#### 1810009A15Rik_ID2454_3 --> 1 - 1 Original Alignment gTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAg ataactggctgagtgagcctttatcaactctttcttctcttccaatttagg---TGCTCCCGTGCAAACATCACACTATCTGGGAAGAAGCGTAGGAGACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCTATGAAAggtatgctgaaagtagcactggattttcccaacttgcttgtatgactaatg Alignment from CESAR gTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAg attataactggctgagtgagcctttaactctttcttctcttccaatttaggTGC---TCCCGTGCAAACATCACACTATCTGGGAAGAAGCGTAGGAGACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCTATGAAAggtatgctgaaagtagcactggattttcccaacttgcttgtatgactctca Alignment from Spaln_aa2Genome GTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAG ataactggctgagtgagcctttatcaactctttcttctcttccaatttagGTGCTCC---CGTGCAAACATCACACTATCTGGGAAGAAGCGTAGGAGACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCTATGAAAGgtatgctgaaagtagcactggattttcccaacttgcttgtatgactaatg Alignment from Spaln_nt2Genome GTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAG ataactggctgagtgagcctttatcaactctttcttctcttccaatttagGT---GCTCCCGTGCAAACATCACACTATCTGGGAAGAAGCGTAGGAGACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCTATGAAAGgtatgctgaaagtagcactggattttcccaacttgcttgtatgactaatg Alignment from Pairagon GTCCAGTGCT--CGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAG ataactggctgagtgagcctttatcaactctttcttctcttccaatttag-----GTGCTCCCGTGCAAACATCACACTATCTGGGAAGAAGCGTAGGAGACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCTATGAAAGgtatgctgaaagtagcactggattttcccaacttgcttgtatgactaatg Alignment from Exonerate_protein2genome GTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAG ataactggctgagtgagcctttatcaactctttcttctcttccaatttagGTGCTCC---CGTGCAAACATCACACTATCTGGGAAGAAGCGTAGGAGACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCTATGAAAGgtatgctgaaagtagcactggattttcccaacttgcttgtatgactaatg Alignment from Exonerate_coding2genome GTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAG ataactggctgagtgagcctttatcaactctttcttctcttccaatttagGTGCTCC---CGTGCAAACATCACACTATCTGGGAAGAAGCGTAGGAGACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCTATGAAAGgtatgctgaaagtagcactggattttcccaacttgcttgtatgactaatg Alignment from GeneWise GTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAG ataactggctgagtgagcctttatcaactctttcttctcttccaatttagGTGCTCC---CGTGCAAACATCACACTATCTGGGAAGAAGCGTAGGAGACTATTGCAGCAGATCCGACTTGCCCAGAAACAAGAAGCAGCTATGAAAGgtatgctgaaagtagcactggattttcccaacttgcttgtatgactaatg #### 2010012O05Rik_ID10003_2 --> 0 - 0 Original Alignment CTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGAT--------------- accatctagaggcaggatcataatagctttttttttttttcccctaacagCTGCTGGGTCAGGCAGCTCGTAACATGGTACTACAAGAAGATGCTATTTTGCGTTCCGAAGATAAATCTGAGCCAGTGgtaagtagctattatttcatcatatgggtaaagatcttcgggtgtggacc Alignment from CESAR CTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGAT--------------- accatctagaggcaggatcataatagctttttttttttttcccctaacagCTGCTGGGTCAGGCAGCTCGTAACATGGTACTACAAGAAGATGCTATTTTGCGTTCCGAAGATAAATCTGAGCCAGTGgtaagtagctattatttcatcatatgggtaaagatcttcgggtgtggacc Alignment from Spaln_aa2Genome CTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGATAGT----- accatctagaggcaggatcataatagctttttttttttttcccctaacagCTGCTGGGTCAGGCAGCTCGTAACATGGTACTACAAGAAGATGCTATTTTGCGTTCCGAAGATAAATCTGAgccagtggtaagtagctattatttcatcatatgggtaaagatcttcgggtgtggacc Alignment from Spaln_nt2Genome CTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGATA-------------- accatctagaggcaggatcataatagctttttttttttttcccctaacagCTGCTGGGTCAGGCAGCTCGTAACATGGTACTACAAGAAGATGCTATTTTGCGTTCCGAAGATAAATCTGAGCCAGTGgtaagtagctattatttcatcatatgggtaaagatcttcgggtgtggacc Alignment from Pairagon CTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGAT--------------- accatctagaggcaggatcataatagctttttttttttttcccctaacagCTGCTGGGTCAGGCAGCTCGTAACATGGTACTACAAGAAGATGCTATTTTGCGTTCCGAAGATAAATCTGAGCCAGTGgtaagtagctattatttcatcatatgggtaaagatcttcgggtgtggacc Alignment from Exonerate_protein2genome CTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGAT accatctagaggcaggatcataatagctttttttttttttcccctaacagCTGCTGGGTCAGGCAGCTCGTAACATGGTACTACAAGAAGATGCTATTTTGCGTTCCGAAGATaaatctgagccagtggtaagtagctattatttcatcatatgggtaaagatcttcgggtgtggacc Alignment from Exonerate_coding2genome CTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGAT accatctagaggcaggatcataatagctttttttttttttcccctaacagCTGCTGGGTCAGGCAGCTCGTAACATGGTACTACAAGAAGATGCTATTTTGCGTTCCGAAGATaaatctgagccagtggtaagtagctattatttcatcatatgggtaaagatcttcgggtgtggacc Alignment from GeneWise CTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGATAGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTAC accatctagaggcaggatcataatagctttttttttttttcccctaacagCTGCTGGGTCAGGCAGCTCGTAACATGGTACTACAAGAAGATGCTATTTTGCGTTCCGAAGATAAATCTGAGCCAGTGGTAAGTAGCTATTATTTCATCATATGGgtaaagatcttcgggtgtggacc #### A630007B06Rik_ID12190_7 --> 0 - 0 Original Alignment GAATCTGAAGAAATTAAGTCAAATGAGCTTGATGCAAAGCTCAGAGTTACAAAAGGAGAACTTGAAAAACAAATGCAAGAGAAATCTGACCAGCTGGAG tttgatggcaaggtccaagcctatatttacatttccctcttttatttcag---------GAAATCAAGTCAAATGAGCCTGATGCGAAACTCAGAGTGACAAAAGGCGAACTTGAAAAACAAATGCGAGAAAAATCTGACCAGCTGGAAgtaaatcagaattgtcttacactgcataagacactccttctgctggggcg Alignment from CESAR GAATCTGAAGAAATTAAGTCAAATGAGCTTGATGCAAAGCTCAGAGTTACAAAAGGAGAACTTGAAAAACAAATGCAAGAGAAATCTGACCAGCTGGAG atgaatgcgtttgatggcaaggtcctttacatttccctcttttatttcag---------GAAATCAAGTCAAATGAGCCTGATGCGAAACTCAGAGTGACAAAAGGCGAACTTGAAAAACAAATGCGAGAAAAATCTGACCAGCTGGAAgtaaatcagaattgtcttacactgcataagacactccttctgctggggcg Alignment from Spaln_aa2Genome GAAATTAAGTCAAATGAGCTTGATGCAAAGCTCAGAGTTACAAAAGGAGAACTTGAAAAACAAATGCAAGAGAAATCTGACCAGCTGGAG tttgatggcaaggtccaagcctatatttacatttccctcttttatttcagGAAATCAAGTCAAATGAGCCTGATGCGAAACTCAGAGTGACAAAAGGCGAACTTGAAAAACAAATGCGAGAAAAATCTGACCAGCTGGAAgtaaatcagaattgtcttacactgcataagacactccttctgctggggcg Alignment from Spaln_nt2Genome GAAATTAAGTCAAATGAGCTTGATGCAAAGCTCAGAGTTACAAAAGGAGAACTTGAAAAACAAATGCAAGAGAAATCTGACCAGCTGGAG tttgatggcaaggtccaagcctatatttacatttccctcttttatttcagGAAATCAAGTCAAATGAGCCTGATGCGAAACTCAGAGTGACAAAAGGCGAACTTGAAAAACAAATGCGAGAAAAATCTGACCAGCTGGAAgtaaatcagaattgtcttacactgcataagacactccttctgctggggcg Alignment from Pairagon GAATCTGAAGAAATTAAGTCAAATGAGCTTGATGCAAAGCTCAGAGTTACAAAAGGAGAACTTGAAAAACAAATGCAAGAGAAATCTGACCAGCTGGAG tttgatggcaaggtccaagcctatatttacatttccctcttttatttcag---------GAAATCAAGTCAAATGAGCCTGATGCGAAACTCAGAGTGACAAAAGGCGAACTTGAAAAACAAATGCGAGAAAAATCTGACCAGCTGGAAgtaaatcagaattgtcttacactgcataagacactccttctgctggggcg Alignment from Exonerate_protein2genome GAAATTAAGTCAAATGAGCTTGATGCAAAGCTCAGAGTTACAAAAGGAGAACTTGAAAAACAAATGCAAGAGAAATCTGACCAGCTGGAG tttgatggcaaggtccaagcctatatttacatttccctcttttatttcagGAAATCAAGTCAAATGAGCCTGATGCGAAACTCAGAGTGACAAAAGGCGAACTTGAAAAACAAATGCGAGAAAAATCTGACCAGCTGGAAgtaaatcagaattgtcttacactgcataagacactccttctgctggggcg Alignment from Exonerate_coding2genome GAAATTAAGTCAAATGAGCTTGATGCAAAGCTCAGAGTTACAAAAGGAGAACTTGAAAAACAAATGCAAGAGAAATCTGACCAGCTGGAG tttgatggcaaggtccaagcctatatttacatttccctcttttatttcagGAAATCAAGTCAAATGAGCCTGATGCGAAACTCAGAGTGACAAAAGGCGAACTTGAAAAACAAATGCGAGAAAAATCTGACCAGCTGGAAgtaaatcagaattgtcttacactgcataagacactccttctgctggggcg Alignment from GeneWise ---ATTAAGTCAAATGAGCTTGATGCAAAGCTCAGAGTTACAAAAGGAGAACTTGAAAAACAAATGCAAGAGAAATCTGACCAGCTGGAG tttgatggcaaggtccaagcctatatttacatttccctcttttatttcagGAAATCAAGTCAAATGAGCCTGATGCGAAACTCAGAGTGACAAAAGGCGAACTTGAAAAACAAATGCGAGAAAAATCTGACCAGCTGGAAgtaaatcagaattgtcttacactgcataagacactccttctgctggggcg #### AI846148_ID2142_4 --> 2 - 1 Original Alignment ttACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAg tgaactctgtcaaggtgtttgttcagcatttggaatgcccatttatatagttACTCCAGTTATAGAGCAGGGGAATAAAAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCCGAGAATGAACCGGCTAGAAAGAAGAGAAGCAGGCATATGACTAAGATCTTGGACCCTGAT---ggtgagtagttgaacactgggggtaacagctgcgaaaatcactcaagcctt Alignment from CESAR ttACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAg tgaactctgtcaaggtgtttgttcagcatttggaatgcccatttatatagttACTCCAGTTATAGAGCAGGGGAATAAAAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCCGAGAATGAACCGGCTAGAAAGAAGAGAAGCAGGCATATGACTAAGATCTTGGACCCTGAT---ggtgagtagttgaacactgggggtaacagctgcgaaaatcactcaagcctt Alignment from Spaln_aa2Genome TTACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGAC- tgaactctgtcaaggtgtttgttcagcatttggaatgcccatttatatagTTACTCCAGTTATAGAGCAGGGGAATAAAAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCCGAGAATGAACCGGCTAGAAAGAAGAGAAGCAGGCATATGACTAAGATCTTGGACCCTGATGgtgagtagttgaacactgggggtaacagctgcgaaaatcactcaagcctt Alignment from Spaln_nt2Genome TTACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAG tgaactctgtcaaggtgtttgttcagcatttggaatgcccatttatatagTTACTCCAGTTATAGAGCAGGGGAATAAAAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCCGAGAATGAACCGGCTAGAAAGAAGAGAAGCAGGCATATGACTAAGATCTTGGACCCTGA---TGgtgagtagttgaacactgggggtaacagctgcgaaaatcactcaagcctt Alignment from Pairagon TTACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACC tgaactctgtcaaggtgtttgttcagcatttggaatgcccatttatatagTTACTCCAGTTATAGAGCAGGGGAATAAAAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCCGAGAATGAACCGGCTAGAAAGAAGAGAAGCAGGCATATGACTAAGATCTTGGACCCTGATGgtgagtagttgaacactgggggtaacagctgcgaaaatcactcaagcctt Alignment from Exonerate_protein2genome TTACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAG tgaactctgtcaaggtgtttgttcagcatttggaatgcccatttatatagTTACTCCAGTTATAGAGCAGGGGAATAAAAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCCGAGAATGAACCGGCTAGAAAGAAGAGAAGCAGGCATATGACTAAGATCTTGGACCCTGAT---Ggtgagtagttgaacactgggggtaacagctgcgaaaatcactcaagcctt Alignment from Exonerate_coding2genome TTACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAG tgaactctgtcaaggtgtttgttcagcatttggaatgcccatttatatagTTACTCCAGTTATAGAGCAGGGGAATAAAAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCCGAGAATGAACCGGCTAGAAAGAAGAGAAGCAGGCATATGACTAAGATCTTGGACCCTGAT---Ggtgagtagttgaacactgggggtaacagctgcgaaaatcactcaagcctt Alignment from GeneWise TTACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACC tgaactctgtcaaggtgtttgttcagcatttggaatgcccatttatatagTTACTCCAGTTATAGAGCAGGGGAATAAAAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCCGAGAATGAACCGGCTAGAAAGAAGAGAAGCAGGCATATGACTAAGATCTTGGACCCTGATGgtgagtagttgaacactgggggtaacagctgcgaaaatcactcaagcctt #### Acsl5_ID11614_19 --> 0 - 0 Original Alignment TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctacaagccttgggtatcactttccttttgctttgtcagTTCGTAAAAGAGGCCATTTTGGAGGACTTGCAGAAAATTGGGAAGGAGGGCGGCTTGAAATCC---------gtaggtatgatggtgccctggtatgctttttgtagttgatgcagtaagtc Alignment from CESAR TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctacaagccttgggtatcactttccttttgctttgtcagTTCGTAAAAGAGGCCATTTTGGAGGACTTGCAGAAAATTGGGAAGGAGGGCGGCTTGAAATCC---------gtaggtatgatggtgccctggtatgctttttgtagttgatg Alignment from Spaln_aa2Genome TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAG---CAG aggcctttaagctacaagccttgggtatcactttccttttgctttgtcagTTCGTAAAAGAGGCCATTTTGGAGGACTTGCAGAAAATTGGGAAGGAGGGCGGCTTGAAATCCGTAGGTATGATGgtgccctggtatgctttttgtagttgatgcagtaagtc Alignment from Spaln_nt2Genome TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCC TTTGAGCA aggcctttaagctacaagccttgggtatcactttccttttgctttgtcagTTCGTAAAAGAGGCCATTTTGGAGGACTTGCAGAAAATTGGGAAGGAGGGCGGCTTGAAATCCgtaggtatgatggtgccctggtatgctttttgtagTTGATGCAgtaagtc Alignment from Pairagon TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCC aggcctttaagctacaagccttgggtatcactttccttttgctttgtcagTTCGTAAAAGAGGCCATTTTGGAGGACTTGCAGAAAATTGGGAAGGAGGGCGGCTTGAAATCCgtaggtatgatggtgccctggtatgctttttgtagttgatgcagtaagtc Alignment from Exonerate_protein2genome TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctacaagccttgggtatcactttccttttgctttgtcagTTCGTAAAAGAGGCCATTTTGGAGGACTTGCAGAAAATTGGGAAGGAGGGCGGCTTGAAATCCGTAGGTATGatggtgccctggtatgctttttgtagttgatgcagtaagtc Alignment from Exonerate_coding2genome TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcctttaagctacaagccttgggtatcactttccttttgctttgtcagTTCGTAAAAGAGGCCATTTTGGAGGACTTGCAGAAAATTGGGAAGGAGGGCGGCTTGAAATCCGTAGGTATGatggtgccctggtatgctttttgtagttgatgcagtaagtc Alignment from GeneWise TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAGGTC