCCAGGGCTCTGGAATGCACATCATTGAAGAGATACAAGTGCTTAGAGAGCCCCAGTCAGTAGACAATCTAGTGATCTCACCAATGCAAAAGGCCgtacggtagtgttactatggtgagagtcaccagttattttcccacaccta Alignment from CESAR ctGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG------ gcacccatcagacgcccagttaaagagttaacccttttcttctctcttagcaGATGGCTGGATTCACAAAGCTGTAGTCCAGGGCTCTGGAATGCACATCATTGAAGAGATACAAGTGCTTAGAGAGCCCCAGTCAGTAGACAATCTAGTGATCTCACCAATGCAAAAGGCCgtacggtagtgttactatggtgagagtcaccagttattttcccacaccta Alignment from Spaln_aa2Genome CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG--- gcacccatcagacgcccagttaaagagttaacccttttcttctctcttagCAGATGGCTGGATTCACAAAGCTGTAGTCCAGGGCTCTGGAATGCACATCATTGAAGAGATACAAGTGCTTAGAGAGCCCCAGTCAGTAGACAATCTAGTGATCTCACCAATGCAAAAGgccgtacggtagtgttactatggtgagagtcaccagttattttcccacaccta Alignment from Spaln_nt2Genome CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCA---G gcacccatcagacgcccagttaaagagttaacccttttcttctctcttagCAGATGGCTGGATTCACAAAGCTGTAGTCCAGGGCTCTGGAATGCACATCATTGAAGAGATACAAGTGCTTAGAGAGCCCCAGTCAGTAGACAATCTAGTGATCTCACCAATGCAAAAGgccgtacggtagtgttactatggtgagagtcaccagttattttcccacaccta Alignment from Pairagon CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGC---------------------------------------------------------- gcacccatcagacgcccagttaaagagttaacccttttcttctctcttagCAGATGGCTGGATTCACAAAGCTGTAGTCCAGGGCTCTGGAATGCACATCATTGAAGAGATACAAGTGCTTAGAGAGCCCCAGTCAGTAGACAATCTAGTGATCTCACCAATGCAAAAGGCCGTACGGTAGTGTTACTATGGTGAGAGTCACCAGTTATTTTCCCACACCTA Alignment from Exonerate_protein2genome CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG gcacccatcagacgcccagttaaagagttaacccttttcttctctcttagCAGATGGCTGGATTCACAAAGCTGTAGTCCAGGGCTCTGGAATGCACATCATTGAAGAGATACAAGTGCTTAGAGAGCCCCAGTCAGTAGACAATCTAGTGATCTCACCAATGCAAaaggccgtacggtagtgttactatggtgagagtcaccagttattttcccacaccta Alignment from Exonerate_coding2genome CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG gcacccatcagacgcccagttaaagagttaacccttttcttctctcttagCAGATGGCTGGATTCACAAAGCTGTAGTCCAGGGCTCTGGAATGCACATCATTGAAGAGATACAAGTGCTTAGAGAGCCCCAGTCAGTAGACAATCTAGTGATCTCACCAATGCAAaaggccgtacggtagtgttactatggtgagagtcaccagttattttcccacaccta Alignment from GeneWise CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG------ gcacccatcagacgcccagttaaagagttaacccttttcttctctcttagCAGATGGCTGGATTCACAAAGCTGTAGTCCAGGGCTCTGGAATGCACATCATTGAAGAGATACAAGTGCTTAGAGAGCCCCAGTCAGTAGACAATCTAGTGATCTCACCAATGCAAAAGGCCgtacggtagtgttactatggtgagagtcaccagttattttcccacaccta #### Sema4g_ID9254_12 --> 0 - 2 Original Alignment CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAAC---------ag tgggatggctggaaaaacgcaacttgttcctacattcctttccattctagCATAGCCTATACGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTTTCCAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACAGTAGCAAACTTTCCCTCCaggtgagtagacaggatataatagtgcttgttgaggaggaaaccctgcttgc Alignment from CESAR CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAAC---------ag tgggatggctggaaaaacgcaacttgttcctacattcctttccattctagCATAGCCTATACGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTTTCCAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACAGTAGCAAACTTTCCCTCCaggtgagtagacaggatataatagtgcttgttgaggaggaaaccctgcttgc Alignment from Spaln_aa2Genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAGG-------- tgggatggctggaaaaacgcaacttgttcctacattcctttccattctagCATAGCCTATACGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTTTCCAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACAGTAGCAAACTTTCCCTCCAGgtgagtagacaggatataatagtgcttgttgaggaggaaaccctgcttgc Alignment from Spaln_nt2Genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAAC---------AG tgggatggctggaaaaacgcaacttgttcctacattcctttccattctagCATAGCCTATACGTGGGGGCTGCTAGTGGA---ATTCAGTTTCCTCTTTCCAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACAGTAGCAAACTTTCCCTCCAGgtgagtagacaggatataatagtgcttgttgaggaggaaaccctgcttgc Alignment from Pairagon CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAA---------CAG tgggatggctggaaaaacgcaacttgttcctacattcctttccattctagCATAGCCTATACGTGGGGGCTGCTAGTGGAA---TTCAGTTTCCTCTTTCCAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACAGTAGCAAACTTTCCCTCCAGgtgagtagacaggatataatagtgcttgttgaggaggaaaccctgcttgc Alignment from Exonerate_protein2genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAAC---------AG tgggatggctggaaaaacgcaacttgttcctacattcctttccattctagCATAGCCTATACGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTTTCCAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACAGTAGCAAACTTTCCCTCCAGgtgagtagacaggatataatagtgcttgttgaggaggaaaccctgcttgc Alignment from Exonerate_coding2genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAAC---------AG tgggatggctggaaaaacgcaacttgttcctacattcctttccattctagCATAGCCTATACGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTTTCCAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACAGTAGCAAACTTTCCCTCCAGgtgagtagacaggatataatagtgcttgttgaggaggaaaccctgcttgc Alignment from GeneWise CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAAC---------AG tgggatggctggaaaaacgcaacttgttcctacattcctttccattctagCATAGCCTATACGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTTTCCAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACAGTAGCAAACTTTCCCTCCAGgtgagtagacaggatataatagtgcttgttgaggaggaaaccctgcttgc #### Sf1_ID1666_7 --> 0 - 2 Original Alignment ------ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATag agccaaactgccaagttttttgatgaggtataactgtcccctcatctcagGCACTGATCCGAAATATCCTAAAGCAAGGTATCGAAACCCCAGAAGGCCAGAATGATCTACAAAAGATGCAGCTTCGAGAGCTGGCTCACCTGAATGGCACTCTACGGGAGGAA---GCCcggtttgtggaatgttgaagaaactgcatagcaggtttaagttttactgaag Alignment from CESAR ------ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATag agccaaactgccaagttttttgatgaggtataactgtcccctcatctcagGCACTGATCCGAAATATCCTAAAGCAAGGTATCGAAACCCCAGAAGGCCAGAATGATCTACAAAAGATGCAGCTTCGAGAGCTGGCTCACCTGAATGGCACTCTACGGGAG---GAAGCCcggtttgtggaatgttgaagaaactgcatagcaggtttaagttttactgaag Alignment from Spaln_aa2Genome ATCAGAAACATCCTGAAG------CAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG agccaaactgccaagttttttgatgaggtataactgtcccctcatctcagGCACTGATCCGAAATATCCTAAAGCAAGGTATCGAAACCCCAGAAGGCCAGAATGATCTACAAAAGATGCAGCTTCGAGAGCTGGCTCACCTGAATGGCACTCTACGGGAG---GAAGCCCGgtttgtggaatgttgaagaaactgcatagcaggtttaagttttactgaag Alignment from Spaln_nt2Genome GATCAGAAACATCC-----TGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG agccaaactgccaagttttttgatgaggtataactgtcccctcatctcagGCACTGATCCGAAATATCCTAAAGCAAGGTATCGAAACCCCAGAAGGCCAGAATGATCTACAAAAGATGCAGCTTCGAGAGCTGGCTCACCTGAATGGCACTCTACGGGAGGAAG---CCCGgtttgtggaatgttgaagaaactgcatagcaggtttaagttttactgaag Alignment from Pairagon ------ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATG------------------------------------------------------ agccaaactgccaagttttttgatgaggtataactgtcccctcatctcagGCACTGATCCGAAATATCCTAAAGCAAGGTATCGAAACCCCAGAAGGCCAGAATGATCTACAAAAGATGCAGCTTCGAGAGCTGGCTCACCTGAATGGCACTCTACGGGAGGAAGCCCGGTTTGTGGAATGTTGAAGAAACTGCATAGCAGGTTTAAGTTTTACTGAAG Alignment from Exonerate_protein2genome ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAA agccaaactgccaagttttttgatgaggtataactgtcccctcatctcaggcactgATCCGAAATATCCTAAAGCAAGGTATCGAAACCCCAGAAGGCCAGAATGATCTACAAAAGATGCAGCTTCGAGAGCTGGCTCACCTGAATGGCACTCTACGGGAGGAAGCCCGgtttgtggaatgttgaagaaactgcatagcaggtttaagttttactgaag Alignment from Exonerate_coding2genome ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAA agccaaactgccaagttttttgatgaggtataactgtcccctcatctcaggcactgATCCGAAATATCCTAAAGCAAGGTATCGAAACCCCAGAAGGCCAGAATGATCTACAAAAGATGCAGCTTCGAGAGCTGGCTCACCTGAATGGCACTCTACGGGAGGAAGCCCGgtttgtggaatgttgaagaaactgcatagcaggtttaagttttactgaag Alignment from GeneWise ------ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGAT-- agccaaactgccaagttttttgatgaggtataactgtcccctcatctcagGCACTGATCCGAAATATCCTAAAGCAAGGTATCGAAACCCCAGAAGGCCAGAATGATCTACAAAAGATGCAGCTTCGAGAGCTGGCTCACCTGAATGGCACTCTACGGGAGGAAGCCCGgtttgtggaatgttgaagaaactgcatagcaggtttaagttttactgaag #### Sf3b2_ID898_20 --> 0 - 0 Original Alignment GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG ggatcaggccccgatctctaggaccaatccgcgccccaccccacccccag---ATGAGCCAAAAGGGGGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCACTGGCACCTGAAGAATTGGACTTGGATTCCATGGCTACAATGCAGAAGTATGAAGAACATGTTCGGGAAAAACAGGCAAAAGTGGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAAgtactgatgattggtgtattcggcatgggggctattctctctagtgggaa Alignment from CESAR GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGACATG---GTGGCTGAGCATGCTGCTAAGCAGAAG ctgggatcaggccccgatctctaggaatccgcgccccaccccacccccag---ATGAGCCAAAAGGGGGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCACTGGCACCTGAAGAATTGGACTTGGATTCCATGGCTACAATGCAGAAGTATGAAGAACATGTTCGGGAAAAACAGGCAAAAGTGGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAAgtactgatgattggtgtattcggcatgggggctattctctctagtgggaa Alignment from Spaln_aa2Genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG ggatcaggccccgatctctaggaccaatccgcgccccaccccacccccag---ATGAGCCAAAAGGGGGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCACTGGCACCTGAAGAATTGGACTTGGATTCCATGGCTACAATGCAGAAGTATGAAGAACATGTTCGGGAAAAACAGGCAAAAGTGGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAAgtactgatgattggtgtattcggcatgggggctattctctctagtgggaa Alignment from Spaln_nt2Genome ATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGACATG---GTGGCTGAGCATGCTGCTAAGCAGAAG ggatcaggccccgatctctaggaccaatccgcgccccaccccacccccagATGAGCCAAAAGGGGGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCACTGGCACCTGAAGAATTGGACTTGGATTCCATGGCTACAATGCAGAAGTATGAAGAACATGTTCGGGAAAAACAGGCAAAAGTGGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAAgtactgatgattggtgtattcggcatgggggctattctctctagtgggaa Alignment from Pairagon ATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG ggatcaggccccgatctctaggaccaatccgcgccccaccccacccccagATGAGCCAAAAGGGGGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCACTGGCACCTGAAGAATTGGACTTGGATTCCATGGCTACAATGCAGAAGTATGAAGAACATGTTCGGGAAAAACAGGCAAAAGTGGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAAgtactgatgattggtgtattcggcatgggggctattctctctagtgggaa Alignment from Exonerate_protein2genome ATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG ggatcaggccccgatctctaggaccaatccgcgccccaccccacccccagATGAGCCAAAAGGGGGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCACTGGCACCTGAAGAATTGGACTTGGATTCCATGGCTACAATGCAGAAGTATGAAGAACATGTTCGGGAAAAACAGGCAAAAGTGGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAAgtactgatgattggtgtattcggcatgggggctattctctctagtgggaa Alignment from Exonerate_coding2genome ggatcaggccccgatctctaggaccaatccgcgccccaccccacccccagatgagccaaaagggggctgcccctgagttacaaggtgtggaagtagcactggcacctgaagaattggacttggattccatggctacaatgcagaagtatgaagaacatgttcgggaaaaacaggcaaaagtggagaagggagatttcagtgatatgatggtggctgagcatgctgcaaagcataaagtactgatgattggtgtattcggcatgggggctattctctctagtgggaa Alignment from GeneWise GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG ggatcaggccccgatctctaggaccaatccgcgccccaccccacccccagATG---AGCCAAAAGGGGGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCACTGGCACCTGAAGAATTGGACTTGGATTCCATGGCTACAATGCAGAAGTATGAAGAACATGTTCGGGAAAAACAGGCAAAAGTGGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAAgtactgatgattggtgtattcggcatgggggctattctctctagtgggaa #### Sf3b2_ID907_11 --> 0 - 0 Original Alignment GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG atcacatgatgacacctaagtccttcccactattttacttatatttatag---------CCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGAATGAATCGATTTACTGTGGCAGAATTGAAGCAGgtaaggtctgggaaggtcaagccagctactccagttctgttcatcattca Alignment from CESAR GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG tcaggctgcatcacatgatgacacccccactattttacttatatttatag---------CCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGAATGAATCGATTTACTGTGGCAGAATTGAAGCAGgtaaggtctgggaaggtcaagccagctactccagttctgttcatcattca Alignment from Spaln_aa2Genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG atcacatgatgacacctaagtccttcccactattttacttatatttatag---------CCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGAATGAATCGATTTACTGTGGCAGAATTGAAGCAGgtaaggtctgggaaggtcaagccagctactccagttctgttcatcattca Alignment from Spaln_nt2Genome CCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG atcacatgatgacacctaagtccttcccactattttacttatatttatagCCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGAATGAATCGATTTACTGTGGCAGAATTGAAGCAGgtaaggtctgggaaggtcaagccagctactccagttctgttcatcattca Alignment from Pairagon GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG atcacatgatgacacctaagtccttcccactattttacttatatttatag---------CCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGAATGAATCGATTTACTGTGGCAGAATTGAAGCAGgtaaggtctgggaaggtcaagccagctactccagttctgttcatcattca Alignment from Exonerate_protein2genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG atcacatgatgacacctaagtccttcccactattttacttaTATTTATAGCCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGAATGAATCGATTTACTGTGGCAGAATTGAAGCAGgtaaggtctgggaaggtcaagccagctactccagttctgttcatcattca Alignment from Exonerate_coding2genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG atcacatgatgacacctaagtccttcccactattttacttaTATTTATAGCCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGAATGAATCGATTTACTGTGGCAGAATTGAAGCAGgtaaggtctgggaaggtcaagccagctactccagttctgttcatcattca Alignment from GeneWise CCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG atcacatgatgacacctaagtccttcccactattttacttatatttatagCCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGAATGAATCGATTTACTGTGGCAGAATTGAAGCAGgtaaggtctgggaaggtcaagccagctactccagttctgttcatcattca #### Sf3b2_ID909_9 --> 0 - 0 Original Alignment AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG caattggggcattaggatcccagaattactatcatttcttcttatcacagAAAAACCGAAAACATCAAAACCGGAAGAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAAGACTCTGGTCGGTCCCAAGGGTCAGGCCCGCCCACAGGA---ATAGAGATCAAGTATGTGAGTGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTT---gtgtgatgttggctcatgcctcttctgaggacctatatagattaaggggg Alignment from CESAR AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG caattggggcattaggatcccagaattactatcatttcttcttatcacagAAAAACCGAAAACATCAAAACCGGAAGAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAAGACTCTGGTCGGTCCCAAGGGTCAGGCCCGCCCACAGGA---ATAGAGATCAAGTATGTGAGTGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTT---gtgtgatgttggctcatgcctcttctgaggacctatatagattaagg Alignment from Spaln_aa2Genome AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTC caattggggcattaggatcccagaattactatcatttcttcttatcacagAAAAACCGAAAACATCAAAACCGGAAGAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAAGACTCTGGTCGGTCCCAAGGGTCAGGCCCGCCCACAGGA---ATAGAGATCAAGTATGTGAGTGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTTgtgtgatgttggctcatgcctcttctgaggacctatatagattaaggggg Alignment from Spaln_nt2Genome AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAA caattggggcattaggatcccagaattactatcatttcttcttatcacagAAAAACCGAAAACATCAAAACCGGAAGAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAAGACTCTGGTCGGTCCCAAGGGTCAGGCCCGCCCACAG--GA-ATAGAGATCAAGTATGTGAGTGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTTGTgtgatgttggctcatgcctcttctgaggacctatatagattaaggggg Alignment from Pairagon AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTG------------GAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCA------------------------------------------------- caattggggcattaggatcccagaattactatcatttcttcttatcacagAAAAACCGAAAACATCAAAACCGGAAGAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAAGACTCTGGTCGGTCCCAAGGGTCAGGCCC---------------GCCCACAGGAATAGAGATCAAGTATGTGAGTGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTTGTGTGATGTTGGCTCATGCCTCTTCTGAGGACCTATATAGATTAAGGGGG Alignment from Exonerate_protein2genome AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTC caattggggcattaggatcccagaattactatcatttcttcttatcacagAAAAACCGAAAACATCAAAACCGGAAGAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAAGACTCTGGTCGGTCCCAAGGGTCAGGCCCGCCCACAGGA---ATAGAGATCAAGTATGTGAGTGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTTgtgtgatgttggctcatgcctcttctgaggacctatatagattaaggggg Alignment from Exonerate_coding2genome AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTC caattggggcattaggatcccagaattactatcatttcttcttatcacagAAAAACCGAAAACATCAAAACCGGAAGAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAAGACTCTGGTCGGTCCCAAGGGTCAGGCCCGCCCACAGGA---ATAGAGATCAAGTATGTGAGTGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTTgtgtgatgttggctcatgcctcttctgaggacctatatagattaaggggg Alignment from GeneWise AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTC caattggggcattaggatcccagaattactatcatttcttcttatcacagAAAAACCGAAAACATCAAAACCGGAAGAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAAGACTCTGGTCGGTCCCAAGGGTCAGGCCCGCCCACAGGA---ATAGAGATCAAGTATGTGAGTGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGGTGTATGAGGCTTTTgtgtgatgttggctcatgcctcttctgaggacctatatagattaaggggg #### Sf3b2_ID910_8 --> 2 - 0 Original Alignment agGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAAAAAGAG agcaagttttaatagttaaaaaaggtcagatgacttcttcctctctgcagagAAAGAAGAAATGGAGACAGTCACTCGCTCATCTCTGGGACCATCTGCATCAGAGACTGAGGAAGACACAGTGTCCATATCTAAA------gtaagaggcaggatttagaaagagtaaggccacttttctgtgagcttctt Alignment from CESAR agGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAAAAAGAG agcaagttttaatagttaaaaaaggtcagatgacttcttcctctctgcagagAAAGAAGAAATGGAGACAGTCACTCGCTCATCTCTGGGACCATCTGCATCAGAGACTGAGGAAGACACAGTGTCCATATCTAAA------gtaagaggcaggatttagaaagagtaaggccacttttctgtgag Alignment from Spaln_aa2Genome CAGGAGGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAA aagttttaatagttaaaaaaggtcagatgacttcttcctctctgca gAGAAAGAAGAAATGGAGACAGTCACTCGCTCATCTCTGGGACCATCTGCATCAGAGACTGAGGAAGACACAGTGTCCATATCTAAAgtaagaggcaggatttagaaagagtaaggccacttttctgtgagcttctt Alignment from Spaln_nt2Genome AGGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAAA-AAGAG agcaagttttaatagttaaaaaaggtcagatgacttcttcctctctgcagAGAAAGAAGAAATGGAGACAGTCACTCGCTCATCTCTGGGACCATCTGCATCAGAGACTGAGGAAGACACAGTGTCCATATCTAAAGTAAGAGgcaggatttagaaagagtaaggccacttttctgtgagcttctt Alignment from Pairagon AGGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAA agcaagttttaatagttaaaaaaggtcagatgacttcttcctctctgcagAGAAAGAAGAAATGGAGACAGTCACTCGCTCATCTCTGGGACCATCTGCATCAGAGACTGAGGAAGACACAGTGTCCATATCTAAAgtaagaggcaggatttagaaagagtaaggccacttttctgtgagcttctt Alignment from Exonerate_protein2genome AGGAGGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAA agcaagttttaatagttaaaaaaggtcagatgacttcttcctctctgCAGAGAAAGAAGAAATGGAGACAGTCACTCGCTCATCTCTGGGACCATCTGCATCAGAGACTGAGGAAGACACAGTGTCCATATCTAAAgtaagaggcaggatttagaaagagtaaggccacttttctgtgagcttctt Alignment from Exonerate_coding2genome AGGAGGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAA agcaagttttaatagttaaaaaaggtcagatgacttcttcctctctgCAGAGAAAGAAGAAATGGAGACAGTCACTCGCTCATCTCTGGGACCATCTGCATCAGAGACTGAGGAAGACACAGTGTCCATATCTAAAgtaagaggcaggatttagaaagagtaaggccacttttctgtgagcttctt Alignment from GeneWise -----------------CAGGAGGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAA agcaagttttaatagttaaaaaaggtcagATGACTTCTTCCTCTCTGCAGAGAAAGAAGAAATGGAGACAGTCACTCGCTCATCTCTGGGACCATCTGCATCAGAGACTGAGGAAGACACAGTGTCCATATCTAAAgtaagaggcaggatttagaaagagtaaggccacttttctgtgagcttctt #### Sf3b2_ID911_7 --> 0 - 1 Original Alignment ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAG---g tagcatggcatttttgagtttcagccccctgcttgtgccctgcctcctagATT---GACCCCTCAGTGGGCCCCAAGATCCCTCAGGCTGTGGAAAAGATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAG---GCCggtaagtgattaaacattcccttgatacttcaacacacattagctggggac Alignment from CESAR ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGg tagcatggcatttttgagtttcagccccctgcttgtgccctgcctcctagATT---GACCCCTCAGTGGGCCCCAAGATCCCTCAGGCTGTGGAAAAGATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGGCCggtaagtgattaaacattcccttgatacttcaacacacattagctggggac Alignment from Spaln_aa2Genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG tagcatggcatttttgagtttcagccccctgcttgtgccctgcctcctagATT---GACCCCTCAGTGGGCCCCAAGATCCCTCAGGCTGTGGAAAAGATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGGCCGgtaagtgattaaacattcccttgatacttcaacacacattagctggggac Alignment from Spaln_nt2Genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG tagcatggcatttttgagtttcagccccctgcttgtgccctgcctcctagAT---TGACCCCTCAGTGGGCCCCAAGATCCCTCAGGCTGTGGAAAAGATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGGCCGgtaagtgattaaacattcccttgatacttcaacacacattagctggggac Alignment from Pairagon ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG tagcatggcatttttgagtttcagccccctgcttgtgccctgcctcctagAT---TGACCCCTCAGTGGGCCCCAAGATCCCTCAGGCTGTGGAAAAGATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGGCCGgtaagtgattaaacattcccttgatacttcaacacacattagctggggac Alignment from Exonerate_protein2genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG tagcatggcatttttgagtttcagccccctgcttgtgccctgcctcctagATT---GACCCCTCAGTGGGCCCCAAGATCCCTCAGGCTGTGGAAAAGATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGGCCGgtaagtgattaaacattcccttgatacttcaacacacattagctggggac Alignment from Exonerate_coding2genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG tagcatggcatttttgagtttcagccccctgcttgtgccctgcctcctagATT---GACCCCTCAGTGGGCCCCAAGATCCCTCAGGCTGTGGAAAAGATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGGCCGgtaagtgattaaacattcccttgatacttcaacacacattagctggggac Alignment from GeneWise ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG tagcatggcatttttgagtttcagccccctgcttgtgccctgcctcctagATTGAC---CCCTCAGTGGGCCCCAAGATCCCTCAGGCTGTGGAAAAGATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGGCCGgtaagtgattaaacattcccttgatacttcaacacacattagctggggac #### Sfxn2_ID9971_9 --> 0 - 2 Original Alignment AAGGTCAAAGTGATGCACGCCCCCCTGCAGGTCTTGCTGTGTGGCTGCtt ctggctctctgctcctggctttatggcatctcatctgccatgtttgacagAAAGTCAAAGTGATGCATGCCCCCCTACAAGTG---------------tcgtaacatgatctcggatagtataccccaacgcagtgagctgatcagtatt Alignment from CESAR AAGGTCAAAGTGATGCACGCCCCCCTGCAGGTCTTGCTGTGTGGCTGCtt ctggctctctgctcctggctttatggcatctcatctgccatgtttgacagAAAGTCAAAGTGATGCATGCCCCCCTACAAGTG---------------tcgtaacatgatctcggatagtataccccaacgcagtgagctgatcagtatt Alignment from Spaln_aa2Genome AAGGTCAAAGTGATGCACGCCCCCCTGCAG ctggctctctgctcctggctttatggcatctcatctgccatgtttgacagAAAGTCAAAGTGATGCATGCCCCCCTACAAgtgtcgtaacatgatctcggatagtataccccaacgcagtgagctgatcagtatt Alignment from Spaln_nt2Genome AAGGTCAAAGTGATGCACGCCCCCCTGCAGGTCTT ctggctctctgctcctggctttatggcatctcatctgccatgtttgacagAAAGTCAAAGTGATGCATGCCCCCCTACAAGTGTCgtaacatgatctcggatagtataccccaacgcagtgagctgatcagtatt Alignment from Pairagon AAGGTCAAAGTGATGCACGCCCCCCTGCAGGTCTT ctggctctctgctcctggctttatggcatctcatctgccatgtttgacagAAAGTCAAAGTGATGCATGCCCCCCTACAAGTGTCgtaacatgatctcggatagtataccccaacgcagtgagctgatcagtatt Alignment from Exonerate_protein2genome AAGGTCAAAGTGATGCACGCCCCCCTGCAGGTCTT ctggctctctgctcctggctttatggcatctcatctgccatgtttgacagAAAGTCAAAGTGATGCATGCCCCCCTACAAGTGTCgtaacatgatctcggatagtataccccaacgcagtgagctgatcagtatt Alignment from Exonerate_coding2genome AAGGTCAAAGTGATGCACGCCCCCCTGCAGGTC ctggctctctgctcctggctttatggcatctcatctgccatgtttgacagAAAGTCAAAGTGATGCATGCCCCCCTACAAGTGtcgtaacatgatctcggatagtataccccaacgcagtgagctgatcagtatt Alignment from GeneWise AAGGTCAAAGTGATGCACGCCCCCCTGCAG ctggctctctgctcctggctttatggcatctcatctgccatgtttgacagAAAGTCAAAGTGATGCATGCCCCCCTACAAgtgtcgtaacatgatctcggatagtataccccaacgcagtgagctgatcagtatt #### Sfxn3_ID9286_4 --> 1 - 0 Original Alignment gCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG--- cagcccaaaattgaaaggctactacagaactccctccttctcatttgcaggCAGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGATCgtaggatctccctcctcctttccagaattatatgtcccatgtcttcatga Alignment from CESAR gCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG--- cagcccaaaattgaaaggctactacagaactccctccttctcatttgcaggCAGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGATCgtaggatctccctcctcctttccagaattatatgtcccatgtcttcatga Alignment from Spaln_aa2Genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG--- cagcccaaaattgaaaggctactacagaactccctccttctcatttgcagGCAGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGATCgtaggatctccctcctcctttccagaattatatgtcccatgtcttcatga Alignment from Spaln_nt2Genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG--- cagcccaaaattgaaaggctactacagaactccctccttctcatttgcagGCAGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGATCgtaggatctccctcctcctttccagaattatatgtcccatgtcttcatga Alignment from Pairagon GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG--- cagcccaaaattgaaaggctactacagaactccctccttctcatttgcagGCAGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGATCgtaggatctccctcctcctttccagaattatatgtcccatgtcttcatga Alignment from Exonerate_protein2genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cagcccaaaattgaaaggctactacagaactccctccttctcatttgcagGCAGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGatcgtaggatctccctcctcctttccagaattatatgtcccatgtcttcatga Alignment from Exonerate_coding2genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cagcccaaaattgaaaggctactacagaactccctccttctcatttgcagGCAGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGatcgtaggatctccctcctcctttccagaattatatgtcccatgtcttcatga Alignment from GeneWise GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAGCAC cagcccaaaattgaaaggctactacagaactccctccttctcatttgcagGCAGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGATCgtaggatctccctcctcctttccagaattatatgtcccatgtcttcatga #### Shoc2_ID11421_7 --> 0 - 1 Original Alignment AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATC------g gcagttgaatatagaccatatatgtctgtctctcttaattttttttaaagAAATTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGAGGCATAGGTCACCTCACTAACCTCACCCACCTTGGTCTTGGCGAGAACCTGCTCACTCACCTTCCTGAAGAAATTATTGCAggtaggaactgggatgccatccatagatttagtatatctcacattgactcc Alignment from CESAR AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATC------g gcagttgaatatagaccatatatgtctgtctctcttaattttttttaaagAAATTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGAGGCATAGGTCACCTCACTAACCTCACCCACCTTGGTCTTGGCGAGAACCTGCTCACTCACCTTCCTGAAGAAATTATTGCAggtaggaactgggatgccatccatagatttagtatatctcacattgactcc Alignment from Spaln_aa2Genome AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATC------G gcagttgaatatagaccatatatgtctgtctctcttaattttttttaaagAAATTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGAGGCATAGGTCACCTCACTAACCTCACCCACCTTGGTCTTGGCGAGAACCTGCTCACTCACCTTCCTGAAGAAATTATTGCAGgtaggaactgggatgccatccatagatttagtatatctcacattgactcc Alignment from Spaln_nt2Genome AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATC------G gcagttgaatatagaccatatatgtctgtctctcttaattttttttaaagAAATTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGAGGCATAGGTCACCTCACTAACCTCACCCACCTTGGTCTTGGCGAGAACCTGCTCACTCACCTTCCTGAAGAAATTATTGCAGgtaggaactgggatgccatccatagatttagtatatctcacattgactcc Alignment from Pairagon AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATC------G gcagttgaatatagaccatatatgtctgtctctcttaattttttttaaagAAATTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGAGGCATAGGTCACCTCACTAACCTCACCCACCTTGGTCTTGGCGAGAACCTGCTCACTCACCTTCCTGAAGAAATTATTGCAGgtaggaactgggatgccatccatagatttagtatatctcacattgactcc Alignment from Exonerate_protein2genome AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG gcagttgaatatagaccatatatgtctgtctctcttaattttttttaaagAAATTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGAGGCATAGGTCACCTCACTAACCTCACCCACCTTGGTCTTGGCGAGAACCTGCTCACTCACCTTCCTGAAGAAATTAttgcaggtaggaactgggatgccatccatagatttagtatatctcacattgactcc Alignment from Exonerate_coding2genome AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATCG gcagttgaatatagaccatatatgtctgtctctcttaattttttttaaagAAATTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGAGGCATAGGTCACCTCACTAACCTCACCCACCTTGGTCTTGGCGAGAACCTGCTCACTCACCTTCCTGAAGAAATTAttgcaggtaggaactgggatgccatccatagatttagtatatctcacattgactcc Alignment from GeneWise AAATTAGTCTTGACAAACAACCAGTTGAGCACGCTTCCCAGAGGCATCGGTCACCTTACCAACCTCACGCACCTTGGTCTTGGAGAGAACCTGCTCACTCACCTTCCTGAGGAAATC------G gcagttgaatatagaccatatatgtctgtctctcttaattttttttaaagAAATTAGTCTTAACAAACAACCAGTTAAGCATGCTCCCAAGAGGCATAGGTCACCTCACTAACCTCACCCACCTTGGTCTTGGCGAGAACCTGCTCACTCACCTTCCTGAAGAAATTATTGCAGgtaggaactgggatgccatccatagatttagtatatctcacattgactcc #### Sipa1_ID1138_14 --> 1 - 0 Original Alignment gCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG cccaattttctgttgggtgtggcatcctcaaatccacttcgttttcacaggCCA---CCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAATTGCAAGAG------------gtgagttgcctagtgctaggcactcctgggaagggtatacagggctgcca Alignment from CESAR gCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG cccaattttctgttgggtgtggcatcctcaaatccacttcgttttcacaggCCA---CCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAATTGCAAGAG------------gtgagttgcctagtgctaggcactcctgggaagggtat Alignment from Spaln_aa2Genome GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG cccaattttctgttgggtgtggcatcctcaaatccacttcgttttcacagGCCA---CCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAATTGCAAGAGGTGAGTTGCCTAgtgctaggcactcctgggaagggtatacagggctgcca Alignment from Spaln_nt2Genome GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAG cccaattttctgttgggtgtggcatcctcaaatccacttcgttttcacagGCC---ACCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAATTGCAAGAGgtgagttgcctagtgctaggcactcctgggaagggtatacagggctgcca Alignment from Pairagon GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAG cccaattttctgttgggtgtggcatcctcaaatccacttcgttttcacagGCC---ACCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAATTGCAAGAGgtgagttgcctagtgctaggcactcctgggaagggtatacagggctgcca Alignment from Exonerate_protein2genome GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG cccaattttctgttgggtgtggcatcctcaaatccacttcgttttcacagGCCA---CCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAATTGCAAGAGGTGAGTTGCCTAgtgctaggcactcctgggaagggtatacagggctgcca Alignment from Exonerate_coding2genome GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAG cccaattttctgttgggtgtggcatcctcaaatccacttcgttttcacagGCCA---CCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAATTGCAAGAGgtgagttgcctagtgctaggcactcctgggaagggtatacagggctgcca Alignment from GeneWise GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG cccaattttctgttgggtgtggcatcctcaaatccacttcgttttcacagGCCA---CCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAATTGCAAGAGGTGAGTTGCCTAgtgctaggcactcctgggaagggtatacagggctgcca #### Sipa1_ID1141_11 --> 0 - 1 Original Alignment ---------GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGa gtcaagttaacattgagtgccatactgtttaattttctctttttgttcagGACGAACACGATCAGTCAGGAAGCCCTAGTAGCCATGAGGATACCAGTGACTCAGGTCCAGAATTGAAGGCTTCCATCCTGCCCAGAACCTTATCGGTACGGAATTCCATCAGTAAAagtatcatggggaaacagggcatgagcaggagactgtccctaacccctgtg Alignment from CESAR GAC---------CAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGa gtcaagttaacattgagtgccatactgtttaattttctctttttgttcagGACGAACACGATCAGTCAGGAAGCCCTAGTAGCCATGAGGATACCAGTGACTCAGGTCCAGAATTGAAGGCTTCCATCCTGCCCAGAACCTTATCGGTACGGAATTCCATCAGTAAAagtatcatggggaaacagggcatgagcaggagactgtccctaacccctgtg Alignment from Spaln_aa2Genome GACCAGTCAGGA---------AGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtcaagttaacattgagtgccatactgtttaattttctctttttgttcagGACGAACACGATCAGTCAGGAAGCCCTAGTAGCCATGAGGATACCAGTGACTCAGGTCCAGAATTGAAGGCTTCCATCCTGCCCAGAACCTTATCGGTACGGAATTCCATCAGTAAAAgtatcatggggaaacagggcatgagcaggagactgtccctaacccctgtg Alignment from Spaln_nt2Genome GACCAGTCAGGA---------AGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtcaagttaacattgagtgccatactgtttaattttctctttttgttcagGACGAACACGATCAGTCAGGAAGCCCTAGTAGCCATGAGGATACCAGTGACTCAGGTCCAGAATTGAAGGCTTCCATCCTGCCCAGAACCTTATCGGTACGGAATTCCATCAGTAAAAgtatcatggggaaacagggcatgagcaggagactgtccctaacccctgtg Alignment from Pairagon GAC---------CAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtcaagttaacattgagtgccatactgtttaattttctctttttgttcagGACGAACACGATCAGTCAGGAAGCCCTAGTAGCCATGAGGATACCAGTGACTCAGGTCCAGAATTGAAGGCTTCCATCCTGCCCAGAACCTTATCGGTACGGAATTCCATCAGTAAAAgtatcatggggaaacagggcatgagcaggagactgtccctaacccctgtg Alignment from Exonerate_protein2genome GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtcaagttaacattgagtgccatactgtttaattttctctttttgttcaggacgaacacGATCAGTCAGGAAGCCCTAGTAGCCATGAGGATACCAGTGACTCAGGTCCAGAATTGAAGGCTTCCATCCTGCCCAGAACCTTATCGGTACGGAATTCCATCAGTAAAAgtatcatggggaaacagggcatgagcaggagactgtccctaacccctgtg Alignment from Exonerate_coding2genome GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtcaagttaacattgagtgccatactgtttaattttctctttttgttcaggacgaacacGATCAGTCAGGAAGCCCTAGTAGCCATGAGGATACCAGTGACTCAGGTCCAGAATTGAAGGCTTCCATCCTGCCCAGAACCTTATCGGTACGGAATTCCATCAGTAAAAgtatcatggggaaacagggcatgagcaggagactgtccctaacccctgtg Alignment from GeneWise ---------GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtcaagttaacattgagtgccatactgtttaattttctctttttgttcagGACGAACACGATCAGTCAGGAAGCCCTAGTAGCCATGAGGATACCAGTGACTCAGGTCCAGAATTGAAGGCTTCCATCCTGCCCAGAACCTTATCGGTACGGAATTCCATCAGTAAAAgtatcatggggaaacagggcatgagcaggagactgtccctaacccctgtg #### Sipa1_ID1142_10 --> 1 - 0 Original Alignment cTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG------------------ caagggaaatgctaccgcaagaaggaccctgtattccttgtcatccatagcTCCCTGTCTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTACTTATTACAACAGCTAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGAAGAAGAAATGCTCTGTGgtacgatgtcaagttaacattgagtgccatactgtttgcaattttctcat Alignment from CESAR cTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG------------------ caagggaaatgctaccgcaagaaggaccctgtattccttgtcatccatagcTCCCTGTCTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTACTTATTACAACAGCTAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGAAGAAGAAATGCTCTGTGgtacgatgtcaagttaacattgagtgccatactgtctcttttctttatcc Alignment from Spaln_aa2Genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAGGACCAGTCAG caagggaaatgctaccgcaagaaggaccctgtattccttgtcatccatagCTCCCTGTCTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTACTTATTACAACAGCTAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGAAGAAGAAATgctctgtggtacgatgtcaagttaacattgagtgccatactgtttgcaattttctcat Alignment from Spaln_nt2Genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG---------- caagggaaatgctaccgcaagaaggaccctgtattccttgtcatccatagCTCCCTGTCTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTACTTATTACAACAGCTAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGAAGAAGAAATgctctgtggtacgatgtcaagttaacattgagtgccatactgtttgcaattttctcat Alignment from Pairagon CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCC---------------------------------------------------------------------- caagggaaatgctaccgcaagaaggaccctgtattccttgtcatccatagCTCCCTGTCTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTACTTATTACAACAGCTAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGAAGAAGAAATGCTCTGTGGTACGATGTCAAGTTAACATTGAGTGCCATACTGTTTGCAATTTTCTCAT Alignment from Exonerate_protein2genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG caagggaaatgctaccgcaagaaggaccctgtattccttgtcatccatagCTCCCTGTCTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTACTTATTACAACAGCTAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGaagaagaaatgctctgtggtacgatgtcaagttaacattgagtgccatactgtttgcaattttctcat Alignment from Exonerate_coding2genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG caagggaaatgctaccgcaagaaggaccctgtattccttgtcatccatagCTCCCTGTCTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTACTTATTACAACAGCTAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGaagaagaaatgctctgtggtacgatgtcaagttaacattgagtgccatactgtttgcaattttctcat Alignment from GeneWise CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG-------------------------------------------------------------------- caagggaaatgctaccgcaagaaggaccctgtattccttgtcatccatagCTCCCTGTCTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTACTTATTACAACAGCTAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGAAGAAGAAATGCTCTGTGGTACGATGTCAAGTTAACATTGAGTGCCATACTGTTTGCAATTTTCTCAT #### Slc18a2_ID12936_4 --> 2 - 1 Original Alignment tg---------TTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTg cacaaagccaggttcatgtagaggaccaccagccattatgttgtcctcagtgGTAACGATTTTTGCATACTCTAGTAGTTATGCCTTTCTCCTGATAGCCAAGTCACTGCAGGGAATTGGTTCATCCTGCTCATCTGTGGCTggtaaatctaaaattcagtgcttgatatatgtaccaaggactcatatgtat Alignment from CESAR tg---------TTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTg cacaaagccaggttcatgtagaggaccaccagccattatgttgtcctcagtgGTAACGATTTTTGCATACTCTAGTAGTTATGCCTTTCTCCTGATAGCCAAGTCACTGCAGGGAATTGGTTCATCCTGCTCATCTGTGGCTggtaaatctaaaattcagtgcttgatatatgtaccaaggactcatatgtat Alignment from Spaln_aa2Genome TG---------TTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG cacaaagccaggttcatgtagaggaccaccagccattatgttgtcctcagTGGTAACGATTTTTGCATACTCTAGTAGTTATGCCTTTCTCCTGATAGCCAAGTCACTGCAGGGAATTGGTTCATCCTGCTCATCTGTGGCTGgtaaatctaaaattcagtgcttgatatatgtaccaaggactcatatgtat Alignment from Spaln_nt2Genome TG---------TTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG cacaaagccaggttcatgtagaggaccaccagccattatgttgtcctcagTGGTAACGATTTTTGCATACTCTAGTAGTTATGCCTTTCTCCTGATAGCCAAGTCACTGCAGGGAATTGGTTCATCCTGCTCATCTGTGGCTGgtaaatctaaaattcagtgcttgatatatgtaccaaggactcatatgtat Alignment from Pairagon TG---------TTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG cacaaagccaggttcatgtagaggaccaccagccattatgttgtcctcagTGGTAACGATTTTTGCATACTCTAGTAGTTATGCCTTTCTCCTGATAGCCAAGTCACTGCAGGGAATTGGTTCATCCTGCTCATCTGTGGCTGgtaaatctaaaattcagtgcttgatatatgtaccaaggactcatatgtat Alignment from Exonerate_protein2genome TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG cacaaagccaggttcatgtagaggaccaccagccattatgttgtcctcagtggtaacgaTTTTTGCATACTCTAGTAGTTATGCCTTTCTCCTGATAGCCAAGTCACTGCAGGGAATTGGTTCATCCTGCTCATCTGTGGCTGgtaaatctaaaattcagtgcttgatatatgtaccaaggactcatatgtat Alignment from Exonerate_coding2genome TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG cacaaagccaggttcatgtagaggaccaccagccattatgttgtcctcagtggtaacgaTTTTTGCATACTCTAGTAGTTATGCCTTTCTCCTGATAGCCAAGTCACTGCAGGGAATTGGTTCATCCTGCTCATCTGTGGCTGgtaaatctaaaattcagtgcttgatatatgtaccaaggactcatatgtat Alignment from GeneWise --------ATGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG cacaaagccaggttcatgtagaggaccaccagccattatgttgtcctcagTGGTAACGATTTTTGCATACTCTAGTAGTTATGCCTTTCTCCTGATAGCCAAGTCACTGCAGGGAATTGGTTCATCCTGCTCATCTGTGGCTGgtaaatctaaaattcagtgcttgatatatgtaccaaggactcatatgtat #### Slc18a2_ID12940_8 --> 0 - 1 Original Alignment ------AGTCAGAAGGGGACACCTCTTACGACCTTGCTGAAGGACCCATACATTCTCATCGCTGCAg tgggaattacagcatggttaaatttttcccttccctctctgtccttgaagGTGAATAGTCAGAAAGAGACACCTCTTACAACCTTACTGAAAGATCCATACATTCTGATAGCTGCAggtacacggactttaataattatttggtagcatgaaacacactagagggat Alignment from CESAR ------AGTCAGAAGGGGACACCTCTTACGACCTTGCTGAAGGACCCATACATTCTCATCGCTGCAg tgggaattacagcatggttaaatttttcccttccctctctgtccttgaagGTGAATAGTCAGAAAGAGACACCTCTTACAACCTTACTGAAAGATCCATACATTCTGATAGCTGCAggtacacggactttaataattatttggtagcatgaaacacactagagggat Alignment from Spaln_aa2Genome CCAGAAAGTCAGAAGGGGACACCTCTTACGACCTTGCTGAAGGACCCATACATTCTCATCGCTGCAG tgggaattacagcatggttaaatttttcccttccctctctgtccttgaagGTGAATAGTCAGAAAGAGACACCTCTTACAACCTTACTGAAAGATCCATACATTCTGATAGCTGCAGgtacacggactttaataattatttggtagcatgaaacacactagagggat Alignment from Spaln_nt2Genome ------AGTCAGAAGGGGACACCTCTTACGACCTTGCTGAAGGACCCATACATTCTCATCGCTGCAG tgggaattacagcatggttaaatttttcccttccctctctgtccttgaagGTGAATAGTCAGAAAGAGACACCTCTTACAACCTTACTGAAAGATCCATACATTCTGATAGCTGCAGgtacacggactttaataattatttggtagcatgaaacacactagagggat Alignment from Pairagon --------------------------------------------------------AGTCAGAAGGGGACACCTCTTACGACCTTGCTGAAGGACCCATACATTCTCATCGCTGCAG TGGGAATTACAGCATGGTTAAATTTTTCCCTTCCCTCTCTGTCCTTGAAGGTGAATAGTCAGAAAGAGACACCTCTTACAACCTTACTGAAAGATCCATACATTCTGATAGCTGCAGgtacacggactttaataattatttggtagcatgaaacacactagagggat Alignment from Exonerate_protein2genome CCAGAAAGTCAGAAGGGGACACCTCTTACGACCTTGCTGAAGGACCCATACATTCTCATCGCTGCAG tgggaattacagcatggttaaatttttcccttccctctctgtccttgaagGTGAATAGTCAGAAAGAGACACCTCTTACAACCTTACTGAAAGATCCATACATTCTGATAGCTGCAGgtacacggactttaataattatttggtagcatgaaacacactagagggat Alignment from Exonerate_coding2genome CTATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAAAGTCAGAAGGGGACACCTCTTACGACCTTGCTGAAGGACCCATACATTCTCATCGCTGCAG tgggaattacagCATGGTTAAATTTTTCCCTTCCCTCTCTGTCCTTGAAGGTGAATAGTCAGAAAGAGACACCTCTTACAACCTTACTGAAAGATCCATACATTCTGATAGCTGCAGgtacacggactttaataattatttggtagcatgaaacacactagagggat Alignment from GeneWise CTATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAAAGTCAGAAGGGGACACCTCTTACGACCTTGCTGAAGGACCCATACATTCTCATCGCTGCAG tgggaattacagCATGGTTAAATTTTTCCCTTCCCTCTCTGTCCTTGAAGGTGAATAGTCAGAAAGAGACACCTCTTACAACCTTACTGAAAGATCCATACATTCTGATAGCTGCAGgtacacggactttaataattatttggtagcatgaaacacactagagggat #### Slc22a12_ID1789_8 --> 2 - 2 Original Alignment ggATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATC---------------------------ag ccatggctggttgatacattgcgaattgtgtccttgcctctttgttgcagcgATGGGGGTCCTTCGCTCTGCTCTGGCTGTGCTAGGATTGGGCTGCCTAGGTGGTGCCTTCACCTGCATCACCATTTTCTCTAGCGAGCTCTTCCCCACTGTTATCCCTTCTGGGGACAAACTTTATAACTTTaggtaagtgcaattagtccatggatcacaccaccagaccattgcccatagat Alignment from CESAR ggATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATC---------------------------ag ccatggctggttgatacattgcgaattgtgtccttgcctctttgttgcagcgATGGGGGTCCTTCGCTCTGCTCTGGCTGTGCTAGGATTGGGCTGCCTAGGTGGTGCCTTCACCTGCATCACCATTTTCTCTAGCGAGCTCTTCCCCACTGTTATCCCTTCTGGGGACAAACTTTATAACTTTaggtaagtgcaattagtccatggatcacaccaccagaccattgcccatagat Alignment from Spaln_aa2Genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAGG-------------------------- ccatggctggttgatacattgcgaattgtgtccttgcctctttgttgcagCGATGGGGGTCCTTCGCTCTGCTCTGGCTGTGCTAGGATTGGGCTGCCTAGGTGGTGCCTTCACCTGCATCACCATTTTCTCTAGCGAGCTCTTCCCCACTGTTATCCCTTCTGGGGACAAACTTTATAACTTTAGgtaagtgcaattagtccatggatcacaccaccagaccattgcccatagat Alignment from Spaln_nt2Genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCA-------GGAT------- ccatggctggttgatacattgcgaattgtgtccttgcctctttgttgcagCGATGGGGGTCCTTCGCTCTGCTCTGGCTGTGCTAGGATTGGGCTGCCTAGGTGGTGCCTTCACCTGCATCACCATTTTCTCTAGCGAGCTCTTCCCCACTGTTATCCCTTCTGGGGACAAACTTTataactttaggtaagtgcaattagtccatggatcacaccaccagaccattgcccatagat Alignment from Pairagon GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATC---------------------------AG ccatggctggttgatacattgcgaattgtgtccttgcctctttgttgcagCGATGGGGGTCCTTCGCTCTGCTCTGGCTGTGCTAGGATTGGGCTGCCTAGGTGGTGCCTTCACCTGCATCACCATTTTCTCTAGCGAGCTCTTCCCCACTGTTATCCCTTCTGGGGACAAACTTTATAACTTTAGgtaagtgcaattagtccatggatcacaccaccagaccattgcccatagat Alignment from Exonerate_protein2genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ccatggctggttgatacattgcgaattgtgtccttgcctctttgttgcagCGATGGGGGTCCTTCGCTCTGCTCTGGCTGTGCTAGGATTGGGCTGCCTAGGTGGTGCCTTCACCTGCATCACCATTTTCTCTAGCGAGCTCTTCCCCACTGTTATCCCttctggggacaaactttataactttaggtaagtgcaattagtccatggatcacaccaccagaccattgcccatagat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACT ccatggctggttgatacattgcgaattgtgtccttgcctctttgttgcagCGATGGGGGTCCTTCGCTCTGCTCTGGCTGTGCTAGGATTGGGCTGCCTAGGTGGTGCCTTCACCTGCATCACCATTTTCTCTAGCGAGCTCTTCCCCACTgttatcccttctggggacaaactttataactttaggtaagtgcaattagtccatggatcacaccaccagaccattgcccatagat #### Slc22a12_ID1791_6 --> 0 - 2 Original Alignment GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCtg cttggactgggggagaacctggagacgacctttgctggcctttccggcagGTCCTGTGGTCAGCTATGGACAAGGAACCAAGCAGGGACCAGGCCGGTGCCAGTCTTGGCACTTTACTTCACACACCTGGATTGCGCCACCGAAGCATTATCTCT---------ctgtaaatcctagtggaacatctctgcaatggttggccagtggaagttgccc Alignment from CESAR GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCtg cttggactgggggagaacctggagacgacctttgctggcctttccggcagGTCCTGTGGTCAGCTATGGACAAGGAACCAAGCAGGGACCAGGCCGGTGCCAGTCTTGGCACTTTACTTCACACACCTGGATTGCGCCACCGAAGCATTATCTCT---------ctgtaaatcctagtggaacatctctgcaatggttggccagtggaagttgccc Alignment from Spaln_aa2Genome GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCAT cttggactgggggagaacctggagacgacctttgctggcctttccggcagGTCCTGTGGTCAGCTATGGACAAGGAACCAAGCAGGGACCAGGCCGGTGCCAGTCTTGGCACTTTACTTCACACACCTGGATTGCGCCACCGAAGCATTATCTCTCTgtaaatcctagtggaacatctctgcaatggttggccagtggaagttgccc Alignment from Spaln_nt2Genome GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTG-TGCTG cttggactgggggagaacctggagacgacctttgctggcctttccggcagGTCCTGTGGTCAGCTATGGACAAGGAACCAAGCAGGGACCAGGCCGGTGCCAGTCTTGGCACTTTACTTCACACACCTGGATTGCGCCACCGAAGCATTATCTCTCTGTAAATCCTAgtggaacatctctgcaatggttggccagtggaagttgccc Alignment from Pairagon GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCAT cttggactgggggagaacctggagacgacctttgctggcctttccggcagGTCCTGTGGTCAGCTATGGACAAGGAACCAAGCAGGGACCAGGCCGGTGCCAGTCTTGGCACTTTACTTCACACACCTGGATTGCGCCACCGAAGCATTATCTCTCTgtaaatcctagtggaacatctctgcaatggttggccagtggaagttgccc Alignment from Exonerate_protein2genome GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCAT cttggactgggggagaacctggagacgacctttgctggcctttccggcagGTCCTGTGGTCAGCTATGGACAAGGAACCAAGCAGGGACCAGGCCGGTGCCAGTCTTGGCACTTTACTTCACACACCTGGATTGCGCCACCGAAGCATTATCTCTCTgtaaatcctagtggaacatctctgcaatggttggccagtggaagttgccc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCAT cttggactgggggagaacctggagacgacctttgctggcctttccggcagGTCCTGTGGTCAGCTATGGACAAGGAACCAAGCAGGGACCAGGCCGGTGCCAGTCTTGGCACTTTACTTCACACACCTGGATTGCGCCACCGAAGCATTATCTCTCTgtaaatcctagtggaacatctctgcaatggttggccagtggaagttgccc #### Slc22a12_ID1794_3 --> 1 - 1 Original Alignment gTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCt tagccacacagagcttttgttgctcctctctttgattgtttttttttcaggTTCGGATGCAGAAGGGTACTGACCTGGAGCTATCTCTTGGTGTCTGTGTCTGTCACAGGTGCTGCTTTCATGCCCACCTTCCCACTGCATTGTCTATTTTCCTTCCTGCTGGCATCCTCAGTGGCAGGCATCATGATGAATACAGCCAGT---tgtatggggtcccactcctagtgtgatgttgtaaggctactgccttcctgt Alignment from CESAR gTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCt tagccacacagagcttttgttgctcctctctttgattgtttttttttcaggTTCGGATGCAGAAGGGTACTGACCTGGAGCTATCTCTTGGTGTCTGTGTCTGTCACAGGTGCTGCTTTCATGCCCACCTTCCCACTGCATTGTCTATTTTCCTTCCTGCTGGCATCCTCAGTGGCAGGCATCATGATGAATACAGCCAGT---tgtatggggtcccactcctagtgtgatgttgtaaggctacggctgtgtgga Alignment from Spaln_aa2Genome GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTC tagccacacagagcttttgttgctcctctctttgattgtttttttttcagGTTCGGATGCAGAAGGGTACTGACCTGGAGCTATCTCTTGGTGTCTGTGTCTGTCACAGGTGCTGCTTTCATGCCCACCTTCCCACTGCATTGTCTATTTTCCTTCCTGCTGGCATCCTCAGTGGCAGGCATCATGATGAATACAGCCAGTTgtatggggtcccactcctagtgtgatgttgtaaggctactgccttcctgt Alignment from Spaln_nt2Genome GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT tagccacacagagcttttgttgctcctctctttgattgtttttttttcagGTTCGGATGCAGAAGGGTACTGACCTGGAGCTATCTCTTGGTGTCTGTGTCTGTCACAGGTGCTGCTTTCATGCCCACCTTCCCACTGCATTGTCTATTTTCCTTCCTGCTGGCATCCTCAGTGGCAGGCATCATGATGAATACAGCCAGT---Tgtatggggtcccactcctagtgtgatgttgtaaggctactgccttcctgt Alignment from Pairagon GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT tagccacacagagcttttgttgctcctctctttgattgtttttttttcagGTTCGGATGCAGAAGGGTACTGACCTGGAGCTATCTCTTGGTGTCTGTGTCTGTCACAGGTGCTGCTTTCATGCCCACCTTCCCACTGCATTGTCTATTTTCCTTCCTGCTGGCATCCTCAGTGGCAGGCATCATGATGAATACAGCCAGT---Tgtatggggtcccactcctagtgtgatgttgtaaggctactgccttcctgt Alignment from Exonerate_protein2genome GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCA tagccacacagagcttttgttgctcctctctttgattgtttttttttcagGTTCGGATGCAGAAGGGTACTGACCTGGAGCTATCTCTTGGTGTCTGTGTCTGTCACAGGTGCTGCTTTCATGCCCACCTTCCCACTGCATTGTCTATTTTCCTTCCTGCTGGCATCCTCAGTGGCAGGCATCATGATGAATACAGCCAgttgtatggggtcccactcctagtgtgatgttgtaaggctactgccttcctgt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTC tagccacacagagcttttgttgctcctctctttgattgtttttttttcagGTTCGGATGCAGAAGGGTACTGACCTGGAGCTATCTCTTGGTGTCTGTGTCTGTCACAGGTGCTGCTTTCATGCCCACCTTCCCACTGCATTGTCTATTTTCCTTCCTGCTGGCATCCTCAGTGGCAGGCATCATGATGAATACAGCCAGTTgtatggggtcccactcctagtgtgatgttgtaaggctactgccttcctgt #### Slc22a20_ID1351_2 --> 0 - 2 Original Alignment TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGAC---------------------------ag agggtagtaaccgcacaatcaaagcccatcttattctgctttttctccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCTCAATCTATCTATATGTCTGGAGTGTCGGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACTCACCCTGTGATCCCACCACCTTCATCaggtacattgcttggatggcaacatctattccctcactctttattgtcattt Alignment from CESAR TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACag agggtagtaaccgcacaatcaaagcccatcttattctgctttttctccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCTCAATCTATCTATATGTCTGGAGTGTCGGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACtcaccctgtgatcccaccaccttcatcaggtacattgcttggatggcaacatctattccctcactctttattgtcattt Alignment from Spaln_aa2Genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAGGTTGG agggtagtaaccgcacaatcaaagcccatcttattctgctttttctccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCTCAATCTATCTATATGTCTGGAGTGTCGGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACTCACCCTgtgatcccaccaccttcatcaggtacattgcttggatggcaacatctattccctcactctttattgtcattt Alignment from Spaln_nt2Genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG----- agggtagtaaccgcacaatcaaagcccatcttattctgctttttctccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCTCAATCTATCTATATGTCTGGAGTGTCGGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACTCACCCTgtgatcccaccaccttcatcaggtacattgcttggatggcaacatctattccctcactctttattgtcattt Alignment from Pairagon TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGA---------------------------CAG agggtagtaaccgcacaatcaaagcccatcttattctgctttttctccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCTCAATCTATCTATATGTCTGGAGTGTCGGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACTCACCCTGTGATCCCACCACCTTCATCAGgtacattgcttggatggcaacatctattccctcactctttattgtcattt Alignment from Exonerate_protein2genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAGGTTGG agggtagtaaccgcacaatcaaagcccatcttattctgctttttctccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCTCAATCTATCTATATGTCTGGAGTGTCGGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACTCACCCTgtgatcccaccaccttcatcaggtacattgcttggatggcaacatctattccctcactctttattgtcattt Alignment from Exonerate_coding2genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAGGTTGG agggtagtaaccgcacaatcaaagcccatcttattctgctttttctccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCTCAATCTATCTATATGTCTGGAGTGTCGGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACTCACCCTgtgatcccaccaccttcatcaggtacattgcttggatggcaacatctattccctcactctttattgtcattt Alignment from GeneWise TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAGGTTGG agggtagtaaccgcacaatcaaagcccatcttattctgctttttctccagTGGGACCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCTCAATCTATCTATATGTCTGGAGTGTCGGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACTCACCCTgtgatcccaccaccttcatcaggtacattgcttggatggcaacatctattccctcactctttattgtcattt #### Slc22a26_ID2221_4 --> 2 - 2 Original Alignment tgTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAag tcttgcaattttacctgctaaatctcatttaatttctctttctttcatagtg------TGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACGCTGTCAATGAGCCCTCATCATTTTGGAGGCCTTATTCTGGCAGGATTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTAGCTGTATCTGTGCCAATTTTTGTCTTGCTTATACCCACAaggtgaggcacaagaattcttatacaccaataagagacaaacagagagccaa Alignment from CESAR tgTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAag cacagttcttgcaattttacctgctcatttaatttctctttctttcatagtg------TGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACGCTGTCAATGAGCCCTCATCATTTTGGAGGCCTTATTCTGGCAGGATTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTAGCTGTATCTGTGCCAATTTTTGTCTTGCTTATACCCACAaggtgaggcacaagaattcttatacaccaataagagacaaacagagagccaa Alignment from Spaln_aa2Genome TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG tcttgcaattttacctgctaaatctcatttaatttctctttctttcatagTG------TGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACGCTGTCAATGAGCCCTCATCATTTTGGAGGCCTTATTCTGGCAGGATTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTAGCTGTATCTGTGCCAATTTTTGTCTTGCTTATACCCACAAGgtgaggcacaagaattcttatacaccaataagagacaaacagagagccaa Alignment from Spaln_nt2Genome TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG tcttgcaattttacctgctaaatctcatttaatttctctttctttcatagTG------TGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACGCTGTCAATGAGCCCTCATCATTTTGGAGGCCTTATTCTGGCAGGATTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTAGCTGTATCTGTGCCAATTTTTGTCTTGCTTATACCCACAAGgtgaggcacaagaattcttatacaccaataagagacaaacagagagccaa Alignment from Pairagon TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG tcttgcaattttacctgctaaatctcatttaatttctctttctttcatagTG------TGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACGCTGTCAATGAGCCCTCATCATTTTGGAGGCCTTATTCTGGCAGGATTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTAGCTGTATCTGTGCCAATTTTTGTCTTGCTTATACCCACAAGgtgaggcacaagaattcttatacaccaataagagacaaacagagagccaa Alignment from Exonerate_protein2genome TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG tcttgcaattttacctgctaaatctcatttaatttctctttcttTCATAGTGTGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACGCTGTCAATGAGCCCTCATCATTTTGGAGGCCTTATTCTGGCAGGATTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTAGCTGTATCTGTGCCAATTTTTGTCTTGCTTATACCCACAAGgtgaggcacaagaattcttatacaccaataagagacaaacagagagccaa Alignment from Exonerate_coding2genome TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG tcttgcaattttacctgctaaatctcatttaatttctctttcttTCATAGTGTGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACGCTGTCAATGAGCCCTCATCATTTTGGAGGCCTTATTCTGGCAGGATTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTAGCTGTATCTGTGCCAATTTTTGTCTTGCTTATACCCACAAGgtgaggcacaagaattcttatacaccaataagagacaaacagagagccaa Alignment from GeneWise AATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG tcttgcaattttacctgctaaatctcatttaatttctctttctttcatagTGTGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACGCTGTCAATGAGCCCTCATCATTTTGGAGGCCTTATTCTGGCAGGATTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTAGCTGTATCTGTGCCAATTTTTGTCTTGCTTATACCCACAAGgtgaggcacaagaattcttatacaccaataagagacaaacagagagccaa #### Slc22a6_ID2281_2 --> 0 - 2 Original Alignment ---TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATG---ATGTTTGGCTACCTGGCGGACag agccactaaaattgacaaatttcagatcattctaatattgtctttgttagCCTTGGAACCTT---TGCTCACATAGAGCCTTTCACCGATTGGCCCAGTCACTATTCATGGTAGGAGTG---TTCGGTGCCATGATGTTGTTTGGTTACCTTGCAGATaggtgagacatcagtactgaaagtgcctcatttgtacctaatagttttaaga Alignment from CESAR ---TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATG---TTTGGCTACCTGGCGGACag agccactaaaattgacaaatttcagatcattctaatattgtctttgttagCCTTGGAACCTT---TGCTCACATAGAGCCTTTCACCGATTGGCCCAGTCACTATTCATGGTAGGAGTGTTC---GGTGCCATGATGTTGTTTGGTTACCTTGCAGATaggtgagacatcagtactgaaagtgcctcatttgtacctaatagttttaaga Alignment from Spaln_aa2Genome TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTTTGGCTACCTGGCGGACAG agccactaaaattgacaaatttcagatcattctaatattgtctttgttagCCTTGGAACCTT---TGCTCACATAGAGCCTTTCACCGATTGGCCCAGTCACTATTCATGGTAGGAGTGTTCGGTGCCATGATGTTGTTTGGTTACCTTGCAGATAGgtgagacatcagtactgaaagtgcctcatttgtacctaatagttttaaga Alignment from Spaln_nt2Genome ---TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTT---TGGCTACCTGGCGGACAG agccactaaaattgacaaatttcagatcattctaatattgtctttgttagCCTTGGAACCTT---TGCTCACATAGAGCCTTTCACCGATTGGCCCAGTCACTATTCATGGTAGGAGTGT---TCGGTGCCATGATGTTGTTTGGTTACCTTGCAGATAGgtgagacatcagtactgaaagtgcctcatttgtacctaatagttttaaga Alignment from Pairagon ----------------------------TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGA---TGTTTGGCTACCTGGCGGACAG agccactaaaattgacaaatttcagATCATTCTAATATTGTCTTTGTTAGCCTTGGAACCTT---TGCTCACATAGAGCCTTTCACCGATTGGCCCAGTCACTATTCATGGTAGGAGTGTTC---GGTGCCATGATGTTGTTTGGTTACCTTGCAGATAGgtgagacatcagtactgaaagtgcctcatttgtacctaatagttttaaga Alignment from Exonerate_protein2genome TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTTTGGCTACCTGGCGGACAG agccactaaaattgacaaatttcagatcattctaatattgtctttgttagCCTTGGAACCTTTGCTCACATAGAGCCTTTCACCGATTGGCCCAGTCACTATTCATGGTAGGAGTGTTCGGTGCCATGATGTTGTTTGGTTACCTTGCAGATAGgtgagacatcagtactgaaagtgcctcatttgtacctaatagttttaaga Alignment from Exonerate_coding2genome agccactaaaattgacaaatttcagatcattctaatattgtctttgttagccttggaacctttgctcacatagagcctttcaccgattggcccagtcactattcatggtaggagtgttcggtgccatgatgttgtttggttaccttgcagataggtgagacatcagtactgaaagtgcctcatttgtacctaatagttttaaga Alignment from GeneWise ---TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTTTGGCTACCTGGCGGACAG agccactaaaattgacaaatttcagatcattctaatattgtctttgttagCCTTGGAACCTT---TGCTCACATAGAGCCTTTCACCGATTGGCCCAGTCACTATTCATGGTAGGAGTGTTCGGTGCCATGATGTTGTTTGGTTACCTTGCAGATAGgtgagacatcagtactgaaagtgcctcatttgtacctaatagttttaaga #### Slc22a8_ID2276_9 --> 1 - 2 Original Alignment gCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACtg taagagttgtacgcgctggactgtcgtttcctactcccatccctccccagg---ACAGGCATGGGCATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTTAAAGTCACAGGAGAACTGCAGTCCTTCATTCCTAACGTCATCTTTGGTACCATG---CTACTAGGAGGCAGTGCTGCATTCTTTCTACTTGAGACCCTAAATCGATCTCTACCAGAGACCATCAAGGACATACAAGACtggtaacaccttaacttttgttacacatggttaagctaacaggctaggttgc Alignment from CESAR gCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACtg ttttaagagttgtacgcgctggactgtttcctactcccatccctccccagg---ACAGGCATGGGCATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTTAAAGTCACAGGAGAACTGCAGTCCTTCATTCCTAACGTCATCTTTGGTACCATG---CTACTAGGAGGCAGTGCTGCATTCTTTCTACTTGAGACCCTAAATCGATCTCTACCAGAGACCATCAAGGACATACAAGACtggtaacaccttaacttttgttacacatggttaagctaacaggctaggttgc Alignment from Spaln_aa2Genome GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG taagagttgtacgcgctggactgtcgtttcctactcccatccctccccagG---ACAGGCATGGGCATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTTAAAGTCACAGGAGAACTGCAGTCCTTCATTCCTAACGTCATCTTTGGTACCATGCTA---CTAGGAGGCAGTGCTGCATTCTTTCTACTTGAGACCCTAAATCGATCTCTACCAGAGACCATCAAGGACATACAAGACTGgtaacaccttaacttttgttacacatggttaagctaacaggctaggttgc Alignment from Spaln_nt2Genome ACAGGTATGGGTAT-CAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG taagagttgtacgcgctggactgtcgtttcctactcccatccctccccagGACAGGCATGGGCATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTTAAAGTCACAGGAGAACTGCAGTCCTTCATTCCTAACGTCATCTTTGGTACCATG---CTACTAGGAGGCAGTGCTGCATTCTTTCTACTTGAGACCCTAAATCGATCTCTACCAGAGACCATCAAGGACATACAAGACTGgtaacaccttaacttttgttacacatggttaagctaacaggctaggttgc Alignment from Pairagon GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG taagagttgtacgcgctggactgtcgtttcctactcccatccctccccagG---ACAGGCATGGGCATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTTAAAGTCACAGGAGAACTGCAGTCCTTCATTCCTAACGTCATCTTTGGTACCATG---CTACTAGGAGGCAGTGCTGCATTCTTTCTACTTGAGACCCTAAATCGATCTCTACCAGAGACCATCAAGGACATACAAGACTGgtaacaccttaacttttgttacacatggttaagctaacaggctaggttgc Alignment from Exonerate_protein2genome GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG taagagttgtacgcgctggactgtcgtttcctactcccatccctccccagG---ACAGGCATGGGCATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTTAAAGTCACAGGAGAACTGCAGTCCTTCATTCCTAACGTCATCTTTGGTACCATG---CTACTAGGAGGCAGTGCTGCATTCTTTCTACTTGAGACCCTAAATCGATCTCTACCAGAGACCATCAAGGACATACAAGACTGgtaacaccttaacttttgttacacatggttaagctaacaggctaggttgc Alignment from Exonerate_coding2genome GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG taagagttgtacgcgctggactgtcgtttcctactcccatccctccccagG---ACAGGCATGGGCATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTTAAAGTCACAGGAGAACTGCAGTCCTTCATTCCTAACGTCATCTTTGGTACCATG---CTACTAGGAGGCAGTGCTGCATTCTTTCTACTTGAGACCCTAAATCGATCTCTACCAGAGACCATCAAGGACATACAAGACTGgtaacaccttaacttttgttacacatggttaagctaacaggctaggttgc Alignment from GeneWise GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG taagagttgtacgcgctggactgtcgtttcctactcccatccctccccagG---ACAGGCATGGGCATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTTAAAGTCACAGGAGAACTGCAGTCCTTCATTCCTAACGTCATCTTTGGTACCATG---CTACTAGGAGGCAGTGCTGCATTCTTTCTACTTGAGACCCTAAATCGATCTCTACCAGAGACCATCAAGGACATACAAGACTGgtaacaccttaacttttgttacacatggttaagctaacaggctaggttgc #### Slc29a2_ID792_6 --> 2 - 0 Original Alignment gtGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG tccggaattgggagacttggaccgccgcacagtcacttcttctttcctaggt---------GCCCAAACCTCTGCTCTGGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCTTGCCTCACCTGgtgtgttgctgtatagtttatgttatgctatgcaccacttgaacataaaa Alignment from CESAR gtGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG acaaacaaatccggaattgggagaccgcacagtcacttcttctttcctaggt---------GCCCAAACCTCTGCTCTGGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCTTGCCTCACCTGgtgtgttgctgtatagtttatgttatgctatgcaccacttgaacataaaa Alignment from Spaln_aa2Genome GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG tccggaattgggagacttggaccgccgcacagtcacttcttctttcctagGT---------GCCCAAACCTCTGCTCTGGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCTTGCCTCACCTGgtgtgttgctgtatagtttatgttatgctatgcaccacttgaacataaaa Alignment from Spaln_nt2Genome ATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG tccggaattgggagacttggaccgccgcacagtcacttcttctttcctagGTGCCCAAACCTCTGCTCTGGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCTTGCCTCACCTGgtgtgttgctgtatagtttatgttatgctatgcaccacttgaacataaaa Alignment from Pairagon GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG tccggaattgggagacttggaccgccgcacagtcacttcttctttcctagG---------TGCCCAAACCTCTGCTCTGGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCTTGCCTCACCTGgtgtgttgctgtatagtttatgttatgctatgcaccacttgaacataaaa Alignment from Exonerate_protein2genome ATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG tccggaattgggagacttggaccgccgcacagtcacttcttctttcctagGTGCCCAAACCTCTGCTCTGGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCTTGCCTCACCTGgtgtgttgctgtatagtttatgttatgctatgcaccacttgaacataaaa Alignment from Exonerate_coding2genome ATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG tccggaattgggagacttggaccgccgcacagtcacttcttctttcctagGTGCCCAAACCTCTGCTCTGGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCTTGCCTCACCTGgtgtgttgctgtatagtttatgttatgctatgcaccacttgaacataaaa Alignment from GeneWise --------AGTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG tccggaattgggagacttggaccgccgcacagTCACTTCTTCTTTCCTAGGTGCCCAAACCTCTGCTCTGGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCTTGCCTCACCTGgtgtgttgctgtatagtttatgttatgctatgcaccacttgaacataaaa #### Slc29a2_ID793_7 --> 0 - 1 Original Alignment ------AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGCTg ggggtctgcattcaggatgtgaggcgtttctctgtccccctgtcccccagTCAGGGAAGTTTTCCCGTTACTACCTAACCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCTGAACTCCTCCAAGCAggtaggtatcaggattccttgggtctgttggaggtttaaccctcttttgga Alignment from CESAR ------AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGCTg ggggtctgcattcaggatgtgaggcgtttctctgtccccctgtcccccagTCAGGGAAGTTTTCCCGTTACTACCTAACCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCTGAACTCCTCCAAGCAggtaggtatcaggattccttgggtctgttggaggtttaaccctcttttgga Alignment from Spaln_aa2Genome ------AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGCT ggggtctgcattcaggatgtgaggcgtttctctgtccccctgtcccccagTCAGGGAAGTTTTCCCGTTACTACCTAACCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCTGAACTCCTCCAAGCAGgtaggtatcaggattccttgggtctgttggaggtttaaccctcttttgga Alignment from Spaln_nt2Genome --AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGCTG ggggtctgcattcaggatgtgaggcgtttctctgtccccctgtcccccagtcagGGAAGTTTTCCCGTTACTACCTAACCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCTGAACTCCTCCAAGCAGgtaggtatcaggattccttgggtctgttggaggtttaaccctcttttgga Alignment from Pairagon ------AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGCTG ggggtctgcattcaggatgtgaggcgtttctctgtccccctgtcccccagTCAGGGAAGTTTTCCCGTTACTACCTAACCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCTGAACTCCTCCAAGCAGgtaggtatcaggattccttgggtctgttggaggtttaaccctcttttgga Alignment from Exonerate_protein2genome AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGCTG ggggtctgcattcaggatgtgaggcgtttctctgtccccctgtcccccagtcagggAAGTTTTCCCGTTACTACCTAACCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCTGAACTCCTCCAAGCAGgtaggtatcaggattccttgggtctgttggaggtttaaccctcttttgga Alignment from Exonerate_coding2genome AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGCTG ggggtctgcattcaggatgtgaggcgtttctctgtccccctgtcccccagtcagggAAGTTTTCCCGTTACTACCTAACCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCTGAACTCCTCCAAGCAGgtaggtatcaggattccttgggtctgttggaggtttaaccctcttttgga Alignment from GeneWise ------AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGCTG ggggtctgcattcaggatgtgaggcgtttctctgtccccctgtcccccagTCAGGGAAGTTTTCCCGTTACTACCTAACCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCTGAACTCCTCCAAGCAGgtaggtatcaggattccttgggtctgttggaggtttaaccctcttttgga #### Slc29a2_ID794_8 --> 2 - 0 Original Alignment atGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG--- cctaatgaatatccttaatgccatatgtcatgtactgtgtaaccttgcagatGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCTAGTCCAACTCTTGAGCTCGACCCCGAGAGGGAGCCAGAACCAGAGCAGCCACAGAAACCAGGAAAACCCTCAGTCTTTGTGGTTTTCCGGAAATCTgtgagctaccatgtacagccaggggtgggggcagagggttgcctggtgca Alignment from CESAR atGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG--- cctaatgaatatccttaatgccatatgtcatgtactgtgtaaccttgcagatGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCTAGTCCAACTCTTGAGCTCGACCCCGAGAGGGAGCCAGAACCAGAGCAGCCACAGAAACCAGGAAAACCCTCAGTCTTTGTGGTTTTCCGGAAATCTgtgagctaccatgtacagccaggggtgggggcagagggttgcctggtgca Alignment from Spaln_aa2Genome ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG--- cctaatgaatatccttaatgccatatgtcatgtactgtgtaaccttgcagATGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCTAGTCCAACTCTTGAGCTCGACCCCGAGAGGGAGCCAGAACCAGAGCAGCCACAGAAACCAGGAAAACCCTCAGTCTTTGTGGTTTTCCGGAAATCTgtgagctaccatgtacagccaggggtgggggcagagggttgcctggtgca Alignment from Spaln_nt2Genome ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG--- cctaatgaatatccttaatgccatatgtcatgtactgtgtaaccttgcagATGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCTAGTCCAACTCTTGAGCTCGACCCCGAGAGGGAGCCAGAACCAGAGCAGCCACAGAAACCAGGAAAACCCTCAGTCTTTGTGGTTTTCCGGAAATCTgtgagctaccatgtacagccaggggtgggggcagagggttgcctggtgca Alignment from Pairagon ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGA------------------------------------------------------- cctaatgaatatccttaatgccatatgtcatgtactgtgtaaccttgcagATGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCTAGTCCAACTCTTGAGCTCGACCCCGAGAGGGAGCCAGAACCAGAGCAGCCACAGAAACCAGGAAAACCCTCAGTCTTTGTGGTTTTCCGGAAATCTGTGAGCTACCATGTACAGCCAGGGGTGGGGGCAGAGGGTTGCCTGGTGCA Alignment from Exonerate_protein2genome ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG--- cctaatgaatatccttaatgccatatgtcatgtactgtgtaaccttgcagATGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCTAGTCCAACTCTTGAGCTCGACCCCGAGAGGGAGCCAGAACCAGAGCAGCCACAGAAACCAGGAAAACCCTCAGTCTTTGTGGTTTTCCGGAAATCTgtgagctaccatgtacagccaggggtgggggcagagggttgcctggtgca Alignment from Exonerate_coding2genome ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAG--- cctaatgaatatccttaatgccatatgtcatgtactgtgtaaccttgcagATGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCTAGTCCAACTCTTGAGCTCGACCCCGAGAGGGAGCCAGAACCAGAGCAGCCACAGAAACCAGGAAAACCCTCAGTCTTTGTGGTTTTCCGGAAATCTgtgagctaccatgtacagccaggggtgggggcagagggttgcctggtgca Alignment from GeneWise ATGAGAAGAATGGGGTTCCCATCAGCCCCCAACAGGCCAGCCCAACTCTGGATCTTGACCCTGAGAAGGAGCCAGAGCCGGAGGAGCCACAGAAGCCAGGAAAACCTTCAGTCTTTGTTGTCTTCCGGAAGATC cctaatgaatatccttaatgccatatgtcatgtactgtgtaaccttgcagATGCAAAGAATGGGGTTCCTGTCAGTCCTCAGCAGGCTAGTCCAACTCTTGAGCTCGACCCCGAGAGGGAGCCAGAACCAGAGCAGCCACAGAAACCAGGAAAACCCTCAGTCTTTGTGGTTTTCCGGAAATCTgtgagctaccatgtacagccaggggtgggggcagagggttgcctggtgca #### Slc3a2_ID2303_6 --> 0 - 2 Original Alignment AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACag taggttcatgttctgtgtgcaaagttctgtgcccaatgctgtcactgcag------CCCTTGTACTTAGCAGAGTGGCAGAACATCTCCAAGAACCTT---GAAGACaggtgaggatgcagcagtgcattctagtaactccctctaagcactctttgaa Alignment from CESAR AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACag ccttggtaggttcatgttctgtgtgtctgtgcccaatgctgtcactgcag------CCCTTGTACTTAGCAGAGTGGCAGAACATCTCCAAGAACCTT---GAAGACaggtgaggatgcagcagtgcattctagtaactccctctaagcactctttgaa Alignment from Spaln_aa2Genome AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACAG taggttcatgttctgtgtgcaaagttctgtgcccaatgctgtcactgcag------CCCTTGTACTTAGCAGAGTGGCAGAACATCTCCAAGAACCTT---GAAGACAGgtgaggatgcagcagtgcattctagtaactccctctaagcactctttgaa Alignment from Spaln_nt2Genome CCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACAG taggttcatgttctgtgtgcaaagttctgtgcccaatgctgtcactgcagCCCTTGTACTTAGCAGAGTGGCAGAACATCTCCAAGAACCT---TGAAGACAGgtgaggatgcagcagtgcattctagtaactccctctaagcactctttgaa Alignment from Pairagon AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACAG taggttcatgttctgtgtgcaaagttctgtgcccaatgctgtcactgcag------CCCTTGTACTTAGCAGAGTGGCAGAACATCTCCAAGAACCT---TGAAGACAGgtgaggatgcagcagtgcattctagtaactccctctaagcactctttgaa Alignment from Exonerate_protein2genome CCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACAG taggttcatgttctgtgtgcaaagttctgtgcccaatgctgtcactgcagCCCTTGTACTTAGCAGAGTGGCAGAACATCTCCAAGAACCTT---GAAGACAGgtgaggatgcagcagtgcattctagtaactccctctaagcactctttgaa Alignment from Exonerate_coding2genome CCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACAG taggttcatgttctgtgtgcaaagttctgtgcccaatgctgtcactgcagCCCTTGTACTTAGCAGAGTGGCAGAACATCTCCAAGAACCTT---GAAGACAGgtgaggatgcagcagtgcattctagtaactccctctaagcactctttgaa Alignment from GeneWise CCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACAG taggttcatgttctgtgtgcaaagttctgtgcccaatgctgtcactgcagCCCTTGTACTTAGCAGAGTGGCAGAACATCTCCAAGAACCTT---GAAGACAGgtgaggatgcagcagtgcattctagtaactccctctaagcactctttgaa #### Smc3_ID11337_25 --> 0 - 0 Original Alignment ---TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG atgaaaggtctgagacctcccagtaattcactgcatatgctctgttacagTGTGTATTCCAAAAACTGGAGCAATGCAACACAGAATTGAAGAAATACGGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCCGAGCAGAAGGAAAAGTTGATAAAGTGGCAGGAGGAACTGGATAGC---TATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtatgtaataagttattctagtgtgcagaacgagtgaatatgtgtaaaat Alignment from CESAR ---TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG atgaaaggtctgagacctcccagtaattcactgcatatgctctgttacagTGTGTATTCCAAAAACTGGAGCAATGCAACACAGAATTGAAGAAATACGGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCCGAGCAGAAGGAAAAGTTGATAAAGTGGCAGGAGGAACTGGAT---AGCTATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtatgtaataagttattctagtgtgcagaacgagtgaatatgtgtaaaat Alignment from Spaln_aa2Genome ---TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG atgaaaggtctgagacctcccagtaattcactgcatatgctctgttacagTGTGTATTCCAAAAACTGGAGCAATGCAACACAGAATTGAAGAAATACGGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCCGAGCAGAAGGAAAAGTTGATAAAGTGGCAGGAGGAACTGGAT---AGCTATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtatgtaataagttattctagtgtgcagaacgagtgaatatgtgtaaaat Alignment from Spaln_nt2Genome T---TGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG atgaaaggtctgagacctcccagtaattcactgcatatgctctgttacagTGTGTATTCCAAAAACTGGAGCAATGCAACACAGAATTGAAGAAATACGGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCCGAGCAGAAGGAAAAGTTGATAAAGTGGCAGGAGGAACTGGATA---GCTATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtatgtaataagttattctagtgtgcagaacgagtgaatatgtgtaaaat Alignment from Pairagon T---TGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG atgaaaggtctgagacctcccagtaattcactgcatatgctctgttacagTGTGTATTCCAAAAACTGGAGCAATGCAACACAGAATTGAAGAAATACGGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCCGAGCAGAAGGAAAAGTTGATAAAGTGGCAGGAGGAACTGGATA---GCTATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtatgtaataagttattctagtgtgcagaacgagtgaatatgtgtaaaat Alignment from Exonerate_protein2genome ---TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG atgaaaggtctgagacctcccagtaattcactgcatatgctctgttacagTGTGTATTCCAAAAACTGGAGCAATGCAACACAGAATTGAAGAAATACGGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCCGAGCAGAAGGAAAAGTTGATAAAGTGGCAGGAGGAACTGGAT---AGCTATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtatgtaataagttattctagtgtgcagaacgagtgaatatgtgtaaaat Alignment from Exonerate_coding2genome ---TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG atgaaaggtctgagacctcccagtaattcactgcatatgctctgttacagTGTGTATTCCAAAAACTGGAGCAATGCAACACAGAATTGAAGAAATACGGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCCGAGCAGAAGGAAAAGTTGATAAAGTGGCAGGAGGAACTGGAT---AGCTATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtatgtaataagttattctagtgtgcagaacgagtgaatatgtgtaaaat Alignment from GeneWise ---TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG atgaaaggtctgagacctcccagtaattcactgcatatgctctgttacagTGTGTATTCCAAAAACTGGAGCAATGCAACACAGAATTGAAGAAATACGGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCCGAGCAGAAGGAAAAGTTGATAAAGTGGCAGGAGGAACTGGAT---AGCTATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtatgtaataagttattctagtgtgcagaacgagtgaatatgtgtaaaat #### Smc3_ID11338_26 --> 0 - 0 Original Alignment GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG taagcagagaagcatgccacctaggtgattcttctcttttaatgtctcag---TCTAAGAACTTCAGTGAAGTCTTCCAGAAATTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGCAGCGAATCTAAGGACAAAGGAGAGGGGAGTGGTGAGAGTGAGCGAGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGGgtgagtgacttattatacttagtttctgttgtacctttttgatttaaaac Alignment from CESAR GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG ttttaagcagagaagcatgccaccttgattcttctcttttaatgtctcag---TCTAAGAACTTCAGTGAAGTCTTCCAGAAATTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGCAGCGAATCTAAGGACAAAGGAGAGGGGAGTGGTGAGAGTGAGCGAGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGGgtgagtgacttattatacttagtttctgttgtacctttttgatttaaaac Alignment from Spaln_aa2Genome TGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG taagcagagaagcatgccacctaggtgattcttctcttttaatgtctcagtctaagaacttcagTGAAGTCTTCCAGAAATTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGCAGCGAATCTAAGGACAAAGGAGAGGGGAGTGGTGAGAGTGAGCGAGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGGgtgagtgacttattatacttagtttctgttgtacctttttgatttaaaac Alignment from Spaln_nt2Genome TCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG taagcagagaagcatgccacctaggtgattcttctcttttaatgtctcagTCTAAGAACTTCAGTGAAGTCTTCCAGAAATTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGCAGCGAATCTAAGGACAAAGGAGAGGGGAGTGGTGAGAGTGAGCGAGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGGgtgagtgacttattatacttagtttctgttgtacctttttgatttaaaac Alignment from Pairagon ACAGGTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG taagcagagaagcatgccacctaggtgattcttctcttttaatgtctcag-------TCTAAGAACTTCAGTGAAGTCTTCCAGAAATTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGCAGCGAATCTAAGGACAAAGGAGAGGGGAGTGGTGAGAGTGAGCGAGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGGgtgagtgacttattatacttagtttctgttgtacctttttgatttaaaac Alignment from Exonerate_protein2genome TCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG taagcagagaagcatgccacctaggtgattcttctcttttaatgtctcagTCTAAGAACTTCAGTGAAGTCTTCCAGAAATTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGCAGCGAATCTAAGGACAAAGGAGAGGGGAGTGGTGAGAGTGAGCGAGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGGgtgagtgacttattatacttagtttctgttgtacctttttgatttaaaac Alignment from Exonerate_coding2genome TCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG taagcagagaagcatgccacctaggtgattcttctcttttaatgtctcagTCTAAGAACTTCAGTGAAGTCTTCCAGAAATTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGCAGCGAATCTAAGGACAAAGGAGAGGGGAGTGGTGAGAGTGAGCGAGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGGgtgagtgacttattatacttagtttctgttgtacctttttgatttaaaac Alignment from GeneWise TGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG taagcagagaagcatgccacctaggtgattcttctcttttaatgtctcagtctaagaacttcagTGAAGTCTTCCAGAAATTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGCAGCGAATCTAAGGACAAAGGAGAGGGGAGTGGTGAGAGTGAGCGAGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGGgtgagtgacttattatacttagtttctgttgtacctttttgatttaaaac #### Smc5_ID5110_21 --> 0 - 0 Original Alignment GTGGTTGAGGAGTACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCGCAG tactttaatttcgttttatcccatgttacagccttgcccctccttctcagGTGGTTGAGAAGTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAAGAACTGCAAGGTAAAAAAGTTGAACTAGATGAATATAGGGAAAAC---------gtgagtcattctcagatgaggcttttctggtgtcatgattgtgatgtgat Alignment from CESAR GTGGTTGAGGAGTACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCGCAG tactttaatttcgttttatcccatgttacagccttgcccctccttctcagGTGGTTGAGAAGTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAAGAACTGCAAGGTAAAAAAGTTGAACTAGATGAATATAGGGAAAAC---------gtgagtcattctcagatgaggcttttctggtgtcatgattg Alignment from Spaln_aa2Genome GTGGTTGAGGAGTACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAAC tactttaatttcgttttatcccatgttacagccttgcccctccttctcagGTGGTTGAGAAGTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAAGAACTGCAAGGTAAAAAAGTTGAACTAGATGAATATAGGGAAAACgtgagtcattctcagatgaggcttttctggtgtcatgattgtgatgtgat Alignment from Spaln_nt2Genome GTGGTTGAGGAGTACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACAT------TTCGCAG----- tactttaatttcgttttatcccatgttacagccttgcccctccttctcagGTGGTTGAGAAGTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAAGAACTGCAAGGTAAAAAAGTTGAACTAGATGAATATAGGGAAAACGTGAGTCATTCTCAGATGAGgcttttctggtgtcatgattgtgatgtgat Alignment from Pairagon GTGGTTGAGGAGTACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAAC tactttaatttcgttttatcccatgttacagccttgcccctccttctcagGTGGTTGAGAAGTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAAGAACTGCAAGGTAAAAAAGTTGAACTAGATGAATATAGGGAAAACgtgagtcattctcagatgaggcttttctggtgtcatgattgtgatgtgat Alignment from Exonerate_protein2genome GTGGTTGAGGAGTACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAAC tactttaatttcgttttatcccatgttacagccttgcccctccttctcagGTGGTTGAGAAGTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAAGAACTGCAAGGTAAAAAAGTTGAACTAGATGAATATAGGGAAAACgtgagtcattctcagatgaggcttttctggtgtcatgattgtgatgtgat Alignment from Exonerate_coding2genome GTGGTTGAGGAGTACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAAC tactttaatttcgttttatcccatgttacagccttgcccctccttctcagGTGGTTGAGAAGTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAAGAACTGCAAGGTAAAAAAGTTGAACTAGATGAATATAGGGAAAACgtgagtcattctcagatgaggcttttctggtgtcatgattgtgatgtgat Alignment from GeneWise GTGGTTGAGGAGTACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAAC tactttaatttcgttttatcccatgttacagccttgcccctccttctcagGTGGTTGAGAAGTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAAGAACTGCAAGGTAAAAAAGTTGAACTAGATGAATATAGGGAAAACgtgagtcattctcagatgaggcttttctggtgtcatgattgtgatgtgat #### Snx15_ID1466_6 --> 2 - 1 Original Alignment tgGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAG------------g atgttcacacccctagggtgagtctcaactttggcttcaacttttctcagtgGACCCTCTACCATCTGGTCCTGCCCAGGAGGCCCTGGATCCTCTCTTCAGCTGTGACAGTACGGAGGAGGCTTCTGGTACCCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGAGTACCGCGACATCggtgagcctggatggaggggcagtcctaagggccttgaagaacaccaacaa Alignment from CESAR tgGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAG------------g atgttcacacccctagggtgagtctcaactttggcttcaacttttctcagtgGACCCTCTACCATCTGGTCCTGCCCAGGAGGCCCTGGATCCTCTCTTCAGCTGTGACAGTACGGAGGAGGCTTCTGGTACCCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGAGTACCGCGACATCggtgagcctggatggaggggcagtcctaagggccttgaagaacaccaacaa Alignment from Spaln_aa2Genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAG---G atgttcacacccctagggtgagtctcaactttggcttcaacttttctcagTGGACCCTCTACCATCTGGTCCTGCCCAGGAGGCCCTGGATCCTCTCTTCAGCTGTGACAGTACGGAGGAGGCTTCTGGTACCCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGAGTACCgcgacatcggtgagcctggatggaggggcagtcctaagggccttgaagaacaccaacaa Alignment from Spaln_nt2Genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGA atgttcacacccctagggtgagtctcaactttggcttcaacttttctcagTGGACCCTCTACCATCTGGTCCTGCCCAGGAGGCCCTGGATCCTCTCTTCAGCTGTGACAGTACGGAGGAGGCTTCTGGTACCCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGAgtaccgcgacatcggtgagcctggatggaggggcagtcctaagggccttgaagaacaccaacaa Alignment from Pairagon TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAG------------G atgttcacacccctagggtgagtctcaactttggcttcaacttttctcagTGGACCCTCTACCATCTGGTCCTGCCCAGGAGGCCCTGGATCCTCTCTTCAGCTGTGACAGTACGGAGGAGGCTTCTGGTACCCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGAGTACCGCGACATCGgtgagcctggatggaggggcagtcctaagggccttgaagaacaccaacaa Alignment from Exonerate_protein2genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGA atgttcacacccctagggtgagtctcaactttggcttcaacttttctcagTGGACCCTCTACCATCTGGTCCTGCCCAGGAGGCCCTGGATCCTCTCTTCAGCTGTGACAGTACGGAGGAGGCTTCTGGTACCCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGAgtaccgcgacatcggtgagcctggatggaggggcagtcctaagggccttgaagaacaccaacaa Alignment from Exonerate_coding2genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGA atgttcacacccctagggtgagtctcaactttggcttcaacttttctcagTGGACCCTCTACCATCTGGTCCTGCCCAGGAGGCCCTGGATCCTCTCTTCAGCTGTGACAGTACGGAGGAGGCTTCTGGTACCCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGAgtaccgcgacatcggtgagcctggatggaggggcagtcctaagggccttgaagaacaccaacaa Alignment from GeneWise TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAG------------G atgttcacacccctagggtgagtctcaactttggcttcaacttttctcagTGGACCCTCTACCATCTGGTCCTGCCCAGGAGGCCCTGGATCCTCTCTTCAGCTGTGACAGTACGGAGGAGGCTTCTGGTACCCTGGCTCGAGGTCCCCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCAAAAGAGTACCGCGACATCGgtgagcctggatggaggggcagtcctaagggccttgaagaacaccaacaa #### Snx15_ID1467_5 --> 0 - 1 Original Alignment GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAg tccctggtcagccatatccctgcccttgattctcccgctgcttgccctagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCCAGAGACCTGCGAATTCTGCTACCTCCTCTCATTCCAACAATGCCTCCAGTTGAGGCTCGTTTACTTCAGGCTTTGCCTGCTGAAAGAAGGGGCCAGGAAGAGTTGGAA------ggtgagtccgccactggtttcaggcaatgggctgatactgccaattgtaac Alignment from CESAR GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAg tccctggtcagccatatccctgcccttgattctcccgctgcttgccctagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCCAGAGACCTGCGAATTCTGCTACCTCCTCTCATTCCAACAATGCCTCCAGTTGAGGCTCGTTTACTTCAGGCTTTGCCTGCTGAAAGAAGGGGCCAGGAAGAGTTGGAA------ggtgagtccgccactggtttcaggcaatgggctgatactgccaattgtaac Alignment from Spaln_aa2Genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAG- tccctggtcagccatatccctgcccttgattctcccgctgcttgccctagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCCAGAGACCTGCGAATTCTGCTACCTCCTCTCATTCCAACAATGCCTCCAGTTGAGGCTCGTTTACTTCAGGCTTTGCCTGCTGAAAGAAGGGGCCAGGAAGAGTTGGAAGgtgagtccgccactggtttcaggcaatgggctgatactgccaattgtaac Alignment from Spaln_nt2Genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAG tccctggtcagccatatccctgcccttgattctcccgctgcttgccctagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCCAGAGACCTGCGAATTCTGCTACCTCCTCTCATTCCAACAATGCCTCCAGTTGAGGCTCGTTTACTTCAGGCTTTGCCTGCTGAAAGAAGGGGCCAGGAAGAGTTGGA------AGgtgagtccgccactggtttcaggcaatgggctgatactgccaattgtaac Alignment from Pairagon GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAG tccctggtcagccatatccctgcccttgattctcccgctgcttgccctagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCCAGAGACCTGCGAATTCTGCTACCTCCTCTCATTCCAACAATGCCTCCAGTTGAGGCTCGTTTACTTCAGGCTTTGCCTGCTGAAAGAAGGGGCCAGGAAGAGTTGGA------AGgtgagtccgccactggtttcaggcaatgggctgatactgccaattgtaac Alignment from Exonerate_protein2genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGG tccctggtcagccatatccctgcccttgattctcccgctgcttgccctagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCCAGAGACCTGCGAATTCTGCTACCTCCTCTCATTCCAACAATGCCTCCAGTTGAGGCTCGTTTACTTCAGGCTTTGCCTGCTGAAAGAAGGGGCCAGGAAGAGTTGGAAGgtgagtccgccactggtttcaggcaatgggctgatactgccaattgtaac Alignment from Exonerate_coding2genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGG tccctggtcagccatatccctgcccttgattctcccgctgcttgccctagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCCAGAGACCTGCGAATTCTGCTACCTCCTCTCATTCCAACAATGCCTCCAGTTGAGGCTCGTTTACTTCAGGCTTTGCCTGCTGAAAGAAGGGGCCAGGAAGAGTTGGAAGgtgagtccgccactggtttcaggcaatgggctgatactgccaattgtaac Alignment from GeneWise GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGG tccctggtcagccatatccctgcccttgattctcccgctgcttgccctagGGTGGGGAGATAACACGCCCCTCTGAGGTGTCCAGAGACCTGCGAATTCTGCTACCTCCTCTCATTCCAACAATGCCTCCAGTTGAGGCTCGTTTACTTCAGGCTTTGCCTGCTGAAAGAAGGGGCCAGGAAGAGTTGGAAGgtgagtccgccactggtttcaggcaatgggctgatactgccaattgtaac #### Snx32_ID1067_11 --> 0 - 1 Original Alignment GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAg acttccatgatataattgccctttgaatatcattttgctccatcccacag---------TACCGCCGGCTCCGGGCACTAGCTGAGTACGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAGCAGTTTGACTGCCTCTCTGACTCTGCCAAACAAggtatgccctgaaggattgcaacagtccacccaccagagccattatcaatc Alignment from CESAR GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGCCAGCGC---TTCGAGCGCCTCTCTGACTCCGCCAAACAAg agtcataacacttccatgatataataatatcattttgctccatcccacag---------TACCGCCGGCTCCGGGCACTAGCTGAGTACGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAGCAGTTTGACTGCCTCTCTGACTCTGCCAAACAAggtatgccctgaaggattgcaacagtccacccaccagagccattatcaata Alignment from Spaln_aa2Genome GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAG acttccatgatataattgccctttgaatatcattttgctccatcccacag---------TACCGCCGGCTCCGGGCACTAGCTGAGTACGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAGCAGTTTGACTGCCTCTCTGACTCTGCCAAACAAGgtatgccctgaaggattgcaacagtccacccaccagagccattatcaatc Alignment from Spaln_nt2Genome GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGCCAGC-GC--TTCGAGCGCCTCTCTGACTCCGCCAAACAAG acttccatgatataattgccctttgaatatcattttgctccatcccacag---------TACCGCCGGCTCCGGGCACTAGCTGAGTACGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAGCAGTTTGACTGCCTCTCTGACTCTGCCAAACAAGgtatgccctgaaggattgcaacagtccacccaccagagccattatcaatc Alignment from Pairagon GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGCCAGCGCTTCGAGC---------GCCTCTCTGACTCCGCCAAACAAG acttccatgatataattgccctttgaatatcattttgctccatcccacag---------TACCGCCGGCTCCGGGCACTAGCTGAGTACGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGC------AGCAGTTTGACTGCCTCTCTGACTCTGCCAAACAAGgtatgccctgaaggattgcaacagtccacccaccagagccattatcaatc Alignment from Exonerate_protein2genome GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAG acttccatgatataattgccctttgaatatcattttgctccATCCCACAGTACCGCCGGCTCCGGGCACTAGCTGAGTACGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAGCAGTTTGACTGCCTCTCTGACTCTGCCAAACAAGgtatgccctgaaggattgcaacagtccacccaccagagccattatcaatc Alignment from Exonerate_coding2genome GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAG acttccatgatataattgccctttgaatatcattttgctccATCCCACAGTACCGCCGGCTCCGGGCACTAGCTGAGTACGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAGCAGTTTGACTGCCTCTCTGACTCTGCCAAACAAGgtatgccctgaaggattgcaacagtccacccaccagagccattatcaatc Alignment from GeneWise TACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGCCAGCGC---TTCGAGCGCCTCTCTGACTCCGCCAAACAAG acttccatgatataattgccctttgaatatcattttgctccatcccacagTACCGCCGGCTCCGGGCACTAGCTGAGTACGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAGCAGTTTGACTGCCTCTCTGACTCTGCCAAACAAGgtatgccctgaaggattgcaacagtccacccaccagagccattatcaatc #### Snx32_ID1069_9 --> 1 - 0 Original Alignment gAGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA ctcagggcatgcatgtgggtgagccctggttacttatatggctttgacaggAGCTTTCTAAAACTGGCAGAACTGTTTGATCGG------gtaggggtgctcactaccttcaacactagatctgctcagggatggccaag Alignment from CESAR gAGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA ctcagggcatgcatgtgggtgagccctggttacttatatggctttgacaggAGCTTTCTAAAACTGGCAGAACTGTTTGATCGGGTAGGGgtgctcactaccttcaacactagatctgctcagggatggccaag Alignment from Spaln_aa2Genome GAGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA ctcagggcatgcatgtgggtgagccctggttacttatatggctttgacagGAGCTTTCTAAAACTGGCAGAACTGTTTGATCGGGTAGGGgtgctcactaccttcaacactagatctgctcagggatggccaag Alignment from Spaln_nt2Genome GAGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA ctcagggcatgcatgtgggtgagccctggttacttatatggctttgacagGAGCTTTCTAAAACTGGCAGAACTGTTTGATCGGGTAGGGgtgctcactaccttcaacactagatctgctcagggatggccaag Alignment from Pairagon GAGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGG ctcagggcatgcatgtgggtgagccctggttacttatatggctttgacagGAGCTTTCTAAAACTGGCAGAACTGTTTGATCGGgtaggggtgctcactaccttcaacactagatctgctcagggatggccaag Alignment from Exonerate_protein2genome GAGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA ctcagggcatgcatgtgggtgagccctggttacttatatggctttgacagGAGCTTTCTAAAACTGGCAGAACTGTTTGATCGGGTAGGGgtgctcactaccttcaacactagatctgctcagggatggccaag Alignment from Exonerate_coding2genome ctcagggcatgcatgtgggtgagccctggttacttatatggctttgacaggagctttctaaaactggcagaactgtttgatcgggtaggggtgctcactaccttcaacactagatctgctcagggatggccaag Alignment from GeneWise GAGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA ctcagggcatgcatgtgggtgagccctggttacttatatggctttgacagGAGCTTTCTAAAACTGGCAGAACTGTTTGATCGGGTAGGGgtgctcactaccttcaacactagatctgctcagggatggccaag #### Sptbn2_ID610_5 --> 1 - 2 Original Alignment a---------TACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACcg tccaatactgatatggcagagtatttacctgtttcctttttcttccccagaTGGTCTTCATACCCCAATGTCAATGTGCATAACTTCACCACCAGCTGGAGAGATGGGCTAGCCTTTAATGCCATCGTGCATAAACACcggtaagagtgtgaggtccatgacttagatatttgtgcacaggcattgtaag Alignment from CESAR a---------TACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACcg tccaatactgatatggcagagtatttacctgtttcctttttcttccccagaTGGTCTTCATACCCCAATGTCAATGTGCATAACTTCACCACCAGCTGGAGAGATGGGCTAGCCTTTAATGCCATCGTGCATAAACACcggtaagagtgtgaggtccatgacttagatatttgtgcacaggcattgtaag Alignment from Spaln_aa2Genome ATACCCCAAT---------GTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG tccaatactgatatggcagagtatttacctgtttcctttttcttccccagATGGTCTTCATACCCCAATGTCAATGTGCATAACTTCACCACCAGCTGGAGAGATGGGCTAGCCTTTAATGCCATCGTGCATAAACACCGgtaagagtgtgaggtccatgacttagatatttgtgcacaggcattgtaag Alignment from Spaln_nt2Genome ATACCCCAA---------TGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG tccaatactgatatggcagagtatttacctgtttcctttttcttccccagATGGTCTTCATACCCCAATGTCAATGTGCATAACTTCACCACCAGCTGGAGAGATGGGCTAGCCTTTAATGCCATCGTGCATAAACACCGgtaagagtgtgaggtccatgacttagatatttgtgcacaggcattgtaag Alignment from Pairagon ---------ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG tccaatactgatatggcagagtatttacctgtttcctttttcttccccagATGGTCTTCATACCCCAATGTCAATGTGCATAACTTCACCACCAGCTGGAGAGATGGGCTAGCCTTTAATGCCATCGTGCATAAACACCGgtaagagtgtgaggtccatgacttagatatttgtgcacaggcattgtaag Alignment from Exonerate_protein2genome tccaatactgatatggcagagtatttacctgtttcctttttcttccccagatggtcttcataccccaatgtcaatgtgcataacttcaccaccagctggagagatgggctagcctttaatgccatcgtgcataaacaccggtaagagtgtgaggtccatgacttagatatttgtgcacaggcattgtaag Alignment from Exonerate_coding2genome tccaatactgatatggcagagtatttacctgtttcctttttcttccccagatggtcttcataccccaatgtcaatgtgcataacttcaccaccagctggagagatgggctagcctttaatgccatcgtgcataaacaccggtaagagtgtgaggtccatgacttagatatttgtgcacaggcattgtaag Alignment from GeneWise -------GGATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG tccaatactgatatggcagagtatttacctgtttcctttttcttccccagATGGTCTTCATACCCCAATGTCAATGTGCATAACTTCACCACCAGCTGGAGAGATGGGCTAGCCTTTAATGCCATCGTGCATAAACACCGgtaagagtgtgaggtccatgacttagatatttgtgcacaggcattgtaag #### Sptbn2_ID628_23 --> 0 - 2 Original Alignment GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGag ctcaagaagacctgaagttttgcaatgcgacttctgtccttgtgtcttag------CTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAACATCCAGAGaggtatgtgcatgtatgtgatctttagcagtttattattgctcctgttttag Alignment from CESAR GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGag ctcttactcaagaagacctgaagtttgcgacttctgtccttgtgtcttag------CTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAACATCCAGAGaggtatgtgcatgtatgtgatctttagcagttccttggattttttcctacag Alignment from Spaln_aa2Genome GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG ctcaagaagacctgaagttttgcaatgcgacttctgtccttgtgtcttag------CTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAACATCCAGAGAGgtatgtgcatgtatgtgatctttagcagtttattattgctcctgttttag Alignment from Spaln_nt2Genome GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG ctcaagaagacctgaagttttgcaatgcgacttctgtccttgtgtcttag------CTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAACATCCAGAGAGgtatgtgcatgtatgtgatctttagcagtttattattgctcctgttttag Alignment from Pairagon GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG ctcaagaagacctgaagttttgcaatgcgacttctgtccttgtgtcttag------CTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAACATCCAGAGAGgtatgtgcatgtatgtgatctttagcagtttattattgctcctgttttag Alignment from Exonerate_protein2genome GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG ctcaagaagacctgaagttttgcaatgcgacttctgtccttgtgTCTTAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAACATCCAGAGAGgtatgtgcatgtatgtgatctttagcagtttattattgctcctgttttag Alignment from Exonerate_coding2genome GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG ctcaagaagacctgaagttttgcaatgcgacttctgtccttgtgTCTTAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAACATCCAGAGAGgtatgtgcatgtatgtgatctttagcagtttattattgctcctgttttag Alignment from GeneWise -GCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG ctcaagaagacctgaagttttgcaatgcgacttctgtccttgtgtcttagctgagTGCCCAGGCAGAGGTAAGGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAACATCCAGAGAGgtatgtgcatgtatgtgatctttagcagtttattattgctcctgttttag #### Sptbn2_ID629_24 --> 1 - 0 Original Alignment c---------ACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT gtactagcatgtatgtgatctttagcagtctttaatatgttatcttccagcAATCTGTCTACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGTTGGCAGGAGAGCGGCATCAACGGCTGCAGGAGCACCTCCGGCCGTGCCAACTCCGAAGAGAGCTAGATGATCTAGAACAGTGGATACAGGAGCATGAGGTTGTTGCAGCCTCCCATGAGTTGGGCCAAGACTATGAACATGTGACTgtgagcttacagtttcacaaacaggaccaaaatgtgtgaggtgacaaggg Alignment from CESAR c---------ACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT gtatgtgcatgtatgtgatctttagcagtctttaatatgttatcttccagcAATCTGTCTACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGTTGGCAGGAGAGCGGCATCAACGGCTGCAGGAGCACCTCCGGCCGTGCCAACTCCGAAGAGAGCTAGATGATCTAGAACAGTGGATACAGGAGCATGAGGTTGTTGCAGCCTCCCATGAGTTGGGCCAAGACTATGAACATGTGACTgtgagcttacagtttcacaaacaggaccaaaatgtgtgaggtgacaaggg Alignment from Spaln_aa2Genome CACAAGACTAACA---------ATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT gtactagcatgtatgtgatctttagcagtctttaatatgttatcttccagCAATCTGTCTACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGTTGGCAGGAGAGCGGCATCAACGGCTGCAGGAGCACCTCCGGCCGTGCCAACTCCGAAGAGAGCTAGATGATCTAGAACAGTGGATACAGGAGCATGAGGTTGTTGCAGCCTCCCATGAGTTGGGCCAAGACTATGAACATGTGACTgtgagcttacagtttcacaaacaggaccaaaatgtgtgaggtgacaaggg Alignment from Spaln_nt2Genome CACAAGACTA---------ACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT gtactagcatgtatgtgatctttagcagtctttaatatgttatcttccagCAATCTGTCTACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGTTGGCAGGAGAGCGGCATCAACGGCTGCAGGAGCACCTCCGGCCGTGCCAACTCCGAAGAGAGCTAGATGATCTAGAACAGTGGATACAGGAGCATGAGGTTGTTGCAGCCTCCCATGAGTTGGGCCAAGACTATGAACATGTGACTgtgagcttacagtttcacaaacaggaccaaaatgtgtgaggtgacaaggg Alignment from Pairagon -----------------------------------------------------------CACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT GTACTAGCATGTATGTGATCTTTAGCAGTCTTTAATATGTTATCTTCCAGCAATCTGTCTACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGTTGGCAGGAGAGCGGCATCAACGGCTGCAGGAGCACCTCCGGCCGTGCCAACTCCGAAGAGAGCTAGATGATCTAGAACAGTGGATACAGGAGCATGAGGTTGTTGCAGCCTCCCATGAGTTGGGCCAAGACTATGAACATGTGACTgtgagcttacagtttcacaaacaggaccaaaatgtgtgaggtgacaaggg Alignment from Exonerate_protein2genome GAGAGCACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT gtactagcatgtatgtgatctttagcagtctttaatatgttatcttccagcaatCTGTCTACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGTTGGCAGGAGAGCGGCATCAACGGCTGCAGGAGCACCTCCGGCCGTGCCAACTCCGAAGAGAGCTAGATGATCTAGAACAGTGGATACAGGAGCATGAGGTTGTTGCAGCCTCCCATGAGTTGGGCCAAGACTATGAACATGTGACTgtgagcttacagtttcacaaacaggaccaaaatgtgtgaggtgacaaggg Alignment from Exonerate_coding2genome GAGAGCACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT gtactagcatgtatgtgatctttagcagtctttaatatgttatcttccagcaatCTGTCTACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGTTGGCAGGAGAGCGGCATCAACGGCTGCAGGAGCACCTCCGGCCGTGCCAACTCCGAAGAGAGCTAGATGATCTAGAACAGTGGATACAGGAGCATGAGGTTGTTGCAGCCTCCCATGAGTTGGGCCAAGACTATGAACATGTGACTgtgagcttacagtttcacaaacaggaccaaaatgtgtgaggtgacaaggg Alignment from GeneWise -------AGCACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT gtactagcatgtatgtgatctttagcagtctttaatatgttatcttccagCAATCTGTCTACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGTTGGCAGGAGAGCGGCATCAACGGCTGCAGGAGCACCTCCGGCCGTGCCAACTCCGAAGAGAGCTAGATGATCTAGAACAGTGGATACAGGAGCATGAGGTTGTTGCAGCCTCCCATGAGTTGGGCCAAGACTATGAACATGTGACTgtgagcttacagtttcacaaacaggaccaaaatgtgtgaggtgacaaggg #### Sptbn2_ID632_27 --> 1 - 0 Original Alignment gGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG ctgtggtggggccggacttcaatgtcattagttctttccctcttttccaga------TCCTCTGCAGACTTAGTCATCAAGAACCAGCAAGGAATCAAGGCAGAAATAGAAGCTAGAGCAGACAGGTTTTCCTCCTGCATTGACATGGGCCAGGAGCTGCTTGCCAGGAGCCATTATGCTGCTCAGGAAgtgagtaagatctagataatgtcactacaaccaagcaactgggcccaccg Alignment from CESAR gGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG actaggctgtggtggggccggacttcattagttctttccctcttttccaga------TCCTCTGCAGACTTAGTCATCAAGAACCAGCAAGGAATCAAGGCAGAAATAGAAGCTAGAGCAGACAGGTTTTCCTCCTGCATTGACATGGGCCAGGAGCTGCTTGCCAGGAGCCATTATGCTGCTCAGGAAgtgagtaagatctagataatgtcactacaaccaagcaactgggcccaccg Alignment from Spaln_aa2Genome GGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG ctgtggtggggccggacttcaatgtcattagttctttccctcttttccagA------TCCTCTGCAGACTTAGTCATCAAGAACCAGCAAGGAATCAAGGCAGAAATAGAAGCTAGAGCAGACAGGTTTTCCTCCTGCATTGACATGGGCCAGGAGCTGCTTGCCAGGAGCCATTATGCTGCTCAGGAAgtgagtaagatctagataatgtcactacaaccaagcaactgggcccaccg Alignment from Spaln_nt2Genome ATGTG -TCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG CTGTGgtggggccggacttcaatgtcattagttctttccctcttttccagATCCTCTGCAGACTTAGTCATCAAGAACCAGCAAGGAATCAAGGCAGAAATAGAAGCTAGAGCAGACAGGTTTTCCTCCTGCATTGACATGGGCCAGGAGCTGCTTGCCAGGAGCCATTATGCTGCTCAGGAAgtgagtaagatctagataatgtcactacaaccaagcaactgggcccaccg Alignment from Pairagon GGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG ctgtggtggggccggacttcaatgtcattagttctttccctcttttccag------ATCCTCTGCAGACTTAGTCATCAAGAACCAGCAAGGAATCAAGGCAGAAATAGAAGCTAGAGCAGACAGGTTTTCCTCCTGCATTGACATGGGCCAGGAGCTGCTTGCCAGGAGCCATTATGCTGCTCAGGAAgtgagtaagatctagataatgtcactacaaccaagcaactgggcccaccg Alignment from Exonerate_protein2genome GTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG ctgtggtggggccggacttcaatgtcattagttctttccctcttttccagATCCTCTGCAGACTTAGTCATCAAGAACCAGCAAGGAATCAAGGCAGAAATAGAAGCTAGAGCAGACAGGTTTTCCTCCTGCATTGACATGGGCCAGGAGCTGCTTGCCAGGAGCCATTATGCTGCTCAGGAAgtgagtaagatctagataatgtcactacaaccaagcaactgggcccaccg Alignment from Exonerate_coding2genome GTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG ctgtggtggggccggacttcaatgtcattagttctttccctcttttccagATCCTCTGCAGACTTAGTCATCAAGAACCAGCAAGGAATCAAGGCAGAAATAGAAGCTAGAGCAGACAGGTTTTCCTCCTGCATTGACATGGGCCAGGAGCTGCTTGCCAGGAGCCATTATGCTGCTCAGGAAgtgagtaagatctagataatgtcactacaaccaagcaactgggcccaccg Alignment from GeneWise GGATGTGTCCTCTGCAGATTTAGTCATCAAAAACCAACAAGGAATCAAAGCAGAGATAGAGGCCAGAGCAGACAGGTTCTCCTCCTGCATTGACATGGGGCAGGAGCTGCTGGCCCGGAGCCACTATGCTGCTGAGGAG ctgtggtggggccggacttcaatgtcattagttctttccctcttttccagA------TCCTCTGCAGACTTAGTCATCAAGAACCAGCAAGGAATCAAGGCAGAAATAGAAGCTAGAGCAGACAGGTTTTCCTCCTGCATTGACATGGGCCAGGAGCTGCTTGCCAGGAGCCATTATGCTGCTCAGGAAgtgagtaagatctagataatgtcactacaaccaagcaactgggcccaccg #### Sptbn2_ID636_31 --> 1 - 0 Original Alignment g---ACTCAGTCAAAATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG gcaaatgctaacactggtaaatgacccttactttttattttcttttacaggGAAACTCAATCAAAACTACCCCCATCGTCACAAGCACCCTGTGTTAATGGGGTTTGTACGGGCACTGACTCTTCACAGgtgagtgcattgtgacagacatctcttgaaactcagccaccatttgaatc Alignment from CESAR g---ACTCAGTCAAAATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG gcaaatgctaacactggtaaatgacccttactttttattttcttttacaggGAAACTCAATCAAAACTACCCCCATCGTCACAAGCACCCTGTGTTAATGGGGTTTGTACGGGCACTGACTCTTCACAGgtgagtgcattgtgacagacatctcttgaaactcagccaccatttgaatc Alignment from Spaln_aa2Genome GACTCAGTCAAAATTG---CCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG gcaaatgctaacactggtaaatgacccttactttttattttcttttacagGGAAACTCAATCAAAACTACCCCCATCGTCACAAGCACCCTGTGTTAATGGGGTTTGTACGGGCACTGACTCTTCACAGgtgagtgcattgtgacagacatctcttgaaactcagccaccatttgaatc Alignment from Spaln_nt2Genome GACTCAGTCAAA---ATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG gcaaatgctaacactggtaaatgacccttactttttattttcttttacagGGAAACTCAATCAAAACTACCCCCATCGTCACAAGCACCCTGTGTTAATGGGGTTTGTACGGGCACTGACTCTTCACAGgtgagtgcattgtgacagacatctcttgaaactcagccaccatttgaatc Alignment from Pairagon ------------------------------------------------------ACTCAGTCAAAATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG GCAAATGCTAACACTGGTAAATGACCCTTACTTTTTATTTTCTTTTACAGGGAAACTCAATCAAAACTACCCCCATCGTCACAAGCACCCTGTGTTAATGGGGTTTGTACGGGCACTGACTCTTCACAGgtgagtgcattgtgacagacatctcttgaaactcagccaccatttgaatc Alignment from Exonerate_protein2genome G---ACTCAGTCAAAATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG gcaaatgctaacactggtaaatgacccttactttttattttcttttacagGGAAACTCAATCAAAACTACCCCCATCGTCACAAGCACCCTGTGTTAATGGGGTTTGTACGGGCACTGACTCTTCACAGgtgagtgcattgtgacagacatctcttgaaactcagccaccatttgaatc Alignment from Exonerate_coding2genome G---ACTCAGTCAAAATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG gcaaatgctaacactggtaaatgacccttactttttattttcttttacagGGAAACTCAATCAAAACTACCCCCATCGTCACAAGCACCCTGTGTTAATGGGGTTTGTACGGGCACTGACTCTTCACAGgtgagtgcattgtgacagacatctcttgaaactcagccaccatttgaatc Alignment from GeneWise -GGGACTCAGTCAAAATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG gcaaatgctaacactggtaaatgacccttactttttattttcttttacagGGAAACTCAATCAAAACTACCCCCATCGTCACAAGCACCCTGTGTTAATGGGGTTTGTACGGGCACTGACTCTTCACAGgtgagtgcattgtgacagacatctcttgaaactcagccaccatttgaatc #### Sptbn2_ID637_32 --> 0 - 0 Original Alignment CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT tcttgaaactcagccaccatttgaatcttggtgtccttttgaacctccagCCCCTGTTGGAACAGCAGAGACTTGAACATGGCAATGTGCCT---------gtggccttaatgatcaccgctgggcttaagtgtggctatcgaaaggtgat Alignment from CESAR CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT tcttgaaactcagccaccatttgaatcttggtgtccttttgaacctccagCCCCTGTTGGAACAGCAGAGACTTGAACATGGCAATGTG---------CCTgtggccttaatgatcaccgctgggcttaagtgtggctatcgaaaggtgat Alignment from Spaln_aa2Genome CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCC tcttgaaactcagccaccatttgaatcttggtgtccttttgaacctccagCCCCTGTTGGAACAGCAGAGACTTGAACATGGCAATGTGCCTgtggccttaatgatcaccgctgggcttaagtgtggctatcgaaaggtgat Alignment from Spaln_nt2Genome CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT tcttgaaactcagccaccatttgaatcttggtgtccttttgaacctccagCCCCTGTTGGAACAGCAGAGACTTGAACATGGCAATGT---------GCCTgtggccttaatgatcaccgctgggcttaagtgtggctatcgaaaggtgat Alignment from Pairagon CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT tcttgaaactcagccaccatttgaatcttggtgtccttttgaacctccagCCCCTGTTGGAACAGCAGAGACTTGAACATGGCAATGT---------GCCTgtggccttaatgatcaccgctgggcttaagtgtggctatcgaaaggtgat Alignment from Exonerate_protein2genome CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT tcttgaaactcagccaccatttgaatcttggtgtccttttgaacctccagCCCCTGTTGGAACAGCAGAGACTTGAACATGGCAATGTGCCTGTGGCCTTAatgatcaccgctgggcttaagtgtggctatcgaaaggtgat Alignment from Exonerate_coding2genome CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT tcttgaaactcagccaccatttgaatcttggtgtccttttgaacctccagCCCCTGTTGGAACAGCAGAGACTTGAACATGGCAATGTGCCTGTGGCCTTAatgatcaccgctgggcttaagtgtggctatcgaaaggtgat Alignment from GeneWise CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT tcttgaaactcagccaccatttgaatcttggtgtccttttgaacctccagCCCCTGTTGGAACAGCAGAGACTTGAACATGGCAATGTG---------CCTgtggccttaatgatcaccgctgggcttaagtgtggctatcgaaaggtgat #### Sptbn2_ID638_33 --> 0 - 2 Original Alignment ------------------GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTG---CCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACag aaggagaatacaattagtggcactgtttatttataccatttttttttcagTTCAATGAAATGGCCAAAGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACCCTGCTGCCACGTGGCGCTGCTCCTTCTCCTATGCCACAAAGTAAATCATCGGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGTGAACAAGACATGGAAGCGTTTAACAAGAAAGCTGCAAATaggtgcagatcatgcctactgatgcctttgcctccctaaccctagcctctga Alignment from CESAR ------------------GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACag aaggagaatacaattagtggcactgtttatttataccatttttttttcagTTCAATGAAATGGCCAAAGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACCCTGCTGCCACGTGGCGCTGCTCCTTCTCCTATGCCACAAAGTAAATCATCGGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGTGAACAAGACATGGAAGCGTTTAACAAGAAAGCTGCAAATaggtgcagatcatgcctactgatgcctttgcctccctaaccctagcctctga Alignment from Spaln_aa2Genome ------------------GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACA aaggagaatacaattagtggcactgtttatttataccatttttttttcagTTCAATGAAATGGCCAAAGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACCCTGCTGCCACGTGGCGCTGCTCCTTCTCCTATGCCACAAAGTAAATCATCGGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGTGAACAAGACATGGAAGCGTTTAACAAGAAAGCTGCAAATAGgtgcagatcatgcctactgatgcctttgcctccctaaccctagcctctga Alignment from Spaln_nt2Genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG aaggagaatacaattagtggcactgtttatttataccatttttttttcagttcaatgaaatggccaaag-GCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACCCTGCTGCCACGTGGCGCTGCTCCTTCTCCTATGCCACAAAGTAAATCATCGGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGTGAACAAGACATGGAAGCGTTTAACAAGAAAGCTGCAAATAGgtgcagatcatgcctactgatgcctttgcctccctaaccctagcctctga Alignment from Pairagon ------------------GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG aaggagaatacaattagtggcactgtttatttataccatttttttttcagTTCAATGAAATGGCCAAAGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACCCTGCTGCCACGTGGCGCTGCTCCTTCTCCTATGCCACAAAGTAAATCATCGGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGTGAACAAGACATGGAAGCGTTTAACAAGAAAGCTGCAAATAGgtgcagatcatgcctactgatgcctttgcctccctaaccctagcctctga Alignment from Exonerate_protein2genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG aaggagaatacaattagtggcactgtttatttataccatttttttttcagttcaatgaaatggccaaaGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACCCTGCTGCCACGTGGCGCTGCTCCTTCTCCTATGCCACAAAGTAAATCATCGGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGTGAACAAGACATGGAAGCGTTTAACAAGAAAGCTGCAAATAGgtgcagatcatgcctactgatgcctttgcctccctaaccctagcctctga Alignment from Exonerate_coding2genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG aaggagaatacaattagtggcactgtttatttataccatttttttttcagttcaatgaaatggccaaaGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACCCTGCTGCCACGTGGCGCTGCTCCTTCTCCTATGCCACAAAGTAAATCATCGGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGTGAACAAGACATGGAAGCGTTTAACAAGAAAGCTGCAAATAGgtgcagatcatgcctactgatgcctttgcctccctaaccctagcctctga Alignment from GeneWise ------------------GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTG---CCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG aaggagaatacaattagtggcactgtttatttataccatttttttttcagTTCAATGAAATGGCCAAAGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACCCTGCTGCCACGTGGCGCTGCTCCTTCTCCTATGCCACAAAGTAAATCATCGGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCGGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGTGAACAAGACATGGAAGCGTTTAACAAGAAAGCTGCAAATAGgtgcagatcatgcctactgatgcctttgcctccctaaccctagcctctga #### Ssh3_ID443_13 --> 1 - 0 Original Alignment cCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA ggtgtcaattgtgtagcactaagggttagtaatgttttctctcttaacagcCAACAGAGCCGTGTCTGGGAGCAAAAAGTAGGTGGTGTA---CCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTCTGGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGAGGGGTCATGCGATCCATCACTCTCCTTGAGCCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGT---------gtaggttcaaacatagttgaccagatgtgtctgtcaatccagcaagcacc Alignment from CESAR cCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA ggtgtcaattgtgtagcactaagggttagtaatgttttctctcttaacagcCAACAGAGCCGTGTCTGGGAGCAAAAAGTAGGTGGTGTA---CCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTCTGGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGAGGGGTCATGCGATCCATCACTCTCCTTGAGCCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGT---------gtaggttcaaacatagttgaccagatgtgtctgtcaatcca Alignment from Spaln_aa2Genome CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGC ggtgtcaattgtgtagcactaagggttagtaatgttttctctcttaacagCCAACAGAGCCGTGTCTGGGAGCAAAAAGTAGGTGGTGTA---CCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTCTGGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGAGGGGTCATGCGATCCATCACTCTCCTTGAGCCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGTgtaggttcaaacatagttgaccagatgtgtctgtcaatccagcaagcacc Alignment from Spaln_nt2Genome CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGC ggtgtcaattgtgtagcactaagggttagtaatgttttctctcttaacagCCAACAGAGCCGTGTCTGGGAGCAAAAAGTAGGTGGTGT---ACCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTCTGGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGAGGGGTCATGCGATCCATCACTCTCCTTGAGCCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGTgtaggttcaaacatagttgaccagatgtgtctgtcaatccagcaagcacc Alignment from Pairagon CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGC ggtgtcaattgtgtagcactaagggttagtaatgttttctctcttaacagCCAACAGAGCCGTGTCTGGGAGCAAAAAGTAGGTGGTGT---ACCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTCTGGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGAGGGGTCATGCGATCCATCACTCTCCTTGAGCCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGTgtaggttcaaacatagttgaccagatgtgtctgtcaatccagcaagcacc Alignment from Exonerate_protein2genome CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGC ggtgtcaattgtgtagcactaagggttagtaatgttttctctcttaacagCCAACAGAGCCGTGTCTGGGAGCAAAAAGTAGGTGGTGTA---CCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTCTGGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGAGGGGTCATGCGATCCATCACTCTCCTTGAGCCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGTgtaggttcaaacatagttgaccagatgtgtctgtcaatccagcaagcacc Alignment from Exonerate_coding2genome CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGC ggtgtcaattgtgtagcactaagggttagtaatgttttctctcttaacagCCAACAGAGCCGTGTCTGGGAGCAAAAAGTAGGTGGTGTA---CCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTCTGGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGAGGGGTCATGCGATCCATCACTCTCCTTGAGCCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGTgtaggttcaaacatagttgaccagatgtgtctgtcaatccagcaagcacc Alignment from GeneWise CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTG---CCAGAAGTT ggtgtcaattgtgtagcactaagggttagtaatgttttctctcttaacagCCAACAGAGCCGTGTCTGGGAGCAAAAAGTAGGTGGTGTA---CCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTCTGGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGAGGGGTCATGCGATCCATCACTCTCCTTGAGCCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGTGTAGGTTCAAACATAgttgaccagatgtgtctgtcaatccagcaagcacc #### Ssh3_ID446_10 --> 0 - 2 Original Alignment CCCACCTCTACTTG ------------------GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACag CACACCTCTACTTGgtaagtggtccttttctttctttctcttgccaacagACACTAGCAATTTTAGATGGCTCTGAATGGAATGCTGCCAACCTAGAGGAGCTCCAAAAGAACaggtaagatttctggctgtgagtccctcttgacctcccagcttcccagcctc Alignment from CESAR CCCACCTCTACTTG ------------------GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACag CACACCTCTACTTGgtaggaggtccttttctttctttctcttgccaacagACACTAGCAATTTTAGATGGCTCTGAATGGAATGCTGCCAACCTAGAGGAGCTCCAAAAGAACaggtaagatttctggctgtgagtccctcttgacctcccagcttcccagcctc Alignment from Spaln_aa2Genome CCCACCTCTACTTGGGCT CTGAGTGGAAT------GCTGCCAACCTGGAGGAACTTCAGAAAAACAG CACACCTCTACTTGGTAAgtggtccttttctttctttctcttgccaacagacactagcaattttagATGGCTCTGAATGGAATGCTGCCAACCTAGAGGAGCTCCAAAAGAACAGgtaagatttctggctgtgagtccctcttgacctcccagcttcccagcctc Alignment from Spaln_nt2Genome CCCACCTCTACTTG GGCTCTGAGTGG--AATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG CACACCTCTACTTGgtaagtggtccttttctttctttctcttgccaacagacactagcaattttagATGGCTCTGAATGGAATGCTGCCAACCTAGAGGAGCTCCAAAAGAACAGgtaagatttctggctgtgagtccctcttgacctcccagcttcccagcctc Alignment from Pairagon CCCACCTCTACTTG --GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG CACACCTCTACTTGgtaagtggtccttttctttctttctcttgccaacagacactagcaattttagATGGCTCTGAATGGAATGCTGCCAACCTAGAGGAGCTCCAAAAGAACAGgtaagatttctggctgtgagtccctcttgacctcccagcttcccagcctc Alignment from Exonerate_protein2genome CCCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG CACACCTCTACTTGgtaagtggtccttttctttctttctcttgccaacagacactagcaattttagatGGCTCTGAATGGAATGCTGCCAACCTAGAGGAGCTCCAAAAGAACAGgtaagatttctggctgtgagtccctcttgacctcccagcttcccagcctc Alignment from Exonerate_coding2genome CCCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG CACACCTCTACTTGgtaagtggtccttttctttctttctcttgccaacagacactagcaattttagatGGCTCTGAATGGAATGCTGCCAACCTAGAGGAGCTCCAAAAGAACAGgtaagatttctggctgtgagtccctcttgacctcccagcttcccagcctc Alignment from GeneWise CCCACCTCTACTTG------------------------------------------------------GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG CACACCTCTACTTGGTAAGTGGTCCTTTTCTTTCTTTCTCTTGCCAACAGACACTAGCAATTTTAGATGGCTCTGAATGGAATGCTGCCAACCTAGAGGAGCTCCAAAAGAACAGgtaagatttctggctgtgagtccctcttgacctcccagcttcccagcctc #### Ssh3_ID447_9 --> 0 - 0 Original Alignment ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG--------- GGCTCTGAGTGGAA atttctatcaacaatgatacacttaaatcccatctttcctgtcctctcagCTCCATCAAGCCTTAGAACTACACCTTGGATGTCCTTTA------TACCGTGACTTTATTGACAATCAGATGCTGCTTCTCATGGCCCAGCAGGATCAGACATCTCGCATCTACCCACACCTCTACTTGTCAACACTGgtgataggtcctttgtgttgacttctactcttccagGGCTCTGAATGGAA Alignment from CESAR ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG--------- GGCTCTGAGTGGAA atttctatcaacaatgatacacttaaatcccatctttcctgtcctctcagCTCCATCAAGCCTTAGAACTACACCTTGGATGTCCTTTA------TACCGTGACTTTATTGACAATCAGATGCTGCTTCTCATGGCCCAGCAGGATCAGACATCTCGCATCTACCCACACCTCTACTTGTCAACACTGgtgataggtccttttattcatcattatgttttacagGGCTCTGAATGGAA Alignment from Spaln_aa2Genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG--------- GGCTCTGAGTGGAA atttctatcaacaatgatacacttaaatcccatctttcctgtcctctcagCTCCATCAAGCCTTAGAACTACACCTTGGATGTCCTTTA------TACCGTGACTTTATTGACAATCAGATGCTGCTTCTCATGGCCCAGCAGGATCAGACATCTCGCATCTACCCACACCTCTACTTGTCAACACTGgtgataggtcctttgtgttgacttctactcttccagGGCTCTGAATGGAA Alignment from Spaln_nt2Genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTT GGGCTCTGAGTGGA atttctatcaacaatgatacacttaaatcccatctttcctgtcctctcagCTCCATCAAGCCTTAGAACTACACCTTGGATGTCCTTT------ATACCGTGACTTTATTGACAATCAGATGCTGCTTCTCATGGCCCAGCAGGATCAGACATCTCGCATCTACCCACACCTCTACTTgtcaacactggtgataggtcctttgtgttgacttctactcttccagGGCTCTGAATG-GA Alignment from Pairagon ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTT---------------------------------------------GGGCTCTGAGTGGAA atttctatcaacaatgatacacttaaatcccatctttcctgtcctctcagCTCCATCAAGCCTTAGAACTACACCTTGGATGTCCTTT------ATACCGTGACTTTATTGACAATCAGATGCTGCTTCTCATGGCCCAGCAGGATCAGACATCTCGCATCTACCCACACCTCTACTTGTCAACACTGGTGATAGGTCCTTTGTGTTGACTTCTACTCTTCCAGGGCTCTGAATGGAA Alignment from Exonerate_protein2genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGCTCTGAGTGGAA atttctatcaacaatgatacacttaaatcccatctttcctgtcctctcagCTCCATCAAGCCTTAGAACTACACCTTGGATGTCCTTTA------TACCGTGACTTTATTGACAATCAGATGCTGCTTCTCATGGCCCAGCAGGATCAGACATCTCGCATCTACCCACACCTCTACTTGtcaacactggtgataggtcctttgtgttgacttctactcttccagGGCTCTGAATGGAA Alignment from Exonerate_coding2genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGCTCTGAGTGGAA atttctatcaacaatgatacacttaaatcccatctttcctgtcctctcagCTCCATCAAGCCTTAGAACTACACCTTGGATGTCCTTTA------TACCGTGACTTTATTGACAATCAGATGCTGCTTCTCATGGCCCAGCAGGATCAGACATCTCGCATCTACCCACACCTCTACTTGtcaacactggtgataggtcctttgtgttgacttctactcttccagGGCTCTGAATGGAA Alignment from GeneWise ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG--------- GGCTCTGAGTGGAA atttctatcaacaatgatacacttaaatcccatctttcctgtcctctcagCTCCATCAAGCCTTAGAACTACACCTTGGATGTCCTTTA------TACCGTGACTTTATTGACAATCAGATGCTGCTTCTCATGGCCCAGCAGGATCAGACATCTCGCATCTACCCACACCTCTACTTGTCAACACTGgtgataggtcctttgtgttgacttctactcttccagGGCTCTGAATGGAA #### Ssh3_ID448_8 --> 1 - 0 Original Alignment gGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG tttgttgctactaactaagtgacaggtatttttgtgtttttcatttttaggGCCTCAGAGCAGGAAAAGACAGAGCAGGCAATCCTGGTAGAATTGTGGCAGGTGTTAGATACTAGTGATCTGGAGAGTGTAACTTCCAAA---gtaagttgtaatcaagcaggctggctgccgattgccttcctttgtgactc Alignment from CESAR gGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG tttgttgctactaactaagtgacaggtatttttgtgtttttcatttttaggGCCTCAGAGCAGGAAAAGACAGAGCAGGCAATCCTGGTAGAATTGTGGCAGGTGTTAGATACTAGTGATCTGGAGAGTGTAACTTCCAAA---gtaagttgtaatcaagcaggctggctgccgattgccttcctttgtga Alignment from Spaln_aa2Genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAA tttgttgctactaactaagtgacaggtatttttgtgtttttcatttttagGGCCTCAGAGCAGGAAAAGACAGAGCAGGCAATCCTGGTAGAATTGTGGCAGGTGTTAGATACTAGTGATCTGGAGAGTGTAACTTCCAAAgtaagttgtaatcaagcaggctggctgccgattgccttcctttgtgactc Alignment from Spaln_nt2Genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAA tttgttgctactaactaagtgacaggtatttttgtgtttttcatttttagGGCCTCAGAGCAGGAAAAGACAGAGCAGGCAATCCTGGTAGAATTGTGGCAGGTGTTAGATACTAGTGATCTGGAGAGTGTAACTTCCAAAgtaagttgtaatcaagcaggctggctgccgattgccttcctttgtgactc Alignment from Pairagon GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAA tttgttgctactaactaagtgacaggtatttttgtgtttttcatttttagGGCCTCAGAGCAGGAAAAGACAGAGCAGGCAATCCTGGTAGAATTGTGGCAGGTGTTAGATACTAGTGATCTGGAGAGTGTAACTTCCAAAgtaagttgtaatcaagcaggctggctgccgattgccttcctttgtgactc Alignment from Exonerate_protein2genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG tttgttgctactaactaagtgacaggtatttttgtgtttttcatttttagGGCCTCAGAGCAGGAAAAGACAGAGCAGGCAATCCTGGTAGAATTGTGGCAGGTGTTAGATACTAGTGATCTGGAGAGTGTAACTTCCAAA---gtaagttgtaatcaagcaggctggctgccgattgccttcctttgtga Alignment from Exonerate_coding2genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG tttgttgctactaactaagtgacaggtatttttgtgtttttcatttttagGGCCTCAGAGCAGGAAAAGACAGAGCAGGCAATCCTGGTAGAATTGTGGCAGGTGTTAGATACTAGTGATCTGGAGAGTGTAACTTCCAAA---gtaagttgtaatcaagcaggctggctgccgattgccttcctttgtga Alignment from GeneWise GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG tttgttgctactaactaagtgacaggtatttttgtgtttttcatttttagGGCCTCAGAGCAGGAAAAGACAGAGCAGGCAATCCTGGTAGAATTGTGGCAGGTGTTAGATACTAGTGATCTGGAGAGTGTAACTTCC---AAAgtaagttgtaatcaagcaggctggctgccgattgccttcctttgtgactc #### Ssh3_ID450_6 --> 1 - 2 Original Alignment gGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATG------------------------tg ccccactgatcacctgctctcggggtctgtaatgaggaatgtttttcaagcGGCTTAAGTGTGACGTCTGGTGGCCAAAGCCGAATCTTCAAGCCTCTTTCTATCCAGACTATGAAAAATGACCCTGAATGTGACCTGtggtgagtggtgcacagctataaggttccccagcacacttggttgaccatcc Alignment from CESAR gGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATG------------------------tg ccccactgatcacctgctctcggggtctgtaatgaggaatgtttttcaagcGGCTTAAGTGTGACGTCTGGTGGCCAAAGCCGAATCTTCAAGCCTCTTTCTATCCAGACTATGAAAAATGACCCTGAATGTGACCTGtggtgagtggtgcacagctataaggttccccagcacacttggttgaccatcc Alignment from Spaln_aa2Genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTGGGCCACACTGCAGG ccccactgatcacctgctctcggggtctgtaatgaggaatgtttttcaagCGGCTTAAGTGTGACGTCTGGTGGCCAAAGCCGAATCTTCAAGCCTCTTTCTATCCAGACTATGAAAAATGACCCTGAATgtgacctgtggtgagtggtgcacagctataaggttccccagcacacttggttgaccatcc Alignment from Spaln_nt2Genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATG-----------TGG-- ccccactgatcacctgctctcggggtctgtaatgaggaatgtttttcaagCGGCTTAAGTGTGACGTCTGGTGGCCAAAGCCGAATCTTCAAGCCTCTTTCTATCCAGACTATGAAAAATGACCCTGAATgtgacctgtggtgagtggtgcacagctataaggttccccagcacacttggttgaccatcc Alignment from Pairagon GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCA------------------------TGTG ccccactgatcacctgctctcggggtctgtaatgaggaatgtttttcaagCGGCTTAAGTGTGACGTCTGGTGGCCAAAGCCGAATCTTCAAGCCTCTTTCTATCCAGACTATGAAAAATGACCCTGAATGTGACCTGTGgtgagtggtgcacagctataaggttccccagcacacttggttgaccatcc Alignment from Exonerate_protein2genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG ccccactgatcacctgctctcggggtctgtaatgaggaatgtttttcaagCGGCTTAAGTGTGACGTCTGGTGGCCAAAGCCGAATCTTCAAGCCTCTTTCTATCCAGACTATGAAaaatgaccctgaatgtgacctgtggtgagtggtgcacagctataaggttccccagcacacttggttgaccatcc Alignment from Exonerate_coding2genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG ccccactgatcacctgctctcggggtctgtaatgaggaatgtttttcaagCGGCTTAAGTGTGACGTCTGGTGGCCAAAGCCGAATCTTCAAGCCTCTTTCTATCCAGACTATGAAaaatgaccctgaatgtgacctgtggtgagtggtgcacagctataaggttccccagcacacttggttgaccatcc Alignment from GeneWise GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATG---------------------TG ccccactgatcacctgctctcggggtctgtaatgaggaatgtttttcaagCGGCTTAAGTGTGACGTCTGGTGGCCAAAGCCGAATCTTCAAGCCTCTTTCTATCCAGACTATGAAAAATGACCCTGAATGTGACCTgtggtgagtggtgcacagctataaggttccccagcacacttggttgaccatcc #### Stambpl1_ID6902_9 --> 1 - 0 Original Alignment c---------------------------ACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgaatggtcctttatgatgtgctaatgcagtttcattttggtagcGATCTGCTTATGCTGGATCTCCAGGGCACTGGCATCTTCAGGCTCACCAATGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtcagcagacaccatgggaatgggattggtaatgtatttgatcaaataac Alignment from CESAR c--ACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tccacactgacaacaatctctggagtgttcctgaatggtcctttatgatgcgatctgcttatgctggatctccaggGCACTGGCATCTTCAGGCTCACCAATGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtcagcagacaccatgggaatgggattggtaatgtatttgatcaaataac Alignment from Spaln_aa2Genome C---------------------------ACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAG tgttcctgaatggtcctttatgatgtgctaatgcagtttcattttggtagCGATCTGCTTATGCTGGATCTCCAGGGCACTGGCATCTTCAGGCTCACCAATGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtcagcagacaccatgggaatgggattggtaatgtatttgatcaaataac Alignment from Spaln_nt2Genome --CACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgaatggtcctttatgatgtgctaatgcagtttcattttggtagcgatctgcttatgctggatctccagGGCACTGGCATCTTCAGGCTCACCAATGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtcagcagacaccatgggaatgggattggtaatgtatttgatcaaataac Alignment from Pairagon --CACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgaatggtcctttatgatgtgctaatgcagtttcattttggtagcgatctgcttatgctggatctccagGGCACTGGCATCTTCAGGCTCACCAATGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtcagcagacaccatgggaatgggattggtaatgtatttgatcaaataac Alignment from Exonerate_protein2genome GACACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgaatggtcctttatgatgtgctaatgcagtttcattttggtagcgatctgcttatgctggatctccagGGCACTGGCATCTTCAGGCTCACCAATGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtcagcagacaccatgggaatgggattggtaatgtatttgatcaaataac Alignment from Exonerate_coding2genome GACACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgaatggtcctttatgatgtgctaatgcagtttcattttggtagcgatctgcttatgctggatctccagGGCACTGGCATCTTCAGGCTCACCAATGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtcagcagacaccatgggaatgggattggtaatgtatttgatcaaataac Alignment from GeneWise -------------------------GACACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgaatggtcctttatgatgtgctaatgcagtttcattttggtagCGATCTGCTTATGCTGGATCTCCAGGGCACTGGCATCTTCAGGCTCACCAATGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtcagcagacaccatgggaatgggattggtaatgtatttgatcaaataac #### Stip1_ID1988_13 --> 0 - 2 Original Alignment GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCT------------GAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCga atatatagtattgatgtgctccctgtccaagtgtttttaatgactttcag------GCAGATGGATACCAACGCTGCATGATGGCGCAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAAGTGACA------------------CCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATACTGGAGCAGATGCAAAAAGACCCCCAGGCTTTGAGTgagtaatataaacaggagtgaaggaatgggagagaaattttatttgcatgca Alignment from CESAR GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGC------------CCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCga aaacacatatatagtattgatgtgctccaagtgtttttaatgactttcag------GCAGATGGATACCAACGCTGCATGATGGCGCAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAAGTGACA------------------CCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATACTGGAGCAGATGCAAAAAGACCCCCAGGCTTTGAGTgagtaatataaacaggagtgaaggaatgggagagaaattttatttgcatgca Alignment from Spaln_aa2Genome GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA atatatagtattgatgtgctccctgtccaagtgtttttaatgactttcag------GCAGATGGATACCAACGCTGCATGATGGCGCAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAAGTGACA------CCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATACTGGAGCAGATGCAAAAAGACCCCCAGGCTTTGAGTGAgtaatataaacaggagtgaaggaatgggagagaaattttatttgcatgca Alignment from Spaln_nt2Genome GCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGAC-CCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA atatatagtattgatgtgctccctgtccaagtgtttttaatgactttcagGCAGATGGATACCAACGCTGCATGATGGCGCAGTACAACAGACATGACAGCCCACATGA----CAGCCCTGAGGAA---GTGACACCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATACTGGAGCAGATGCAAAAAGACCCCCAGGCTTTGAGTGAgtaatataaacaggagtgaaggaatgggagagaaattttatttgcatgca Alignment from Pairagon GCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAG------------ACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA atatatagtattgatgtgctccctgtccaagtgtttttaatgactttcagGCAGATGGATACCAACGCTGCATGATGGCGCAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAAGTGACA------------------CCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATACTGGAGCAGATGCAAAAAGACCCCCAGGCTTTGAGTGAgtaatataaacaggagtgaaggaatgggagagaaattttatttgcatgca Alignment from Exonerate_protein2genome GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA atatatagtattgatgtgctccctgtccaagtgtttttaatgacTTTCAGGCAGATGGATACCAACGCTGCATGATGGCGCAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAA------GTGACACCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATACTGGAGCAGATGCAAAAAGACCCCCAGGCTTTGAGTGAgtaatataaacaggagtgaaggaatgggagagaaattttatttgcatgca Alignment from Exonerate_coding2genome GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA atatatagtattgatgtgctccctgtccaagtgtttttaatgacTTTCAGGCAGATGGATACCAACGCTGCATGATGGCGCAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAA------GTGACACCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATACTGGAGCAGATGCAAAAAGACCCCCAGGCTTTGAGTGAgtaatataaacaggagtgaaggaatgggagagaaattttatttgcatgca Alignment from GeneWise GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA atatatagtattgatgtgctccctgtccaagtgtttttaatgactttcagGCA------GATGGATACCAACGCTGCATGATGGCGCAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAAGTGACA------CCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATACTGGAGCAGATGCAAAAAGACCCCCAGGCTTTGAGTGAgtaatataaacaggagtgaaggaatgggagagaaattttatttgcatgca #### Stx5a_ID2331_3 --> 1 - 1 Original Alignment gCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATC------t atggcatcacctcagtttttcacacatcctctcatgccttcaacccgcaggCGCATAGGGAAAGATCTGAGTAATACATTTGCCAAACTGGAGAAGTTAACAATCGAATTAtgtgagaatctgctaggcctttcaaggtgagacttaaatccctgcaccctg Alignment from CESAR gCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATC------t atggcatcacctcagtttttcacacatcctctcatgccttcaacccgcaggCGCATAGGGAAAGATCTGAGTAATACATTTGCCAAACTGGAGAAGTTAACAATCGAATTAtgtgagaatctgctaggcctttcaaggtgagacttaaatccctgcaccctg Alignment from Spaln_aa2Genome GCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATC------T atggcatcacctcagtttttcacacatcctctcatgccttcaacccgcagGCGCATAGGGAAAGATCTGAGTAATACATTTGCCAAACTGGAGAAGTTAACAATCGAATTATgtgagaatctgctaggcctttcaaggtgagacttaaatccctgcaccctg Alignment from Spaln_nt2Genome GCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATC------T atggcatcacctcagtttttcacacatcctctcatgccttcaacccgcagGCGCATAGGGAAAGATCTGAGTAATACATTTGCCAAACTGGAGAAGTTAACAATCGAATTATgtgagaatctgctaggcctttcaaggtgagacttaaatccctgcaccctg Alignment from Pairagon GCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATC------T atggcatcacctcagtttttcacacatcctctcatgccttcaacccgcagGCGCATAGGGAAAGATCTGAGTAATACATTTGCCAAACTGGAGAAGTTAACAATCGAATTATgtgagaatctgctaggcctttcaaggtgagacttaaatccctgcaccctg Alignment from Exonerate_protein2genome GCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATCTTGGCAA atggcatcacctcagtttttcacacatcctctcatgccttcaacccgcagGCGCATAGGGAAAGATCTGAGTAATACATTTGCCAAACTGGAGAAGTTAACAATCGAATTATgtgagaatctgctaggcctttcaaggtgagacttaaatccctgcaccctg Alignment from Exonerate_coding2genome GCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATCTTGGCAA atggcatcacctcagtttttcacacatcctctcatgccttcaacccgcagGCGCATAGGGAAAGATCTGAGTAATACATTTGCCAAACTGGAGAAGTTAACAATCGAATTATgtgagaatctgctaggcctttcaaggtgagacttaaatccctgcaccctg Alignment from GeneWise GCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATC---TTG- atggcatcacctcagtttttcacacatcctctcatgccttcaacccgcagGCGCATAGGGAAAGATCTGAGTAATACATTTGCCAAACTGGAGAAGTTAACAATCGAATTATgtgagaatctgctaggcctttcaaggtgagacttaaatccctgcaccctg #### Syvn1_ID1383_2 --> 0 - 0 Original Alignment GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG------ cagacagaatttggcagtaacctcaaatgttctgtttaaattatgtatagGTCCTGTACATACAGGCCTTTGTCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAAACCACCgtgagcgaaggacaggattcagggcagggtctctcaatgctgtttcatac Alignment from CESAR GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG------ cagacagaatttggcagtaacctcaaatgttctgtttaaattatgtatagGTCCTGTACATACAGGCCTTTGTCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAAACCACCgtgagcgaaggacaggattcagggcagggtctctcaatgctgtttcatac Alignment from Spaln_aa2Genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG------ cagacagaatttggcagtaacctcaaatgttctgtttaaattatgtatagGTCCTGTACATACAGGCCTTTGTCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAAACCACCgtgagcgaaggacaggattcagggcagggtctctcaatgctgtttcatac Alignment from Spaln_nt2Genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG------ cagacagaatttggcagtaacctcaaatgttctgtttaaattatgtatagGTCCTGTACATACAGGCCTTTGTCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAAACCACCgtgagcgaaggacaggattcagggcagggtctctcaatgctgtttcatac Alignment from Pairagon GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGG---------------------------------------------------------- cagacagaatttggcagtaacctcaaatgttctgtttaaattatgtatagGTCCTGTACATACAGGCCTTTGTCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAAACCACCGTGAGCGAAGGACAGGATTCAGGGCAGGGTCTCTCAATGCTGTTTCATAC Alignment from Exonerate_protein2genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG------ cagacagaatttggcagtaacctcaaatgttctgtttaaattatgtatagGTCCTGTACATACAGGCCTTTGTCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAAACCACCgtgagcgaaggacaggattcagggcagggtctctcaatgctgtttcatac Alignment from Exonerate_coding2genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG------ cagacagaatttggcagtaacctcaaatgttctgtttaaattatgtatagGTCCTGTACATACAGGCCTTTGTCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAAACCACCgtgagcgaaggacaggattcagggcagggtctctcaatgctgtttcatac Alignment from GeneWise GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG-------------------------------------------------------- cagacagaatttggcagtaacctcaaatgttctgtttaaattatgtatagGTCCTGTACATACAGGCCTTTGTCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAAACCACCGTGAGCGAAGGACAGGATTCAGGGCAGGGTCTCTCAATGCTGTTTCATAC #### Syvn1_ID1394_13 --> 2 - 2 Original Alignment ccTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGgg tggaatactaagcctaggtagctaggcccatgtcatttgttttgtttaagccTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTG---------gggtgactacgtgttttattcatattcaattgcacattcctctgtagccaga Alignment from CESAR ccTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGgg tggaatactaagcctaggtagctaggcccatgtcatttgttttgtttaagccTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTG---------CTGgggtgactacgtgttttattcatattcaattgcacattcctctgtagccaga Alignment from Spaln_aa2Genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG tggaatactaagcctaggtagctaggcccatgtcatttgttttgtttaagCCTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTG---------CTGGGgtgactacgtgttttattcatattcaattgcacattcctctgtagccaga Alignment from Spaln_nt2Genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGC tggaatactaagcctaggtagctaggcccatgtcatttgttttgtttaagCCTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGGgtgactacgtgttttattcatattcaattgcacattcctctgtagccaga Alignment from Pairagon CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG tggaatactaagcctaggtagctaggcccatgtcatttgttttgtttaagCCTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTG---------CTGGGgtgactacgtgttttattcatattcaattgcacattcctctgtagccaga Alignment from Exonerate_protein2genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG tggaatactaagcctaggtagctaggcccatgtcatttgttttgtttaagCCTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGGGTGACTACGtgttttattcatattcaattgcacattcctctgtagccaga Alignment from Exonerate_coding2genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG tggaatactaagcctaggtagctaggcccatgtcatttgttttgtttaagCCTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGGGTGACTACGtgttttattcatattcaattgcacattcctctgtagccaga Alignment from GeneWise CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG tggaatactaagcctaggtagctaggcccatgtcatttgttttgtttaagCCTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTG---------CTGGGgtgactacgtgttttattcatattcaattgcacattcctctgtagccaga #### Taf5_ID10097_5 --> 1 - 0 Original Alignment a------ATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gatacaaaattctgcacaattgactgtcaaaatgtgtttactactttcagaTCGTGCATTCCTCTTCCGGAACTAAAAGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTCCTTAATGCTTACCAGgtctgtaagaaagcaggcagtactatggcacacaagtggacagagctgta Alignment from CESAR a------ATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gatacaaaattctgcacaattgactgtcaaaatgtgtttactactttcagaTCGTGCATTCCTCTTCCGGAACTAAAAGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTCCTTAATGCTTACCAGgtctgtaagaaagcaggcagtactatggcacacaagtggacagagctgta Alignment from Spaln_aa2Genome AATTCCTCTTCCT------GAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gatacaaaattctgcacaattgactgtcaaaatgtgtttactactttcagATCGTGCATTCCTCTTCCGGAACTAAAAGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTCCTTAATGCTTACCAGgtctgtaagaaagcaggcagtactatggcacacaagtggacagagctgta Alignment from Spaln_nt2Genome A------ATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gatacaaaattctgcacaattgactgtcaaaatgtgtttactactttcagATCGTGCATTCCTCTTCCGGAACTAAAAGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTCCTTAATGCTTACCAGgtctgtaagaaagcaggcagtactatggcacacaagtggacagagctgta Alignment from Pairagon A------ATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gatacaaaattctgcacaattgactgtcaaaatgtgtttactactttcagATCGTGCATTCCTCTTCCGGAACTAAAAGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTCCTTAATGCTTACCAGgtctgtaagaaagcaggcagtactatggcacacaagtggacagagctgta Alignment from Exonerate_protein2genome A------ATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gatacaaaattctgcacaattgactgtcaaaatgtgtttactactttcagATCGTGCATTCCTCTTCCGGAACTAAAAGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTCCTTAATGCTTACCAGgtctgtaagaaagcaggcagtactatggcacacaagtggacagagctgta Alignment from Exonerate_coding2genome A------ATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gatacaaaattctgcacaattgactgtcaaaatgtgtttactactttcagATCGTGCATTCCTCTTCCGGAACTAAAAGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTCCTTAATGCTTACCAGgtctgtaagaaagcaggcagtactatggcacacaagtggacagagctgta Alignment from GeneWise ----AGAATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gatacaaaattctgcacaattgactgtcaaaatgtgtttactactttcagATCGTGCATTCCTCTTCCGGAACTAAAAGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTCCTTAATGCTTACCAGgtctgtaagaaagcaggcagtactatggcacacaagtggacagagctgta #### Taf5_ID10102_10 --> 0 - 1 Original Alignment GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAg tattacactacaattccactctattcatggctgtttgtcacttgatgtag------ATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAggtgcggcctgtagggacctcataatagtgctttcataattaatgtaaata Alignment from CESAR GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAg ccatgctattacactacaattccaccatggctgtttgtcacttgatgtag------ATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAggtgcggcctgtagggacctcataatagtgctttcataattaatgtaaata Alignment from Spaln_aa2Genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG tattacactacaattccactctattcatggctgtttgtcacttgatgtag------ATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAGgtgcggcctgtagggacctcataatagtgctttcataattaatgtaaata Alignment from Spaln_nt2Genome ATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG tattacactacaattccactctattcatggctgtttgtcacttgatgtagATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAGgtgcggcctgtagggacctcataatagtgctttcataattaatgtaaata Alignment from Pairagon GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG tattacactacaattccactctattcatggctgtttgtcacttgatgtag------ATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAGgtgcggcctgtagggacctcataatagtgctttcataattaatgtaaata Alignment from Exonerate_protein2genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG tattacactacaattccactctattcatggctgtttgtcacttgATGTAGATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAGgtgcggcctgtagggacctcataatagtgctttcataattaatgtaaata Alignment from Exonerate_coding2genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG tattacactacaattccactctattcatggctgtttgtcacttgATGTAGATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAGgtgcggcctgtagggacctcataatagtgctttcataattaatgtaaata Alignment from GeneWise ATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG tattacactacaattccactctattcatggctgtttgtcacttgatgtagATTCATTCTTTGACATTTTCTCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACATGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGAAATTTTGGCGTCAGgtgcggcctgtagggacctcataatagtgctttcataattaatgtaaata #### Tcirg1_ID171_16 --> 0 - 0 Original Alignment ---GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG gatagcacagataatttcaggagactgctgtttgtaactaatttttccagTTGGATGAGGACACGGATAAGCTACTTGCTTCCCCTGATGCAACAACCTTGGAGAACAGTTGGAGCCCTGATGAGGAGGTAGCTGGGAGCCCCGGGGAAGAAGAGACTGATgtaaggggacctatagttgctaaaaatggcctgccaggccagattagttg Alignment from CESAR ---GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG gatagcacagataatttcaggagactgctgtttgtaactaatttttccagTTGGATGAGGACACGGATAAGCTACTTGCTTCCCCTGATGCAACAACCTTGGAGAACAGTTGGAGCCCTGATGAGGAGGTAGCTGGGAGCCCCGGGGAAGAAGAGACTGATgtaaggggacctatagttgctaaaaatggcctgccaggccagattagttg Alignment from Spaln_aa2Genome CAGGATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG gatagcacagataatttcaggagactgctgtttgtaactaatttttccagTTGGATGAGGACACGGATAAGCTACTTGCTTCCCCTGATGCAACAACCTTGGAGAACAGTTGGAGCCCTGATGAGGAGGTAGCTGGGAGCCCCGGGGAAGAAGAGACTGATgtaaggggacctatagttgctaaaaatggcctgccaggccagattagttg Alignment from Spaln_nt2Genome ---GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG gatagcacagataatttcaggagactgctgtttgtaactaatttttccagTTGGATGAGGACACGGATAAGCTACTTGCTTCCCCTGATGCAACAACCTTGGAGAACAGTTGGAGCCCTGATGAGGAGGTAGCTGGGAGCCCCGGGGAAGAAGAGACTGATgtaaggggacctatagttgctaaaaatggcctgccaggccagattagttg Alignment from Pairagon ---GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG gatagcacagataatttcaggagactgctgtttgtaactaatttttccagTTGGATGAGGACACGGATAAGCTACTTGCTTCCCCTGATGCAACAACCTTGGAGAACAGTTGGAGCCCTGATGAGGAGGTAGCTGGGAGCCCCGGGGAAGAAGAGACTGATgtaaggggacctatagttgctaaaaatggcctgccaggccagattagttg Alignment from Exonerate_protein2genome CAGGATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG gatagcacagataatttcaggagactgctgtttgtaactaatttttccagTTGGATGAGGACACGGATAAGCTACTTGCTTCCCCTGATGCAACAACCTTGGAGAACAGTTGGAGCCCTGATGAGGAGGTAGCTGGGAGCCCCGGGGAAGAAGAGACTGATgtaaggggacctatagttgctaaaaatggcctgccaggccagattagttg Alignment from Exonerate_coding2genome CAGGATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG gatagcacagataatttcaggagactgctgtttgtaactaatttttccagTTGGATGAGGACACGGATAAGCTACTTGCTTCCCCTGATGCAACAACCTTGGAGAACAGTTGGAGCCCTGATGAGGAGGTAGCTGGGAGCCCCGGGGAAGAAGAGACTGATgtaaggggacctatagttgctaaaaatggcctgccaggccagattagttg Alignment from GeneWise ---GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG gatagcacagataatttcaggagactgctgtttgtaactaatttttccagTTGGATGAGGACACGGATAAGCTACTTGCTTCCCCTGATGCAACAACCTTGGAGAACAGTTGGAGCCCTGATGAGGAGGTAGCTGGGAGCCCCGGGGAAGAAGAGACTGATgtaaggggacctatagttgctaaaaatggcctgccaggccagattagttg #### Tcirg1_ID172_15 --> 0 - 0 Original Alignment GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG acacaatgtaactccaattcaatgtgcatatgcatataattgaaatgaagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTACGTGAGCACCAGCACAGAAGGAACTCCCAAAGACGA---GCA---------gtaagtacacgaacctgctaaggcttgggctaagtgctgacacatgtaac Alignment from CESAR GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG acacaatgtaactccaattcaatgtgcatatgcatataattgaaatgaagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTACGTGAGCACCAGCACAGAAGGAACTCCCAAAGACGAGCA------------gtaagtacacgaacctgctaaggcttgggctaagtgct Alignment from Spaln_aa2Genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGG acacaatgtaactccaattcaatgtgcatatgcatataattgaaatgaagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTACGTGAGCACCAGCACAGAAGGAACTCCCAAAGACGAgcagtaagtacacgaacctgctaaggcttgggctaagtgctgacacatgtaac Alignment from Spaln_nt2Genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCA acacaatgtaactccaattcaatgtgcatatgcatataattgaaatgaagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTACGTGAGCACCAGCACAGAAGGAACTCCCAAAGACGAGCAgtaagtacacgaacctgctaaggcttgggctaagtgctgacacatgtaac Alignment from Pairagon GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCA acacaatgtaactccaattcaatgtgcatatgcatataattgaaatgaagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTACGTGAGCACCAGCACAGAAGGAACTCCCAAAGACGAGCAgtaagtacacgaacctgctaaggcttgggctaagtgctgacacatgtaac Alignment from Exonerate_protein2genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCA acacaatgtaactccaattcaatgtgcatatgcatataattgaaatgaagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTACGTGAGCACCAGCACAGAAGGAACTCCCAAAGACGAGCAgtaagtacacgaacctgctaaggcttgggctaagtgctgacacatgtaac Alignment from Exonerate_coding2genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCA acacaatgtaactccaattcaatgtgcatatgcatataattgaaatgaagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTACGTGAGCACCAGCACAGAAGGAACTCCCAAAGACGAGCAgtaagtacacgaacctgctaaggcttgggctaagtgctgacacatgtaac Alignment from GeneWise GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCA acacaatgtaactccaattcaatgtgcatatgcatataattgaaatgaagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTACGTGAGCACCAGCACAGAAGGAACTCCCAAAGACGAGCAgtaagtacacgaacctgctaaggcttgggctaagtgctgacacatgtaac #### Tcirg1_ID176_11 --> 0 - 2 Original Alignment ---ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGag gatcaagaccagggaacctatctttttcctctcttggcctcgggctgcagTGCATCTGGCAGACCTTCTTTGGAGGTCAGTACCTACTTCTCCTTACAGGTCTGTTCTCTGTCTACACTGGCTTTATCTCTACTGAGTGTTATAGCCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCCGGCTGGctgtaagactatgatggttggttcatgtccaggttatctgatgtgaagcata Alignment from CESAR ---ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGag gatcaagaccagggaacctatctttttcctctcttggcctcgggctgcagTGCATCTGGCAGACCTTCTTTGGAGGTCAGTACCTACTTCTCCTTACAGGTCTGTTCTCTGTCTACACTGGCTTTATCTCTACTGAGTGTTATAGCCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCCGGCTGGctgtaagactatgatggttggttcatgtccaggttatctgatgtgaagcata Alignment from Spaln_aa2Genome ATCTGGCAG---ACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAG gatcaagaccagggaacctatctttttcctctcttggcctcgggctgcagTGCATCTGGCAGACCTTCTTTGGAGGTCAGTACCTACTTCTCCTTACAGGTCTGTTCTCTGTCTACACTGGCTTTATCTCTACTGAGTGTTATAGCCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCCGGCTGGCTgtaagactatgatggttggttcatgtccaggttatctgatgtgaagcata Alignment from Spaln_nt2Genome ---ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAG gatcaagaccagggaacctatctttttcctctcttggcctcgggctgcagTGCATCTGGCAGACCTTCTTTGGAGGTCAGTACCTACTTCTCCTTACAGGTCTGTTCTCTGTCTACACTGGCTTTATCTCTACTGAGTGTTATAGCCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCCGGCTGGCTgtaagactatgatggttggttcatgtccaggttatctgatgtgaagcata Alignment from Pairagon ---ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGG---------------------------------------------------- gatcaagaccagggaacctatctttttcctctcttggcctcgggctgcagTGCATCTGGCAGACCTTCTTTGGAGGTCAGTACCTACTTCTCCTTACAGGTCTGTTCTCTGTCTACACTGGCTTTATCTCTACTGAGTGTTATAGCCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCCGGCTGGCTGTAAGACTATGATGGTTGGTTCATGTCCAGGTTATCTGATGTGAAGCATA Alignment from Exonerate_protein2genome ---ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAG gatcaagaccagggaacctatctttttcctctcttggcctcgggctgcagTGCATCTGGCAGACCTTCTTTGGAGGTCAGTACCTACTTCTCCTTACAGGTCTGTTCTCTGTCTACACTGGCTTTATCTCTACTGAGTGTTATAGCCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCCGGCTGGCTgtaagactatgatggttggttcatgtccaggttatctgatgtgaagcata Alignment from Exonerate_coding2genome ---ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAG gatcaagaccagggaacctatctttttcctctcttggcctcgggctgcagTGCATCTGGCAGACCTTCTTTGGAGGTCAGTACCTACTTCTCCTTACAGGTCTGTTCTCTGTCTACACTGGCTTTATCTCTACTGAGTGTTATAGCCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCCGGCTGGCTgtaagactatgatggttggttcatgtccaggttatctgatgtgaagcata Alignment from GeneWise ---ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAG gatcaagaccagggaacctatctttttcctctcttggcctcgggctgcagTGCATCTGGCAGACCTTCTTTGGAGGTCAGTACCTACTTCTCCTTACAGGTCTGTTCTCTGTCTACACTGGCTTTATCTCTACTGAGTGTTATAGCCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCCGGCTGGCTgtaagactatgatggttggttcatgtccaggttatctgatgtgaagcata #### Tcirg1_ID179_8 --> 0 - 0 Original Alignment AGGAA ---------GTCCTGGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA AAGAGgtgggatcctaagggatctgaagtttgactgtggtttgtgttcagTTTCACTATGTCTTGGGGGAGACAGACCGATTCTTAAGCCAAGTGCTAGGGCGAGTGCAGCAGTTACTGCCCCCATGGCAGGTGCAGATCCATAAGATGAAGGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTGCAGAGGTGTGGTCTGCTGCAAGAGACCTACCCACAGTGCAACAGGCCCTACAAAGTGGCTCAgtaagggtccagggtcttattgaagtacccattaagcaagagaggtgcca Alignment from CESAR AGGAA ---------GTCCTGGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA AAGAGgtgtggtcctaagggatctgaagtttgactgtggtttgtgttcagTTTCACTATGTCTTGGGGGAGACAGACCGATTCTTAAGCCAAGTGCTAGGGCGAGTGCAGCAGTTACTGCCCCCATGGCAGGTGCAGATCCATAAGATGAAGGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTGCAGAGGTGTGGTCTGCTGCAAGAGACCTACCCACAGTGCAACAGGCCCTACAAAGTGGCTCAgtaagggtccagggtcttattgaagtacccattaagcaagagaggtgcca Alignment from Spaln_aa2Genome AGGAA GTCCTGGGGGAGACA---------GACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA AAGAGgtgggatcctaagggatctgaagtttgactgtggtttgtgttcagTTTCACTATGTCTTGGGGGAGACAGACCGATTCTTAAGCCAAGTGCTAGGGCGAGTGCAGCAGTTACTGCCCCCATGGCAGGTGCAGATCCATAAGATGAAGGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTGCAGAGGTGTGGTCTGCTGCAAGAGACCTACCCACAGTGCAACAGGCCCTACAAAGTGGCTCAgtaagggtccagggtcttattgaagtacccattaagcaagagaggtgcca Alignment from Spaln_nt2Genome AGGAA ---------GTCCTGGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA AAGAGgtgggatcctaagggatctgaagtttgactgtggtttgtgttcagTTTCACTATGTCTTGGGGGAGACAGACCGATTCTTAAGCCAAGTGCTAGGGCGAGTGCAGCAGTTACTGCCCCCATGGCAGGTGCAGATCCATAAGATGAAGGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTGCAGAGGTGTGGTCTGCTGCAAGAGACCTACCCACAGTGCAACAGGCCCTACAAAGTGGCTCAgtaagggtccagggtcttattgaagtacccattaagcaagagaggtgcca Alignment from Pairagon AGGAA------------------------------------------------------GTCCTGGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA AAGAGGTGGGATCCTAAGGGATCTGAAGTTTGACTGTGGTTTGTGTTCAGTTTCACTATGTCTTGGGGGAGACAGACCGATTCTTAAGCCAAGTGCTAGGGCGAGTGCAGCAGTTACTGCCCCCATGGCAGGTGCAGATCCATAAGATGAAGGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTGCAGAGGTGTGGTCTGCTGCAAGAGACCTACCCACAGTGCAACAGGCCCTACAAAGTGGCTCAgtaagggtccagggtcttattgaagtacccattaagcaagagaggtgcca Alignment from Exonerate_protein2genome AGGAA GTCCTGGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA AAGAGgtgggatcctaagggatctgaagtttgactgtggtttgtgttcagtttcactatGTCTTGGGGGAGACAGACCGATTCTTAAGCCAAGTGCTAGGGCGAGTGCAGCAGTTACTGCCCCCATGGCAGGTGCAGATCCATAAGATGAAGGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTGCAGAGGTGTGGTCTGCTGCAAGAGACCTACCCACAGTGCAACAGGCCCTACAAAGTGGCTCAgtaagggtccagggtcttattgaagtacccattaagcaagagaggtgcca Alignment from Exonerate_coding2genome AGGAA GTCCTGGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA AAGAGgtgggatcctaagggatctgaagtttgactgtggtttgtgttcagtttcactatGTCTTGGGGGAGACAGACCGATTCTTAAGCCAAGTGCTAGGGCGAGTGCAGCAGTTACTGCCCCCATGGCAGGTGCAGATCCATAAGATGAAGGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTGCAGAGGTGTGGTCTGCTGCAAGAGACCTACCCACAGTGCAACAGGCCCTACAAAGTGGCTCAgtaagggtccagggtcttattgaagtacccattaagcaagagaggtgcca Alignment from GeneWise AGGAA ---------GTCCTGGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA AAGAGgtgggatcctaagggatctgaagtttgactgtggtttgtgttcagTTTCACTATGTCTTGGGGGAGACAGACCGATTCTTAAGCCAAGTGCTAGGGCGAGTGCAGCAGTTACTGCCCCCATGGCAGGTGCAGATCCATAAGATGAAGGCTGTCTACCTAACCCTCAATTCTTGCAGTGTTAACACCACACACAAGTGCCTCATTGCAGAGGTGTGGTCTGCTGCAAGAGACCTACCCACAGTGCAACAGGCCCTACAAAGTGGCTCAgtaagggtccagggtcttattgaagtacccattaagcaagagaggtgcca #### Tcirg1_ID180_7 --> 1 - 0 Original Alignment cTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCT aacagtatcgctggtcttcaatacaagagtcctaactcctgatcctgcagc---------------------------------GAGGAAGCCCGGTTTAGGACCTCACAGCAGTTACAGCAGCAGAGCCAGGAACTTCAAGAGgtgtggtcctaagggatctgaagacctctcccttcatgtgcccagGTCTT Alignment from CESAR cTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCT atccataatcctgggcttcaatacaagagtcctaactcctgatcctgcagc---------------------------------GAGGAAGCCCGGTTTAGGACCTCACAGCAGTTACAGCAGCAGAGCCAGGAACTTCAAGAGgtgtggtcctaagggatctgaagtccctcctcttcatcctcacagGTCTT Alignment from Spaln_aa2Genome CTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCT aacagtatcgctggtcttcaatacaagagtcctaactcctgatcctgcagC---------------------------------GAGGAAGCCCGGTTTAGGACCTCACAGCAGTTACAGCAGCAGAGCCAGGAACTTCAAGAGgtgtggtcctaagggatctgaagacctctcccttcatgtgcccagGTCTT Alignment from Spaln_nt2Genome CTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCT cgctggtcttcaatacaag-------AGTCCTAACTCCTGAT-CCTGCAGC--GAGGAAGCCCGGTTTAGGACCTCACAGCAGTTACAGCAGCAGAGCCAGGAACTTCAAGAGgtgtggtcctaagggatctgaagacctctcccttcatgtgcccagGTCTT Alignment from Pairagon CTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCT aacagtatcgctggtcttcaatacaagagtcctaactcctgatcctgcagC---------------------------------GAGGAAGCCCGGTTTAGGACCTCACAGCAGTTACAGCAGCAGAGCCAGGAACTTCAAGAGgtgtggtcctaagggatctgaagacctctcccttcatgtgcccagGTCTT Alignment from Exonerate_protein2genome CTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCT aacagtatcgctggtctTCAATACAAGAGTCCTAACTCCTGATCCTGCAGCGAGGAAGCCCGGTTTAGGACCTCACAGCAGTTACAGCAGCAGAGCCAGGAACTTCAAGAGgtgtggtcctaagggatctgaagacctctcccttcatgtgcccagGTCTT Alignment from Exonerate_coding2genome CTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCT aacagtatcgctggtctTCAATACAAGAGTCCTAACTCCTGATCCTGCAGCGAGGAAGCCCGGTTTAGGACCTCACAGCAGTTACAGCAGCAGAGCCAGGAACTTCAAGAGgtgtggtcctaagggatctgaagacctctcccttcatgtgcccagGTCTT Alignment from GeneWise CTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCT aacagtatcgctggtcttcaatacaagagtcctaactcctgatcctgcagC---------------------------------GAGGAAGCCCGGTTTAGGACCTCACAGCAGTTACAGCAGCAGAGCCAGGAACTTCAAGAGgtgtggtcctaagggatctgaagacctctcccttcatgtgcccagGTCTT #### Tcirg1_ID181_6 --> 0 - 2 Original Alignment CAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGATCACAGACtg CAGTGGCAgtatgtgtaaaggcaggacttcatgtctctttgtcactgtagGGTGAGCCTGCAACCTGGATGACCTTTATCATATCCTACTGGGGTGAGCAGATTGGTCAGAAGATCCGAAAGATCACA---tggtaagtagtaggtatcctcattgcccagtacaagtagcagtcaattcgct Alignment from CESAR CAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGATCACAGACtg CAGTGGCAgtgagtgtaaaggcaggacttcatgtctctttgtcactgtagGGTGAGCCTGCAACCTGGATGACCTTTATCATATCCTACTGGGGTGAGCAGATTGGTCAGAAGATCCGAAAGATCACA---tggtaagtagtaggtatcctcattgcccagtacaagtagcagtcaattcgct Alignment from Spaln_aa2Genome CAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGATCACAGA CAGTGGCAgtatgtgtaaaggcaggacttcatgtctctttgtcactgtagGGTGAGCCTGCAACCTGGATGACCTTTATCATATCCTACTGGGGTGAGCAGATTGGTCAGAAGATCCGAAAGATCACATGgtaagtagtaggtatcctcattgcccagtacaagtagcagtcaattcgct Alignment from Spaln_nt2Genome CAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGATCACAGACTG CAGTGGCAgtatgtgtaaaggcaggacttcatgtctctttgtcactgtagGGTGAGCCTGCAACCTGGATGACCTTTATCATATCCTACTGGGGTGAGCAGATTGGTCAGAAGATCCGAAAGATCACA---TGgtaagtagtaggtatcctcattgcccagtacaagtagcagtcaattcgct Alignment from Pairagon CAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGATCACAGACTG CAGTGGCAgtatgtgtaaaggcaggacttcatgtctctttgtcactgtagGGTGAGCCTGCAACCTGGATGACCTTTATCATATCCTACTGGGGTGAGCAGATTGGTCAGAAGATCCGAAAGATCACA---TGgtaagtagtaggtatcctcattgcccagtacaagtagcagtcaattcgct Alignment from Exonerate_protein2genome CAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGATCACAGACTG CAGTGGCAgtatgtgtaaaggcaggacttcatgtctctttgtcactgtagGGTGAGCCTGCAACCTGGATGACCTTTATCATATCCTACTGGGGTGAGCAGATTGGTCAGAAGATCCGAAAGATCACA---TGgtaagtagtaggtatcctcattgcccagtacaagtagcagtcaattcgct Alignment from Exonerate_coding2genome CAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGATCACAGACTG CAGTGGCAgtatgtgtaaaggcaggacttcatgtctctttgtcactgtagGGTGAGCCTGCAACCTGGATGACCTTTATCATATCCTACTGGGGTGAGCAGATTGGTCAGAAGATCCGAAAGATCACA---TGgtaagtagtaggtatcctcattgcccagtacaagtagcagtcaattcgct Alignment from GeneWise CAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGATCACAGA CAGTGGCAgtatgtgtaaaggcaggacttcatgtctctttgtcactgtagGGTGAGCCTGCAACCTGGATGACCTTTATCATATCCTACTGGGGTGAGCAGATTGGTCAGAAGATCCGAAAGATCACATGgtaagtagtaggtatcctcattgcccagtacaagtagcagtcaattcgct #### Tcirg1_ID184_3 --> 2 - 0 Original Alignment ccTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG acttgaccatgtggaatttcttccggtctctctgtcatccgttgcacaagccTTCTTGAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGGACACTACCAGCACCACCTCCAAGGGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGGAGGCACTGCAGGCCCAGCTGCACCACTTACGACTATACTCATCTGTGCTGGGCCAGAGCCACAGTCCA---gttggcaggtcctagtcagaagagccccagtccaccagttggctcttagt Alignment from CESAR ccTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG acttgaccatgtggaatttcttccggtctctctgtcatccgttgcacaagccTTCTTGAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGGACACTACCAGCACCACCTCCAAGGGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGGAGGCACTGCAGGCCCAGCTGCACCACTTACGACTATACTCATCTGTGCTGGGCCAGAGCCACAGT---CCAgttggcaggtcctagtcagaagagccccagtccaccagttggctcttagt Alignment from Spaln_aa2Genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCG acttgaccatgtggaatttcttccggtctctctgtcatccgttgcacaagCCTTCTTGAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGGACACTACCAGCACCACCTCCAAGGGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGGAGGCACTGCAGGCCCAGCTGCACCACTTACGACTATACTCATCTGTGCTGGGCCAGAGCCACAGTCCAgttggcaggtcctagtcagaagagccccagtccaccagttggctcttagt Alignment from Spaln_nt2Genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCC-GCCG acttgaccatgtggaatttcttccggtctctctgtcatccgttgcacaagCCTTCTTGAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGGACACTACCAGCACCACCTCCAAGGGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGGAGGCACTGCAGGCCCAGCTGCACCACTTACGACTATACTCATCTGTGCTGGGCCAGAGCCACAGTCCAGTTGgcaggtcctagtcagaagagccccagtccaccagttggctcttagt Alignment from Pairagon CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCC--------------------------------------------------- acttgaccatgtggaatttcttccggtctctctgtcatccgttgcacaagCCTTCTTGAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGGACACTACCAGCACCACCTCCAAGGGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGGAGGCACTGCAGGCCCAGCTGCACCACTTACGACTATACTCATCTGTGCTGGGCCAGAGCCACAGTCCAGTTGGCAGGTCCTAGTCAGAAGAGCCCCAGTCCACCAGTTGGCTCTTAGT Alignment from Exonerate_protein2genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG acttgaccatgtggaatttcttccggtctctctgtcatccgttgcacaagCCTTCTTGAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGGACACTACCAGCACCACCTCCAAGGGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGGAGGCACTGCAGGCCCAGCTGCACCACTTACGACTATACTCATCTGTGCTGGGCCAGAGCCACAGTCCAGTTggcaggtcctagtcagaagagccccagtccaccagttggctcttagt Alignment from Exonerate_coding2genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG acttgaccatgtggaatttcttccggtctctctgtcatccgttgcacaagCCTTCTTGAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGGACACTACCAGCACCACCTCCAAGGGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGGAGGCACTGCAGGCCCAGCTGCACCACTTACGACTATACTCATCTGTGCTGGGCCAGAGCCACAGTCCAGTTggcaggtcctagtcagaagagccccagtccaccagttggctcttagt Alignment from GeneWise CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG acttgaccatgtggaatttcttccggtctctctgtcatccgttgcacaagCCTTCTTGAAAGAAGAAGTGCCCTGGGCTAGTCTAACCCTTGCTCCACCTGAGGGGACACTACCAGCACCACCTCCAAGGGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGTAATCAGGAGGCACTGCAGGCCCAGCTGCACCACTTACGACTATACTCATCTGTGCTGGGCCAGAGCCACAGT---CCAgttggcaggtcctagtcagaagagccccagtccaccagttggctcttagt #### Tcirg1_ID185_2 --> 0 - 1 Original Alignment CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTa agtggttctaatgcagataaagataaacgttcatgaactcttgcttatag---AATGAGTCTGTAAGTGCATTCCAGAGACGCTTTGTGGTGGATGTGCAGCACTGTGAGGAACTGGACAAGACATTTagtaagatatcctcagcagatttgggttgacggagtgtggttcgtttgccc Alignment from CESAR CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTa ctgagtggttctaatgcagataaagaacgttcatgaactcttgcttatag---AATGAGTCTGTAAGTGCATTCCAGAGACGCTTTGTGGTGGATGTGCAGCACTGTGAGGAACTGGACAAGACATTTagtaagatatcctcagcagatttgggttgacggagtgtggttcgtttgccc Alignment from Spaln_aa2Genome CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA agtggttctaatgcagataaagataaacgttcatgaactcttgcttatag---AATGAGTCTGTAAGTGCATTCCAGAGACGCTTTGTGGTGGATGTGCAGCACTGTGAGGAACTGGACAAGACATTTAgtaagatatcctcagcagatttgggttgacggagtgtggttcgtttgccc Alignment from Spaln_nt2Genome CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA agtggttctaatgcagataaagataaacgttcatgaactcttgcttatag---AATGAGTCTGTAAGTGCATTCCAGAGACGCTTTGTGGTGGATGTGCAGCACTGTGAGGAACTGGACAAGACATTTAgtaagatatcctcagcagatttgggttgacggagtgtggttcgtttgccc Alignment from Pairagon CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA agtggttctaatgcagataaagataaacgttcatgaactcttgcttatag---AATGAGTCTGTAAGTGCATTCCAGAGACGCTTTGTGGTGGATGTGCAGCACTGTGAGGAACTGGACAAGACATTTAgtaagatatcctcagcagatttgggttgacggagtgtggttcgtttgccc Alignment from Exonerate_protein2genome AACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA agtggttctaatgcagataaagataaacgttcatgaactcttgcttatagAATGAGTCTGTAAGTGCATTCCAGAGACGCTTTGTGGTGGATGTGCAGCACTGTGAGGAACTGGACAAGACATTTAgtaagatatcctcagcagatttgggttgacggagtgtggttcgtttgccc Alignment from Exonerate_coding2genome AACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA agtggttctaatgcagataaagataaacgttcatgaactcttgcttatagAATGAGTCTGTAAGTGCATTCCAGAGACGCTTTGTGGTGGATGTGCAGCACTGTGAGGAACTGGACAAGACATTTAgtaagatatcctcagcagatttgggttgacggagtgtggttcgtttgccc Alignment from GeneWise CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA agtggttctaatgcagataaagataaacgttcatgaactcttgcttatagAAT---GAGTCTGTAAGTGCATTCCAGAGACGCTTTGTGGTGGATGTGCAGCACTGTGAGGAACTGGACAAGACATTTAgtaagatatcctcagcagatttgggttgacggagtgtggttcgtttgccc #### Tdrd1_ID12205_6 --> 0 - 0 Original Alignment GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG--------- aatacatgcagggtgggctgcctcaaccgtttgtctttgcttgaaaacagGTTGATTGCCCCCCAGGAGTT---AAACAAATTACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAGCTAAAGAAAACAATGGAGATAAAAGGGATCCCAgtgaagggatttgcctcctcctttcctcccacatgtgatccccttggctc Alignment from CESAR GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG--------- aatacatgcagggtgggctgcctcaaccgtttgtctttgcttgaaaacagGTTGATTGCCCCCCAGGAGTT---AAACAAATTACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAGCTAAAGAAAACAATGGAGATAAAAGGGATCCCAgtgaagggatttgcctcctcctttcctcccacatgtgatccccttggctc Alignment from Spaln_aa2Genome GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG--------- aatacatgcagggtgggctgcctcaaccgtttgtctttgcttgaaaacagGTTGATTGCCCCCCAGGAGTT---AAACAAATTACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAGCTAAAGAAAACAATGGAGATAAAAGGGATCCCAgtgaagggatttgcctcctcctttcctcccacatgtgatccccttggctc Alignment from Spaln_nt2Genome GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG--------- aatacatgcagggtgggctgcctcaaccgtttgtctttgcttgaaaacagGTTGATTGCCCCCCAGGAGT---TAAACAAATTACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAGCTAAAGAAAACAATGGAGATAAAAGGGATCCCAgtgaagggatttgcctcctcctttcctcccacatgtgatccccttggctc Alignment from Pairagon GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG--------- aatacatgcagggtgggctgcctcaaccgtttgtctttgcttgaaaacagGTTGATTGCCCCCCAGGAGT---TAAACAAATTACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAGCTAAAGAAAACAATGGAGATAAAAGGGATCCCAgtgaagggatttgcctcctcctttcctcccacatgtgatccccttggctc Alignment from Exonerate_protein2genome GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG aatacatgcagggtgggctgcctcaaccgtttgtctttgcttgaaaacagGTTGATTGCCCCCCAGGAGTT---AAACAAATTACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAGCTAAAGAAAACAATGGAGATAAAAgggatcccagtgaagggatttgcctcctcctttcctcccacatgtgatccccttggctc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAGGGT------ aatacatgcagggtgggctgcctcaaccgtttgtctttgcttgaaaacagGTTGATTGCCCCCCAGGAGTT---AAACAAATTACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAGCTAAAGAAAACAATGGAGATAAAAGGGATCCCAgtgaagggatttgcctcctcctttcctcccacatgtgatccccttggctc #### Tdrd1_ID12222_23 --> 2 - 0 Original Alignment agATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG--- tgtgactgtaggatccgtctaagtccataattcttttcttggcttttcagagATACCTCACAGTAGGGACTGCTGTTGCACAGAATTACAGAAACAGATCgtgagtatttactgctgctcaaaccagctgcttcccattgacatagaaat Alignment from CESAR agATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG--- tgtgactgtaggatccgtctaagtccataattcttttcttggcttttcagagATACCTCACAGTAGGGACTGCTGTTGCACAGAATTACAGAAACAGATCgtgagtatttactgctgctcaaaccagctgcttcccattgacatagaaat Alignment from Spaln_aa2Genome AGATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG--- tgtgactgtaggatccgtctaagtccataattcttttcttggcttttcagAGATACCTCACAGTAGGGACTGCTGTTGCACAGAATTACAGAAACAGATCgtgagtatttactgctgctcaaaccagctgcttcccattgacatagaaat Alignment from Spaln_nt2Genome AGATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAGAT- tgtgactgtaggatccgtctaagtccataattcttttcttggcttttcagAGATACCTCACAGTAGGGACTGCTGTTGCACAGAATTACAGAAACAGATCgtgagtatttactgctgctcaaaccagctgcttcccattgacatagaaat Alignment from Pairagon AGATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAAC------------------------------------------------------- tgtgactgtaggatccgtctaagtccataattcttttcttggcttttcagAGATACCTCACAGTAGGGACTGCTGTTGCACAGAATTACAGAAACAGATCGTGAGTATTTACTGCTGCTCAAACCAGCTGCTTCCCATTGACATAGAAAT Alignment from Exonerate_protein2genome AGATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG tgtgactgtaggatccgtctaagtccataattcttttcttggcttttcagAGATACCTCACAGTAGGGACTGCTGTTGCACAGAATTACAGAAACAGatcgtgagtatttactgctgctcaaaccagctgcttcccattgacatagaaat Alignment from Exonerate_coding2genome AGATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG tgtgactgtaggatccgtctaagtccataattcttttcttggcttttcagAGATACCTCACAGTAGGGACTGCTGTTGCACAGAATTACAGAAACAGatcgtgagtatttactgctgctcaaaccagctgcttcccattgacatagaaat Alignment from GeneWise AGATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAGATT tgtgactgtaggatccgtctaagtccataattcttttcttggcttttcagAGATACCTCACAGTAGGGACTGCTGTTGCACAGAATTACAGAAACAGATCgtgagtatttactgctgctcaaaccagctgcttcccattgacatagaaat #### Tjp2_ID5274_13 --> 2 - 2 Original Alignment tgTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCag gtctccaggcaggtagagcgtaccctctagggttacttctcattttatagct---------ATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACACTCTATGATGACAAGTTGGGTCACTGGCTGGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCTTAATCCCCAACAAAAGCaggtgagtaactagcttgactccctccccattctgctaaaccccatcctgaa Alignment from CESAR tgTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCag ggtgtaattgtctccaggcaggtagtctagggttacttctcattttatagct---------ATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACACTCTATGATGACAAGTTGGGTCACTGGCTGGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCTTAATCCCCAACAAAAGCaggtgagtaactagcttgactccctccccattctgctaaaccccatcctgaa Alignment from Spaln_aa2Genome TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCAG gtctccaggcaggtagagcgtaccctctagggttacttctcattttatagCT---------ATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACACTCTATGATGACAAGTTGGGTCACTGGCTGGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCTTAATCCCCAACAAAAGCAGgtgagtaactagcttgactccctccccattctgctaaaccccatcctgaa Alignment from Spaln_nt2Genome -TATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCAG gtctccaggcaggtagagcgtaccctctagggttacttctcattttatagCTATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACACTCTATGATGACAAGTTGGGTCACTGGCTGGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCTTAATCCCCAACAAAAGCAGgtgagtaactagcttgactccctccccattctgctaaaccccatcctgaa Alignment from Pairagon TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCAG gtctccaggcaggtagagcgtaccctctagggttacttctcattttatag---------CTATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACACTCTATGATGACAAGTTGGGTCACTGGCTGGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCTTAATCCCCAACAAAAGCAGgtgagtaactagcttgactccctccccattctgctaaaccccatcctgaa Alignment from Exonerate_protein2genome TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCAG gtctccaggcaggtagagcgtaccctctagggttacttctcATTTTATAGCTATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACACTCTATGATGACAAGTTGGGTCACTGGCTGGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCTTAATCCCCAACAAAAGCAGgtgagtaactagcttgactccctccccattctgctaaaccccatcctgaa Alignment from Exonerate_coding2genome TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCAG gtctccaggcaggtagagcgtaccctctagggttacttctcATTTTATAGCTATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACACTCTATGATGACAAGTTGGGTCACTGGCTGGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCTTAATCCCCAACAAAAGCAGgtgagtaactagcttgactccctccccattctgctaaaccccatcctgaa Alignment from GeneWise TGTACAGAGATATCCTGGCTTGTGGCAGGGGAGATTCGTTTTTCATAAGAAGCCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACGCTGTACGATGGCAAGCTGGGCCACTGGCTGGCCGTGAGGATCGGGAATGAGCTGGAGAAAGGCTTGATCCCTAACAAAAGCAG gtctccaggcaggtagagcgtaccctctagggttacttctcattttatagCT---------ATCTTGGCTTGTGGCAGGGGGGATTTGTTTTTCATAAGAAGTCACTTTGAATGTGAGAAGGAAACTCCCCAGAGCCTGGCCTTCACCAGGGGAGAGGTCTTCCGAGTGGTAGACACACTCTATGATGACAAGTTGGGTCACTGGCTGGCTGTGAGGATCGGGAATGAGCTAGAGCAAGGCTTAATCCCCAACAAAAGCAGgtgagtaactagcttgactccctccccattctgctaaaccccatcctgaa #### Tm7sf2_ID1411_9 --> 2 - 1 Original Alignment gtCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGT---g tgcctaattgaacctgagggcttcgagcgatgtttttttgtcttaaacaggtCTAGACACAATCCCCACTGCCACAGGTAGACATCTGCTAGTGTCTGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCTTGGTCCTTGCCCTGTGTAggtaagtaggtggggagagtgaggaccatatacctgctacaatgagatccc Alignment from CESAR gtCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGT---g tgcctaattgaacctgagggcttcgagcgatgtttttttgtcttaaacaggtCTAGACACAATCCCCACTGCCACAGGTAGACATCTGCTAGTGTCTGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCTTGGTCCTTGCCCTGTGTAggtaagtaggtggggagagtgaggaccatatacctgctacaatgagatccc Alignment from Spaln_aa2Genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGT---G tgcctaattgaacctgagggcttcgagcgatgtttttttgtcttaaacagGTCTAGACACAATCCCCACTGCCACAGGTAGACATCTGCTAGTGTCTGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCTTGGTCCTTGCCCTGTGTAGgtaagtaggtggggagagtgaggaccatatacctgctacaatgagatccc Alignment from Spaln_nt2Genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG--- tgcctaattgaacctgagggcttcgagcgatgtttttttgtcttaaacagGTCTAGACACAATCCCCACTGCCACAGGTAGACATCTGCTAGTGTCTGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCTTGGTCCTTGCCCTGTGTAGgtaagtaggtggggagagtgaggaccatatacctgctacaatgagatccc Alignment from Pairagon GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG--- tgcctaattgaacctgagggcttcgagcgatgtttttttgtcttaaacagGTCTAGACACAATCCCCACTGCCACAGGTAGACATCTGCTAGTGTCTGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCTTGGTCCTTGCCCTGTGTAGgtaagtaggtggggagagtgaggaccatatacctgctacaatgagatccc Alignment from Exonerate_protein2genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGT---G tgcctaattgaacctgagggcttcgagcgatgtttttttgtcttaaacagGTCTAGACACAATCCCCACTGCCACAGGTAGACATCTGCTAGTGTCTGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCTTGGTCCTTGCCCTGTGTAGgtaagtaggtggggagagtgaggaccatatacctgctacaatgagatccc Alignment from Exonerate_coding2genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGT---G tgcctaattgaacctgagggcttcgagcgatgtttttttgtcttaaacagGTCTAGACACAATCCCCACTGCCACAGGTAGACATCTGCTAGTGTCTGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCTTGGTCCTTGCCCTGTGTAGgtaagtaggtggggagagtgaggaccatatacctgctacaatgagatccc Alignment from GeneWise GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGT tgcctaattgaacctgagggcttcgagcgatgtttttttgtcttaaacagGTCTAGACACAATCCCCACTGCCACAGGTAGACATCTGCTAGTGTCTGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCTTGGTCCTTGCCCTGTgtaggtaagtaggtggggagagtgaggaccatatacctgctacaatgagatccc #### Tm7sf2_ID1413_7 --> 0 - 1 Original Alignment ------------------------------------GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGg tgtgatgacatcaactgtactatctcaataaacactgtactcttttacagCTCCCTGACTCTGTAATTCCCAAACTGGTGCGGACGGAGTCTATCCTCACCACCATGGACATCATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCATCCCCAACCCCTAGGGTACCCAATGGCCTTACTCATCTGCCTGCTCCGGggtaagtattagaaacccaaaatgccctatcctgcgccatcgcttatgttg Alignment from CESAR ggtggcactggaccacccaatagtcgttctaactccccagtcagtgttgtc Alignment from Spaln_aa2Genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG tgtgatgacatcaactgtactatctcaataaacactgtactcttttacagctccctgactctgtaattcccaaactggtgcggacggag---TCTATCCTCACCACCATGGACATCATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCATCCCCAACCCCTAGGGTACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtaagtattagaaacccaaaatgccctatcctgcgccatcgcttatgttg Alignment from Spaln_nt2Genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG tgtgatgacatcaactgtactatctcaataaacactgtactcttttacagctccctgactctgtaattcccaaactggtgcggacggag---TCTATCCTCACCACCATGGACATCATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCATCCCCAACCCCTAGGGTACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtaagtattagaaacccaaaatgccctatcctgcgccatcgcttatgttg Alignment from Pairagon -------------------------------------------------------------------------------------GGAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG TGTGATGACATCAACTGTACTATCTCAATAAACACTGTACTCTTTTACAGCTCCCTGACTCTGTAATTCCCAAACTGGTGCGGACGGAGTCTATCCTCACCACCATGGACATCATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCATCCCCAACCCCTAGGGTACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtaagtattagaaacccaaaatgccctatcctgcgccatcgcttatgttg Alignment from Exonerate_protein2genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG tgtgatgacatcaactgtactatctcaataaacactgtactcttttacagctccctgactctgtaattcccaaactggtgcggacgGAGTCTATCCTCACCACCATGGACATCATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCATCCCCAACCCCTAGGGTACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtaagtattagaaacccaaaatgccctatcctgcgccatcgcttatgttg Alignment from Exonerate_coding2genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG tgtgatgacatcaactgtactatctcaataaacactgtactcttttacagctccctgactctgtaattcccaaactggtgcggacgGAGTCTATCCTCACCACCATGGACATCATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCATCCCCAACCCCTAGGGTACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtaagtattagaaacccaaaatgccctatcctgcgccatcgcttatgttg Alignment from GeneWise TCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG tgtgatgacatcaactgtactatctcaataaacactgtactcttttacagctccctgactctgtaattcccaaactggtgcggacggagTCTATCCTCACCACCATGGACATCATACATGATGGGTTTGGCTTCATGCTTGTCTTTGGAGATTTAGCTTGGATACCACTTATCTACAGCCTGCAGGCCCAGTTCCTTTTATACCATCCCCAACCCCTAGGGTACCCAATGGCCTTACTCATCTGCCTGCTCCGGGgtaagtattagaaacccaaaatgccctatcctgcgccatcgcttatgttg #### Tm7sf2_ID1418_2 --> 2 - 0 Original Alignment gcGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG--------- tgaagtaatgtgttgaacgagccagattatagcctcttccctgcttccaggtGTTGCAGCTTTATTGATACTGCTGCCTGCCACCATGTCTCACTTCCTCCTCGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTATCTACCTGGCCTGGAGGAGCTATGGAGCCCATGGGCTCTGCTCCTCCTGTTCATCTGGCTTGGTCTGCAGGTGGCGCTCTATTTGCTGCCTGCATGCAGGGCATTTCCAgtaagcgatctctcgcatcataggggacatatgctgtgatatgatccatg Alignment from CESAR gcGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG--------- tgaagtaatgtgttgaacgagccagattatagcctcttccctgcttccaggtGTTGCAGCTTTATTGATACTGCTGCCTGCCACCATGTCTCACTTCCTCCTCGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTATCTACCTGGCCTGGAGGAGCTATGGAGCCCATGGGCTCTGCTCCTCCTGTTCATCTGGCTTGGTCTGCAGGTGGCGCTCTATTTGCTGCCTGCATGCAGGGCATTTCCAgtaagcgatctctcgcatcataggggacatatgctgtgatatgatccatg Alignment from Spaln_aa2Genome GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG tgaagtaatgtgttgaacgagccagattatagcctcttccctgcttccagGTGTTGCAGCTTTATTGATACTGCTGCCTGCCACCATGTCTCACTTCCTCCTCGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTATCTACCTGGCCTGGAGGAGCTATGGAGCCCATGGGCTCTGCTCCTCCTGTTCATCTGGCTTGGTCTGCAGGTGGCGCTCTATTTGCTGCCTGCATGCAGGgcatttccagtaagcgatctctcgcatcataggggacatatgctgtgatatgatccatg Alignment from Spaln_nt2Genome GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG tgaagtaatgtgttgaacgagccagattatagcctcttccctgcttccagGTGTTGCAGCTTTATTGATACTGCTGCCTGCCACCATGTCTCACTTCCTCCTCGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTATCTACCTGGCCTGGAGGAGCTATGGAGCCCATGGGCTCTGCTCCTCCTGTTCATCTGGCTTGGTCTGCAGGTGGCGCTCTATTTGCTGCCTGCATGCAGGgcatttccagtaagcgatctctcgcatcataggggacatatgctgtgatatgatccatg Alignment from Pairagon GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCA------------------------------------------------------------- tgaagtaatgtgttgaacgagccagattatagcctcttccctgcttccagGTGTTGCAGCTTTATTGATACTGCTGCCTGCCACCATGTCTCACTTCCTCCTCGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTATCTACCTGGCCTGGAGGAGCTATGGAGCCCATGGGCTCTGCTCCTCCTGTTCATCTGGCTTGGTCTGCAGGTGGCGCTCTATTTGCTGCCTGCATGCAGGGCATTTCCAGTAAGCGATCTCTCGCATCATAGGGGACATATGCTGTGATATGATCCATG Alignment from Exonerate_protein2genome GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG tgaagtaatgtgttgaacgagccagattatagcctcttccctgcttccagGTGTTGCAGCTTTATTGATACTGCTGCCTGCCACCATGTCTCACTTCCTCCTCGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTATCTACCTGGCCTGGAGGAGCTATGGAGCCCATGGGCTCTGCTCCTCCTGTTCATCTGGCTTGGTCTGCAGGTGGCGCTCTATTTGCTGCCTGCATGCAGGgcatttccagtaagcgatctctcgcatcataggggacatatgctgtgatatgatccatg Alignment from Exonerate_coding2genome GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG tgaagtaatgtgttgaacgagccagattatagcctcttccctgcttccagGTGTTGCAGCTTTATTGATACTGCTGCCTGCCACCATGTCTCACTTCCTCCTCGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTATCTACCTGGCCTGGAGGAGCTATGGAGCCCATGGGCTCTGCTCCTCCTGTTCATCTGGCTTGGTCTGCAGGTGGCGCTCTATTTGCTGCCTGCATGCAGGgcatttccagtaagcgatctctcgcatcataggggacatatgctgtgatatgatccatg Alignment from GeneWise GCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG--------- tgaagtaatgtgttgaacgagccagattatagcctcttccctgcttccagGTGTTGCAGCTTTATTGATACTGCTGCCTGCCACCATGTCTCACTTCCTCCTCGCTGCTCACTCAGGGCCAGCACGACTACTGGCCCTACCAGCTTATCTACCTGGCCTGGAGGAGCTATGGAGCCCATGGGCTCTGCTCCTCCTGTTCATCTGGCTTGGTCTGCAGGTGGCGCTCTATTTGCTGCCTGCATGCAGGGCATTTCCAgtaagcgatctctcgcatcataggggacatatgctgtgatatgatccatg #### Tmem179b_ID2370_3 --> 1 - 2 Original Alignment aGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTag ctttgtggtaggttctactgagactaatatgttcatcacatctgttatagaGGCTCTATAGGGCTCCGGATTGCTCTGGCCATTTCAGCTACGGCTATCTTCCTAATTTTAGTATCTGCCTGCATAGTTCGATTCGGCACGAATTCTTTCTGTAATTCCATCATCTCTCTGAATCTT------aggtgtgtccctcatgtgggacaggtccactcagaggtgcaaactaagttca Alignment from CESAR aGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTag ctttgtggtaggttctactgagactaatatgttcatcacatctgttatagaGGCTCTATAGGGCTCCGGATTGCTCTGGCCATTTCAGCTACGGCTATCTTCCTAATTTTAGTATCTGCCTGCATAGTTCGATTCGGCACGAATTCTTTCTGTAATTCCATCATCTCTCTGAATCTT------aggtgtgtccctcatgtgggacaggtccactcagaggtgcaaactaagttca Alignment from Spaln_aa2Genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTAC ctttgtggtaggttctactgagactaatatgttcatcacatctgttatagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATTTCAGCTACGGCTATCTTCCTAATTTTAGTATCTGCCTGCATAGTTCGATTCGGCACGAATTCTTTCTGTAATTCCATCATCTCTCTGAATCTTAGgtgtgtccctcatgtgggacaggtccactcagaggtgcaaactaagttca Alignment from Spaln_nt2Genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG ctttgtggtaggttctactgagactaatatgttcatcacatctgttatagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATTTCAGCTACGGCTATCTTCCTAATTTTAGTATCTGCCTGCATAGTTCGATTCGGCACGAATTCTTTCTGTAATTCCATCATCTCTCTGAATC------TTAGgtgtgtccctcatgtgggacaggtccactcagaggtgcaaactaagttca Alignment from Pairagon AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG ctttgtggtaggttctactgagactaatatgttcatcacatctgttatagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATTTCAGCTACGGCTATCTTCCTAATTTTAGTATCTGCCTGCATAGTTCGATTCGGCACGAATTCTTTCTGTAATTCCATCATCTCTCTGAATC------TTAGgtgtgtccctcatgtgggacaggtccactcagaggtgcaaactaagttca Alignment from Exonerate_protein2genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTAC ctttgtggtaggttctactgagactaatatgttcatcacatctgttatagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATTTCAGCTACGGCTATCTTCCTAATTTTAGTATCTGCCTGCATAGTTCGATTCGGCACGAATTCTTTCTGTAATTCCATCATCTCTCTGAATCTTAGgtgtgtccctcatgtgggacaggtccactcagaggtgcaaactaagttca Alignment from Exonerate_coding2genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTAC ctttgtggtaggttctactgagactaatatgttcatcacatctgttatagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATTTCAGCTACGGCTATCTTCCTAATTTTAGTATCTGCCTGCATAGTTCGATTCGGCACGAATTCTTTCTGTAATTCCATCATCTCTCTGAATCTTAGgtgtgtccctcatgtgggacaggtccactcagaggtgcaaactaagttca Alignment from GeneWise AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTAC ctttgtggtaggttctactgagactaatatgttcatcacatctgttatagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATTTCAGCTACGGCTATCTTCCTAATTTTAGTATCTGCCTGCATAGTTCGATTCGGCACGAATTCTTTCTGTAATTCCATCATCTCTCTGAATCTTAGgtgtgtccctcatgtgggacaggtccactcagaggtgcaaactaagttca #### Trim8_ID9936_5 --> 1 - 1 Original Alignment g---------ACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAg taagctaaagcacctcatcttctagaaccatcacagtttgtatgtttcaggGTCCTAAAGACCCAGACCTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACAGTTACGGAAAATGCTTGATggtgagatgttaatgggccactgtacaggtgatgcccagtctgcaccccat Alignment from CESAR g---------ACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAg taaagtaaagcacctcatcttctagaaccatcacagtttgtatgtttcaggGTCCTAAAGACCCAGACCTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACAGTTACGGAAAATGCTTGATggtgagatgttaatgggccactgtacaggtgatgcccagtctgcaccccat Alignment from Spaln_aa2Genome GACCCAGACCTGC---------ACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG taagctaaagcacctcatcttctagaaccatcacagtttgtatgtttcagGGTCCTAAAGACCCAGACCTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACAGTTACGGAAAATGCTTGATGgtgagatgttaatgggccactgtacaggtgatgcccagtctgcaccccat Alignment from Spaln_nt2Genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG taagctaaagcacctcatcttctagaaccatcacagtttgtatgtttcagggtcctaaagACCCAGACC-TGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACAGTTACGGAAAATGCTTGATGgtgagatgttaatgggccactgtacaggtgatgcccagtctgcaccccat Alignment from Pairagon -----------------------------------------------------------GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG TAAGCTAAAGCACCTCATCTTCTAGAACCATCACAGTTTGTATGTTTCAGGGTCCTAAAGACCCAGACCTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACAGTTACGGAAAATGCTTGATGgtgagatgttaatgggccactgtacaggtgatgcccagtctgcaccccat Alignment from Exonerate_protein2genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG taagctaaagcacctcatcttctagaaccatcacagtttgtatgtttcagggtcctaaaGACCCAGACCTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACAGTTACGGAAAATGCTTGATGgtgagatgttaatgggccactgtacaggtgatgcccagtctgcaccccat Alignment from Exonerate_coding2genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG taagctaaagcacctcatcttctagaaccatcacagtttgtatgtttcagggtcctaaaGACCCAGACCTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACAGTTACGGAAAATGCTTGATGgtgagatgttaatgggccactgtacaggtgatgcccagtctgcaccccat Alignment from GeneWise AATGGACAGGACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG taagctaaagcacctcatcttctagaaccatcacagtttgtatgtttcagGGTCCTAAAGACCCAGACCTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACAGTTACGGAAAATGCTTGATGgtgagatgttaatgggccactgtacaggtgatgcccagtctgcaccccat #### Trpt1_ID1982_5 --> 2 - 1 Original Alignment gcATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACA---g gggagacagagcctcattccagctgttctgcctgttccctggactctcaggcATTCGCCCAAAT------GTAACAGTGTTTATTGATGGGCCACTAGCCCTCGCAGCAggtaagtatcaccccccagggctggctgcatcacactcacagagaatgtga Alignment from CESAR gcATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACA---g gggagacagagcctcattccagctgttctgcctgttccctggactctcaggcATTCGCCCAAAT------GTAACAGTGTTTATTGATGGGCCACTAGCCCTCGCAGCAggtaagtatcaccccccagggctggctgcatcacactcacagagaatgtga Alignment from Spaln_aa2Genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTC---ACAG gggagacagagcctcattccagctgttctgcctgttccctggactctcagGCATTCGCCCAAAT------GTAACAGTGTTTATTGATGGGCCACTAGCCCTCGCAGCAGgtaagtatcaccccccagggctggctgcatcacactcacagagaatgtga Alignment from Spaln_nt2Genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAG--- gggagacagagcctcattccagctgttctgcctgttccctggactctcagGCATTCGCCCAAAT------GTAACAGTGTTTATTGATGGGCCACTAGCCCTCGCAGCAGgtaagtatcaccccccagggctggctgcatcacactcacagagaatgtga Alignment from Pairagon GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAG--- gggagacagagcctcattccagctgttctgcctgttccctggactctcagGCATTCGCCCAAAT------GTAACAGTGTTTATTGATGGGCCACTAGCCCTCGCAGCAGgtaagtatcaccccccagggctggctgcatcacactcacagagaatgtga Alignment from Exonerate_protein2genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTC---ACAG gggagacagagcctcattccagctgttctgcctgttccctggactctcagGCATTCGCCCAAAT------GTAACAGTGTTTATTGATGGGCCACTAGCCCTCGCAGCAGgtaagtatcaccccccagggctggctgcatcacactcacagagaatgtga Alignment from Exonerate_coding2genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTC---ACAG gggagacagagcctcattccagctgttctgcctgttccctggactctcagGCATTCGCCCAAAT------GTAACAGTGTTTATTGATGGGCCACTAGCCCTCGCAGCAGgtaagtatcaccccccagggctggctgcatcacactcacagagaatgtga Alignment from GeneWise GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAGAT- gggagacagagcctcattccagctgttctgcctgttccctggactctcagGCATTCGCCCAAAT------GTAACAGTGTTTATTGATGGGCCACTAGCCCTCGCAGCAGgtaagtatcaccccccagggctggctgcatcacactcacagagaatgtga #### Tut1_ID2551_4 --> 2 - 0 Original Alignment gcTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCATGGCTGTGATCTCGACCTCTTCTTGGACATGGGTGATATGGAAGAGACCGAG ttatgctcctagttcctttgtatttgctttcaccttctctttggttacaggc------GTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATGGCTGTGATCTAGACCTCTTCTTGGACATGGGAGATATGGAAGAGACTGAGgtaagtgggaaaagtgtgtctgtcgtgtaattccagacaagtattgaaca Alignment from CESAR gcTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCATGGCTGTGATCTCGACCTCTTCTTGGACATGGGTGATATGGAAGAGACCGAG ttccacttatgctcctagttcctttgctttcaccttctctttggttacaggc------GTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATGGCTGTGATCTAGACCTCTTCTTGGACATGGGAGATATGGAAGAGACTGAGgtaagtgggaaaagtgtgtctgtcgtgtaattccagacaagtattgaaca Alignment from Spaln_aa2Genome GCTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCATGGCTGTGATCTCGACCTCTTCTTGGACATGGGTGATATGGAAGAGACCGAG ttatgctcctagttcctttgtatttgctttcaccttctctttggttacagGC------GTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATGGCTGTGATCTAGACCTCTTCTTGGACATGGGAGATATGGAAGAGACTGAGgtaagtgggaaaagtgtgtctgtcgtgtaattccagacaagtattgaaca Alignment from Spaln_nt2Genome GCTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCATGGCTGTGATCTCGACCTCTTCTTGGACATGGGTGATATGGAAGAGACCGAG ttatgctcctagttcctttgtatttgctttcaccttctctttggttacagGC------GTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATGGCTGTGATCTAGACCTCTTCTTGGACATGGGAGATATGGAAGAGACTGAGgtaagtgggaaaagtgtgtctgtcgtgtaattccagacaagtattgaaca Alignment from Pairagon GCTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCATGGCTGTGATCTCGACCTCTTCTTGGACATGGGTGATATGGAAGAGACCGAG ttatgctcctagttcctttgtatttgctttcaccttctctttggttacagGC------GTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATGGCTGTGATCTAGACCTCTTCTTGGACATGGGAGATATGGAAGAGACTGAGgtaagtgggaaaagtgtgtctgtcgtgtaattccagacaagtattgaaca Alignment from Exonerate_protein2genome GCTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCATGGCTGTGATCTCGACCTCTTCTTGGACATGGGTGATATGGAAGAGACCGAG ttatgctcctagttcctttgtatttgctttcaccttctctttggTTACAGGCGTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATGGCTGTGATCTAGACCTCTTCTTGGACATGGGAGATATGGAAGAGACTGAGgtaagtgggaaaagtgtgtctgtcgtgtaattccagacaagtattgaaca Alignment from Exonerate_coding2genome GCTGTGTGGTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCATGGCTGTGATCTCGACCTCTTCTTGGACATGGGTGATATGGAAGAGACCGAG ttatgctcctagttcctttgtatttgctttcaccttctctttggTTACAGGCGTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATGGCTGTGATCTAGACCTCTTCTTGGACATGGGAGATATGGAAGAGACTGAGgtaagtgggaaaagtgtgtctgtcgtgtaattccagacaagtattgaaca Alignment from GeneWise --GTCCATCCTTTTGGCTCTACTGTAAATAGCTTTGATGTTCATGGCTGTGATCTCGACCTCTTCTTGGACATGGGTGATATGGAAGAGACCGAG ttatgctcctagttcctttgtatttgctttcaccttctctttggttacagGCGTCCATCCTTTTGGATCTACTGTGAACAGCTTTGATGTTCATGGCTGTGATCTAGACCTCTTCTTGGACATGGGAGATATGGAAGAGACTGAGgtaagtgggaaaagtgtgtctgtcgtgtaattccagacaagtattgaaca #### Ubxn1_ID2442_6 --> 1 - 0 Original Alignment aCAAAGGGTTCGAGAAAAAATTGAAAGGGACAAAGCAGAGAGAGCCAAGAAG--------- tttgtcttgcgtctatgtttgttttataattattattattattattatagaCAGAGAACTCGTGAAAAGATTGAAAGAGACAGAGCCGAAAGGGCCAAGAAAATTGGGGACgtaaatgatcacaaagttagtgcttacttgaggagggaatctagttaact Alignment from CESAR aCAAAGGGTTCGAGAAAAAATTGAAAGGGACAAAGCAGAGAGAGCCAAGAAG--------- tttgtcttgcgtctatgtttgttttataattattattattattattatagaCAGAGAACTCGTGAAAAGATTGAAAGAGACAGAGCCGAAAGGGCCAAGAAAATTGGGGACgtaaatgatcacaaagttagtgcttacttgaggagggaatctagttaact Alignment from Spaln_aa2Genome ACAAAGGGTTCGAGAAAAAATTGAAAGGGACAAAGCAGAGAGAGCCAAGAAG--------- tttgtcttgcgtctatgtttgttttataattattattattattattatagACAGAGAACTCGTGAAAAGATTGAAAGAGACAGAGCCGAAAGGGCCAAGAAAATTGGGGACgtaaatgatcacaaagttagtgcttacttgaggagggaatctagttaact Alignment from Spaln_nt2Genome ACAAAGGGTTCGAGAAAAAATTGAAAGGGACAAAGCAGAGAGAGCCAAGAAG--------- tttgtcttgcgtctatgtttgttttataattattattattattattatagACAGAGAACTCGTGAAAAGATTGAAAGAGACAGAGCCGAAAGGGCCAAGAAAATTGGGGACgtaaatgatcacaaagttagtgcttacttgaggagggaatctagttaact Alignment from Pairagon ACAAAGGGTTCGAGAAAAAATTGAAAGGGACAAAGCAGAGAGAGCCAAGAAG--------- tttgtcttgcgtctatgtttgttttataattattattattattattatagACAGAGAACTCGTGAAAAGATTGAAAGAGACAGAGCCGAAAGGGCCAAGAAAATTGGGGACgtaaatgatcacaaagttagtgcttacttgaggagggaatctagttaact Alignment from Exonerate_protein2genome ACAAAGGGTTCGAGAAAAAATTGAAAGGGACAAAGCAGAGAGAGCCAAGAAG tttgtcttgcgtctatgtttgttttataattattattattattattatagACAGAGAACTCGTGAAAAGATTGAAAGAGACAGAGCCGAAAGGGCCAAGAAAattggggacgtaaatgatcacaaagttagtgcttacttgaggagggaatctagttaact Alignment from Exonerate_coding2genome ACAAAGGGTTCGAGAAAAAATTGAAAGGGACAAAGCAGAGAGAGCCAAGAAG tttgtcttgcgtctatgtttgttttataattattattattattattatagACAGAGAACTCGTGAAAAGATTGAAAGAGACAGAGCCGAAAGGGCCAAGAAAattggggacgtaaatgatcacaaagttagtgcttacttgaggagggaatctagttaact Alignment from GeneWise ---GTTCGAGAAAAAATTGAAAGGGACAAAGCAGAGAGAGCCAAGAAG--------- tttgtcttgcgtctatgtttgttttataattattattattattattatagacagAGAACTCGTGAAAAGATTGAAAGAGACAGAGCCGAAAGGGCCAAGAAAATTGGGGACgtaaatgatcacaaagttagtgcttacttgaggagggaatctagttaact #### Unc93b1_ID217_8 --> 0 - 0 Original Alignment GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG--- tatccagaatgggatgcctgttatagaagttgttgctctttgttttatagGTCCTGGGCTTGTGTGGAGCAGCTCACCGGACCATGGAGGAGATTGACCTGCGAAGTGTGGGCTGGGGCAACATCTTTCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGGCACCTGGTGCCATTCTTTATCTATAGTGGCTTTGAAGTGCTTTTTGCCTGTACAGGTTTTGCGCTTTTAgtaggaagcagtgctgctaataacacacaatacaggtagctcatatggtc Alignment from CESAR GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG--- tatccagaatgggatgcctgttatagaagttgttgctctttgttttatagGTCCTGGGCTTGTGTGGAGCAGCTCACCGGACCATGGAGGAGATTGACCTGCGAAGTGTGGGCTGGGGCAACATCTTTCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGGCACCTGGTGCCATTCTTTATCTATAGTGGCTTTGAAGTGCTTTTTGCCTGTACAGGTTTTGCGCTTTTAgtaggaagcagtgctgctaataacacacaatacaggtagctcatatggtc Alignment from Spaln_aa2Genome GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCC---CTG tatccagaatgggatgcctgttatagaagttgttgctctttgttttatagGTCCTGGGCTTGTGTGGAGCAGCTCACCGGACCATGGAGGAGATTGACCTGCGAAGTGTGGGCTGGGGCAACATCTTTCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGGCACCTGGTGCCATTCTTTATCTATAGTGGCTTTGAAGTGCTTTTTGCCTGTACAGGTTTTGCGCTTTTAgtaggaagcagtgctgctaataacacacaatacaggtagctcatatggtc Alignment from Spaln_nt2Genome GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG--- tatccagaatgggatgcctgttatagaagttgttgctctttgttttatagGTCCTGGGCTTGTGTGGAGCAGCTCACCGGACCATGGAGGAGATTGACCTGCGAAGTGTGGGCTGGGGCAACATCTTTCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGGCACCTGGTGCCATTCTTTATCTATAGTGGCTTTGAAGTGCTTTTTGCCTGTACAGGTTTTGCGCTTTTAgtaggaagcagtgctgctaataacacacaatacaggtagctcatatggtc Alignment from Pairagon GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCT------------------------------------------------------ tatccagaatgggatgcctgttatagaagttgttgctctttgttttatagGTCCTGGGCTTGTGTGGAGCAGCTCACCGGACCATGGAGGAGATTGACCTGCGAAGTGTGGGCTGGGGCAACATCTTTCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGGCACCTGGTGCCATTCTTTATCTATAGTGGCTTTGAAGTGCTTTTTGCCTGTACAGGTTTTGCGCTTTTAGTAGGAAGCAGTGCTGCTAATAACACACAATACAGGTAGCTCATATGGTC Alignment from Exonerate_protein2genome GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG tatccagaatgggatgcctgttatagaagttgttgctctttgttttatagGTCCTGGGCTTGTGTGGAGCAGCTCACCGGACCATGGAGGAGATTGACCTGCGAAGTGTGGGCTGGGGCAACATCTTTCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGGCACCTGGTGCCATTCTTTATCTATAGTGGCTTTGAAGTGCTTTTTGCCTGTACAGGTTTTGCGCTTttagtaggaagcagtgctgctaataacacacaatacaggtagctcatatggtc Alignment from Exonerate_coding2genome GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG tatccagaatgggatgcctgttatagaagttgttgctctttgttttatagGTCCTGGGCTTGTGTGGAGCAGCTCACCGGACCATGGAGGAGATTGACCTGCGAAGTGTGGGCTGGGGCAACATCTTTCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGGCACCTGGTGCCATTCTTTATCTATAGTGGCTTTGAAGTGCTTTTTGCCTGTACAGGTTTTGCGCTTttagtaggaagcagtgctgctaataacacacaatacaggtagctcatatggtc Alignment from GeneWise GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTGGGC tatccagaatgggatgcctgttatagaagttgttgctctttgttttatagGTCCTGGGCTTGTGTGGAGCAGCTCACCGGACCATGGAGGAGATTGACCTGCGAAGTGTGGGCTGGGGCAACATCTTTCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGGCACCTGGTGCCATTCTTTATCTATAGTGGCTTTGAAGTGCTTTTTGCCTGTACAGGTTTTGCGCTTTTAgtaggaagcagtgctgctaataacacacaatacaggtagctcatatggtc #### Vegfb_ID1956_4 --> 0 - 2 Original Alignment ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCag tacctattcatgcctcttcagtttttgcttttctttgatttgacttgtagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAA---aggtacagggtgccagttttggtatccaaggtctagcatgggttggggctgc Alignment from CESAR ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCag tacctattcatgcctcttcagtttttgcttttctttgatttgacttgtagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAA---aggtacagggtgccagttttggtatccaaggtctagcatgggttggggctgc Alignment from Spaln_aa2Genome ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAGA tacctattcatgcctcttcagtttttgcttttctttgatttgacttgtagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAAAGg tacagggtgccagttttggtatccaaggtctagcatgggttggggc Alignment from Spaln_nt2Genome ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATG---CAG- tacctattcatgcctcttcagtttttgcttttctttgatttgacttgtagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAAAGGTACAGGgtgccagttttggtatccaaggtctagcatgggttggggctgc Alignment from Pairagon ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAA---------------------------------------------------- tacctattcatgcctcttcagtttttgcttttctttgatttgacttgtagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAAAGGTACAGGGTGCCAGTTTTGGTATCCAAGGTCTAGCATGGGTTGGGGCTGC Alignment from Exonerate_protein2genome ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATG tacctattcatgcctcttcagtttttgcttttctttgatttgacttgtagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAAAGgtacagggtgccagttttggtatccaaggtctagcatgggttggggctgc Alignment from Exonerate_coding2genome ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATG tacctattcatgcctcttcagtttttgcttttctttgatttgacttgtagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAAAGgtacagggtgccagttttggtatccaaggtctagcatgggttggggctgc Alignment from GeneWise ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATG tacctattcatgcctcttcagtttttgcttttctttgatttgacttgtagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAAAGgtacagggtgccagttttggtatccaaggtctagcatgggttggggctgc #### Vldlr_ID5811_10 --> 2 - 2 Original Alignment gcAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCag atagcactttccaagcaagtaagttcttactgcttacttctcttttgtaggcAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCTTAGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGAGAAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTCTTTTGGGCTGATTTT------------------aggtatgctaaacctgcctcgtagtggtctgagacctgcctgatgtctggga Alignment from CESAR gcAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCag atagcactttccaagcaagtaagttcttactgcttacttctcttttgtaggcAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCTTAGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGAGAAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTCTTTTGGGCTGAT------------------TTTaggtatgctaaacctgcctcgtagtggtctgagacctgcctgatgtctggga Alignment from Spaln_aa2Genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atagcactttccaagcaagtaagttcttactgcttacttctcttttgtagGCAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCTTAGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGAGAAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTCTTTTGGGCTGATTTTAGGTATGCTAAACCTGCCTCgtagtggtctgagacctgcctgatgtctggga Alignment from Spaln_nt2Genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAG atagcactttccaagcaagtaagttcttactgcttacttctcttttgtagGCAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCTTAGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGAGAAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTCTTTTGGGCTGATTTTAGgtatgctaaacctgcctcgtagtggtctgagacctgcctgatgtctggga Alignment from Pairagon GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atagcactttccaagcaagtaagttcttactgcttacttctcttttgtagGCAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCTTAGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGAGAAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTCTTTTGGGCTGAT------------------TTTAGgtatgctaaacctgcctcgtagtggtctgagacctgcctgatgtctggga Alignment from Exonerate_protein2genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atagcactttccaagcaagtaagttcttactgcttacttctcttttgtagGCAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCTTAGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGAGAAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTCTTTTGGGCTGATTTTAGGTATGCTAAACCTGCCTCgtagtggtctgagacctgcctgatgtctggga Alignment from Exonerate_coding2genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atagcactttccaagcaagtaagttcttactgcttacttctcttttgtagGCAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCTTAGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGAGAAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTCTTTTGGGCTGATTTTAGGTATGCTAAACCTGCCTCgtagtggtctgagacctgcctgatgtctggga Alignment from GeneWise GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atagcactttccaagcaagtaagttcttactgcttacttctcttttgtagGCAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCTTAGAAAGAAAAGAGTATATCCAACTTGTAGATCAATTGAGAAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTCTTTTGGGCTGATTTTAGGTATGCTAAACCTGCCTCgtagtggtctgagacctgcctgatgtctggga #### Vldlr_ID5814_13 --> 2 - 0 Original Alignment ac---------CTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG actgcataagtgtggggagaaagaagctagaatttctttttctttttaagacAAGGATGGCCTGGTCAAAAGCCGTCTCTATTGGTTGGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGCAGGATTGTGCTCAAATCCCTCAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGgtagagtgtatgcaatatgtgcatgtatcagcaagtatagtaaaaagagc Alignment from CESAR ac---------CTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG actgcataagtgtggggagaaagaagctagaatttctttttctttttaagacAAGGATGGCCTGGTCAAAAGCCGTCTCTATTGGTTGGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGCAGGATTGTGCTCAAATCCCTCAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGgtagagtgtatgcaatatgtgcatgtatcagcaagtatagtaaaaagagc Alignment from Spaln_aa2Genome ---CTCGACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG actgcataagtgtggggagaaagaagctagaatttctttttctttttaagACAAGGATGGCCTGGTCAAAAGCCGTCTCTATTGGTTGGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGCAGGATTGTGCTCAAATCCCTCAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGgtagagtgtatgcaatatgtgcatgtatcagcaagtatagtaaaaagagc Alignment from Spaln_nt2Genome TCGA------CCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG actgcataagtgtggggagaaagaagctagaatttctttttctttttaagACAAGGATGGCCTGGTCAAAAGCCGTCTCTATTGGTTGGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGCAGGATTGTGCTCAAATCCCTCAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGgtagagtgtatgcaatatgtgcatgtatcagcaagtatagtaaaaagagc Alignment from Pairagon TC------GACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG actgcataagtgtggggagaaagaagctagaatttctttttctttttaagACAAGGATGGCCTGGTCAAAAGCCGTCTCTATTGGTTGGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGCAGGATTGTGCTCAAATCCCTCAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGgtagagtgtatgcaatatgtgcatgtatcagcaagtatagtaaaaagagc Alignment from Exonerate_protein2genome TCGACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG actgcataagtgtggggagaaagaagctagaatttctttttctttttaagacaaggATGGCCTGGTCAAAAGCCGTCTCTATTGGTTGGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGCAGGATTGTGCTCAAATCCCTCAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGgtagagtgtatgcaatatgtgcatgtatcagcaagtatagtaaaaagagc Alignment from Exonerate_coding2genome TCGACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG actgcataagtgtggggagaaagaagctagaatttctttttctttttaagacaaggATGGCCTGGTCAAAAGCCGTCTCTATTGGTTGGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGCAGGATTGTGCTCAAATCCCTCAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGgtagagtgtatgcaatatgtgcatgtatcagcaagtatagtaaaaagagc Alignment from GeneWise ------CTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG actgcataagtgtggggagaaagaagctagaatttctttttctttttaagacaagGATGGCCTGGTCAAAAGCCGTCTCTATTGGTTGGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGCAGGATTGTGCTCAAATCCCTCAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGgtagagtgtatgcaatatgtgcatgtatcagcaagtatagtaaaaagagc #### Vps13a_ID4057_66 --> 0 - 1 Original Alignment ---------GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAg aaaagctgtcctgtcataattctataatggtactttttctacctcctcagGTTCTGCATGGTTTTGTAAGTGGTATTACCGGCATTGTTTCAGAGCCAATAAAAggtatctatcaccttgcctggtatatatttcacatgtgtcattctcatttg Alignment from CESAR ---------GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAg aaaagctgtcctgtcataattctataatggtactttttctacctcctcagGTTCTGCATGGTTTTGTAAGTGGTATTACCGGCATTGTTTCAGAGCCAATAAAAggtatctatcaccttgcctggtatatatttcacatgtgtcattctcatttg Alignment from Spaln_aa2Genome GTCTCTGGTTTTGTAAGT---GGCATTACAGGGATTGTTACAAAGCCAATTAAAG aaaagctgtcctgtcataattctataatggtactttttctacctcctcagGTTCTGCATGGTTTTGTAAGTGGTATTACCGGCATTGTTTCAGAGCCAATAAAAGgtatctatcaccttgcctggtatatatttcacatgtgtcattctcatttg Alignment from Spaln_nt2Genome CCTTGTCTCTGGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAG aaaagctgtcctgtcataattctataatggtactttttctacctcctcagGTTCTGCATGGTTTTGTAA-GTGGTATTACCGGCATTGTTTCAGAGCCAATAAAAGgtatctatcaccttgcctggtatatatttcacatgtgtcattctcatttg Alignment from Pairagon ---------GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAG aaaagctgtcctgtcataattctataatggtactttttctacctcctcagGTTCTGCATGGTTTTGTAAGTGGTATTACCGGCATTGTTTCAGAGCCAATAAAAGgtatctatcaccttgcctggtatatatttcacatgtgtcattctcatttg Alignment from Exonerate_protein2genome GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAG aaaagctgtcctgtcataattctataatggtactttttctacctcctcaggttctgcatGGTTTTGTAAGTGGTATTACCGGCATTGTTTCAGAGCCAATAAAAGgtatctatcaccttgcctggtatatatttcacatgtgtcattctcatttg Alignment from Exonerate_coding2genome GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAG aaaagctgtcctgtcataattctataatggtactttttctacctcctcaggttctgcatGGTTTTGTAAGTGGTATTACCGGCATTGTTTCAGAGCCAATAAAAGgtatctatcaccttgcctggtatatatttcacatgtgtcattctcatttg Alignment from GeneWise ---------GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAG aaaagctgtcctgtcataattctataatggtactttttctacctcctcagGTTCTGCATGGTTTTGTAAGTGGTATTACCGGCATTGTTTCAGAGCCAATAAAAGgtatctatcaccttgcctggtatatatttcacatgtgtcattctcatttg #### Vps13a_ID4058_65 --> 2 - 0 Original Alignment gt---GGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT ataccagtggggaatgggccatatctgaagatgactctcctttcttgcaggtACAGGGCTAGCTAGTGCCGCCTCCAAAATCACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGAAAAGGTTTGGTCTCTgtaaggtctctctgagtctgagattaaatagaaggactgtttcactcgca Alignment from CESAR gt---GGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT ataccagtggggaatgggccatatctgaagatgactctcctttcttgcaggtACAGGGCTAGCTAGTGCCGCCTCCAAAATCACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGAAAAGGTTTGGTCTCTgtaaggtctctctgagtctgagattaaatagaaggactgtttcactcgca Alignment from Spaln_aa2Genome GTGGGCTAGCTGGTGCTGCCTCCAAA---ATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT ataccagtggggaatgggccatatctgaagatgactctcctttcttgcagGTACAGGGCTAGCTAGTGCCGCCTCCAAAATCACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGAAAAGGTTTGGTCTCTgtaaggtctctctgagtctgagattaaatagaaggactgtttcactcgca Alignment from Spaln_nt2Genome GTGGGCTAGCTGGT---GCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT ataccagtggggaatgggccatatctgaagatgactctcctttcttgcagGTACAGGGCTAGCTAGTGCCGCCTCCAAAATCACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGAAAAGGTTTGGTCTCTgtaaggtctctctgagtctgagattaaatagaaggactgtttcactcgca Alignment from Pairagon GT---GGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT ataccagtggggaatgggccatatctgaagatgactctcctttcttgcagGTACAGGGCTAGCTAGTGCCGCCTCCAAAATCACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGAAAAGGTTTGGTCTCTgtaaggtctctctgagtctgagattaaatagaaggactgtttcactcgca Alignment from Exonerate_protein2genome GT---GGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT ataccagtggggaatgggccatatctgaagatgactctcctttcttgcagGTACAGGGCTAGCTAGTGCCGCCTCCAAAATCACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGAAAAGGTTTGGTCTCTgtaaggtctctctgagtctgagattaaatagaaggactgtttcactcgca Alignment from Exonerate_coding2genome GT---GGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT ataccagtggggaatgggccatatctgaagatgactctcctttcttgcagGTACAGGGCTAGCTAGTGCCGCCTCCAAAATCACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGAAAAGGTTTGGTCTCTgtaaggtctctctgagtctgagattaaatagaaggactgtttcactcgca Alignment from GeneWise --GGTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT ataccagtggggaatgggccatatctgaagatgactctcctttcttgcagGTACAGGGCTAGCTAGTGCCGCCTCCAAAATCACTAGCGCTATGTCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAAAGAAGCAATGAATAAGCAGCCTGCTGGACTAAGAGAGGGCATCACCCGAGGGGGAAAAGGTTTGGTCTCTgtaaggtctctctgagtctgagattaaatagaaggactgtttcactcgca #### Vps13a_ID4059_64 --> 0 - 1 Original Alignment GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTg tcaggtctttatcactgtcactaaaggcttgtctctctctctcctgctag---------------CCTGAAGAATTTGTGGCAGGAATGGCATTAGGATTAAAAGCACTAATTGGTGGAGCTGTTggtaagttgcaacagaactagtgatgcaagtcataccagtggggaatgggc Alignment from CESAR GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTg gacagtgatgtcacttcaggtctttggcttgtctctctctctcctgctag---------------CCTGAAGAATTTGTGGCAGGAATGGCATTAGGATTAAAAGCACTAATTGGTGGAGCTGTTggtaagttgcaacagaactagtgatgcaagtcataccagtggggaatgggc Alignment from Spaln_aa2Genome GGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG tcaggtctttatcactgtcactaaaggcttgtctctctctctcctgctag---CCTGAAGAATTTGTGGCAGGAATGGCATTAGGATTAAAAGCACTAATTGGTGGAGCTGTTGgtaagttgcaacagaactagtgatgcaagtcataccagtggggaatgggc Alignment from Spaln_nt2Genome CCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG tcaggtctttatcactgtcactaaaggcttgtctctctctctcctgctagCCTGAAGAATTTGTGGCAGGAATGGCATTAGGATTAAAAGCACTAATTGGTGGAGCTGTTGgtaagttgcaacagaactagtgatgcaagtcataccagtggggaatgggc Alignment from Pairagon GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG tcaggtctttatcactgtcactaaaggcttgtctctctctctcctgctag---------------CCTGAAGAATTTGTGGCAGGAATGGCATTAGGATTAAAAGCACTAATTGGTGGAGCTGTTGgtaagttgcaacagaactagtgatgcaagtcataccagtggggaatgggc Alignment from Exonerate_protein2genome CCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG tcaggtctttatcactgtcactaaaggcttgtctctctctctcctgctagCCTGAAGAATTTGTGGCAGGAATGGCATTAGGATTAAAAGCACTAATTGGTGGAGCTGTTGgtaagttgcaacagaactagtgatgcaagtcataccagtggggaatgggc Alignment from Exonerate_coding2genome tcaggtctttatcactgtcactaaaggcttgtctctctctctcctgctagcctgaagaatttgtggcaggaatggcattaggattaaaagcactaattggtggagctgttggtaagttgcaacagaactagtgatgcaagtcataccagtggggaatgggc Alignment from GeneWise ---GAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG tcaggtctttatcactgtcactaaaggcttgtctctctctctcctgctagCCTGAAGAATTTGTGGCAGGAATGGCATTAGGATTAAAAGCACTAATTGGTGGAGCTGTTGgtaagttgcaacagaactagtgatgcaagtcataccagtggggaatgggc #### Vps13a_ID4093_30 --> 2 - 1 Original Alignment ct---------TTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAg gttatctgttagtaaatctcctgatacctcttgttactcaacaaccacagctAAATTGGCATTAAAGCTACCTATAAATGAAGACATTATCACATTGCAGCTCGTGGCAGAACTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAACGTATCAGAAATCAAAATTGAAggtgaacatatctatttcctgtatttaggattaactaaattcataaggcag Alignment from CESAR ct---------TTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAg gttatctgttagtaaatctcctgatacctcttgttactcaacaaccacagctAAATTGGCATTAAAGCTACCTATAAATGAAGACATTATCACATTGCAGCTCGTGGCAGAACTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAACGTATCAGAAATCAAAATTGAAggtgaacatatctatttcctgtatttaggattaactaaattcataaggcag Alignment from Spaln_aa2Genome CTTTAAAGCTA---------CCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG gttatctgttagtaaatctcctgatacctcttgttactcaacaaccacagCTAAATTGGCATTAAAGCTACCTATAAATGAAGACATTATCACATTGCAGCTCGTGGCAGAACTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAACGTATCAGAAATCAAAATTGAAGgtgaacatatctatttcctgtatttaggattaactaaattcataaggcag Alignment from Spaln_nt2Genome CTTTAAAG---------CTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG gttatctgttagtaaatctcctgatacctcttgttactcaacaaccacagCTAAATTGGCATTAAAGCTACCTATAAATGAAGACATTATCACATTGCAGCTCGTGGCAGAACTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAACGTATCAGAAATCAAAATTGAAGgtgaacatatctatttcctgtatttaggattaactaaattcataaggcag Alignment from Pairagon CT---------TTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG gttatctgttagtaaatctcctgatacctcttgttactcaacaaccacagCTAAATTGGCATTAAAGCTACCTATAAATGAAGACATTATCACATTGCAGCTCGTGGCAGAACTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAACGTATCAGAAATCAAAATTGAAGgtgaacatatctatttcctgtatttaggattaactaaattcataaggcag Alignment from Exonerate_protein2genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG gttatctgttagtaaatctcctgatacctcttgttactcaacaaccacagctaaattggCATTAAAGCTACCTATAAATGAAGACATTATCACATTGCAGCTCGTGGCAGAACTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAACGTATCAGAAATCAAAATTGAAGgtgaacatatctatttcctgtatttaggattaactaaattcataaggcag Alignment from Exonerate_coding2genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG gttatctgttagtaaatctcctgatacctcttgttactcaacaaccacagctaaattggCATTAAAGCTACCTATAAATGAAGACATTATCACATTGCAGCTCGTGGCAGAACTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAACGTATCAGAAATCAAAATTGAAGgtgaacatatctatttcctgtatttaggattaactaaattcataaggcag Alignment from GeneWise --------GCTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAA--------------------------------------------------- gttatctgttagtaaatctcctgatacctcttgttactcaacaaccacagCTAAATTGGCATTAAAGCTACCTATAAATGAAGACATTATCACATTGCAGCTCGTGGCAGAACTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAACGTATCAGAAATCAAAATTGAAGGTGAACATATCTATTTCCTGTATTTAGGATTAACTAAATTCATAAGGCAG #### Vps13a_ID4109_14 --> 0 - 0 Original Alignment GAGTTGGAGAAAACTTTGGATGTTTTTAATATAACCATAGCTAGACAACAGGCAGAAGTTGAG--- ttattatcaggagggttttatctatgaacctaacagatgccctcttacagGAGTTAGAAAAAACTTTGGATGTTTTGAATATACCCATAACTAGACAGCAAGCAGAGGTTGAGTGTgtgagaccacactatcattaaaataaatcatgagaagttatatttcttcc Alignment from CESAR GAGTTGGAGAAAACTTTGGATGTTTTTAATATAACCATAGCTAGACAACAGGCAGAAGTTGAG--- ttattatcaggagggttttatctatgaacctaacagatgccctcttacagGAGTTAGAAAAAACTTTGGATGTTTTGAATATACCCATAACTAGACAGCAAGCAGAGGTTGAGTGTgtgagaccacactatcattaaaataaatcatgagaagttatatttcttcc Alignment from Spaln_aa2Genome GAGTTGGAGAAAACTTTGGATGTTTTTAATATAACCATAGCTAGACAACAGGCAGAAGTTGAG--- ttattatcaggagggttttatctatgaacctaacagatgccctcttacagGAGTTAGAAAAAACTTTGGATGTTTTGAATATACCCATAACTAGACAGCAAGCAGAGGTTGAGTGTgtgagaccacactatcattaaaataaatcatgagaagttatatttcttcc Alignment from Spaln_nt2Genome GAGTTGGAGAAAACTTTGGATGTTTTTAATATAACCATAGCTAGACAACAGGCAGAAGTTGAG- ttattatcaggagggttttatctatgaacctaacagatgccctcttacagGAGTTAGAAAAAACTTTGGATGTTTTGAATATACCCATAACTAGACAGCAAGCAGAGGTTGAGTgtgtgagaccacactatcattaaaataaatcatgagaagttatatttcttcc Alignment from Pairagon GAGTTGGAGAAAACTTTGGATGTTTTTAATATAACCATAGCTAGACAACAGGCAGAAGTTGAG--- ttattatcaggagggttttatctatgaacctaacagatgccctcttacagGAGTTAGAAAAAACTTTGGATGTTTTGAATATACCCATAACTAGACAGCAAGCAGAGGTTGAGTGTgtgagaccacactatcattaaaataaatcatgagaagttatatttcttcc Alignment from Exonerate_protein2genome GAGTTGGAGAAAACTTTGGATGTTTTTAATATAACCATAGCTAGACAACAGGCAGAAGTTGAG--- ttattatcaggagggttttatctatgaacctaacagatgccctcttacagGAGTTAGAAAAAACTTTGGATGTTTTGAATATACCCATAACTAGACAGCAAGCAGAGGTTGAGTGTgtgagaccacactatcattaaaataaatcatgagaagttatatttcttcc Alignment from Exonerate_coding2genome ttattatcaggagggttttatctatgaacctaacagatgccctcttacaggagttagaaaaaactttggatgttttgaatatacccataactagacagcaagcagaggttgagtgtgtgagaccacactatcattaaaataaatcatgagaagttatatttcttcc Alignment from GeneWise GAGTTGGAGAAAACTTTGGATGTTTTTAATATAACCATAGCTAGACAACAGGCAGAAGTTGAGGCA ttattatcaggagggttttatctatgaacctaacagatgccctcttacagGAGTTAGAAAAAACTTTGGATGTTTTGAATATACCCATAACTAGACAGCAAGCAGAGGTTGAGTGTgtgagaccacactatcattaaaataaatcatgagaagttatatttcttcc #### Vps37c_ID2983_3 --> 2 - 0 Original Alignment agAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG--------- taattaaggcaatgtgtttgaaagattattcttttttgatgtaattttagagAAATTTTCCTCAGCACTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGCATGAAGATTGAGGAGGAGTCAGAGCGTGAGTCAgtattctaagcattactcctaatccattaaacagtggtgtctgaatgagg Alignment from CESAR agAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG- taattaaggcaatgtgtttgaaagattattcttttttgatgtaattttagagAAATTTTCCTCAGCACTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGCATGAAGATTGAGGAGGAGTCAGAGCgtgagtcagtattctaagcattactcctaatccattaaacagtggtgtctgaatgagg Alignment from Spaln_aa2Genome AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAGGCCATGGCT taattaaggcaatgtgtttgaaagattattcttttttgatgtaattttagAGAAATTTTCCTCAGCACTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGCATGAAGATTGAGGAGGAGTCAGAGCGTGAGTCAgtattctaagcattactcctaatccattaaacagtggtgtctgaatgagg Alignment from Spaln_nt2Genome AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG- taattaaggcaatgtgtttgaaagattattcttttttgatgtaattttagAGAAATTTTCCTCAGCACTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGCATGAAGATTGAGGAGGAGTCAGAGCgtgagtcagtattctaagcattactcctaatccattaaacagtggtgtctgaatgagg Alignment from Pairagon AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG- taattaaggcaatgtgtttgaaagattattcttttttgatgtaattttagAGAAATTTTCCTCAGCACTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGCATGAAGATTGAGGAGGAGTCAGAGCgtgagtcagtattctaagcattactcctaatccattaaacagtggtgtctgaatgagg Alignment from Exonerate_protein2genome AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAGGCCA taattaaggcaatgtgtttgaaagattattcttttttgatgtaattttagAGAAATTTTCCTCAGCACTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGCATGAAGATTGAGGAGGAGTCAGAG---Cgtgagtcagtattctaagcattactcctaatccattaaacagtggtgtctgaatgagg Alignment from Exonerate_coding2genome AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAGGCCA taattaaggcaatgtgtttgaaagattattcttttttgatgtaattttagAGAAATTTTCCTCAGCACTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGCATGAAGATTGAGGAGGAGTCAGAG---Cgtgagtcagtattctaagcattactcctaatccattaaacagtggtgtctgaatgagg Alignment from GeneWise AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAGGCCATGGCT taattaaggcaatgtgtttgaaagattattcttttttgatgtaattttagAGAAATTTTCCTCAGCACTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGCATGAAGATTGAGGAGGAGTCAGAGCGTGAGTCAgtattctaagcattactcctaatccattaaacagtggtgtctgaatgagg #### Vwce_ID2964_18 --> 2 - 0 Original Alignment acTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG------ ccaatgaacacagatgaatggtggccatgtaattaattacctttccctagacTGTAACTTTGAAGGGAGAAAGGTAGTCAATGGTCAGGTTTTCACCCTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAGGACTGCgtgagtaggttagagaacctggggctatcagttgcataaaggtcctcatg Alignment from CESAR acTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG------ ccaatgaacacagatgaatggtggccatgtaattaattacctttccctagacTGTAACTTTGAAGGGAGAAAGGTAGTCAATGGTCAGGTTTTCACCCTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAGGACTGCgtgagtaggttagagaacctggggctatcagttgcataaaggtcctcatg Alignment from Spaln_aa2Genome ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG------ ccaatgaacacagatgaatggtggccatgtaattaattacctttccctagACTGTAACTTTGAAGGGAGAAAGGTAGTCAATGGTCAGGTTTTCACCCTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAGGACTGCgtgagtaggttagagaacctggggctatcagttgcataaaggtcctcatg Alignment from Spaln_nt2Genome ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG------ ccaatgaacacagatgaatggtggccatgtaattaattacctttccctagACTGTAACTTTGAAGGGAGAAAGGTAGTCAATGGTCAGGTTTTCACCCTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAGGACTGCgtgagtaggttagagaacctggggctatcagttgcataaaggtcctcatg Alignment from Pairagon ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG------ ccaatgaacacagatgaatggtggccatgtaattaattacctttccctagACTGTAACTTTGAAGGGAGAAAGGTAGTCAATGGTCAGGTTTTCACCCTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAGGACTGCgtgagtaggttagagaacctggggctatcagttgcataaaggtcctcatg Alignment from Exonerate_protein2genome ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG ccaatgaacacagatgaatggtggccatgtaattaattacctttccctagACTGTAACTTTGAAGGGAGAAAGGTAGTCAATGGTCAGGTTTTCACCCTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAGgactgcgtgagtaggttagagaacctggggctatcagttgcataaaggtcctcatg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG------ ccaatgaacacagatgaatggtggccatgtaattaattacctttccctagACTGTAACTTTGAAGGGAGAAAGGTAGTCAATGGTCAGGTTTTCACCCTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAGGACTGCgtgagtaggttagagaacctggggctatcagttgcataaaggtcctcatg #### Wdr74_ID2312_2 --> 2 - 0 Original Alignment gg------GTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttgctgtatttagtcacctcagtatttgtcccttggttgacgtctagggTTGCGGGTGAACCTTCAGCGCAAACATACAGCTAATTTTGCTCCATTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaaggaggctatggcttggtcaaagtcacaagagctgtagaattcctga Alignment from CESAR gg------GTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttgctgtatttagtcacctcagtatttgtcccttggttgacgtctagggTTGCGGGTGAACCTTCAGCGCAAACATACAGCTAATTTTGCTCCATTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaaggaggctatggcttggtcaaagtcacaagagctgtagaattcctga Alignment from Spaln_aa2Genome GGGTGAACCTTCAG------CGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttgctgtatttagtcacctcagtatttgtcccttggttgacgtctagGGTTGCGGGTGAACCTTCAGCGCAAACATACAGCTAATTTTGCTCCATTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaaggaggctatggcttggtcaaagtcacaagagctgtagaattcctga Alignment from Spaln_nt2Genome GG------GTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttgctgtatttagtcacctcagtatttgtcccttggttgacgtctagGGTTGCGGGTGAACCTTCAGCGCAAACATACAGCTAATTTTGCTCCATTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaaggaggctatggcttggtcaaagtcacaagagctgtagaattcctga Alignment from Pairagon ---------------------------------------------------------GGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA AAGTTGCTGTATTTAGTCACCTCAGTATTTGTCCCTTGGTTGACGTCTAGGGTTGCGGGTGAACCTTCAGCGCAAACATACAGCTAATTTTGCTCCATTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaaggaggctatggcttggtcaaagtcacaagagctgtagaattcctga Alignment from Exonerate_protein2genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttgctgtatttagtcacctcagtatttgtcccttggttgacgtctagggttgcGGGTGAACCTTCAGCGCAAACATACAGCTAATTTTGCTCCATTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaaggaggctatggcttggtcaaagtcacaagagctgtagaattcctga Alignment from Exonerate_coding2genome GTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttgctgtatttagtcacctcagtatttgtcccttggttgacgtctagggttgcggGTGAACCTTCAGCGCAAACATACAGCTAATTTTGCTCCATTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaaggaggctatggcttggtcaaagtcacaagagctgtagaattcctga Alignment from GeneWise -----GGGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttgctgtatttagtcacctcagtatttgtcccttggttgacgtctagGGTTGCGGGTGAACCTTCAGCGCAAACATACAGCTAATTTTGCTCCATTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaaggaggctatggcttggtcaaagtcacaagagctgtagaattcctga #### Wdr74_ID2313_3 --> 0 - 2 Original Alignment ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGAT------gg tcttcattcttccctcatcttactcagcattctttaccctcacctgatagGTACTGGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTAATGCAAAGGAAGGCACATTCCTAAGCCAGAGATACTGCCCAGGTGGGGAGGGGACATTCCGAGGTCTCACCCAGGTGGATTGCTTGgggtgagcgttactgatagtgtagcctgagttaactaaagtgtagtgcactc Alignment from CESAR ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGAT------gg tcttcattcttccctcatcttactcagcattctttaccctcacctgatagGTACTGGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTAATGCAAAGGAAGGCACATTCCTAAGCCAGAGATACTGCCCAGGTGGGGAGGGGACATTCCGAGGTCTCACCCAGGTGGATTGCTTGgggtgagcgttactgatagtgtagcctgagttaactaaagtgtagtgcactc Alignment from Spaln_aa2Genome ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATGGC----- tcttcattcttccctcatcttactcagcattctttaccctcacctgatagGTACTGGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTAATGCAAAGGAAGGCACATTCCTAAGCCAGAGATACTGCCCAGGTGGGGAGGGGACATTCCGAGGTCTCACCCAGGTGGATTGCTTGGGgtgagcgttactgatagtgtagcctgagttaactaaagtgtagtgcactc Alignment from Spaln_nt2Genome ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATGGC----- tcttcattcttccctcatcttactcagcattctttaccctcacctgatagGTACTGGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTAATGCAAAGGAAGGCACATTCCTAAGCCAGAGATACTGCCCAGGTGGGGAGGGGACATTCCGAGGTCTCACCCAGGTGGATTGCTTGGGgtgagcgttactgatagtgtagcctgagttaactaaagtgtagtgcactc Alignment from Pairagon ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGAT------GG tcttcattcttccctcatcttactcagcattctttaccctcacctgatagGTACTGGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTAATGCAAAGGAAGGCACATTCCTAAGCCAGAGATACTGCCCAGGTGGGGAGGGGACATTCCGAGGTCTCACCCAGGTGGATTGCTTGGGgtgagcgttactgatagtgtagcctgagttaactaaagtgtagtgcactc Alignment from Exonerate_protein2genome ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATGG tcttcattcttccctcatcttactcagcattctttaccctcacctgatagGTACTGGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTAATGCAAAGGAAGGCACATTCCTAAGCCAGAGATACTGCCCAGGTGGGGAGGGGACATTCCGAGGTCTCACCCAGGTGGATTGcttggggtgagcgttactgatagtgtagcctgagttaactaaagtgtagtgcactc Alignment from Exonerate_coding2genome ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATGG tcttcattcttccctcatcttactcagcattctttaccctcacctgatagGTACTGGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTAATGCAAAGGAAGGCACATTCCTAAGCCAGAGATACTGCCCAGGTGGGGAGGGGACATTCCGAGGTCTCACCCAGGTGGATTGcttggggtgagcgttactgatagtgtagcctgagttaactaaagtgtagtgcactc Alignment from GeneWise ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGAT------GG tcttcattcttccctcatcttactcagcattctttaccctcacctgatagGTACTGGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTAATGCAAAGGAAGGCACATTCCTAAGCCAGAGATACTGCCCAGGTGGGGAGGGGACATTCCGAGGTCTCACCCAGGTGGATTGCTTGGGgtgagcgttactgatagtgtagcctgagttaactaaagtgtagtgcactc #### Wdr74_ID2319_9 --> 2 - 0 Original Alignment ggCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG tattggctaatccgccaaaacccctttcctctctctctgtttactttcaggc---------GGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAATATTGAGGATGCACAGGATACGCAACCCTTGCGGTCTAGAGCATAAGgtaggattagctaacagggtgcaatgggtcacacactcatgtcactatct Alignment from CESAR ggCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG agagtgtaatattggctaatccgccttcctctctctctgtttactttcaggc---------GGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAATATTGAGGATGCACAGGATACGCAACCCTTGCGGTCTAGAGCATAAGgtaggattagctaacagggtgcaatgggtcacacactcatgtcactatct Alignment from Spaln_aa2Genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG tattggctaatccgccaaaacccctttcctctctctctgtttactttcagGC---------GGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAATATTGAGGATGCACAGGATACGCAACCCTTGCGGTCTAGAGCATAAGgtaggattagctaacagggtgcaatgggtcacacactcatgtcactatct Alignment from Spaln_nt2Genome ACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG tattggctaatccgccaaaacccctttcctctctctctgtttactttcagGC--GGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAATATTGAGGATGCACAGGATACGCAACCCTTGCGGTCTAGAGCATAAGgtaggattagctaacagggtgcaatgggtcacacactcatgtcactatct Alignment from Pairagon GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG tattggctaatccgccaaaacccctttcctctctctctgtttactttcagG---------CGGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAATATTGAGGATGCACAGGATACGCAACCCTTGCGGTCTAGAGCATAAGgtaggattagctaacagggtgcaatgggtcacacactcatgtcactatct Alignment from Exonerate_protein2genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG tattggctaatccgccaaaacccctttcctctctctctgtttactttcagGC---------GGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAATATTGAGGATGCACAGGATACGCAACCCTTGCGGTCTAGAGCATAAGgtaggattagctaacagggtgcaatgggtcacacactcatgtcactatct Alignment from Exonerate_coding2genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG tattggctaatccgccaaaacccctttcctctctctctgtttactttcagGC---------GGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAATATTGAGGATGCACAGGATACGCAACCCTTGCGGTCTAGAGCATAAGgtaggattagctaacagggtgcaatgggtcacacactcatgtcactatct Alignment from GeneWise GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG tattggctaatccgccaaaacccctttcctctctctctgtttactttcagGC---------GGCTGTCTGAAGGGCCTTGCAGGTGGTGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAATATTGAGGATGCACAGGATACGCAACCCTTGCGGTCTAGAGCATAAGgtaggattagctaacagggtgcaatgggtcacacactcatgtcactatct #### Wdr74_ID2320_10 --> 0 - 0 Original Alignment GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGATAACTGGGAG gagtctgggcaggaggctatacacacttggtatctgtcttatactcacagGTTTATCTTAAGTGTCAACTTAACTGTCTTCTCCTGTCAGGCCGGGATAAC------gtaagtgtgatgaaagaataagtaaataaggtaaggcctttagtgacagg Alignment from CESAR GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGATAACTGGGAG gagtctgggcaggaggctatacacacttggtatctgtcttatactcacagGTTTATCTTAAGTGTCAACTTAACTGTCTTCTCCTGTCAGGCCGGGATAAC------gtaagtgtgatgaaagaataagtaaataaggtaaggcctttagt Alignment from Spaln_aa2Genome GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGATAACTGGGAG gagtctgggcaggaggctatacacacttggtatctgtcttatactcacagGTTTATCTTAAGTGTCAACTTAACTGTCTTCTCCTGTCAGGCCGGGATAACGTAAGTgtgatgaaagaataagtaaataaggtaaggcctttagtgacagg Alignment from Spaln_nt2Genome GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGATAAC TGGGAG gagtctgggcaggaggctatacacacttggtatctgtcttatactcacagGTTTATCTTAAGTGTCAACTTAACTGTCTTCTCCTGTCAGGCCGGGATAACgtaagtgtgatgaaagaataagtaaataaggtaaggcctttagTGACAGg Alignment from Pairagon GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGATAAC gagtctgggcaggaggctatacacacttggtatctgtcttatactcacagGTTTATCTTAAGTGTCAACTTAACTGTCTTCTCCTGTCAGGCCGGGATAACgtaagtgtgatgaaagaataagtaaataaggtaaggcctttagtgacagg Alignment from Exonerate_protein2genome GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGATAAC gagtctgggcaggaggctatacacacttggtatctgtcttatactcacagGTTTATCTTAAGTGTCAACTTAACTGTCTTCTCCTGTCAGGCCGGGATAACgtaagtgtgatgaaagaataagtaaataaggtaaggcctttagtgacagg Alignment from Exonerate_coding2genome GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGATAAC gagtctgggcaggaggctatacacacttggtatctgtcttatactcacagGTTTATCTTAAGTGTCAACTTAACTGTCTTCTCCTGTCAGGCCGGGATAACgtaagtgtgatgaaagaataagtaaataaggtaaggcctttagtgacagg Alignment from GeneWise GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGATAACTGGGAG gagtctgggcaggaggctatacacacttggtatctgtcttatactcacagGTTTATCTTAAGTGTCAACTTAACTGTCTTCTCCTGTCAGGCCGGGATAACGTAAGTgtgatgaaagaataagtaaataaggtaaggcctttagtgacagg #### Wdr96_ID10334_37 --> 0 - 1 Original Alignment ACTCATAAGAAGAATGTAGAA---AACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAg gcattatctctttgaacatcgttaatgtctcctgccctgactttccacagAATCATAAGAAGAATATCGAAAACAACTGCAAAAAGCTCCTCAGGAAGTTGGGCAAGTACAGCAATCAGAAGGCTGTTGCTAACTACACCCTAAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGT---------ggtaagaccatgtctagggtctttccgctacagtgtcttcattctaacagt Alignment from CESAR ACTCATAAGAAGAATGTAGAA---AACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAg gcattatctctttgaacatcgttaatgtctcctgccctgactttccacagAATCATAAGAAGAATATCGAAAACAACTGCAAAAAGCTCCTCAGGAAGTTGGGCAAGTACAGCAATCAGAAGGCTGTTGCTAACTACACCCTAAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGT---------ggtaagaccatgtctagggtctttccgctacagtgtcttcattctaacagt Alignment from Spaln_aa2Genome ACTCATAAGAAGAATGTAGAA---AACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGC- gcattatctctttgaacatcgttaatgtctcctgccctgactttccacagAATCATAAGAAGAATATCGAAAACAACTGCAAAAAGCTCCTCAGGAAGTTGGGCAAGTACAGCAATCAGAAGGCTGTTGCTAACTACACCCTAAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGTGgtaagaccatgtctagggtctttccgctacagtgtcttcattctaacagt Alignment from Spaln_nt2Genome ACTCATAAGAAGAATGTAGAAAAC---TGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGAT-AG gcattatctctttgaacatcgttaatgtctcctgccctgactttccacagAATCATAAGAAGAATATCGAAAACAACTGCAAAAAGCTCCTCAGGAAGTTGGGCAAGTACAGCAATCAGAAGGCTGTTGCTAACTACACCCTAAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGTGGTAAGACCATgtctagggtctttccgctacagtgtcttcattctaacagt Alignment from Pairagon ACTCATAAGAAGAATGTAGAA---AACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAG gcattatctctttgaacatcgttaatgtctcctgccctgactttccacagAATCATAAGAAGAATATCGAAAACAACTGCAAAAAGCTCCTCAGGAAGTTGGGCAAGTACAGCAATCAGAAGGCTGTTGCTAACTACACCCTAAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGT---------Ggtaagaccatgtctagggtctttccgctacagtgtcttcattctaacagt Alignment from Exonerate_protein2genome ACTCATAAGAAGAATGTAGAA---AACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCA gcattatctctttgaacatcgttaatgtctcctgccctgactttccacagAATCATAAGAAGAATATCGAAAACAACTGCAAAAAGCTCCTCAGGAAGTTGGGCAAGTACAGCAATCAGAAGGCTGTTGCTAACTACACCCTAAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGTGgtaagaccatgtctagggtctttccgctacagtgtcttcattctaacagt Alignment from Exonerate_coding2genome ACTCATAAGAAGAATGTAGAA---AACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCA gcattatctctttgaacatcgttaatgtctcctgccctgactttccacagAATCATAAGAAGAATATCGAAAACAACTGCAAAAAGCTCCTCAGGAAGTTGGGCAAGTACAGCAATCAGAAGGCTGTTGCTAACTACACCCTAAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGTGgtaagaccatgtctagggtctttccgctacagtgtcttcattctaacagt Alignment from GeneWise ACTCATAAGAAGAATGTAGAA---AACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATA-- gcattatctctttgaacatcgttaatgtctcctgccctgactttccacagAATCATAAGAAGAATATCGAAAACAACTGCAAAAAGCTCCTCAGGAAGTTGGGCAAGTACAGCAATCAGAAGGCTGTTGCTAACTACACCCTAAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGTGGTAAGACCATgtctagggtctttccgctacagtgtcttcattctaacagt #### Wdr96_ID10335_36 --> 0 - 0 Original Alignment ------TACCTAAACGAACCAAACTACGAGAATGTGATTGCCATTCAGATTGGAATAATGGAGCAAACGATTAGTGTTATAGATAAG gtacttttagcaaaatcaacaattgaataagctgcctgtgtgcactgcagACTCATTACCTAAATGAACCAAACTACAGGAATGTAATCACTATACTGATTGGAATAATGGAGCAGACAATTGGTGTTGTAGATAAGgtgagtgctaagcttataaactactcaaggcaaagtccaccataatgctg Alignment from CESAR ------TACCTAAACGAACCAAACTACGAGAATGTGATTGCCATTCAGATTGGAATAATGGAGCAAACGATTAGTGTTATAGATAAG