aggcctttaagctacaagccttgggtatcactttccttttgctttgtcagTTCGTAAAAGAGGCCATTTTGGAGGACTTGCAGAAAATTGGGAAGGAGGGCGGCTTGAAATCCGTAGGTATGATGgtgccctggtatgctttttgtagttgatgcagtaagtc #### Actn3_ID691_19 --> 0 - 0 Original Alignment TGACCGG AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG TGACCGGgtatggttcacctgattaattcaggttcattttttccttacag---CGGAACAGGATGATGGAGCCCGATGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTAgtcagtaccttagccagacctatcacaccattagcttacttatgttttgt Alignment from CESAR TGACCGG AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG TGACCGGgtaagagacttcacctgaattcaggttcattttttccttacag---CGGAACAGGATGATGGAGCCCGATGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTAgtcagtaccttagccagacctatcacaccattagcttacttatgttttgt Alignment from Spaln_aa2Genome TGACCGG AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG TGACCGGgtatggttcacctgattaattcaggttcattttttccttacag---CGGAACAGGATGATGGAGCCCGATGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTAgtcagtaccttagccagacctatcacaccattagcttacttatgttttgt Alignment from Spaln_nt2Genome TGACCGG--AAG CGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG TGACCGGGTATGgttcacctgattaattcaggttcattttttccttacagCGGAACAGGATGATGGAGCCCGATGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTAgtcagtaccttagccagacctatcacaccattagcttacttatgttttgt Alignment from Pairagon TGACCGGA----------------------------------------AGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG TGACCGGGTATGGTTCACCTGATTAATTCAGGTTCATTTTTTCCTTACAGCGGAACAGGATGATGGAGCCCGATGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTAgtcagtaccttagccagacctatcacaccattagcttacttatgttttgt Alignment from Exonerate_protein2genome CCGGAAG CGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG CCGG---gtatggttcacctgattaattcaggttcattttttccttacagCGGAACAGGATGATGGAGCCCGATGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTAgtcagtaccttagccagacctatcacaccattagcttacttatgttttgt Alignment from Exonerate_coding2genome CCGGAAG CGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG CCGG---gtatggttcacctgattaattcaggttcattttttccttacagCGGAACAGGATGATGGAGCCCGATGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTAgtcagtaccttagccagacctatcacaccattagcttacttatgttttgt Alignment from GeneWise CCGGAAG CGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG C---CGGgtatggttcacctgattaattcaggttcattttttccttacagCGGAACAGGATGATGGAGCCCGATGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTAgtcagtaccttagccagacctatcacaccattagcttacttatgttttgt #### Actn3_ID693_17 --> 0 - 0 Original Alignment GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG agtggtgagtctggagactttatgcagcctgtacactcccatccttgcag------GGACGACTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtgagtacccaaccataagaggagtactggccaccagataattgcagttt Alignment from CESAR GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gagcaaagtggtgagtctggagactagcctgtacactcccatccttgcag------GGACGACTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtgagtacccaaccataagaggagtactggccaccagataattgcagttt Alignment from Spaln_aa2Genome GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG agtggtgagtctggagactttatgcagcctgtacactcccatccttgcag------GGACGACTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtgagtacccaaccataagaggagtactggccaccagataattgcagttt Alignment from Spaln_nt2Genome GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG agtggtgagtctggagactttatgcagcctgtacactcccatccttgcag------GGACGACTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtgagtacccaaccataagaggagtactggccaccagataattgcagttt Alignment from Pairagon GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG agtggtgagtctggagactttatgcagcctgtacactcccatccttgcag------GGACGACTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtgagtacccaaccataagaggagtactggccaccagataattgcagttt Alignment from Exonerate_protein2genome GGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG agtggtgagtctggagactttatgcagcctgtacactcccatccttgcagGGACGACTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtgagtacccaaccataagaggagtactggccaccagataattgcagttt Alignment from Exonerate_coding2genome GGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG agtggtgagtctggagactttatgcagcctgtacactcccatccttgcagGGACGACTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtgagtacccaaccataagaggagtactggccaccagataattgcagttt Alignment from GeneWise GGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG agtggtgagtctggagactttatgcagcctgtacactcccatccttgcagGGACGACTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGgtgagtacccaaccataagaggagtactggccaccagataattgcagttt #### Actn3_ID694_16 --> 0 - 0 Original Alignment GTCAGA---AAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG agtcaaagcaacaccttactatagacctcttctttcttccaacctctcag---AGAAAAAAACTTGCCCCTGCTCATGAGCAGACATTCCAAGAGAAGCTC---CGGCAGCAAGTTAATGAGAGGTCACAGTGGCAGTTTACAGCCCAGGCTAATGCTATAGGTCCCTGGATCCAGGCAAAGGTCAAGgtaagcgttgggagactgtgctcatggagatcagtccagagcaaagtggt Alignment from CESAR GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG tccagtcaaagcaacaccttactatcctcttctttcttccaacctctcagAGAAAAAAACTTGCCCCTGCTCATGAGCAGACATTCCAAGAGAAGCTC---CGGCAGCAAGTTAATGAGAGGTCACAGTGGCAGTTTACAGCCCAGGCTAATGCTATAGGTCCCTGGATCCAGGCAAAGGTCAAGgtaagcgttgggagactgtgctcatggagatcagtccagagcaaagtggt Alignment from Spaln_aa2Genome GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG agtcaaagcaacaccttactatagacctcttctttcttccaacctctcagAGAAAAAAACTTGCCCCTGCTCATGAGCAGACATTCCAAGAGAAGCTC---CGGCAGCAAGTTAATGAGAGGTCACAGTGGCAGTTTACAGCCCAGGCTAATGCTATAGGTCCCTGGATCCAGGCAAAGGTCAAGgtaagcgttgggagactgtgctcatggagatcagtccagagcaaagtggt Alignment from Spaln_nt2Genome GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG agtcaaagcaacaccttactatagacctcttctttcttccaacctctcagAGAAAAAAACTTGCCCCTGCTCATGAGCAGACATTCCAAGAGAAGCT---CCGGCAGCAAGTTAATGAGAGGTCACAGTGGCAGTTTACAGCCCAGGCTAATGCTATAGGTCCCTGGATCCAGGCAAAGGTCAAGgtaagcgttgggagactgtgctcatggagatcagtccagagcaaagtggt Alignment from Pairagon GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG agtcaaagcaacaccttactatagacctcttctttcttccaacctctcagagaaaaaaacttgcccctgctcatgag---------------------------CAGACATTCCAAGAGAAGCT---CCGGCAGCAAGTTAATGAGAGGTCACAGTGGCAGTTTACAGCCCAGGCTAATGCTATAGGTCCCTGGATCCAGGCAAAGGTCAAGgtaagcgttgggagactgtgctcatggagatcagtccagagcaaagtggt Alignment from Exonerate_protein2genome GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG agtcaaagcaacaccttactatagacctcttctttcttccaacctctcagAGAAAAAAACTTGCCCCTGCTCATGAGCAGACATTCCAAGAGAAGCTC---CGGCAGCAAGTTAATGAGAGGTCACAGTGGCAGTTTACAGCCCAGGCTAATGCTATAGGTCCCTGGATCCAGGCAAAGGTCAAGgtaagcgttgggagactgtgctcatggagatcagtccagagcaaagtggt Alignment from Exonerate_coding2genome GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG agtcaaagcaacaccttactatagacctcttctttcttccaacctctcagAGAAAAAAACTTGCCCCTGCTCATGAGCAGACATTCCAAGAGAAGCTC---CGGCAGCAAGTTAATGAGAGGTCACAGTGGCAGTTTACAGCCCAGGCTAATGCTATAGGTCCCTGGATCCAGGCAAAGGTCAAGgtaagcgttgggagactgtgctcatggagatcagtccagagcaaagtggt Alignment from GeneWise GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG agtcaaagcaacaccttactatagacctcttctttcttccaacctctcagAGAAAAAAACTTGCCCCTGCTCATGAGCAGACATTCCAAGAGAAGCTC---CGGCAGCAAGTTAATGAGAGGTCACAGTGGCAGTTTACAGCCCAGGCTAATGCTATAGGTCCCTGGATCCAGGCAAAGGTCAAGgtaagcgttgggagactgtgctcatggagatcagtccagagcaaagtggt #### Actn3_ID696_14 --> 0 - 0 Original Alignment AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTC---GTGCACTCTGTGGAGGAGACCCAG--------- taatgtctgtagtctgaatgaacctggatagatgtgtttccctccaacagAAGATGGAGAAGCTCCTGGAGACGATTGACCAGCTGCAGCTAGAACTTGCTCGCAGGGCAGCTTCCTTTAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTTCACTCCGTGGAGGAGACAGAACCTACCTACgtatttgaacacactaggcaggaaacccttggatgcacttgtggcctaga Alignment from CESAR AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGACCCAG--------- taatgtctgtagtctgaatgaacctggatagatgtgtttccctccaacagAAGATGGAGAAGCTCCTGGAGACGATTGACCAGCTGCAGCTAGAACTTGCTCGCAGGGCAGCTTCCTTTAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTTCACTCCGTGGAGGAGACAGAACCTACCTACgtatttgaacacactaggcaggaaacccttggatgcacttgtggcctaga Alignment from Spaln_aa2Genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTC---GTGCACTCTGTGGAGGAGACCCAG--------- taatgtctgtagtctgaatgaacctggatagatgtgtttccctccaacagAAGATGGAGAAGCTCCTGGAGACGATTGACCAGCTGCAGCTAGAACTTGCTCGCAGGGCAGCTTCCTTTAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTTCACTCCGTGGAGGAGACAGAACCTACCTACgtatttgaacacactaggcaggaaacccttggatgcacttgtggcctaga Alignment from Spaln_nt2Genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGAC---------CCAG taatgtctgtagtctgaatgaacctggatagatgtgtttccctccaacagAAGATGGAGAAGCTCCTGGAGACGATTGACCAGCTGCAGCTAGAACTTGCTCGCAGGGCAGCTTCCTTTAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTTCACTCCGTGGAGGAGACAGAACCTACCTACgtatttgaacacactaggcaggaaacccttggatgcacttgtggcctaga Alignment from Pairagon AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGAC--------------------------CCAG taatgtctgtagtctgaatgaacctggatagatgtgtttccctccaacagAAGATGGAGAAGCTCCTGGAGACGATTGACCAGCTGCAGCTAGAACTTGCTCGCAGGGCAGCTTCCTTTAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTTCACTCCGTGGAGGAGACAGAACCTACCTACGTATTTGAACACACTAGgcaggaaacccttggatgcacttgtggcctaga Alignment from Exonerate_protein2genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTC---GTGCACTCTGTGGAGGAGACCCAG taatgtctgtagtctgaatgaacctggatagatgtgtttccctccaacagAAGATGGAGAAGCTCCTGGAGACGATTGACCAGCTGCAGCTAGAACTTGCTCGCAGGGCAGCTTCCTTTAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTTCACTCCGTGGAGGAGACAGAAcctacctacgtatttgaacacactaggcaggaaacccttggatgcacttgtggcctaga Alignment from Exonerate_coding2genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTC---GTGCACTCTGTGGAGGAGACCCAG taatgtctgtagtctgaatgaacctggatagatgtgtttccctccaacagAAGATGGAGAAGCTCCTGGAGACGATTGACCAGCTGCAGCTAGAACTTGCTCGCAGGGCAGCTTCCTTTAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTTCACTCCGTGGAGGAGACAGAAcctacctacgtatttgaacacactaggcaggaaacccttggatgcacttgtggcctaga Alignment from GeneWise AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGACCCAG--------- taatgtctgtagtctgaatgaacctggatagatgtgtttccctccaacagAAGATGGAGAAGCTCCTGGAGACGATTGACCAGCTGCAGCTAGAACTTGCTCGCAGGGCAGCTTCCTTTAATAACTGGTTTGATGGTGCTGTTGAGGATCTGCATGATGTGTGGCTAGTGGTTCACTCCGTGGAGGAGACAGAACCTACCTACgtatttgaacacactaggcaggaaacccttggatgcacttgtggcctaga #### Actn3_ID706_4 --> 2 - 1 Original Alignment aaATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAA------g gtattgggggggaacaaaggctgtctcatttttttccccccaatctgcagaaATAGTTGACGGGAACCTGAAGATGACCCTTGGCATGATTTGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAATTGCCggtaagctgatgcaaaatgcctagttgggccagatcataccatagcctctc Alignment from CESAR aaATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAA------g gtattgggggggaacaaaggctgtctcatttttttccccccaatctgcagaaATAGTTGACGGGAACCTGAAGATGACCCTTGGCATGATTTGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAATTGCCggtaagctgatgcaaaatgcctagttgggccagatcattcttctttccaat Alignment from Spaln_aa2Genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAA------G gtattgggggggaacaaaggctgtctcatttttttccccccaatctgcagAAATAGTTGACGGGAACCTGAAGATGACCCTTGGCATGATTTGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAATTGCCGgtaagctgatgcaaaatgcctagttgggccagatcataccatagcctctc Alignment from Spaln_nt2Genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAA------G gtattgggggggaacaaaggctgtctcatttttttccccccaatctgcagAAATAGTTGACGGGAACCTGAAGATGACCCTTGGCATGATTTGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAATTGCCGgtaagctgatgcaaaatgcctagttgggccagatcataccatagcctctc Alignment from Pairagon AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGA---------------------------------------------------------- gtattgggggggaacaaaggctgtctcatttttttccccccaatctgcagAAATAGTTGACGGGAACCTGAAGATGACCCTTGGCATGATTTGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAATTGCCGGTAAGCTGATGCAAAATGCCTAGTTGGGCCAGATCATACCATAGCCTCTC Alignment from Exonerate_protein2genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG gtattgggggggaacaaaggctgtctcatttttttccccccaatctgcagAAATAGTTGACGGGAACCTGAAGATGACCCTTGGCATGATTTGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAAttgccggtaagctgatgcaaaatgcctagttgggccagatcataccatagcctctc Alignment from Exonerate_coding2genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG gtattgggggggaacaaaggctgtctcatttttttccccccaatctgcagAAATAGTTGACGGGAACCTGAAGATGACCCTTGGCATGATTTGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAAttgccggtaagctgatgcaaaatgcctagttgggccagatcataccatagcctctc Alignment from GeneWise AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAGAGACC- gtattgggggggaacaaaggctgtctcatttttttccccccaatctgcagAAATAGTTGACGGGAACCTGAAGATGACCCTTGGCATGATTTGGACAATCATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAATTGCCGgtaagctgatgcaaaatgcctagttgggccagatcataccatagcctctc #### Acy3_ID250_4 --> 2 - 1 Original Alignment gtCTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGG---------GCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAg gtggtacttggctttgtcaaggctagacttttctctcttgcctccaccaggcCTCGAGATGGGCCCGCAGCCTCAAGGAGTCCTGTGGCCTGATCTATCTGATCTATTCTCACAGTTAAGAGCTTTAGTGGCATCC------------------------------ggtaaatctttcccagtgtcttgtcaggcagctggcataatacccgatata Alignment from CESAR gtCTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGG---------GCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAg gtggtacttggctttgtcaaggctagacttttctctcttgcctccaccaggcCTCGAGATGGGCCCGCAGCCTCAAGGAGTCCTGTGGCCTGATCTATCTGATCTATTCTCACAGTTAAGAGCTTTAGTGGCATCC------------------------------ggtaaatctttcccagtgtcttgtcaggcagctggcataatacccgatata Alignment from Spaln_aa2Genome GTCTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGG---------GCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAGGCATGG gtggtacttggctttgtcaaggctagacttttctctcttgcctccaccagGCCTCGAGATGGGCCCGCAGCCTCAAGGAGTCCTGTGGCCTGATCTATCTGATCTATTCTCACAGTTAAGAGCTTTAGTGGCATCCGGTAAATCTTTCCCA---GTGTCTTGTCAGGCAGCTGgcataatacccgat Alignment from Spaln_nt2Genome GTCTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGGGCCGACCTGT---------TCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTT gtggtacttggctttgtcaaggctagacttttctctcttgcctccaccagGCCTCGAGATGGGCCCGCAGCCTCAAGGAGTCCTGTGGCCTGATCTATCTGATCTATTCTCACAGTTAAGAGCTTTAGTGGCATCCGGTAAATCTTTCCCAGTG-TCTTgtcaggcagctggcataatacccgatat Alignment from Pairagon GTCTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGGG---------CCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAGGCATGG gtggtacttggctttgtcaaggctagacttttctctcttgcctccaccagGCCTCGAGATGGGCCCGCAGCCTCAAGGAGTCCTGTGGCCTGATCTATCTGATCTATTCTCACAGTTAAGAGCTTTAGTGGCATCC------------------------------------Ggtaaatctttcccagtgtcttgtcaggcagctggcataatacccgatata Alignment from Exonerate_protein2genome GTCTGGAGATGGGCCCACAGCCTCAGGGCGTGCTG---------CGGGCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCA gtggtacttggctttgtcaaggctagacttttctctcttgcctccaccagGCCTCGAGATGGGCCCGCAGCCTCAAGGAGTCCTGTGGCCTGATCTATCTGATCTATTCTCACAGTTAAGAGCTTTAGTGGCATCCGGTAAATCTTTC---CCAGTGTCTTgtcaggcagctggcataatacccgat Alignment from Exonerate_coding2genome GTCTGGAGATGGGCCCACAGCCTCAGGGCGTGCTG---------CGGGCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCA gtggtacttggctttgtcaaggctagacttttctctcttgcctccaccagGCCTCGAGATGGGCCCGCAGCCTCAAGGAGTCCTGTGGCCTGATCTATCTGATCTATTCTCACAGTTAAGAGCTTTAGTGGCATCCGGTAAATCTTTC---CCAGTGTCTTgtcaggcagctggcataatacccgat Alignment from GeneWise GTCTGGAGATGGGCCCACAGCCTCAGGGCGTGCTG---------CGGGCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCA gtggtacttggctttgtcaaggctagacttttctctcttgcctccaccagGCCTCGAGATGGGCCCGCAGCCTCAAGGAGTCCTGTGGCCTGATCTATCTGATCTATTCTCACAGTTAAGAGCTTTAGTGGCATCCGGTAAATCTTTC---CCAGTGTCTTgtcaggcagctggcataatacccgat #### Acy3_ID251_5 --> 2 - 0 Original Alignment gc------ATG------GACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacgatagagatgagtctaccgcttctgtcccttcaggtACCACCATGGACTCAGACTCAGCAGCATTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCTTGCACTGCTGATGGTGACCTAGCCGGCATGGTGCACCCACAAATACAAgtaagtgtactactggtaatcaggtgtcccaagcagcaatatcagaactt Alignment from CESAR gc------ATGGACTTA------CCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacgatagagatgagtctaccgcttctgtcccttcaggtACCACCATGGACTCAGACTCAGCAGCATTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCTTGCACTGCTGATGGTGACCTAGCCGGCATGGTGCACCCACAAATACAAgtaagtgtactactggtaatcaggtgtcccaagcagcaatatcagaactt Alignment from Spaln_aa2Genome GCATG------------GACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacgatagagatgagtctaccgcttctgtcccttcagGTACCACCATGGACTCAGACTCAGCAGCATTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCTTGCACTGCTGATGGTGACCTAGCCGGCATGGTGCACCCACAAATACAAgtaagtgtactactggtaatcaggtgtcccaagcagcaatatcagaactt Alignment from Spaln_nt2Genome G------CATGGACTTACCC------GCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacgatagagatgagtctaccgcttctgtcccttcagGTACCACCATGGACTCAGACTCAGCAGCATTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCTTGCACTGCTGATGGTGACCTAGCCGGCATGGTGCACCCACAAATACAAgtaagtgtactactggtaatcaggtgtcccaagcagcaatatcagaactt Alignment from Pairagon GCATGGACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacgatagagatgagtctaccgcttctgtcccttcaggtaccaccatggactcag------ACTCAGCAGCATTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCTTGCACTGCTGATGGTGACCTAGCCGGCATGGTGCACCCACAAATACAAgtaagtgtactactggtaatcaggtgtcccaagcagcaatatcagaactt Alignment from Exonerate_protein2genome GCATGGACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacgatagagatgagtctaccgcttctgtcccttcaggtaccaccatggACTCAGACTCAGCAGCATTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCTTGCACTGCTGATGGTGACCTAGCCGGCATGGTGCACCCACAAATACAAgtaagtgtactactggtaatcaggtgtcccaagcagcaatatcagaactt Alignment from Exonerate_coding2genome GCATGGACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacgatagagatgagtctaccgcttctgtcccttcaggtaccaccatggACTCAGACTCAGCAGCATTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCTTGCACTGCTGATGGTGACCTAGCCGGCATGGTGCACCCACAAATACAAgtaagtgtactactggtaatcaggtgtcccaagcagcaatatcagaactt Alignment from GeneWise CCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG gagagttatctggaacgatagagatgagtctaccgcttctgtcccttcaggtaccaccatggactcagactcagcagCATTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCTTGCACTGCTGATGGTGACCTAGCCGGCATGGTGCACCCACAAATACAAgtaagtgtactactggtaatcaggtgtcccaagcagcaatatcagaactt #### Adrbk1_ID478_17 --> 0 - 1 Original Alignment TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGg ccaccgagtgggtagctaatcgggcatctgatgcctcccttctcctacag---------------------------CGCATATTCCCTCTTACCATTGCTGAGTGGTGGCAACAGGAGGTGGCAGAGACCGTTTTT---ACCAGCAATGCTGAAACAGACCGTCTTGAGGCACAA------------AACAAACAACTAGGTCAGGGGGAAggtaaaaacattccacccatcttagactgcaggagcaaaggctagaaggca Alignment from CESAR TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGg cttattccttagatctgcctatagcatctgatgcctcccttctcctacag---------------------------CGCATATTCCCTCTTACCATTGCTGAGTGGTGGCAACAGGAGGTGGCAGAGACCGTTTTT---ACCAGCAATGCTGAAACAGACCGTCTTGAGGCACAA------------AACAAACAACTAGGTCAGGGGGAAggtaaaaacattccacccatcttagactgcaggagcaaaggctagaaggca Alignment from Spaln_aa2Genome ccaccgagtgggtagctaatcgggcatctgatgcctcccttctcctacagcgcatattccctcttaccattgctgagtggtggcaacaggaggtggcagagaccgtttttaccagcaatgctgaaacagaccgtcttgaggcacaaaacaaacaactaggtcagggggaaggtaaaaacattccacccatcttagactgcaggagcaaaggctagaaggca Alignment from Spaln_nt2Genome CGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGG ccaccgagtgggtagctaatcgggcatctgatgcctcccttctcctacagCGCATATTCCCTCTTACCATTGCTGAGTGGTGGCAACAGGAGGTGGCAGAGACCGTTTTT---ACCAGCAATGCTGAAACAGACCGTCTTGAGGCAC------------AAAACAAACAACTAGGTCAGGGGGAAGgtaaaaacattccacccatcttagactgcaggagcaaaggctagaaggca Alignment from Pairagon TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGG ccaccgagtgggtagctaatcgggcatctgatgcctcccttctcctacag---------------------------CGCATATTCCCTCTTACCATTGCTGAGTGGTGGCAACAGGAGGTGGCAGAGACCGTTTT---TACCAGCAATGCTGAAACAGACCGTCTTGAGGCAC------------AAAACAAACAACTAGGTCAGGGGGAAGgtaaaaacattccacccatcttagactgcaggagcaaaggctagaaggca Alignment from Exonerate_protein2genome TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGG ccaccgagtgggtagctaatcggGCATCTGATGCCTCCCTTCTCCTACAGCGCATATTCCCTCTTACCATTGCTGAGTGGTGGCAACAGGAGGTGGCAGAGACCGTTTTT---ACCAGCAATGCTGAAACAGACCGTCTTGAG------------GCACAAAACAAACAACTAGGTCAGGGGGAAGgtaaaaacattccacccatcttagactgcaggagcaaaggctagaaggca Alignment from Exonerate_coding2genome TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGG ccaccgagtgggtagctaatcggGCATCTGATGCCTCCCTTCTCCTACAGCGCATATTCCCTCTTACCATTGCTGAGTGGTGGCAACAGGAGGTGGCAGAGACCGTTTTT---ACCAGCAATGCTGAAACAGACCGTCTTGAG------------GCACAAAACAAACAACTAGGTCAGGGGGAAGgtaaaaacattccacccatcttagactgcaggagcaaaggctagaaggca Alignment from GeneWise ---------------TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGG ccaccgagTGGGTAGCTAATCGGGCATCTGATGCCTCCCTTCTCCTACAGCGCATATTCCCTCTTACCATTGCTGAGTGGTGGCAACAGGAGGTGGCAGAGACCGTTTTT---ACCAGCAATGCTGAAACAGACCGTCTTGAGGCACAA------------AACAAACAACTAGGTCAGGGGGAAGgtaaaaacattccacccatcttagactgcaggagcaaaggctagaaggca #### Adrbk1_ID479_16 --> 0 - 0 Original Alignment TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG------------ ctctctctgccactctctgctgcaatgacagttttccttctcttctgcagTATCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGTACATTGGCTTCgtaagtaacccatgtagctcaggatcctgtttctggatcctgaagctgaa Alignment from CESAR TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG------------ ctctctctgccactctctgctgcaatgacagttttccttctcttctgcagTATCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGTACATTGGCTTCgtaagtaacccatgtagctcaggatcctgtttctggatcctgaagctgaa Alignment from Spaln_aa2Genome ctctctctgccactctctgctgcaatgacagttttccttctcttctgcagtatcctcctccactgatcccccaacgtggggaggtgaatgcagctgacgcttttgacattggctcctttgatgaggaggacacaaaaggaatcaagtacattggcttcgtaagtaacccatgtagctcaggatcctgtttctggatcctgaagctgaa Alignment from Spaln_nt2Genome TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAA ctctctctgccactctctgctgcaatgacagttttccttctcttctgcagTATCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAgtacattggcttcgtaagtaacccatgtagctcaggatcctgtttctggatcctgaagctgaa Alignment from Pairagon TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG------------ ctctctctgccactctctgctgcaatgacagttttccttctcttctgcagTATCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGTACATTGGCTTCgtaagtaacccatgtagctcaggatcctgtttctggatcctgaagctgaa Alignment from Exonerate_protein2genome TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG ctctctctgccactctctgctgcaatgacagttttccttctcttctgcagTATCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGtacattggcttcgtaagtaacccatgtagctcaggatcctgtttctggatcctgaagctgaa Alignment from Exonerate_coding2genome TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG ctctctctgccactctctgctgcaatgacagttttccttctcttctgcagTATCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGtacattggcttcgtaagtaacccatgtagctcaggatcctgtttctggatcctgaagctgaa Alignment from GeneWise TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG------------ ctctctctgccactctctgctgcaatgacagttttccttctcttctgcagTATCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGTACATTGGCTTCgtaagtaacccatgtagctcaggatcctgtttctggatcctgaagctgaa #### Adrbk1_ID480_15 --> 1 - 0 Original Alignment gGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG gcaacaagacggcagacctctaaagttgttcgttcacgtcccactcgcagg---------------------CCTTTCTTTCATTCTCTGGCCTGGCAGATGGCATTTTTACAGAAGgtaagaatataatccatagggagggtgtgttctctggtgcctctctctgc Alignment from CESAR gGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG catctgaatgccatgtaataagcaattgttcgttcacgtcccactcgcagg---------------------CCTTTCTTTCATTCTCTGGCCTGGCAGATGGCATTTTTACAGAAGgtaagaatataatccatagggagggtgtgttctctggtgcctctctctgc Alignment from Spaln_aa2Genome gcaacaagacggcagacctctaaagttgttcgttcacgtcccactcgcaggcctttctttcattctctggcctggcagatggcatttttacagaaggtaagaatataatccatagggagggtgtgttctctggtgcctctctctgc Alignment from Spaln_nt2Genome gcaacaagacggcagacctctaaagttgttcgttcacgtcccactcgcaggcctttctttcattctctggcctggcagatggcatttttacagaaggtaagaatataatccatagggagggtgtgttctctggtgcctctctctgc Alignment from Pairagon gcaacaagacggcagacctctaaagttgttcgttcacgtcccactcgcaggcctttctttcattctctggcctggcagatggcatttttacagaaggtaagaatataatccatagggagggtgtgttctctggtgcctctctctgc Alignment from Exonerate_protein2genome TCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG gcaacaagacggcagacctctaaagttgttcgTTCACGTCCCACTCGCAGGCCTTTCTTTCATTCTCTGGCCTGGCAGATGGCATTTTTACAGAAGgtaagaatataatccatagggagggtgtgttctctggtgcctctctctgc Alignment from Exonerate_coding2genome TCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG gcaacaagacggcagacctctaaagttgttcgTTCACGTCCCACTCGCAGGCCTTTCTTTCATTCTCTGGCCTGGCAGATGGCATTTTTACAGAAGgtaagaatataatccatagggagggtgtgttctctggtgcctctctctgc Alignment from GeneWise GTGGGGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG gcaacaagacggcagacctctaaagTTGTTCGTTCACGTCCCACTCGCAGGCCTTTCTTTCATTCTCTGGCCTGGCAGATGGCATTTTTACAGAAGgtaagaatataatccatagggagggtgtgttctctggtgcctctctctgc #### Adrbk1_ID485_10 --> 2 - 0 Original Alignment CATGAACg gtGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATggtatttcagtctagagaatgtcccttcggaccctccccccaggtGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCTGATATGCGTCTCTATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTA---gtaagaagttatagttgagagagtacactctgtttaccccccccctattc Alignment from CESAR CATGAACg gtGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATggtaagtcagtctagagaatgtcccttcggaccctccccccaggtGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCTGATATGCGTCTCTATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTA---gtaagaagttatagttgagagagtacactctgtttacccccccccta Alignment from Spaln_aa2Genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTG TATGAATGgtatttcagtctagagaatgtcccttcggaccctccccccagGTGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCTGATATGCGTCTCTATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTAgtaagaagttatagttgagagagtacactctgtttaccccccccctattc Alignment from Spaln_nt2Genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTG TATGAATGgtatttcagtctagagaatgtcccttcggaccctccccccagGTGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCTGATATGCGTCTCTATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTAgtaagaagttatagttgagagagtacactctgtttaccccccccctattc Alignment from Pairagon CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTG TATGAATGgtatttcagtctagagaatgtcccttcggaccctccccccagGTGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCTGATATGCGTCTCTATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTAgtaagaagttatagttgagagagtacactctgtttaccccccccctattc Alignment from Exonerate_protein2genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtatttcagtctagagaatgtcccttcggaccctccccccagGTGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCTGATATGCGTCTCTATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTA---gtaagaagttatagttgagagagtacactctgtttacccccccccta Alignment from Exonerate_coding2genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtatttcagtctagagaatgtcccttcggaccctccccccagGTGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCTGATATGCGTCTCTATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTA---gtaagaagttatagttgagagagtacactctgtttacccccccccta Alignment from GeneWise CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAGCCAG TATGAATGgtatttcagtctagagaatgtcccttcggaccctccccccagGTGCAGAATTGCATTATCACCTATCACAGCATGGAGTCTTCTCAGAAGCTGATATGCGTCTCTATGCTGCTGATATCATC------------CACATGCACAATCACTTTGTAGTTTTCAGGGATCTAGTAAGAAgttatagttgagagagtacactctgtttaccccccccctattc #### Adrbk1_ID487_8 --> 1 - 0 Original Alignment gTACGCCATGAAGTGTCTG---GACAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG tgccctgacttgctgggcatgcttatgaagctgcatgttttgtttttcagg---GCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGGGAGAGACACTGGCTCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtaagtcaagtggtcaggtggactcccacttagcttgccttctatgattc Alignment from CESAR gTACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG gattgccctgacttgctgggcatgctgaagctgcatgttttgtttttcagg---GCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGGGAGAGACACTGGCTCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtaagtcaagtggtcaggtggactcccacttagcttgccttctatgattc Alignment from Spaln_aa2Genome GTACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG tgccctgacttgctgggcatgcttatgaagctgcatgttttgtttttcagG---GCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGGGAGAGACACTGGCTCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtaagtcaagtggtcaggtggactcccacttagcttgccttctatgattc Alignment from Spaln_nt2Genome GTACGCCATGAAGTGTCTGGA---CAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG tgccctgacttgctgggcatgcttatgaagctgcatgttttgtttttcagG---GCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGGGAGAGACACTGGCTCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtaagtcaagtggtcaggtggactcccacttagcttgccttctatgattc Alignment from Pairagon GTACGCCATGAAGTGTCTGG---ACAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG tgccctgacttgctgggcatgcttatgaagctgcatgttttgtttttcagG---GCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGGGAGAGACACTGGCTCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtaagtcaagtggtcaggtggactcccacttagcttgccttctatgattc Alignment from Exonerate_protein2genome GTACGCCATGAAGTGTCTGGACAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG tgccctgacttgctgggcatgcttatgaagctgcatgttttgtttttcagGGCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGGGAGAGACACTGGCTCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtaagtcaagtggtcaggtggactcccacttagcttgccttctatgattc Alignment from Exonerate_coding2genome GTACGCCATGAAGTGTCTGGACAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG tgccctgacttgctgggcatgcttatgaagctgcatgttttgtttttcagGGCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGGGAGAGACACTGGCTCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtaagtcaagtggtcaggtggactcccacttagcttgccttctatgattc Alignment from GeneWise GTACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG tgccctgacttgctgggcatgcttatgaagctgcatgttttgtttttcagG---GCTAAGAGGTGTTTGGAAAACAAGAAACACATCAAGATGAAACAGGGAGAGACACTGGCTCTGAATACGCGGATTATGCTATCACTTGTGAGCACTGGGgtaagtcaagtggtcaggtggactcccacttagcttgccttctatgattc #### Adrbk1_ID488_7 --> 0 - 2 Original Alignment CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAG---------at agcacaccagcaacactataagagtagttctcccctcccctcttaaccagCTGACCATGAATGATTTTAGTGTACATCAAATTATCGGACATGGTGGCTTTGGTGAGGTATATGGTTGCCGCAAGGCAGATGTAGGCAAGACAGCAACGatgtacatagtggaccagtagaggtggccatcaaaggggccaggctttgcat Alignment from CESAR CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAG---------at agcacaccagcaacactataagagtagttctcccctcccctcttaaccagCTGACCATGAATGATTTTAGTGTACATCAAATTATCGGACATGGTGGCTTTGGTGAGGTATATGGTTGCCGCAAGGCAGATGTAGGCAAGACAGCAACGatgtacatagtggaccagtagaggtggccatcaaaggggccaggctttgcat Alignment from Spaln_aa2Genome CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAGATG-------- agcacaccagcaacactataagagtagttctcccctcccctcttaaccagCTGACCATGAATGATTTTAGTGTACATCAAATTATCGGACATGGTGGCTTTGGTGAGGTATATGGTTGCCGCAAGGCAGATGTAGGCAAGACAGCAACGATgtacatagtggaccagtagaggtggccatcaaaggggccaggctttgcat Alignment from Spaln_nt2Genome CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAGAT- agcacaccagcaacactataagagtagttctcccctcccctcttaaccagCTGACCATGAATGATTTTAGTGTACATCAAATTATCGGACATGGTGGCTTTGGTGAGGTATATGGTTGCCGCAAGGCAGATGTAGGCAAGACAgcaacgatgtacatagtggaccagtagaggtggccatcaaaggggccaggctttgcat Alignment from Pairagon CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAA---------GAT agcacaccagcaacactataagagtagttctcccctcccctcttaaccagCTGACCATGAATGATTTTAGTGTACATCAAATTATCGGACATGGTGGCTTTGGTGAGGTATATGGTTGCCGCAAGGCAGATGTAGGCAAGACAGCAACGATgtacatagtggaccagtagaggtggccatcaaaggggccaggctttgcat Alignment from Exonerate_protein2genome CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAGATGTACGCCATGAAGTGTCTGGACAA agcacaccagcaacactataagagtagttctcccctcccctcttaaccagCTGACCATGAATGATTTTAGTGTACATCAAATTATCGGACATGGTGGCTTTGGTGAGGTATATGGTTGCCGCAAGGCAGATGTAGGCAAGACAGCAACGATGTACATAGTGGACCAgtagaggtggccatcaaaggggccaggctttgcat Alignment from Exonerate_coding2genome ACAAGTTCACACGGTTCTGCCAGTGGAAGAATGTTGAGCTCAACATCCACCTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAGATGTACGCCATGAAGTGTCTGGACAA AGCACACCAGCAACACTATAAGAGTAGTTCTCCCCTCCCCTCTTAACCAGCTGACCATGAATGATTTTAGTGTACATCAAATTATCGGACATGGTGGCTTTGGTGAGGTATATGGTTGCCGCAAGGCAGATGTAGGCAAGACAGCAACGATGTACATAGTGGACCAgtagaggtggccatcaaaggggccaggctttgcat Alignment from GeneWise CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAG---------AT agcacaccagcaacactataagagtagttctcccctcccctcttaaccagCTGACCATGAATGATTTTAGTGTACATCAAATTATCGGACATGGTGGCTTTGGTGAGGTATATGGTTGCCGCAAGGCAGATGTAGGCAAGACAGCAACGATgtacatagtggaccagtagaggtggccatcaaaggggccaggctttgcat #### Afap1l2_ID12247_16 --> 0 - 1 Original Alignment AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAg accgtgccactgtcctgaagccaaatgtatattattttaattttttgcag------------------------------------GAACCAACACCACGAAGCACTATGGTTAAGTTGCAGGCTGATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGACACAATGGCTTCCACCCCCATTTCTGCAAGCGCGCCTGTGAAAGAGAAGTTAAGAGTTACTGGTGCAggtggagggactaagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from CESAR AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAg cctgctctctaaacctgaagccaaatgtatattattttaattttttgcag------------------------------------GAACCAACACCACGAAGCACTATGGTTAAGTTGCAGGCTGATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGACACAATGGCTTCCACCCCCATTTCTGCAAGCGCGCCTGTGAAAGAGAAGTTAAGAGTTACTGGTGCAggtggagggactaagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from Spaln_aa2Genome ATC GAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG ACCgtgccactgtcctgaagccaaatgtatattattttaattttttgcagGAACCAACACCACGAAGCACTATGGTTAAGTTGCAGGCTGATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGACACAATGGCTTCCACCCCCATTTCTGCAAGCGCGCCTGTGAAAGAGAAGTTAAGAGTTACTGGTGCAGgtggagggactaagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from Spaln_nt2Genome ATC GAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG ACCgtgccactgtcctgaagccaaatgtatattattttaattttttgcagGAACCAACACCACGAAGCACTATGGTTAAGTTGCAGGCTGATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGACACAATGGCTTCCACCCCCATTTCTGCAAGCGCGCCTGTGAAAGAGAAGTTAAGAGTTACTGGTGCAGgtggagggactaagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from Pairagon AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG accgtgccactgtcctgaagccaaatgtatattattttaattttttgcag------------------------------------GAACCAACACCACGAAGCACTATGGTTAAGTTGCAGGCTGATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGACACAATGGCTTCCACCCCCATTTCTGCAAGCGCGCCTGTGAAAGAGAAGTTAAGAGTTACTGGTGCAGgtggagggactaagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from Exonerate_protein2genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG gtgccactgtcctgAAG---CCAAATGTATATTATTTTAATTTTTTGCAGGAACCAACACCACGAAGCACTATGGTTAAGTTGCAGGCTGATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGACACAATGGCTTCCACCCCCATTTCTGCAAGCGCGCCTGTGAAAGAGAAGTTAAGAGTTACTGGTGCAGgtggagggactaagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from Exonerate_coding2genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG gtgccactgtcctgAAG---CCAAATGTATATTATTTTAATTTTTTGCAGGAACCAACACCACGAAGCACTATGGTTAAGTTGCAGGCTGATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGACACAATGGCTTCCACCCCCATTTCTGCAAGCGCGCCTGTGAAAGAGAAGTTAAGAGTTACTGGTGCAGgtggagggactaagctttgttgctgtagtttgcttgtattgctgagttgg Alignment from GeneWise ---GAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG accgtgccactgtcctgaagCCAAATGTATATTATTTTAATTTTTTGCAGGAACCAACACCACGAAGCACTATGGTTAAGTTGCAGGCTGATCAGCAGAGGATTTCCTTCCCTGCTAACTGCCCAGACACAATGGCTTCCACCCCCATTTCTGCAAGCGCGCCTGTGAAAGAGAAGTTAAGAGTTACTGGTGCAGgtggagggactaagctttgttgctgtagtttgcttgtattgctgagttgg #### Afap1l2_ID12248_15 --> 0 - 0 Original Alignment GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG caaccatggcagcatcagagggctcacttgacttctgacctcccacacag------CCCGCTGAAGAAGCAGCT---ACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGCCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGACCCAGAGTCCATCACTACCCAAGAGGAGCCCCATACG---GCACCGGGAGATCCTGAGTTGCAGCAGgtaagagtggtctgcttactaactacatcacctgctctctaaacctgaag Alignment from CESAR GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG acacaccaaccatggcagcatcagaacttgacttctgacctcccacacag------CCCGCTGAAGAAGCAGCT---ACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGCCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGACCCAGAGTCCATCACTACCCAAGAGGAGCCCCATACG---GCACCGGGAGATCCTGAGTTGCAGCAGgtaagagtggtctgcttactaactacatcacctgctctctaaacctgaag