gtacttttagcaaaatcaacaattgaataagctgcctgtgtgcactgcagACTCATTACCTAAATGAACCAAACTACAGGAATGTAATCACTATACTGATTGGAATAATGGAGCAGACAATTGGTGTTGTAGATAAGgtgagtgctaagcttataaactactcaaggcaaagtccaccataatgctg Alignment from Spaln_aa2Genome TACCTAAACGAA------CCAAACTACGAGAATGTGATTGCCATTCAGATTGGAATAATGGAGCAAACGATTAGTGTTATAGATAAG gtacttttagcaaaatcaacaattgaataagctgcctgtgtgcactgcagACTCATTACCTAAATGAACCAAACTACAGGAATGTAATCACTATACTGATTGGAATAATGGAGCAGACAATTGGTGTTGTAGATAAGgtgagtgctaagcttataaactactcaaggcaaagtccaccataatgctg Alignment from Spaln_nt2Genome TACCTAAACGA------ACCAAACTACGAGAATGTGATTGCCATTCAGATTGGAATAATGGAGCAAACGATTAGTGTTATAGATAAG gtacttttagcaaaatcaacaattgaataagctgcctgtgtgcactgcagACTCATTACCTAAATGAACCAAACTACAGGAATGTAATCACTATACTGATTGGAATAATGGAGCAGACAATTGGTGTTGTAGATAAGgtgagtgctaagcttataaactactcaaggcaaagtccaccataatgctg Alignment from Pairagon ------TACCTAAACGAACCAAACTACGAGAATGTGATTGCCATTCAGATTGGAATAATGGAGCAAACGATTAGTGTTATAGATAAG gtacttttagcaaaatcaacaattgaataagctgcctgtgtgcactgcagACTCATTACCTAAATGAACCAAACTACAGGAATGTAATCACTATACTGATTGGAATAATGGAGCAGACAATTGGTGTTGTAGATAAGgtgagtgctaagcttataaactactcaaggcaaagtccaccataatgctg Alignment from Exonerate_protein2genome TACCTAAACGAACCAAACTACGAGAATGTGATTGCCATTCAGATTGGAATAATGGAGCAAACGATTAGTGTTATAGATAAG gtacttttagcaaaatcaacaattgaataagctgcctgtgtgcactgcagactcatTACCTAAATGAACCAAACTACAGGAATGTAATCACTATACTGATTGGAATAATGGAGCAGACAATTGGTGTTGTAGATAAGgtgagtgctaagcttataaactactcaaggcaaagtccaccataatgctg Alignment from Exonerate_coding2genome TACCTAAACGAACCAAACTACGAGAATGTGATTGCCATTCAGATTGGAATAATGGAGCAAACGATTAGTGTTATAGATAAG gtacttttagcaaaatcaacaattgaataagctgcctgtgtgcactgcagactcatTACCTAAATGAACCAAACTACAGGAATGTAATCACTATACTGATTGGAATAATGGAGCAGACAATTGGTGTTGTAGATAAGgtgagtgctaagcttataaactactcaaggcaaagtccaccataatgctg Alignment from GeneWise ------TACCTAAACGAACCAAACTACGAGAATGTGATTGCCATTCAGATTGGAATAATGGAGCAAACGATTAGTGTTATAGATAAG gtacttttagcaaaatcaacaattgaataagctgcctgtgtgcactgcagACTCATTACCTAAATGAACCAAACTACAGGAATGTAATCACTATACTGATTGGAATAATGGAGCAGACAATTGGTGTTGTAGATAAGgtgagtgctaagcttataaactactcaaggcaaagtccaccataatgctg #### Wnt8b_ID9022_5 --> 2 - 0 Original Alignment gg---------GGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggatttccccagcttttatactactcaccacccccatgagcagggGAGTCGGGTGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGACAGGGCAAGATGCCCGAGCAGCTATAAACTTGCACAACAATGAAGCCGGTCGCAAGgtgagtcccatagtggttgatgggtgcatcatcagtcttgttaatttagg Alignment from CESAR gg---------GGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggatttccccagcttttatactactcaccacccccatgagcagggGAGTCGGGTGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGACAGGGCAAGATGCCCGAGCAGCTATAAACTTGCACAACAATGAAGCCGGTCGCAAGgtgagtcccatagtggttgatgggtgcatcatcagtcttgttaatttagg Alignment from Spaln_aa2Genome GACAACTGGGGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggatttccccagcttttatactactcaccacccccatgagcagGGGAGTCGGGTGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGACAGGGCAAGATGCCCGAGCAGCTATAAACTTGCACAACAATGAAGCCGGTCGCAAGgtgagtcccatagtggttgatgggtgcatcatcagtcttgttaatttagg Alignment from Spaln_nt2Genome GGG---------GCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggatttccccagcttttatactactcaccacccccatgagcagGGGAGTCGGGTGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGACAGGGCAAGATGCCCGAGCAGCTATAAACTTGCACAACAATGAAGCCGGTCGCAAGgtgagtcccatagtggttgatgggtgcatcatcagtcttgttaatttagg Alignment from Pairagon GGG---------GCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggatttccccagcttttatactactcaccacccccatgagcagGGGAGTCGGGTGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGACAGGGCAAGATGCCCGAGCAGCTATAAACTTGCACAACAATGAAGCCGGTCGCAAGgtgagtcccatagtggttgatgggtgcatcatcagtcttgttaatttagg Alignment from Exonerate_protein2genome GACAACTGGGGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggatttccccagcttttatactactcaccacccccatgagcagGGGAGTCGGGTGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGACAGGGCAAGATGCCCGAGCAGCTATAAACTTGCACAACAATGAAGCCGGTCGCAAGgtgagtcccatagtggttgatgggtgcatcatcagtcttgttaatttagg Alignment from Exonerate_coding2genome GACAACTGGGGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggatttccccagcttttatactactcaccacccccatgagcagGGGAGTCGGGTGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGACAGGGCAAGATGCCCGAGCAGCTATAAACTTGCACAACAATGAAGCCGGTCGCAAGgtgagtcccatagtggttgatgggtgcatcatcagtcttgttaatttagg Alignment from GeneWise --------GGGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggatttccccagcttttatactactcaccacccccatgagcagGGGAGTCGGGTGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGACAGGGCAAGATGCCCGAGCAGCTATAAACTTGCACAACAATGAAGCCGGTCGCAAGgtgagtcccatagtggttgatgggtgcatcatcagtcttgttaatttagg #### Yif1a_ID830_2 --> 2 - 0 Original Alignment gtTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG------------------ CTGCACCGTTTTGTGTCCGT taagaacacgcactgaggtttttaattgcattttgtttcctctcgcaaaggtTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTGGGTATTCCAGCCAACTGGGTGGGTACCCAGCCCCGGGAGCTGATGTAGCTTTCAGTGTCAATAACCTACTTGGAGACCCACTGGCCAACATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAGTACTCAGGTGAACAACTCgtaagttgtctgttcccctctgcctcacagCTACACCGTTTTGTGTCTGT Alignment from CESAR gtTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG------------------ CTGCACCGTTTTGTGTCCGT taagaacacgcactgaggtttttaattgcattttgtttcctctcgcaaaggtTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTGGGTATTCCAGCCAACTGGGTGGGTACCCAGCCCCGGGAGCTGATGTAGCTTTCAGTGTCAATAACCTACTTGGAGACCCACTGGCCAACATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAGTACTCAGGTGAACAACTCgtaagctgccactctgcttctctctgccagCTACACCGTTTTGTGTCTGT Alignment from Spaln_aa2Genome GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAA---------G AGCTGCACCGTTTTGTGTCCGT taagaacacgcactgaggtttttaattgcattttgtttcctctcgcaaagGTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTGGGTATTCCAGCCAACTGGGTGGGTACCCAGCCCCGGGAGCTGATGTAGCTTTCAGTGTCAATAACCTACTTGGAGACCCACTGGCCAACATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAGTACTCAGgtgaacaactcgtaagttgtctgttcccctctgcctcacAGCTACACCGTTTTGTGTCTGT Alignment from Spaln_nt2Genome GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGA GCTGCACCGTTTTGTGTCCG taagaacacgcactgaggtttttaattgcattttgtttcctctcgcaaagGTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTGGGTATTCCAGCCAACTGGGTGGGTACCCAGCCCCGGGAGCTGATGTAGCTTTCAGTGTCAATAACCTACTTGGAGACCCACTGGCCAACATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAgtactcaggtgaacaactcgtaagttgtctgttcccctctgcctcacagCTACACCGTTT-TGTGTCTG Alignment from Pairagon GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAG------------------------------------------------AGCTGCACCGTTTTGTGTCCGT taagaacacgcactgaggtttttaattgcattttgtttcctctcgcaaagGTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTGGGTATTCCAGCCAACTGGGTGGGTACCCAGCCCCGGGAGCTGATGTAGCTTTCAGTGTCAATAACCTACTTGGAGACCCACTGGCCAACATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAGTACTCAGGTGAACAACTCGTAAGTTGTCTGTTCCCCTCTGCCTCACAGCTACACCGTTTTGTGTCTGT Alignment from Exonerate_protein2genome GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG CTGCACCGTTTTGTGTCCGT taagaacacgcactgaggtttttaattgcattttgtttcctctcgcaaagGTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTGGGTATTCCAGCCAACTGGGTGGGTACCCAGCCCCGGGAGCTGATGTAGCTTTCAGTGTCAATAACCTACTTGGAGACCCACTGGCCAACATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAGtactcaggtgaacaactcgtaagttgtctgttcccctctgcctcacagCTACACCGTTTTGTGTCTGT Alignment from Exonerate_coding2genome GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG CTGCACCGTTTTGTGTCCGT taagaacacgcactgaggtttttaattgcattttgtttcctctcgcaaagGTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTGGGTATTCCAGCCAACTGGGTGGGTACCCAGCCCCGGGAGCTGATGTAGCTTTCAGTGTCAATAACCTACTTGGAGACCCACTGGCCAACATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAGtactcaggtgaacaactcgtaagttgtctgttcccctctgcctcacagCTACACCGTTTTGTGTCTGT Alignment from GeneWise GCTTACCATTCGGCATATGGAGTCCACGGTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG------------------------------------------------CTGCACCGTTTTGTGTCCGT gaacacgcactgaggtttttaa---TTGCATTTTGTTTCCTCTCGCAAAGGTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTTTTTGATGACACAAGTGGTGGGTATTCCAGCCAACTGGGTGGGTACCCAGCCCCGGGAGCTGATGTAGCTTTCAGTGTCAATAACCTACTTGGAGACCCACTGGCCAACATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAGTACTCAGGTGAACAACTCGTAAGTTGTCTGTTCCCCTCTGCCTCACAGCTACACCGTTTTGTGTCTGT #### Yif1a_ID835_7 --> 1 - 0 Original Alignment gATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT aaatacatcattcgctcagatgtatgttgtctgtgttttctttttttcagg---------AGCGTACTTACAGCGCTGCTCTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTACTTCATTgtctgtgtggggtggctctagcctcccttctatgactaatatctgatcaa Alignment from CESAR gATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT ttgatcactaaatacatcattcgctgttgtctgtgttttctttttttcagg---------AGCGTACTTACAGCGCTGCTCTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTACTTCATTgtctgtgtggggtggctctagcctcccttctatgactaatatctaatact Alignment from Spaln_aa2Genome GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT aaatacatcattcgctcagatgtatgttgtctgtgttttctttttttcagG---------AGCGTACTTACAGCGCTGCTCTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTACTTCATTgtctgtgtggggtggctctagcctcccttctatgactaatatctgatcaa Alignment from Spaln_nt2Genome TAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT aaatacatcattcgctcagatgtatgttgtctgtgttttctttttttcagGAGCGTACTTACAGCGCTGCTCTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTACTTCATTgtctgtgtggggtggctctagcctcccttctatgactaatatctgatcaa Alignment from Pairagon GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT aaatacatcattcgctcagatgtatgttgtctgtgttttctttttttcagG---------AGCGTACTTACAGCGCTGCTCTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTACTTCATTgtctgtgtggggtggctctagcctcccttctatgactaatatctgatcaa Alignment from Exonerate_protein2genome GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT aaatacatcattcgctcagatgtatgttgtctgtgttttctTTTTTTCAGGAGCGTACTTACAGCGCTGCTCTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTACTTCATTgtctgtgtggggtggctctagcctcccttctatgactaatatctgatcaa Alignment from Exonerate_coding2genome GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT aaatacatcattcgctcagatgtatgttgtctgtgttttctTTTTTTCAGGAGCGTACTTACAGCGCTGCTCTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTACTTCATTgtctgtgtggggtggctctagcctcccttctatgactaatatctgatcaa Alignment from GeneWise GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT aaatacatcattcgctcagatgtatgttgtctgtgttttctttttttcagG---------AGCGTACTTACAGCGCTGCTCTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTACTTCATTgtctgtgtggggtggctctagcctcccttctatgactaatatctgatcaa #### Zdhhc16_ID8345_2 --> 0 - 0 Original Alignment ------------GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggctgtacctactctgactgctatcactcccttgtatttctttgcagATGTTCATTGAAGTGTTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCCATTGTAGCCATTGCTTATCTGTGTGTTCTGCCGCTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCACGAATATCCACCTCAGgtgagtactccacagtgcaagcttcaccagagacaatgcttgcctgccat Alignment from CESAR ------------GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggctgtacctactctgactgctatcactcccttgtatttctttgcagATGTTCATTGAAGTGTTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCCATTGTAGCCATTGCTTATCTGTGTGTTCTGCCGCTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCACGAATATCCACCTCAGgtgagtactccacagtgcaagcttcaccagagacaatgcttgcctgccat Alignment from Spaln_aa2Genome ------------GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCA atgggctgtacctactctgactgctatcactcccttgtatttctttgcagATGTTCATTGAAGTGTTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCCATTGTAGCCATTGCTTATCTGTGTGTTCTGCCGCTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCACGAATATCCACCTCAGgtgagtactccacagtgcaagcttcaccagagacaatgcttgcctgccat Alignment from Spaln_nt2Genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggctgtacctactctgactgctatcactcccttgtatttctttgcagatgttcattgaagTGTTTGTAGTGCT-AGTGATTGTGCTGCCTGGTTCCATTGTAGCCATTGCTTATCTGTGTGTTCTGCCGCTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCACGAATATCCACCTCAGgtgagtactccacagtgcaagcttcaccagagacaatgcttgcctgccat Alignment from Pairagon ------------GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggctgtacctactctgactgctatcactcccttgtatttctttgcagATGTTCATTGAAGTGTTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCCATTGTAGCCATTGCTTATCTGTGTGTTCTGCCGCTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCACGAATATCCACCTCAGgtgagtactccacagtgcaagcttcaccagagacaatgcttgcctgccat Alignment from Exonerate_protein2genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggctgtacctactctgactgctatcactcccttgtatttctttgcagatgttcattgaaGTGTTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCCATTGTAGCCATTGCTTATCTGTGTGTTCTGCCGCTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCACGAATATCCACCTCAGgtgagtactccacagtgcaagcttcaccagagacaatgcttgcctgccat Alignment from Exonerate_coding2genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggctgtacctactctgactgctatcactcccttgtatttctttgcagatgttcattgaaGTGTTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCCATTGTAGCCATTGCTTATCTGTGTGTTCTGCCGCTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCACGAATATCCACCTCAGgtgagtactccacagtgcaagcttcaccagagacaatgcttgcctgccat Alignment from GeneWise ------------GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggctgtacctactctgactgctatcactcccttgtatttctttgcagATGTTCATTGAAGTGTTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCCATTGTAGCCATTGCTTATCTGTGTGTTCTGCCGCTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCACGAATATCCACCTCAGgtgagtactccacagtgcaagcttcaccagagacaatgcttgcctgccat #### Zdhhc16_ID8346_3 --> 0 - 2 Original Alignment GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATag ataacacatcttccactataattgtggtctcacccctttctctggtctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCAAGAAATGCATTTATCCCAAGCCAGCTCGCACACACCACTGTAGC---------aggtaagtctgcgttaccttggttgtgttctgttcctcactttacttaaggc Alignment from CESAR GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATag ataacacatcttccactataattgtggtctcacccctttctctggtctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCAAGAAATGCATTTATCCCAAGCCAGCTCGCACACACCACTGTAGC---------aggtaagtctgcgttaccttggttgtgttctgttcctcactttacttaaggc Alignment from Spaln_aa2Genome GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCAT ataacacatcttccactataattgtggtctcacccctttctctggtctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCAAGAAATGCATTTATCCCAAGCCAGCTCGCACACACCACTGTAGCAGgtaagtctgcgttaccttggttgtgttctgttcctcactttacttaaggc Alignment from Spaln_nt2Genome GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCAT ataacacatcttccactataattgtggtctcacccctttctctggtctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCAAGAAATGCATTTATCCCAAGCCAGCTCGCACACACCACTGTAGCAGgtaagtctgcgttaccttggttgtgttctgttcctcactttacttaaggc Alignment from Pairagon GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATAG ataacacatcttccactataattgtggtctcacccctttctctggtctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCAAGAAATGCATTTATCCCAAGCCAGCTCGCACACACCACTGTAGC---------AGgtaagtctgcgttaccttggttgtgttctgttcctcactttacttaaggc Alignment from Exonerate_protein2genome GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATAG ataacacatcttccactataattgtggtctcacccctttctctggtctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCAAGAAATGCATTTATCCCAAGCCAGCTCGCACACACCACTGTAGC---------AGgtaagtctgcgttaccttggttgtgttctgttcctcactttacttaaggc Alignment from Exonerate_coding2genome GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATAG ataacacatcttccactataattgtggtctcacccctttctctggtctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCAAGAAATGCATTTATCCCAAGCCAGCTCGCACACACCACTGTAGC---------AGgtaagtctgcgttaccttggttgtgttctgttcctcactttacttaaggc Alignment from GeneWise GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCAT ataacacatcttccactataattgtggtctcacccctttctctggtctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCAAGAAATGCATTTATCCCAAGCCAGCTCGCACACACCACTGTAGCAGgtaagtctgcgttaccttggttgtgttctgttcctcactttacttaaggc #### Zfp91_ID3462_4 --> 2 - 2 Original Alignment atGTTCCAGAAGAACATCAGTCTCCCGGTGGCATTag atagaggttgagtttttggctgtgtatgccccacgctgctttccctacagatGTTCCTGAAGAGCAACGA---------------aggtaaccggttgctcccagcttcttcattgtctatacacccaatgcttcat Alignment from CESAR atGTTCCAGAAGAACATCAGTCTCCCGGTGGCATTag atagaggttgagtttttggctgtgtatgccccacgctgctttccctacagatGTTCCTGAAGAGCAACGA---------------aggtaaccggttgctcccagcttcttcattgtctatacacccaatgcttcat Alignment from Spaln_aa2Genome ATGTTCCAGAAGAACATCAGTC atagaggttgagtttttggctgtgtatgccccacgctgctttccctacagATGTTCCTGAAGAGCAACGAAGgtaaccggttgctcccagcttcttcattgtctatacacccaatgcttcat Alignment from Spaln_nt2Genome ATGTTCCAGAAGAACATCAGTC atagaggttgagtttttggctgtgtatgccccacgctgctttccctacagATGTTCCTGAAGAGCAACGAAGgtaaccggttgctcccagcttcttcattgtctatacacccaatgcttcat Alignment from Pairagon ATGTTCCAGAAGA atagaggttgagtttttggctgtgtatgccccacgctgctttccctacagATGTTCCTGAAGAgcaacgaaggtaaccggttgctcccagcttcttcattgtctatacacccaatgcttcat Alignment from Exonerate_protein2genome atagaggttgagtttttggctgtgtatgccccacgctgctttccctacagatgttcctgaagagcaacgaaggtaaccggttgctcccagcttcttcattgtctatacacccaatgcttcat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise atagaggttgagtttttggctgtgtatgccccacgctgctttccctacagatgttcctgaagagcaacgaaggtaaccggttgctcccagcttcttcattgtctatacacccaatgcttcat #### Zp1_ID3061_11 --> 2 - 1 Original Alignment gg---------CGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAg gttttgttgccctccacaggccttcttatccttactttgtgttgccacagagAAAACTCCACGTCGACGGTTCCCAGGACACCACAACATCACTCTCCGAGCCCTGGAGATTGTAAGCTCTCCAGGCGCAGTGGACTTTGAGGATGCAGCCAAACTTAAGCCTTCAggtgagtgtgtgtgggtgttctttacgggggagaggtaagtgcggctccac Alignment from CESAR gg---------CGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAg gttttgttgccctccacaggccttcttatccttactttgtgttgccacagagAAAACTCCACGTCGACGGTTCCCAGGACACCACAACATCACTCTCCGAGCCCTGGAGATTGTAAGCTCTCCAGGCGCAGTGGACTTTGAGGATGCAGCCAAACTTAAGCCTTCAggtgagtgtgtgtgggtgttctttacgggggagaggtaagtgcggctccac Alignment from Spaln_aa2Genome GG---------CGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG gttttgttgccctccacaggccttcttatccttactttgtgttgccacagAGAAAACTCCACGTCGACGGTTCCCAGGACACCACAACATCACTCTCCGAGCCCTGGAGATTGTAAGCTCTCCAGGCGCAGTGGACTTTGAGGATGCAGCCAAACTTAAGCCTTCAGgtgagtgtgtgtgggtgttctttacgggggagaggtaagtgcggctccac Alignment from Spaln_nt2Genome GG---------CGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG gttttgttgccctccacaggccttcttatccttactttgtgttgccacagAGAAAACTCCACGTCGACGGTTCCCAGGACACCACAACATCACTCTCCGAGCCCTGGAGATTGTAAGCTCTCCAGGCGCAGTGGACTTTGAGGATGCAGCCAAACTTAAGCCTTCAGgtgagtgtgtgtgggtgttctttacgggggagaggtaagtgcggctccac Alignment from Pairagon GG---------CGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG gttttgttgccctccacaggccttcttatccttactttgtgttgccacagAGAAAACTCCACGTCGACGGTTCCCAGGACACCACAACATCACTCTCCGAGCCCTGGAGATTGTAAGCTCTCCAGGCGCAGTGGACTTTGAGGATGCAGCCAAACTTAAGCCTTCAGgtgagtgtgtgtgggtgttctttacgggggagaggtaagtgcggctccac Alignment from Exonerate_protein2genome GG---------CGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG gttttgttgccctccacaggccttcttatccttactttgtgttgccacagAGAAAACTCCACGTCGACGGTTCCCAGGACACCACAACATCACTCTCCGAGCCCTGGAGATTGTAAGCTCTCCAGGCGCAGTGGACTTTGAGGATGCAGCCAAACTTAAGCCTTCAGgtgagtgtgtgtgggtgttctttacgggggagaggtaagtgcggctccac Alignment from Exonerate_coding2genome GG---------CGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG gttttgttgccctccacaggccttcttatccttactttgtgttgccacagAGAAAACTCCACGTCGACGGTTCCCAGGACACCACAACATCACTCTCCGAGCCCTGGAGATTGTAAGCTCTCCAGGCGCAGTGGACTTTGAGGATGCAGCCAAACTTAAGCCTTCAGgtgagtgtgtgtgggtgttctttacgggggagaggtaagtgcggctccac Alignment from GeneWise --------AGGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG gttttgttgccctccacaggccttcttatccttactttgtgttgccacagAGAAAACTCCACGTCGACGGTTCCCAGGACACCACAACATCACTCTCCGAGCCCTGGAGATTGTAAGCTCTCCAGGCGCAGTGGACTTTGAGGATGCAGCCAAACTTAAGCCTTCAGgtgagtgtgtgtgggtgttctttacgggggagaggtaagtgcggctccac #### Zp1_ID3064_8 --> 2 - 2 Original Alignment at---AAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATgg gcagcttgaagtacagcctagccttagttcttgtatctgttctctttcagatCCTAAAACTTTCAGCTCCTTCTATCAAGGAAGTGAATACCCCCTTTTAAGACTGCTGCAGAAACCAGCCTATGTTCAGGTGCGGCTTCTGCAGAAAACT---GCTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACACCAACTACTAGC---TTTGATCAGCCCCAGTGGCCAATTCTGTCAGATgcgtaagtcataaaaggagaatgtcccacatacagggtatgcatgctttcta Alignment from CESAR at---AAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATgg gcagcttgaagtacagcctagccttagttcttgtatctgttctctttcagatCCTAAAACTTTCAGCTCCTTCTATCAAGGAAGTGAATACCCCCTTTTAAGACTGCTGCAGAAACCAGCCTATGTTCAGGTGCGGCTTCTGCAGAAAACT---GCTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACACCAACTACTAGC---TTTGATCAGCCCCAGTGGCCAATTCTGTCAGATgcgtaagtcataaaaggagaatgtcccacatacagggtatgcatgctttcta Alignment from Spaln_aa2Genome AT---AAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG gcagcttgaagtacagcctagccttagttcttgtatctgttctctttcagATCCTAAAACTTTCAGCTCCTTCTATCAAGGAAGTGAATACCCCCTTTTAAGACTGCTGCAGAAACCAGCCTATGTTCAGGTGCGGCTTCTGCAGAAAACT---GCTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACACCAACTACTAGC---TTTGATCAGCCCCAGTGGCCAATTCTGTCAGATGCgtaagtcataaaaggagaatgtcccacatacagggtatgcatgctttcta Alignment from Spaln_nt2Genome ATAAGACTTTCAGCT---CCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG gcagcttgaagtacagcctagccttagttcttgtatctgttctctttcagATCCTAAAACTTTCAGCTCCTTCTATCAAGGAAGTGAATACCCCCTTTTAAGACTGCTGCAGAAACCAGCCTATGTTCAGGTGCGGCTTCTGCAGAAAACTG---CTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACACCAACTACTAG---CTTTGATCAGCCCCAGTGGCCAATTCTGTCAGATGCgtaagtcataaaaggagaatgtcccacatacagggtatgcatgctttcta Alignment from Pairagon ----------------------------------------------------------ACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG GCAGCTTGAAGTACAGCCTAGCCTTAGTTCTTGTATCTGTTCTCTTTCAGATCCTAAAACTTTCAGCTCCTTCTATCAAGGAAGTGAATACCCCCTTTTAAGACTGCTGCAGAAACCAGCCTATGTTCAGGTGCGGCTTCTGCAGAAAACTG---CTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACACCAACTACTAG---CTTTGATCAGCCCCAGTGGCCAATTCTGTCAGATGCgtaagtcataaaaggagaatgtcccacatacagggtatgcatgctttcta Alignment from Exonerate_protein2genome AT---AAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG gcagcttgaagtacagcctagccttagttcttgtatctgttctctttcagATCCTAAAACTTTCAGCTCCTTCTATCAAGGAAGTGAATACCCCCTTTTAAGACTGCTGCAGAAACCAGCCTATGTTCAGGTGCGGCTTCTGCAGAAAACT---GCTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACACCAACTACTAGC---TTTGATCAGCCCCAGTGGCCAATTCTGTCAGATGCgtaagtcataaaaggagaatgtcccacatacagggtatgcatgctttcta Alignment from Exonerate_coding2genome AT---AAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG gcagcttgaagtacagcctagccttagttcttgtatctgttctctttcagATCCTAAAACTTTCAGCTCCTTCTATCAAGGAAGTGAATACCCCCTTTTAAGACTGCTGCAGAAACCAGCCTATGTTCAGGTGCGGCTTCTGCAGAAAACT---GCTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACACCAACTACTAGC---TTTGATCAGCCCCAGTGGCCAATTCTGTCAGATGCgtaagtcataaaaggagaatgtcccacatacagggtatgcatgctttcta Alignment from GeneWise --GATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG gcagcttgaagtacagcctagccttagttcttgtatctgttctctttcagATCCTAAAACTTTCAGCTCCTTCTATCAAGGAAGTGAATACCCCCTTTTAAGACTGCTGCAGAAACCAGCCTATGTTCAGGTGCGGCTTCTGCAGAAAACT---GCTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACACCAACTACTAGC---TTTGATCAGCCCCAGTGGCCAATTCTGTCAGATGCgtaagtcataaaaggagaatgtcccacatacagggtatgcatgctttcta #### Zp1_ID3065_7 --> 1 - 1 Original Alignment gCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGg caaacagaataactgaaaagtcccttttcttttcttttctttttctgcagg---------CGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCGCCCCACCCGCCTGCCCCTGTAACACAATCTGGAGCACTCAGGCTGCAATTGAAGATTGCCATGggtgagtggctctagcttgggcggtaccttccaaccttgcagcttgaagta Alignment from CESAR gCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGg tggtgcatgcaaacagaataactgatttcttttcttttctttttctgcagg---------CGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCGCCCCACCCGCCTGCCCCTGTAACACAATCTGGAGCACTCAGGCTGCAATTGAAGATTGCCATGggtgagtggctctagcttgggcggtaccttccaaccttgcagcttgaagta Alignment from Spaln_aa2Genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG caaacagaataactgaaaagtcccttttcttttcttttctttttctgcagG---------CGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCGCCCCACCCGCCTGCCCCTGTAACACAATCTGGAGCACTCAGGCTGCAATTGAAGATTGCCATGGgtgagtggctctagcttgggcggtaccttccaaccttgcagcttgaagta Alignment from Spaln_nt2Genome GTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG caaacagaataactgaaaagtcccttttcttttcttttctttttctgcagG--CGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCGCCCCACCCGCCTGCCCCTGTAACACAATCTGGAGCACTCAGGCTGCAATTGAAGATTGCCATGGgtgagtggctctagcttgggcggtaccttccaaccttgcagcttgaagta Alignment from Pairagon GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG caaacagaataactgaaaagtcccttttcttttcttttctttttctgcagG---------CGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCGCCCCACCCGCCTGCCCCTGTAACACAATCTGGAGCACTCAGGCTGCAATTGAAGATTGCCATGGgtgagtggctctagcttgggcggtaccttccaaccttgcagcttgaagta Alignment from Exonerate_protein2genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG caaacagaataactgaaaagtcccttttcttttcttttcttTTTCTGCAGGCGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCGCCCCACCCGCCTGCCCCTGTAACACAATCTGGAGCACTCAGGCTGCAATTGAAGATTGCCATGGgtgagtggctctagcttgggcggtaccttccaaccttgcagcttgaagta Alignment from Exonerate_coding2genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG caaacagaataactgaaaagtcccttttcttttcttttcttTTTCTGCAGGCGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCGCCCCACCCGCCTGCCCCTGTAACACAATCTGGAGCACTCAGGCTGCAATTGAAGATTGCCATGGgtgagtggctctagcttgggcggtaccttccaaccttgcagcttgaagta Alignment from GeneWise GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG caaacagaataactgaaaagtcccttttcttttcttttctttttctgcagG---------CGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCGCCCCACCCGCCTGCCCCTGTAACACAATCTGGAGCACTCAGGCTGCAATTGAAGATTGCCATGGgtgagtggctctagcttgggcggtaccttccaaccttgcagcttgaagta #### Zp1_ID3066_6 --> 0 - 2 Original Alignment GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCACTCGGGACAGTGCCTTCcg ataacatactcccatcacttcctgaaatacattaccccttttcttcccagGTGGTTGGCAAACAACTCATTTATGAGAACCAGCTGGTGTCTGACATTGATGTTCAAAAGGGGCCACAAGGTTCTATCACACAT------------cggtgagtactaaatatcggttcgggtaggcaagcctgtagactagttgaca Alignment from CESAR GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCACTCGGGACAGTGCCTTCcg ataacatactcccatcacttcctgaaatacattaccccttttcttcccagGTGGTTGGCAAACAACTCATTTATGAGAACCAGCTGGTGTCTGACATTGATGTTCAAAAGGGGCCACAAGGTTCTATCACACAT------------cggtgagtactaaatatcggttcgggtaggcaagcctgtagactagttgaca Alignment from Spaln_aa2Genome GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCACTCGGGA ataacatactcccatcacttcctgaaatacattaccccttttcttcccagGTGGTTGGCAAACAACTCATTTATGAGAACCAGCTGGTGTCTGACATTGATGTTCAAAAGGGGCCACAAGGTTCTATCACACATCGgtgagtactaaatatcggttcgggtaggcaagcctgtagactagttgaca Alignment from Spaln_nt2Genome GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCAC---TCG ataacatactcccatcacttcctgaaatacattaccccttttcttcccagGTGGTTGGCAAACAACTCATTTATGAGAACCAGCTGGTGTCTGACATTGATGTTCAAAAGGGGCCACAAGGTTCTATCACACATCGgtgagtactaaatatcggttcgggtaggcaagcctgtagactagttgaca Alignment from Pairagon GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCAC---TCG ataacatactcccatcacttcctgaaatacattaccccttttcttcccagGTGGTTGGCAAACAACTCATTTATGAGAACCAGCTGGTGTCTGACATTGATGTTCAAAAGGGGCCACAAGGTTCTATCACACATCGgtgagtactaaatatcggttcgggtaggcaagcctgtagactagttgaca Alignment from Exonerate_protein2genome GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCACTCGGGA ataacatactcccatcacttcctgaaatacattaccccttttcttcccagGTGGTTGGCAAACAACTCATTTATGAGAACCAGCTGGTGTCTGACATTGATGTTCAAAAGGGGCCACAAGGTTCTATCACACATCGgtgagtactaaatatcggttcgggtaggcaagcctgtagactagttgaca Alignment from Exonerate_coding2genome GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCACTCGGGA ataacatactcccatcacttcctgaaatacattaccccttttcttcccagGTGGTTGGCAAACAACTCATTTATGAGAACCAGCTGGTGTCTGACATTGATGTTCAAAAGGGGCCACAAGGTTCTATCACACATCGgtgagtactaaatatcggttcgggtaggcaagcctgtagactagttgaca Alignment from GeneWise GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCACTCGG-- ataacatactcccatcacttcctgaaatacattaccccttttcttcccagGTGGTTGGCAAACAACTCATTTATGAGAACCAGCTGGTGTCTGACATTGATGTTCAAAAGGGGCCACAAGGTTCTATCACACATCGgtgagtactaaatatcggttcgggtaggcaagcctgtagactagttgaca #### Zp1_ID3069_3 --> 0 - 1 Original Alignment GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAg ttatccagcggtttggtttttgtgtatcctcttcttctccctgcacacag---------------CTGAGAGTTTTTGTACAAGCTGTCTTAACAAATAGCCCTGTAGACATAGCACAAGATGTCACACTGATCTGCCCTAAACCAGATCACACTGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTCCACCCTATCCCTGAG---------GCTGGGTCTGGACAT------ATCACTATGTTGTACCCAGAACAAAGCTTCAAGCATCCAACTCCTGCTCCACCCTCACTAGGACTTGGACCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGTTGACTGAGTTAGACTCTGTAggtgagtcaacctaaattttgtatagactgagtcttatggcctgtgatcgt Alignment from CESAR GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAg tactaagcagaagccttatccagcgatcctcttcttctccctgcacacag---------------CTGAGAGTTTTTGTACAAGCTGTCTTAACAAATAGCCCTGTAGACATAGCACAAGATGTCACACTGATCTGCCCTAAACCAGATCACACTGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTCCACCCTATCCCTGAG---------GCTGGGTCTGGACAT------ATCACTATGTTGTACCCAGAACAAAGCTTCAAGCATCCAACTCCTGCTCCACCCTCACTAGGACTTGGACCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGTTGACTGAGTTAGACTCTGTAggtgagtcaacctaaattttgtatagactgagtcttatggcctgtgatcgt Alignment from Spaln_aa2Genome CGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG ttatccagcggtttggtttttgtgtatcctcttcttctccctgcacacag---------CTGAGAGTTTTTGTACAAGCTGTCTTAACAAATAGCCCTGTAGACATAGCACAAGATGTCACACTGATCTGCCCTAAACCAGATCACACTGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTCCACCCTATCCCTGAG---------GCTGGGTCTGGACAT------ATCACTATGTTGTACCCAGAACAAAGCTTCAAGCATCCAACTCCTGCTCCACCCTCACTAGGACTTGGACCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGTTGACTGAGTTAGACTCTGTAGgtgagtcaacctaaattttgtatagactgagtcttatggcctgtgatcgt Alignment from Spaln_nt2Genome CTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG ttatccagcggtttggtttttgtgtatcctcttcttctccctgcacacagCTGAGAGTTTTTGTACAAGCTGTCTTAACAAATAGCCCTGTAGACATAGCACAAGATGTCACACTGATCTGCCCTAAACCAGATCACACTGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTCCACCCTATCCCTGA---------GGCTGGGTCTGGACA------TATCACTATGTTGTACCCAGAACAAAGCTTCAAGCATCCAACTCCTGCTCCACCCTCACTAGGACTTGGACCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGTTGACTGAGTTAGACTCTGTAGgtgagtcaacctaaattttgtatagactgagtcttatggcctgtgatcgt Alignment from Pairagon GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG ttatccagcggtttggtttttgtgtatcctcttcttctccctgcacacag---------------CTGAGAGTTTTTGTACAAGCTGTCTTAACAAATAGCCCTGTAGACATAGCACAAGATGTCACACTGATCTGCCCTAAACCAGATCACACTGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTCCACCCTATCCCTGA---------GGCTGGGTCTGGACATA------TCACTATGTTGTACCCAGAACAAAGCTTCAAGCATCCAACTCCTGCTCCACCCTCACTAGGACTTGGACCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGTTGACTGAGTTAGACTCTGTAGgtgagtcaacctaaattttgtatagactgagtcttatggcctgtgatcgt Alignment from Exonerate_protein2genome ACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG ttatccagcggtttggtttttgtgtatcctcttcttctccctgcacacAGCTGAGAGTTTTTGTACAAGCTGTCTTAACAAATAGCCCTGTAGACATAGCACAAGATGTCACACTGATCTGCCCTAAACCAGATCACACTGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTCCACCCTATCCCTGAG---------GCTGGGTCTGGACAT------ATCACTATGTTGTACCCAGAACAAAGCTTCAAGCATCCAACTCCTGCTCCACCCTCACTAGGACTTGGACCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGTTGACTGAGTTAGACTCTGTAGgtgagtcaacctaaattttgtatagactgagtcttatggcctgtgatcgt Alignment from Exonerate_coding2genome ACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG ttatccagcggtttggtttttgtgtatcctcttcttctccctgcacacAGCTGAGAGTTTTTGTACAAGCTGTCTTAACAAATAGCCCTGTAGACATAGCACAAGATGTCACACTGATCTGCCCTAAACCAGATCACACTGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTCCACCCTATCCCTGAG---------GCTGGGTCTGGACAT------ATCACTATGTTGTACCCAGAACAAAGCTTCAAGCATCCAACTCCTGCTCCACCCTCACTAGGACTTGGACCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGTTGACTGAGTTAGACTCTGTAGgtgagtcaacctaaattttgtatagactgagtcttatggcctgtgatcgt Alignment from GeneWise CTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG ttatccagcggtttggtttttgtgtatcctcttcttctccctgcacacagCTGAGAGTTTTTGTACAAGCTGTCTTAACAAATAGCCCTGTAGACATAGCACAAGATGTCACACTGATCTGCCCTAAACCAGATCACACTGTGACTCCAGACCCCTATCTTGCTCCACCCACCAGGCCTGAGCCTTTATCACCTCATGCTTTTGCTCTCCACCCTATCCCTGAG---------GCTGGGTCTGGACAT------ATCACTATGTTGTACCCAGAACAAAGCTTCAAGCATCCAACTCCTGCTCCACCCTCACTAGGACTTGGACCTACAGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCATGGGAGTTGACTGAGTTAGACTCTGTAGgtgagtcaacctaaattttgtatagactgagtcttatggcctgtgatcgt ####