Alignment from Spaln_aa2Genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG caaccatggcagcatcagagggctcacttgacttctgacctcccacacag------CCCGCTGAAGAAGCAGCT---ACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGCCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGACCCAGAGTCCATCACTACCCAAGAGGAGCCCCATACG---GCACCGGGAGATCCTGAGTTGCAGCAGgtaagagtggtctgcttactaactacatcacctgctctctaaacctgaag Alignment from Spaln_nt2Genome CCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG caaccatggcagcatcagagggctcacttgacttctgacctcccacacagCCCGCTGAAGAAGCAG---CTACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGCCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGACCCAGAGTCCATCACTACCCAAGAGGAGCCCCATAC---GGCACCGGGAGATCCTGAGTTGCAGCAGgtaagagtggtctgcttactaactacatcacctgctctctaaacctgaag Alignment from Pairagon GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG caaccatggcagcatcagagggctcacttgacttctgacctcccacacag------CCCGCTGAAGAAGCAG---CTACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGCCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGACCCAGAGTCCATCACTACCCAAGAGGAGCCCCATACGG---CACCGGGAGATCCTGAGTTGCAGCAGgtaagagtggtctgcttactaactacatcacctgctctctaaacctgaag Alignment from Exonerate_protein2genome AGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG caaccatggcagcatcagagggctcacttgacttctgacctcccacacAGCCCGCTGAAGAAGCAGCT---ACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGCCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGACCCAGAGTCCATCACTACCCAAGAGGAGCCCCATACG---GCACCGGGAGATCCTGAGTTGCAGCAGgtaagagtggtctgcttactaactacatcacctgctctctaaacctgaag Alignment from Exonerate_coding2genome AGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG caaccatggcagcatcagagggctcacttgacttctgacctcccacacAGCCCGCTGAAGAAGCAGCT---ACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGCCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGACCCAGAGTCCATCACTACCCAAGAGGAGCCCCATACG---GCACCGGGAGATCCTGAGTTGCAGCAGgtaagagtggtctgcttactaactacatcacctgctctctaaacctgaag Alignment from GeneWise CCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG caaccatggcagcatcagagggctcacttgacttctgacctcccacacagCCCGCTGAAGAAGCAGCT---ACTGTTGACGCTAACAGTGGTAGTGAGCCAGACAGAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCATAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGCCGCACCAGGATGACATAGCTGAGACCCTTACAGTAGACCCAGAGTCCATCACTACCCAAGAGGAGCCCCATACG---GCACCGGGAGATCCTGAGTTGCAGCAGgtaagagtggtctgcttactaactacatcacctgctctctaaacctgaag #### Aip_ID330_5 --> 0 - 1 Original Alignment GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATg gctgccatggctgcagctgagacttacctgttgctacttcattcattcag---------------------------------------------------CTGCTACCCAATTATTGCCAGTGCAAGCTGGTAGCTCCAGAGTATTATGAAGTGTTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTggtatgtatcatgcccaattacaacccagacttcccataagttgcagaggc Alignment from CESAR GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATg gctgccatggctgcagctgagacttacctgttgctacttcattcattcag---------------------------------------------------CTGCTACCCAATTATTGCCAGTGCAAGCTGGTAGCTCCAGAGTATTATGAAGTGTTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTggtatgtatcatgcccaattacaacccagacttcccataagttgcagaggc Alignment from Spaln_aa2Genome GGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG gctgccatggctgcagctgagACTTACCTGTTGCTACTTCATTCATTCAGCTGCTACCCAATTATTGCCAGTGCAAGCTGGTAGCTCCAGAGTATTATGAAGTGTTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtatgtatcatgcccaattacaacccagacttcccataagttgcagaggc Alignment from Spaln_nt2Genome CTGACTGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG ctgccatggctgcagCTGAGACTTACCTGTTGCTACTTCA-TTCATTCAGCTGCTACCCAATTATTGCCAGTGCAAGCTGGTAGCTCCAGAGTATTATGAAGTGTTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtatgtatcatgcccaattacaacccagacttcccataagttgcagaggc Alignment from Pairagon CTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG gctgccatggctgcagctgagacttacctgttgctacttcattcattcagCTGCTACCCAATTATTGCCAGTGCAAGCTGGTAGCTCCAGAGTATTATGAAGTGTTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtatgtatcatgcccaattacaacccagacttcccataagttgcagaggc Alignment from Exonerate_protein2genome GCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG gctgCCATGGCTGCAGCTGAGACTTACCTGTTGCTACTTCATTCATTCAGCTGCTACCCAATTATTGCCAGTGCAAGCTGGTAGCTCCAGAGTATTATGAAGTGTTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtatgtatcatgcccaattacaacccagacttcccataagttgcagaggc Alignment from Exonerate_coding2genome GCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG gctgCCATGGCTGCAGCTGAGACTTACCTGTTGCTACTTCATTCATTCAGCTGCTACCCAATTATTGCCAGTGCAAGCTGGTAGCTCCAGAGTATTATGAAGTGTTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtatgtatcatgcccaattacaacccagacttcccataagttgcagaggc Alignment from GeneWise GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG gctgccatggctgcagctgagacttacctgttgctacttcattcattcagCTGCTACCC---------------------------------------------------AATTATTGCCAGTGCAAGCTGGTAGCTCCAGAGTATTATGAAGTGTTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtatgtatcatgcccaattacaacccagacttcccataagttgcagaggc #### Aip_ID331_4 --> 0 - 0 Original Alignment GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG cagctgtccatgggacatggctctgtctccttgtgtcttttttattaaag---------CCTGGTACCTATCAACAGGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCTGTCATCCACCAGGAAGGCAACCGGTTGTATCGTGAAAGCCAGGTGAGGGAGGCTGCTGCCAAGTACTACGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtaagtctcatagtcacaatagtaggaaatgaagtacacatggctgccat Alignment from CESAR GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG catcggtggcagctgtccatgggactctccttgtgtcttttttattaaag---------CCTGGTACCTATCAACAGGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCTGTCATCCACCAGGAAGGCAACCGGTTGTATCGTGAAAGCCAGGTGAGGGAGGCTGCTGCCAAGTACTACGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtaagtctcatagtcacaatagtaggaaatgaagtacacatggctgccat Alignment from Spaln_aa2Genome GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG cagctgtccatgggacatggctctgtctccttgtgtcttttttattaaag---------CCTGGTACCTATCAACAGGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCTGTCATCCACCAGGAAGGCAACCGGTTGTATCGTGAAAGCCAGGTGAGGGAGGCTGCTGCCAAGTACTACGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtaagtctcatagtcacaatagtaggaaatgaagtacacatggctgccat Alignment from Spaln_nt2Genome CCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG cagctgtccatgggacatggctctgtctccttgtgtcttttttattaaagCCTGGTACCTATCAACAGGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCTGTCATCCACCAGGAAGGCAACCGGTTGTATCGTGAAAGCCAGGTGAGGGAGGCTGCTGCCAAGTACTACGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtaagtctcatagtcacaatagtaggaaatgaagtacacatggctgccat Alignment from Pairagon GAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG cagctgtccatgggacatggctctgtctccttgtgtcttttttattaaag----CCTGGTACCTATCAACAGGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCTGTCATCCACCAGGAAGGCAACCGGTTGTATCGTGAAAGCCAGGTGAGGGAGGCTGCTGCCAAGTACTACGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtaagtctcatagtcacaatagtaggaaatgaagtacacatggctgccat Alignment from Exonerate_protein2genome GTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG cagctgtccatgggacatggctctgtctccttgtgtcttttttattaaAGCCTGGTACCTATCAACAGGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCTGTCATCCACCAGGAAGGCAACCGGTTGTATCGTGAAAGCCAGGTGAGGGAGGCTGCTGCCAAGTACTACGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtaagtctcatagtcacaatagtaggaaatgaagtacacatggctgccat Alignment from Exonerate_coding2genome GTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG cagctgtccatgggacatggctctgtctccttgtgtcttttttattaaAGCCTGGTACCTATCAACAGGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCTGTCATCCACCAGGAAGGCAACCGGTTGTATCGTGAAAGCCAGGTGAGGGAGGCTGCTGCCAAGTACTACGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtaagtctcatagtcacaatagtaggaaatgaagtacacatggctgccat Alignment from GeneWise CCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG cagctgtccatgggacatggctctgtctccttgtgtcttttttattaaagCCTGGTACCTATCAACAGGACCCTTGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCTGTCATCCACCAGGAAGGCAACCGGTTGTATCGTGAAAGCCAGGTGAGGGAGGCTGCTGCCAAGTACTACGATGCCATTGCTTCCCTCAAGAATCTGCAAATGAAAgtaagtctcatagtcacaatagtaggaaatgaagtacacatggctgccat #### Aldh3b2_ID238_4 --> 0 - 1 Original Alignment ---------CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg ttaagagtctaccattcaatttaccacatctttcttatcaaaaccactagGAAGAAAAACTCACAAAGCTTAGCTCCGCTTTCATCCGGAAAGAGCCCTTTGGTCTTGTTCTAATCATTGCACCTTGGAATTATCCTGTAAACTTGATGATCATACCTCAGGTGGGAGCCATTGCTGCAggtgagtgaaatattatggccacccatctagatgagagtgccctaagggga Alignment from CESAR ---------CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg ttaagagtctaccattcaatttaccacatctttcttatcaaaaccactagGAAGAAAAACTCACAAAGCTTAGCTCCGCTTTCATCCGGAAAGAGCCCTTTGGTCTTGTTCTAATCATTGCACCTTGGAATTATCCTGTAAACTTGATGATCATACCTCAGGTGGGAGCCATTGCTGCAggtgagtgaaatattatggccacccatctagatgagagtgccctaagggga Alignment from Spaln_aa2Genome CTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttaagagtctaccattcaatttaccacatctttcttatcaaaaccactaggaagaaaaactcacaaagCTTAGCTCCGCTTTCATCCGGAAAGAGCCCTTTGGTCTTGTTCTAATCATTGCACCTTGGAATTATCCTGTAAACTTGATGATCATACCTCAGGTGGGAGCCATTGCTGCAGgtgagtgaaatattatggccacccatctagatgagagtgccctaagggga Alignment from Spaln_nt2Genome CTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttaagagtctaccattcaatttaccacatctttcttatcaaaaccactaggaagaaaaactcacaaagCTTAGCTCCGCTTTCATCCGGAAAGAGCCCTTTGGTCTTGTTCTAATCATTGCACCTTGGAATTATCCTGTAAACTTGATGATCATACCTCAGGTGGGAGCCATTGCTGCAGgtgagtgaaatattatggccacccatctagatgagagtgccctaagggga Alignment from Pairagon ---------CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttaagagtctaccattcaatttaccacatctttcttatcaaaaccactagGAAGAAAAACTCACAAAGCTTAGCTCCGCTTTCATCCGGAAAGAGCCCTTTGGTCTTGTTCTAATCATTGCACCTTGGAATTATCCTGTAAACTTGATGATCATACCTCAGGTGGGAGCCATTGCTGCAGgtgagtgaaatattatggccacccatctagatgagagtgccctaagggga Alignment from Exonerate_protein2genome CTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttaagagtctaccattcaatttaccacatctttcttatcaaaaccactaggaagaaaaactcacaaagCTTAGCTCCGCTTTCATCCGGAAAGAGCCCTTTGGTCTTGTTCTAATCATTGCACCTTGGAATTATCCTGTAAACTTGATGATCATACCTCAGGTGGGAGCCATTGCTGCAGgtgagtgaaatattatggccacccatctagatgagagtgccctaagggga Alignment from Exonerate_coding2genome CTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttaagagtctaccattcaatttaccacatctttcttatcaaaaccactaggaagaaaaactcacaaagCTTAGCTCCGCTTTCATCCGGAAAGAGCCCTTTGGTCTTGTTCTAATCATTGCACCTTGGAATTATCCTGTAAACTTGATGATCATACCTCAGGTGGGAGCCATTGCTGCAGgtgagtgaaatattatggccacccatctagatgagagtgccctaagggga Alignment from GeneWise CTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttaagagtctaccattcaatttaccacatctttcttatcaaaaccactaggaagaaaaactcacaaagCTTAGCTCCGCTTTCATCCGGAAAGAGCCCTTTGGTCTTGTTCTAATCATTGCACCTTGGAATTATCCTGTAAACTTGATGATCATACCTCAGGTGGGAGCCATTGCTGCAGgtgagtgaaatattatggccacccatctagatgagagtgccctaagggga #### Aldh3b2_ID240_6 --> 0 - 1 Original Alignment CTGCCCCAGTATCTGGACCAG AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAg CTG---CAGCATCTGGATCAGgtaagaaaatctcctgtttttgtcttcagAGCTGTTTTGCTGTGATGCTGGGAGGTCCCGATGAGACGAGGCAACTGCTGGAACACAAGTTTGACTATATCTTCTTT---ggtaatgagtaagggttcggggcctgcagcagagaaggacagcacacaagt Alignment from CESAR CTGCCCCAGTATCTGGACCAG AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAg CTG---CAGCATCTGGATCAGgtgtggaaatctcctgtttttgtcttcagAGCTGTTTTGCTGTGATGCTGGGAGGTCCCGATGAGACGAGGCAACTGCTGGAACACAAGTTTGACTATATCTTCTTT---ggtaatgagtaagggttcggggcctgcagcagagaaggacagcacacaagt Alignment from Spaln_aa2Genome CTGCTGCC CCAGTATCTGGACCAGAGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTC- CTACTGCAgcatctggatcaggtaagaaaatctcctgtttttgtcttcagagC------------------TGTTTTGCTGTGATGCTGGGAGGTCCCGATGAGACGAGGCAACTGCTGGAACACAAGTTTGACTATATCTTCTTTGgtaatgagtaagggttcggggcctgcagcagagaaggacagcacacaagt Alignment from Spaln_nt2Genome CTGCCCCAGTATCTGGACCAG-------------------------------AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAG CTG---CAGCATCTGGATCAGGTAAGAAAATCTCCTGTTTTTGTCTTCAGAG--CTGTTTTGCTGTGATGCTGGGAGGTCCCGATGAGACGAGGCAACTGCTGGAACACAAGTTTGACTATATCTTCTT---TGgtaatgagtaagggttcggggcctgcagcagagaaggacagcacacaagt Alignment from Pairagon CTGCCCCAGTATCTGGACCAG-----------------------------AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTT---------------------------------------------CACAG CTG---CAGCATCTGGATCAGGTAAGAAAATCTCCTGTTTTTGTCTTCAGAGCTGTTTTGCTGTGATGCTGGGAGGTCCCGATGAGACGAGGCAACTGCTGGAACACAAGTTTGACTATATCTTCTTTGGTAATGAGTAAGGGTTCGGGGCCTGCAGCAGAGAAGGACAGCACACAAgt Alignment from Exonerate_protein2genome CCCCAGTATCTGGACCAGAGC TGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAG ---CAGCATCTGGATCAG---gtaagaaaatctcctgtttttgtcttcagagcTGTTTTGCTGTGATGCTGGGAGGTCCCGATGAGACGAGGCAACTGCTGGAACACAAGTTTGACTATATCTTCTTTGGTAatgagtaagggttcggggcctgcagcagagaaggacagcacacaagt Alignment from Exonerate_coding2genome CACAGAGAAGGTG----CTGGCAGAGCTGCTGCCCCAGTATCTGGACCAGAGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAG CTACTGCAGCATCTGGATCAGGTAAGAAAATCTCCTGTTTTTGTCTTCAGAGCTGTTTTGCTGTGATGCTGGGAGGTCCCGATGAGACGAGGCAACTGCTGGAACACAAGTTTGACTATATCTTCTTTGGTAatgagtaagggttcggggcctgcagcagagaaggacagcacacaagt Alignment from GeneWise CTGCCCCAGTATCTGGACCAG AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAGGAAG CTG---CAGCATCTGGATCAGgtaagaaaatctcctgtttttgtcttcagAGCTGTTTTGCTGTGATGCTGGGAGGTCCCGATGAGACGAGGCAACTGCTGGAACACAAGTTTGACTATATCTTCTTTGGTAATGAgtaagggttcggggcctgcagcagagaaggacagcacacaagt #### Aldh3b2_ID242_8 --> 2 - 0 Original Alignment ccCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG--- cctctgcatgtcataaatcaggctagcttactaacttattttatgtttagccCCTACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCAAGAGGAGATTTTTGGGCCCATCCTTCCTTTGGTGACTGTAAGAAGTCTGGATGAAGCCATTGTATCCAATAACCAGTGGGAAAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGATAgtaagatggtggtgagacaataattagcctgcaaacagtaaatcaaggtg Alignment from CESAR ccCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG--- cctctgcatgtcataaatcaggctagcttactaacttattttatgtttagccCCTACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCAAGAGGAGATTTTTGGGCCCATCCTTCCTTTGGTGACTGTAAGAAGTCTGGATGAAGCCATTGTATCCAATAACCAGTGGGAAAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGATAgtaagatggtggtgagacaataattagcctgcaaacagtaaatcaaggtg Alignment from Spaln_aa2Genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG--- cctctgcatgtcataaatcaggctagcttactaacttattttatgtttagCCCCTACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCAAGAGGAGATTTTTGGGCCCATCCTTCCTTTGGTGACTGTAAGAAGTCTGGATGAAGCCATTGTATCCAATAACCAGTGGGAAAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGATAgtaagatggtggtgagacaataattagcctgcaaacagtaaatcaaggtg Alignment from Spaln_nt2Genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG--- cctctgcatgtcataaatcaggctagcttactaacttattttatgtttagCCCCTACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCAAGAGGAGATTTTTGGGCCCATCCTTCCTTTGGTGACTGTAAGAAGTCTGGATGAAGCCATTGTATCCAATAACCAGTGGGAAAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGATAgtaagatggtggtgagacaataattagcctgcaaacagtaaatcaaggtg Alignment from Pairagon CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG--- cctctgcatgtcataaatcaggctagcttactaacttattttatgtttagCCCCTACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCAAGAGGAGATTTTTGGGCCCATCCTTCCTTTGGTGACTGTAAGAAGTCTGGATGAAGCCATTGTATCCAATAACCAGTGGGAAAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGATAgtaagatggtggtgagacaataattagcctgcaaacagtaaatcaaggtg Alignment from Exonerate_protein2genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cctctgcatgtcataaatcaggctagcttactaacttattttatgtttagCCCCTACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCAAGAGGAGATTTTTGGGCCCATCCTTCCTTTGGTGACTGTAAGAAGTCTGGATGAAGCCATTGTATCCAATAACCAGTGGGAAAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGatagtaagatggtggtgagacaataattagcctgcaaacagtaaatcaaggtg Alignment from Exonerate_coding2genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cctctgcatgtcataaatcaggctagcttactaacttattttatgtttagCCCCTACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCAAGAGGAGATTTTTGGGCCCATCCTTCCTTTGGTGACTGTAAGAAGTCTGGATGAAGCCATTGTATCCAATAACCAGTGGGAAAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGatagtaagatggtggtgagacaataattagcctgcaaacagtaaatcaaggtg Alignment from GeneWise CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAGGTG cctctgcatgtcataaatcaggctagcttactaacttattttatgtttagCCCCTACAGATCTAGTAGATGTCCATGCAACAGAACCCCTTATGCAAGAGGAGATTTTTGGGCCCATCCTTCCTTTGGTGACTGTAAGAAGTCTGGATGAAGCCATTGTATCCAATAACCAGTGGGAAAAGCCTCTAGCATTGTTTGCCTTTTCAAACAACAACCAGATAgtaagatggtggtgagacaataattagcctgcaaacagtaaatcaaggtg #### Ankrd13d_ID460_13 --> 2 - 0 Original Alignment gaAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG atctggctttctgttaagcctttgtattacagaaccctcttaccttataggg---CTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTAGGTGCTGAGCACAGTGAGCCTCTCCAGGATAAAGATGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTGCTAGAGGCGGGAATACAGGCAGAGCAGgtgagatgtgatatagttagtatgacccttaatgcctcaggcccatgggg Alignment from CESAR gaAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG cccatctggctttctgttaagccttattacagaaccctcttaccttataggg---CTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTAGGTGCTGAGCACAGTGAGCCTCTCCAGGATAAAGATGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTGCTAGAGGCGGGAATACAGGCAGAGCAGgtgagatgtgatatagttagtatgacccttaatgcctcaggcccatgggg Alignment from Spaln_aa2Genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG atctggctttctgttaagcctttgtattacagaaccctcttaccttatagGG---CTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTAGGTGCTGAGCACAGTGAGCCTCTCCAGGATAAAGATGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTGCTAGAGGCGGGAATACAGGCAGAGCAGgtgagatgtgatatagttagtatgacccttaatgcctcaggcccatgggg Alignment from Spaln_nt2Genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG atctggctttctgttaagcctttgtattacagaaccctcttaccttatag---GGCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTAGGTGCTGAGCACAGTGAGCCTCTCCAGGATAAAGATGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTGCTAGAGGCGGGAATACAGGCAGAGCAGgtgagatgtgatatagttagtatgacccttaatgcctcaggcccatgggg Alignment from Pairagon GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG atctggctttctgttaagcctttgtattacagaaccctcttaccttatag---GGCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTAGGTGCTGAGCACAGTGAGCCTCTCCAGGATAAAGATGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTGCTAGAGGCGGGAATACAGGCAGAGCAGgtgagatgtgatatagttagtatgacccttaatgcctcaggcccatgggg Alignment from Exonerate_protein2genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG atctggctttctgttaagcctttgtattacagaaccctcttaccttatagGGCTT---TATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTAGGTGCTGAGCACAGTGAGCCTCTCCAGGATAAAGATGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTGCTAGAGGCGGGAATACAGGCAGAGCAGgtgagatgtgatatagttagtatgacccttaatgcctcaggcccatgggg Alignment from Exonerate_coding2genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG atctggctttctgttaagcctttgtattacagaaccctcttaccttatagGGCTT---TATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTAGGTGCTGAGCACAGTGAGCCTCTCCAGGATAAAGATGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTGCTAGAGGCGGGAATACAGGCAGAGCAGgtgagatgtgatatagttagtatgacccttaatgcctcaggcccatgggg Alignment from GeneWise GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG atctggctttctgttaagcctttgtattacagaaccctcttaccttatagGGCTT---TATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTAGGTGCTGAGCACAGTGAGCCTCTCCAGGATAAAGATGATGAGCTTCTGCAGTTTGCTATCCAGCAAAGCCTGCTAGAGGCGGGAATACAGGCAGAGCAGgtgagatgtgatatagttagtatgacccttaatgcctcaggcccatgggg #### Ankrd13d_ID461_12 --> 2 - 1 Original Alignment ag------ATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAg atgcaatattacgcgttactgggtacctccagcactctgtgtctccacagaaGCACTTATTCCCCTCTTTCATGTGCACAATGCCCGCACCACCTTTAGTAACCTTTGCGGCTGCGATGAACCTGTGAGCTCAGTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAggtgagtctatagccatgtcagatattcccatctggctttctgttaagcct Alignment from CESAR ag------ATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAg atgcaatattacgcgttactgggtacctccagcactctgtgtctccacagaaGCACTTATTCCCCTCTTTCATGTGCACAATGCCCGCACCACCTTTAGTAACCTTTGCGGCTGCGATGAACCTGTGAGCTCAGTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAggtgagtctatagccatgtcagatattcccatctggctttctgttaagcct Alignment from Spaln_aa2Genome AG------ATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG atgcaatattacgcgttactgggtacctccagcactctgtgtctccacagAAGCACTTATTCCCCTCTTTCATGTGCACAATGCCCGCACCACCTTTAGTAACCTTTGCGGCTGCGATGAACCTGTGAGCTCAGTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAGgtgagtctatagccatgtcagatattcccatctggctttctgttaagcct Alignment from Spaln_nt2Genome AG------ATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG atgcaatattacgcgttactgggtacctccagcactctgtgtctccacagAAGCACTTATTCCCCTCTTTCATGTGCACAATGCCCGCACCACCTTTAGTAACCTTTGCGGCTGCGATGAACCTGTGAGCTCAGTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAGgtgagtctatagccatgtcagatattcccatctggctttctgttaagcct Alignment from Pairagon AG------ATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG atgcaatattacgcgttactgggtacctccagcactctgtgtctccacagAAGCACTTATTCCCCTCTTTCATGTGCACAATGCCCGCACCACCTTTAGTAACCTTTGCGGCTGCGATGAACCTGTGAGCTCAGTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAGgtgagtctatagccatgtcagatattcccatctggctttctgttaagcct Alignment from Exonerate_protein2genome atgcaatattacgcgttactgggtacctccagcactctgtgtctccacagaagcacttattcccctctttcatgtgcacaatgcccgcaccacctttagtaacctttgcggctgcgatgaacctgtgagctcagtgtgtgtccccaactccagtctggcaatttctgcttcaggtgagtctatagccatgtcagatattcccatctggctttctgttaagcct Alignment from Exonerate_coding2genome AGAT------TCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG atgcaatattacgcgttactgggtacctccagcactctgtgtctccacagAAGCACTTATTCCCCTCTTTCATGTGCACAATGCCCGCACCACCTTTAGTAACCTTTGCGGCTGCGATGAACCTGTGAGCTCAGTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAGgtgagtctatagccatgtcagatattcccatctggctttctgttaagcct Alignment from GeneWise --GAGATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG atgcaatattacgcgttactgggtacctccagcactctgtgtctccacagaagCACTTATTCCCCTCTTTCATGTGCACAATGCCCGCACCACCTTTAGTAACCTTTGCGGCTGCGATGAACCTGTGAGCTCAGTGTGTGTCCCCAACTCCAGTCTGGCAATTTCTGCTTCAGgtgagtctatagccatgtcagatattcccatctggctttctgttaagcct #### Ankrd13d_ID465_8 --> 0 - 1 Original Alignment GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAg atcactctgctgtcccctcagtcccatgcatctccccctgtctccggcagGTATACAGTGCCACGAATGTTGAGCTGGTAACACGCACAAGAACAGAACATCTCTCTGACCAGGACAAGTTA---------ggtctgtccagacaatcagcttgctacaggcttctggttaagctttctagg Alignment from CESAR GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAg atcactctgctgtcccctcagtcccatgcatctccccctgtctccggcagGTATACAGTGCCACGAATGTTGAGCTGGTAACACGCACAAGAACAGAACATCTCTCTGACCAGGACAAGTTA---------ggtctgtccagacaatcagcttgctacaggcttctggttaagctttctagg Alignment from Spaln_aa2Genome GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTA- atcactctgctgtcccctcagtcccatgcatctccccctgtctccggcagGTATACAGTGCCACGAATGTTGAGCTGGTAACACGCACAAGAACAGAACATCTCTCTGACCAGGACAAGTTAGgtctgtccagacaatcagcttgctacaggcttctggttaagctttctagg Alignment from Spaln_nt2Genome GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAA atcactctgctgtcccctcagtcccatgcatctccccctgtctccggcagGTATACAGTGCCACGAATGTTGAGCTGGTAACACGCACAAGAACAGAACATCTCTCTGACCAGGACAAGTTAGgtctgtccagacaatcagcttgctacaggcttctggttaagctttctagg Alignment from Pairagon GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG atcactctgctgtcccctcagtcccatgcatctccccctgtctccggcagGTATACAGTGCCACGAATGTTGAGCTGGTAACACGCACAAGAACAGAACATCTCTCTGACCAGGACAAGTT---------AGgtctgtccagacaatcagcttgctacaggcttctggttaagctttctagg Alignment from Exonerate_protein2genome GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG atcactctgctgtcccctcagtcccatgcatctccccctgtctccggcagGTATACAGTGCCACGAATGTTGAGCTGGTAACACGCACAAGAACAGAACATCTCTCTGACCAGGACAAGTTAGGTCTGTCCAgacaatcagcttgctacaggcttctggttaagctttctagg Alignment from Exonerate_coding2genome GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAGGGGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAG atcactctgctgtcccctcagtcccatgcatctccccctgtctccggcagGTATACAGTGCCACGAATGTTGAGCTGGTAACACGCACAAGAACAGAACATCTCTCTGACCAGGACAAGTTAGGTCTGTCCAGACAATCAGCTTGCTACAGGCTTCTGGTTAAGCTTTCTAGG Alignment from GeneWise GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAA atcactctgctgtcccctcagtcccatgcatctccccctgtctccggcagGTATACAGTGCCACGAATGTTGAGCTGGTAACACGCACAAGAACAGAACATCTCTCTGACCAGGACAAGTTAGgtctgtccagacaatcagcttgctacaggcttctggttaagctttctagg #### Ankrd1_ID7096_7 --> 0 - 0 Original Alignment CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAG---GACAGA acatatggtgattggcctccacccaaaaagcatgggtctcttctggtcag---CTCAGCTCAACATTGCATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAACAGAgtaccgatgaatgtaacccgccttgaatgaagcctacagatactgacaac Alignment from CESAR CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGAC---AGA ggtacatatggtgattggcctccacaaaagcatgggtctcttctggtcag---CTCAGCTCAACATTGCATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAACAGAgtaccgatgaatgtaacccgccttgaatgaagcctacagatactgacaac Alignment from Spaln_aa2Genome CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGAC---AGA acatatggtgattggcctccacccaaaaagcatgggtctcttctggtcag---CTCAGCTCAACATTGCATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAACAGAgtaccgatgaatgtaacccgccttgaatgaagcctacagatactgacaac Alignment from Spaln_nt2Genome CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGACA---GA acatatggtgattggcctccacccaaaaagcatgggtctcttctggtcag---CTCAGCTCAACATTGCATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAACAGAgtaccgatgaatgtaacccgccttgaatgaagcctacagatactgacaac Alignment from Pairagon CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGG---ACAGA acatatggtgattggcctccacccaaaaagcatgggtctcttctggtcag---CTCAGCTCAACATTGCATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAACAGAgtaccgatgaatgtaacccgccttgaatgaagcctacagatactgacaac Alignment from Exonerate_protein2genome CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGAC---AGA acatatggtgattggcctccacccaaaaagcatgggtctcttctggtcagCTCAGCTCAACA---TTGCATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAACAGAgtaccgatgaatgtaacccgccttgaatgaagcctacagatactgacaac Alignment from Exonerate_coding2genome CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGAC---AGA acatatggtgattggcctccacccaaaaagcatgggtctcttctggtcagCTCAGCTCAACA---TTGCATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAACAGAgtaccgatgaatgtaacccgccttgaatgaagcctacagatactgacaac Alignment from GeneWise CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGACAGAGAA acatatggtgattggcctccacccaaaaagcatgggtctcttctggtcagCTCAGCTCAACA---TTGCATGTGGCAGTCAGGACTGACCATTATGAGTGCACTGAGCATCTCTTCACTAGCAAAACTGATCTCAATGCAAGGGACAACAGAgtaccgatgaatgtaacccgccttgaatgaagcctacagatactgacaac #### Atg2a_ID1515_4 --> 2 - 2 Original Alignment tgCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCGAGTGCAGag ctccaggatagaaccctcagacaaggtaatccttctgtctctgttgacagtcCTCAGGAGAACCAAGGTGACCCCTTTGAACATTGTTGTGAGGGTAGAGCAGTCATTAGGTGATGAA---GAAAGTATTGCTGTGGAAATC---------aggttctgttgctgcctactagagattcaagtgttgtttaagagcactggtg Alignment from CESAR tgCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCGAGTGCAGag ctccaggatagaaccctcagacaaggtaatccttctgtctctgttgacagtcCTCAGGAGAACCAAGGTGACCCCTTTGAACATTGTTGTGAGGGTAGAGCAGTCATTAGGTGATGAAGAA---AGTATTGCTGTGGAAATC---------aggttctgttgctgcctactagagattcaagtgttgtttaagagcactggtg Alignment from Spaln_aa2Genome TGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCG ctccaggatagaaccctcagacaaggtaatccttctgtctctgttgacagTCCTCAGGAGAACCAAGGTGACCCCTTTGAACATTGTTGTGAGGGTAGAGCAGTCATTAGGTGATGAAGAA---AGTATTGCTGTGGAAATCAGgttctgttgctgcctactagagattcaagtgttgtttaagagcactggtg Alignment from Spaln_nt2Genome TGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCG ctccaggatagaaccctcagacaaggtaatccttctgtctctgttgacagTCCTCAGGAGAACCAAGGTGACCCCTTTGAACATTGTTGTGAGGGTAGAGCAGTCATTAGGTGATGAAGA---AAGTATTGCTGTGGAAATCAGgttctgttgctgcctactagagattcaagtgttgtttaagagcactggtg Alignment from Pairagon TGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGA----------------------------------------------------GGT ctccaggatagaaccctcagacaaggtaatccttctgtctctgttgacagTCCTCAGGAGAACCAAGGTGACCCCTTTGAACATTGTTGTGAGGGTAGAGCAGTCATTAGGTGATGAAGA---AAGTATTGCTGTGGAAATCAGGTTCTGTTGCTGCCTACTAGAGATTCAAGTGTTGTTTAAGAGCACTGGTg Alignment from Exonerate_protein2genome ctccaggatagaaccctcagacaaggtaatccttctgtctctgttgacagtcctcaggagaaccaaggtgacccctttgaacattgttgtgagggtagagcagtcattaggtgatgaagaaagtattgctgtggaaatcaggttctgttgctgcctactagagattcaagtgttgtttaagagcactggtg Alignment from Exonerate_coding2genome TGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCGAGTGCAGAG ctccaggatagaaccctcagacaaggtaatccttctgtctctgttgacagTCCTCAGGAGAACCAAGGTGACCCCTTTGAACATTGTTGTGAGGGTAGAGCAGTCATTAGGTGATGAAGAA---AGTATTGCTGTGGAAATCAGGTTCTGTTGctgcctactagagattcaagtgttgtttaagagcactggtg Alignment from GeneWise TGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCGAGTG- ctccaggatagaaccctcagacaaggtaatccttctgtctctgttgacagTCCTCAGGAGAACCAAGGTGACCCCTTTGAACATTGTTGTGAGGGTAGAGCAGTCATTAGGTGATGAAGAA---AGTATTGCTGTGGAAATCAGGTTCTgttgctgcctactagagattcaagtgttgtttaagagcactggtg #### Atg2a_ID1523_12 --> 0 - 0 Original Alignment AGCCGGTCCCGGCGCTCCACTGCCTGCCATTGTCACTCAGAACTGTCCCTGGACCTGGCCGACTTCCAATCTGATGTGGAGCTGGGGTCCCTGGACCGCCTTGCTGCCTTGTTCCGTCAAGTCACCACA------------CCCTCTGAGCCACCTGCTGGCCTACTA ctgatccttccaagtaatcgtgattctggtcaactggtgcctcatttcag---------CAGCGCTCTACAGCTTGCCACTGTCACTCAGAGCTATCATTAGATTTGGCTGACTTCCAATTTGGGGTAGAA------------GATTGTCTAGCTGCATTGTTTCGTCAAGTCACCACACAACCACCATCTGCCTCTGAGCAACCTCCTGGCCTTCTAgtgagttgccccctatggggatgcaatagtgtgcattgagcttaaatgca Alignment from CESAR AGCCGGTCCCGGCGCTCCACTGCCTGCCATTGTCACTCAGAACTGTCCCTGGACCTGGCCGACTTCCAATCTGATGTGGAGCTGGGGTCCCTGGACCGCCTTGCTGCCTTGTTCCGTCAAGTCACCACA------------CCCTCTGAGCCACCTGCTGGCCTACTA ccatccatcctgatccttccaagtactggtcaactggtgcctcatttcag---------CAGCGCTCTACAGCTTGCCACTGTCACTCAGAGCTATCATTAGATTTGGCTGACTTCCAATTTGGGGTAGAA------------GATTGTCTAGCTGCATTGTTTCGTCAAGTCACCACACAACCACCATCTGCCTCTGAGCAACCTCCTGGCCTTCTAgtgagttgccccctatggggatgcaatagtgtgcattgagcttaaatgca Alignment from Spaln_aa2Genome AGCCGGTCCCGGCGCTCCACTGCCTGCCATTGTCACTCAGAACTGTCCCTGGACCTGGCCGACTTCCAATCTGATGTGGAGCTGGGGTCCCTGGACCGCCTTGCTGCCTTGTTCCGTCAAGTCACCACA------------CCCTCTGAGCCACCTGCTGGCCTACTA ctgatccttccaagtaatcgtgattctggtcaactggtgcctcatttcag---------CAGCGCTCTACAGCTTGCCACTGTCACTCAGAGCTATCATTAGATTTGGCTGACTTCCAATTTGGGGTAGAA------------GATTGTCTAGCTGCATTGTTTCGTCAAGTCACCACACAACCACCATCTGCCTCTGAGCAACCTCCTGGCCTTCTAgtgagttgccccctatggggatgcaatagtgtgcattgagcttaaatgca Alignment from Spaln_nt2Genome CGGCGCTCCACTGCCTGCCATTGTCACTCAGAACTGTCCCTGGACCTGGCCGACTTCCAATCTGATGTGGAGCTGGGGTCCCTGGACCGCCTTGCTGCCTTGTTCCGTCAAGTCACCACAC------------CCTCTGAGCCACCTGCTGGCCTACTA ctgatccttccaagtaatcgtgattctggtcaactggtgcctcatttcagCAGCGCTCTACAGCTTGCCACTGTCACTCAGAGCTATCATTAGATTTGGCTGACTTCCAATTTGGGGTAGA------------AGATTGTCTAGCTGCATTGTTTCGTCAAGTCACCACACAACCACCATCTGCCTCTGAGCAACCTCCTGGCCTTCTAgtgagttgccccctatggggatgcaatagtgtgcattgagcttaaatgca Alignment from Pairagon AGCCGGTCCCGGCGCTCCACTGCCTGCCATTGTCACTCAGAACTGTCCCTGGACCTGGCCGACTTCCAATCTGATGTGGAGCTGGGGTCCCTGGACCGCCTTGCTGCCTTGTTCCGTCAAGTCACCACAC------------CCTCTGAGCCACCTGCTGGCCTACTA ctgatccttccaagtaatcgtgattctggtcaactggtgcctcatttcag---------CAGCGCTCTACAGCTTGCCACTGTCACTCAGAGCTATCATTAGATTTGGCTGACTTCCAATTTGGGGTAGA------------AGATTGTCTAGCTGCATTGTTTCGTCAAGTCACCACACAACCACCATCTGCCTCTGAGCAACCTCCTGGCCTTCTAgtgagttgccccctatggggatgcaatagtgtgcattgagcttaaatgca Alignment from Exonerate_protein2genome GGTCCCGGCGCTCCACTGCCTGCCATTGTCACTCAGAACTGTCCCTGGACCTGGCCGACTTCCAATCTGATGTGGAGCTGGGGTCCCTGGACCGCCTTGCTGCCTTGTTCCGTCAAGTCACCACACCCTCTGAGCCACCTGCTGGCCTACTA ctgatccttccaagtaatcgtgattctggtcaactggtgcctcatTTCAGCAGCGCTCTACAGCTTGCCACTGTCACTCAGAGCTATCATTAGATTTGGCTGACTTCCAATTTGGGGTAGAAGATTGTCTAGCTGCATTGTTTCGTCAAGTCACCACACAACCACCATCTGCCTCTGAGCAACCTCCTGGCCTTCTAgtgagttgccccctatggggatgcaatagtgtgcattgagcttaaatgca Alignment from Exonerate_coding2genome GGTCCCGGCGCTCCACTGCCTGCCATTGTCACTCAGAACTGTCCCTGGACCTGGCCGACTTCCAATCTGATGTGGAGCTGGGGTCCCTGGACCGCCTTGCTGCCTTGTTCCGTCAAGTCACCACACCCTCTGAGCCACCTGCTGGCCTACTA ctgatccttccaagtaatcgtgattctggtcaactggtgcctcatTTCAGCAGCGCTCTACAGCTTGCCACTGTCACTCAGAGCTATCATTAGATTTGGCTGACTTCCAATTTGGGGTAGAAGATTGTCTAGCTGCATTGTTTCGTCAAGTCACCACACAACCACCATCTGCCTCTGAGCAACCTCCTGGCCTTCTAgtgagttgccccctatggggatgcaatagtgtgcattgagcttaaatgca Alignment from GeneWise AGCCGGTCCCGGCGCTCCACTGCCTGCCATTGTCACTCAGAACTGTCCCTGGACCTGGCCGACTTCCAATCTGATGTGGAGCTGGGGTCCCTGGACCGCCTTGCTGCCTTGTTCCGTCAAGTCACCACA------------CCCTCTGAGCCACCTGCTGGCCTACTA ctgatccttccaagtaatcgtgattctggtcaactggtgcctcatttcagCAGCGCTCT---------ACAGCTTGCCACTGTCACTCAGAGCTATCATTAGATTTGGCTGACTTCCAATTTGGGGTAGAA------------GATTGTCTAGCTGCATTGTTTCGTCAAGTCACCACACAACCACCATCTGCCTCTGAGCAACCTCCTGGCCTTCTAgtgagttgccccctatggggatgcaatagtgtgcattgagcttaaatgca #### Atg2a_ID1524_13 --> 0 - 1 Original Alignment ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCAA------------g cattccagtcctaaatcccagcctcatcttgccttccctcctctctccagATAGAACCACCTCAGGCAACTGAGCTGCAGACAGTTTTCCGTCTATCAGCACCCTGGGCTACCCTCAGACTACACTTTCCTGTCCCAGACCTGCGACCTGACCGGGACCCCTGGGCAGGCCAGACTGTTCAGGCTAGGCAGTTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCGGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAGCTTACTTGCTCAGACCTGCAGACGACTGCCCAAggtaagttctttctagaaatggatggggtggtctgcttccatcttatgtat Alignment from CESAR ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTG------------CAAg cattccagtcctaaatcccagcctcatcttgccttccctcctctctccagATAGAACCACCTCAGGCAACTGAGCTGCAGACAGTTTTCCGTCTATCAGCACCCTGGGCTACCCTCAGACTACACTTTCCTGTCCCAGACCTGCGACCTGACCGGGACCCCTGGGCAGGCCAGACTGTTCAGGCTAGGCAGTTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCGGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAGCTTACTTGCTCAGACCTGCAGACGACTGCCCAAggtaagttctttctagaaatggatggggtggtctgcttccatcttatgtat Alignment from Spaln_aa2Genome ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCAA------------G cattccagtcctaaatcccagcctcatcttgccttccctcctctctccagATAGAACCACCTCAGGCAACTGAGCTGCAGACAGTTTTCCGTCTATCAGCACCCTGGGCTACCCTCAGACTACACTTTCCTGTCCCAGACCTGCGACCTGACCGGGACCCCTGGGCAGGCCAGACTGTTCAGGCTAGGCAGTTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCGGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAGCTTACTTGCTCAGACCTGCAGACGACTGCCCAAGgtaagttctttctagaaatggatggggtggtctgcttccatcttatgtat Alignment from Spaln_nt2Genome ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCA------------AG cattccagtcctaaatcccagcctcatcttgccttccctcctctctccagATAGAACCACCTCAGGCAACTGAGCTGCAGACAGTTTTCCGTCTATCAGCACCCTGGGCTACCCTCAGACTACACTTTCCTGTCCCAGACCTGCGACCTGACCGGGACCCCTGGGCAGGCCAGACTGTTCAGGCTAGGCAGTTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCGGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAGCTTACTTGCTCAGACCTGCAGACGACTGCCCAAGgtaagttctttctagaaatggatggggtggtctgcttccatcttatgtat Alignment from Pairagon ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTG------------CAAG cattccagtcctaaatcccagcctcatcttgccttccctcctctctccagATAGAACCACCTCAGGCAACTGAGCTGCAGACAGTTTTCCGTCTATCAGCACCCTGGGCTACCCTCAGACTACACTTTCCTGTCCCAGACCTGCGACCTGACCGGGACCCCTGGGCAGGCCAGACTGTTCAGGCTAGGCAGTTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCGGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAGCTTACTTGCTCAGACCTGCAGACGACTGCCCAAGgtaagttctttctagaaatggatggggtggtctgcttccatcttatgtat Alignment from Exonerate_protein2genome ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCAA cattccagtcctaaatcccagcctcatcttgccttccctcctctctccagATAGAACCACCTCAGGCAACTGAGCTGCAGACAGTTTTCCGTCTATCAGCACCCTGGGCTACCCTCAGACTACACTTTCCTGTCCCAGACCTGCGACCTGACCGGGACCCCTGGGCAGGCCAGACTGTTCAGGCTAGGCAGTTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCGGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAGCTTACTTGCTCAGACCTGCAGacgactgcccaaggtaagttctttctagaaatggatggggtggtctgcttccatcttatgtat Alignment from Exonerate_coding2genome ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCAA cattccagtcctaaatcccagcctcatcttgccttccctcctctctccagATAGAACCACCTCAGGCAACTGAGCTGCAGACAGTTTTCCGTCTATCAGCACCCTGGGCTACCCTCAGACTACACTTTCCTGTCCCAGACCTGCGACCTGACCGGGACCCCTGGGCAGGCCAGACTGTTCAGGCTAGGCAGTTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCGGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAGCTTACTTGCTCAGACCTGCAGacgactgcccaaggtaagttctttctagaaatggatggggtggtctgcttccatcttatgtat Alignment from GeneWise ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCAA------------G cattccagtcctaaatcccagcctcatcttgccttccctcctctctccagATAGAACCACCTCAGGCAACTGAGCTGCAGACAGTTTTCCGTCTATCAGCACCCTGGGCTACCCTCAGACTACACTTTCCTGTCCCAGACCTGCGACCTGACCGGGACCCCTGGGCAGGCCAGACTGTTCAGGCTAGGCAGTTGCAACTTGAGTTGAGTGAACCTCAGTTCTGTTCGGAGCTAAATAGTGGGCCTGGCCCCCCAGCACCAACATGTTTGGAGCTTACTTGCTCAGACCTGCAGACGACTGCCCAAGgtaagttctttctagaaatggatggggtggtctgcttccatcttatgtat #### Atg2a_ID1526_15 --> 1 - 0 Original Alignment gGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA tgcagaaggctaaacctctcagggcagctcactgaaccccacctccacaggGTGGTGGTGACTCTGAATCCC---CCTAGTAGCACCCAACGGGAGACAGCTCACAAGAAAGGTCAGGATTTAGAACTTTCCACGGAGAGCCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAGTCTGAG---gtgagtagttgactttcccacactgcccattggggataacatggctgtaa Alignment from CESAR gGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA tgcagaaggctaaacctctcagggcagctcactgaaccccacctccacaggGTGGTGGTGACTCTGAATCCC---CCTAGTAGCACCCAACGGGAGACAGCTCACAAGAAAGGTCAGGATTTAGAACTTTCCACGGAGAGCCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAGTCTGAG---gtgagtagttgactttcccacactgcccattggggataacatggctg Alignment from Spaln_aa2Genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAG tgcagaaggctaaacctctcagggcagctcactgaaccccacctccacagGGTGGTGGTGACTCTGAATCCCCCTAGTAGC---ACCCAACGGGAGACAGCTCACAAGAAAGGTCAGGATTTAGAACTTTCCACGGAGAGCCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAGTCTGAGgtgagtagttgactttcccacactgcccattggggataacatggctgtaa Alignment from Spaln_nt2Genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAG tgcagaaggctaaacctctcagggcagctcactgaaccccacctccacagGGTGGTGGTGACTCTGAATCCCC---CTAGTAGCACCCAACGGGAGACAGCTCACAAGAAAGGTCAGGATTTAGAACTTTCCACGGAGAGCCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAGTCTGAGgtgagtagttgactttcccacactgcccattggggataacatggctgtaa Alignment from Pairagon GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAG tgcagaaggctaaacctctcagggcagctcactgaaccccacctccacagGGTGGTGGTGACTCTGAATCCCC---CTAGTAGCACCCAACGGGAGACAGCTCACAAGAAAGGTCAGGATTTAGAACTTTCCACGGAGAGCCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAGTCTGAGgtgagtagttgactttcccacactgcccattggggataacatggctgtaa Alignment from Exonerate_protein2genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAG tgcagaaggctaaacctctcagggcagctcactgaaccccacctccacagGGTGGTGGTGACTCTGAATCCCCCTAGTAGC---ACCCAACGGGAGACAGCTCACAAGAAAGGTCAGGATTTAGAACTTTCCACGGAGAGCCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAGTCTGAGgtgagtagttgactttcccacactgcccattggggataacatggctgtaa Alignment from Exonerate_coding2genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAG tgcagaaggctaaacctctcagggcagctcactgaaccccacctccacagGGTGGTGGTGACTCTGAATCCCCCTAGTAGC---ACCCAACGGGAGACAGCTCACAAGAAAGGTCAGGATTTAGAACTTTCCACGGAGAGCCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAGTCTGAGgtgagtagttgactttcccacactgcccattggggataacatggctgtaa Alignment from GeneWise GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA tgcagaaggctaaacctctcagggcagctcactgaaccccacctccacagGGTGGTGGTGACTCTGAATCCCCCTAGTAGC---ACCCAACGGGAGACAGCTCACAAGAAAGGTCAGGATTTAGAACTTTCCACGGAGAGCCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAGTCT---GAGgtgagtagttgactttcccacactgcccattggggataacatggctgtaa #### Atg2a_ID1530_19 --> 0 - 1 Original Alignment GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAg cctagtccctaatcactaatcataacaagtgtgtaaacttctttgtgcagGACAAGACAGGGGAGCGGCTGGATGTCACCCATGGGGGACTGGCTCTAGATGTGAAGCAGGGTACAATCTTCAGTGTCGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTTTGCCTGGCAGCTGAGAAGGCTAAACTCTAT------ggtgaggtcaaataagtcacatctctgaggcacgagttttctctgtactgt Alignment from CESAR GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAg cctagtccctaatcactaatcataacaagtgtgtaaacttctttgtgcagGACAAGACAGGGGAGCGGCTGGATGTCACCCATGGGGGACTGGCTCTAGATGTGAAGCAGGGTACAATCTTCAGTGTCGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTTTGCCTGGCAGCTGAGAAGGCTAAACTCTAT------ggtgaggtcaaataagtcacatctctgaggcaccaaatcctcttctgtctc Alignment from Spaln_aa2Genome GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTAC- cctagtccctaatcactaatcataacaagtgtgtaaacttctttgtgcagGACAAGACAGGGGAGCGGCTGGATGTCACCCATGGGGGACTGGCTCTAGATGTGAAGCAGGGTACAATCTTCAGTGTCGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTTTGCCTGGCAGCTGAGAAGGCTAAACTCTATGgtgaggtcaaataagtcacatctctgaggcacgagttttctctgtactgt Alignment from Spaln_nt2Genome GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAG cctagtccctaatcactaatcataacaagtgtgtaaacttctttgtgcagGACAAGACAGGGGAGCGGCTGGATGTCACCCATGGGGGACTGGCTCTAGATGTGAAGCAGGGTACAATCTTCAGTGTCGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTTTGCCTGGCAGCTGAGAAGGCTAAACTCTATGGT-GAGgtcaaataagtcacatctctgaggcacgagttttctctgtactg Alignment from Pairagon GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTA---------------------------------------------------- cctagtccctaatcactaatcataacaagtgtgtaaacttctttgtgcagGACAAGACAGGGGAGCGGCTGGATGTCACCCATGGGGGACTGGCTCTAGATGTGAAGCAGGGTACAATCTTCAGTGTCGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTTTGCCTGGCAGCTGAGAAGGCTAAACTCTATGGTGAGGTCAAATAAGTCACATCTCTGAGGCACGAGTTTTCTCTGTACTGT Alignment from Exonerate_protein2genome GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAG cctagtccctaatcactaatcataacaagtgtgtaaacttctttgtgcagGACAAGACAGGGGAGCGGCTGGATGTCACCCATGGGGGACTGGCTCTAGATGTGAAGCAGGGTACAATCTTCAGTGTCGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTTTGCCTGGCAGCTGAGAAGGCTAAACTCTATGGTGAGGtcaaataagtcacatctctgaggcacgagttttctctgtactgt Alignment from Exonerate_coding2genome GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAG cctagtccctaatcactaatcataacaagtgtgtaaacttctttgtgcagGACAAGACAGGGGAGCGGCTGGATGTCACCCATGGGGGACTGGCTCTAGATGTGAAGCAGGGTACAATCTTCAGTGTCGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTTTGCCTGGCAGCTGAGAAGGCTAAACTCTATGGTGAGGtcaaataagtcacatctctgaggcacgagttttctctgtactgt Alignment from GeneWise GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACC cctagtccctaatcactaatcataacaagtgtgtaaacttctttgtgcagGACAAGACAGGGGAGCGGCTGGATGTCACCCATGGGGGACTGGCTCTAGATGTGAAGCAGGGTACAATCTTCAGTGTCGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTTTGCCTGGCAGCTGAGAAGGCTAAACTCTATGgtgaggtcaaataagtcacatctctgaggcacgagttttctctgtactgt #### Atg2a_ID1533_22 --> 0 - 2 Original Alignment CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTCCTGCGCTGTGGACTACag aaatgatcactctgatcttgctccacacacccgtcctctggcttccttagCTTCTAGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGTTACTTGCCACCAACCATCATTACTGTGCTGCACACACATCTCTTTTCCTGTGCTGTAGAG---aggtaagcagggtggattgcaggtacatggactttaggcaagtctatagtga Alignment from CESAR CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTCCTGCGCTGTGGACTACag aaatgatcactctgatcttgctccacacacccgtcctctggcttccttagCTTCTAGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGTTACTTGCCACCAACCATCATTACTGTGCTGCACACACATCTCTTTTCCTGTGCTGTAGAG---aggtaagcagggtggattgcaggtacatggactttaggcaagtcgacctctt Alignment from Spaln_aa2Genome CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTCCTGCGCTGTGGACTA aaatgatcactctgatcttgctccacacacccgtcctctggcttccttagCTTCTAGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGTTACTTGCCACCAACCATCATTACTGTGCTGCACACACATCTCTTTTCCTGTGCTGTAGAGAGgtaagcagggtggattgcaggtacatggactttaggcaagtctatagtga Alignment from Spaln_nt2Genome CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTCCTGCGCTGTGGACTACAG aaatgatcactctgatcttgctccacacacccgtcctctggcttccttagCTTCTAGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGTTACTTGCCACCAACCATCATTACTGTGCTGCACACACATCTCTTTTCCTGTGCTGTAG---AGAGgtaagcagggtggattgcaggtacatggactttaggcaagtctatagtga Alignment from Pairagon CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTCCTGCGCTGTGGA----------------------------------------------------- aaatgatcactctgatcttgctccacacacccgtcctctggcttccttagCTTCTAGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGTTACTTGCCACCAACCATCATTACTGTGCTGCACACACATCTCTTTTCCTGTGCTGTAGAGAGGTAAGCAGGGTGGATTGCAGGTACATGGACTTTAGGCAAGTCTATAGTGA Alignment from Exonerate_protein2genome CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTCCTGCGCTGTGGACTACAG aaatgatcactctgatcttgctccacacacccgtcctctggcttccttagCTTCTAGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGTTACTTGCCACCAACCATCATTACTGTGCTGCACACACATCTCTTTTCCTGTGCTGTAGAG---AGgtaagcagggtggattgcaggtacatggactttaggcaagtctatagtga Alignment from Exonerate_coding2genome CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTCCTGCGCTGTGGACTACAG aaatgatcactctgatcttgctccacacacccgtcctctggcttccttagCTTCTAGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGTTACTTGCCACCAACCATCATTACTGTGCTGCACACACATCTCTTTTCCTGTGCTGTAGAG---AGgtaagcagggtggattgcaggtacatggactttaggcaagtctatagtga Alignment from GeneWise CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTCCTGCGCTGTGGACTA aaatgatcactctgatcttgctccacacacccgtcctctggcttccttagCTTCTAGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGTTACTTGCCACCAACCATCATTACTGTGCTGCACACACATCTCTTTTCCTGTGCTGTAGAGAGgtaagcagggtggattgcaggtacatggactttaggcaagtctatagtga #### Atg2a_ID1536_25 --> 2 - 0 Original Alignment atTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG tgttatcaggacctggaagggcagtgcatttgtgtgtgtgtgttttgtagacTATGTCTGTGTTCTGGATATT---GTACTGGAGCTTGTTATCAGGGCCTGGAAGGGCAGTACTGAAGGC------gtgagacgttgaatggaaccagaaaaagacgcagtttggggtgtcagtaa Alignment from CESAR atTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG tgttatcaggacctggaagggcagtgcatttgtgtgtgtgtgttttgtagacTATGTCTGTGTTCTGGATATT---GTACTGGAGCTTGTTATCAGGGCCTGGAAGGGCAGTACTGAAGGC------gtgagacgttgaatggaaccagaaaaagacgcagtttggggtgt Alignment from Spaln_aa2Genome ATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGC tgttatcaggacctggaagggcagtgcatttgtgtgtgtgtgttttgtagACTATGTCTGTGTTCTGGATATT---GTACTGGAGCTTGTTATCAGGGCCTGGAAGGGCAGTACTGAAGGCgtgagacgttgaatggaaccagaaaaagacgcagtttggggtgtcagtaa Alignment from Spaln_nt2Genome ATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGC tgttatcaggacctggaagggcagtgcatttgtgtgtgtgtgttttgtagACTATGTCTGTGTTCTGGATATTG---TACTGGAGCTTGTTATCAGGGCCTGGAAGGGCAGTACTGAAGGCgtgagacgttgaatggaaccagaaaaagacgcagtttggggtgtcagtaa Alignment from Pairagon ATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGC tgttatcaggacctggaagggcagtgcatttgtgtgtgtgtgttttgtagACTATGTCTGTGTTCTGGATATTG---TACTGGAGCTTGTTATCAGGGCCTGGAAGGGCAGTACTGAAGGCgtgagacgttgaatggaaccagaaaaagacgcagtttggggtgtcagtaa Alignment from Exonerate_protein2genome ATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGC tgttatcaggacctggaagggcagtgcatttgtgtgtgtgtgttttgtagACTATGTCTGTGTTCTGGATATT---GTACTGGAGCTTGTTATCAGGGCCTGGAAGGGCAGTACTGAAGGCgtgagacgttgaatggaaccagaaaaagacgcagtttggggtgtcagtaa Alignment from Exonerate_coding2genome CCTGTCTGACAAGTGTGAGGTGGAGAGCCTGGATCTGCGGCGAGATTATGTCTGTGTCCTGGATATTGACCTC---CTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGC TGTTATCAGGACCTGGAAGGGCAGTGCATTTGTGTGTGTGTGTTTTGTAGACTATGTCTGTGTTCTGGATATTGTACTGGAGCTTGTTATCAGGGCCTGGAAGGGCAGTACTGAAGGCgtgagacgttgaatggaaccagaaaaagacgcagtttggggtgtcagtaa Alignment from GeneWise ATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGC tgttatcaggacctggaagggcagtgcatttgtgtgtgtgtgttttgtagACTATGTCTGTGTTCTGGATATT---GTACTGGAGCTTGTTATCAGGGCCTGGAAGGGCAGTACTGAAGGCgtgagacgttgaatggaaccagaaaaagacgcagtttggggtgtcagtaa #### Atg2a_ID1539_28 --> 2 - 0 Original Alignment gtGGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG cagaaactgagagccagactttatactgtgatttcccttttccctgacaggtGGCACACTTACTCAGTCTTCCCCTAACTCAGCCTAT---TTCCCAGGTGGGCAGAGTGGTGTGCAGGCACCTTCACATCCTCCTGGTGCCTCCTCTCATACCTTGGGT---AAGGCAAGGGAGCATGAA------GAGGAAGGTGATGGAGACAGTCTGGATAGTGATGAATTCTGCATCCTCGATGCCCCTGGCATAGGT------gtgtgtaaagcttgggaatggagtgtttggtaagaactactgctttcatt Alignment from CESAR gtGGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG cagaaactgagagccagactttatactgtgatttcccttttccctgacaggtGGCACACTTACTCAGTCTTCCCCTAACTCAGCCTAT---TTCCCAGGTGGGCAGAGTGGTGTGCAGGCACCTTCACATCCTCCTGGTGCCTCCTCTCATACCTTGGGT---AAGGCAAGGGAGCAT------GAAGAGGAAGGTGATGGAGACAGTCTGGATAGTGATGAATTCTGCATCCTCGATGCCCCTGGCATAGGT------gtgtgtaaagcttgggaatggagtgtttggtaagaactactgct Alignment from Spaln_aa2Genome GTGGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG--- cagaaactgagagccagactttatactgtgatttcccttttccctgacagGTGGCACACTTACTCAGTCTTCCCCTAACTCAGCCTAT---TTCCCAGGTGGGCAGAGTGGTGTGCAGGCACCTTCACATCCTCCTGGTGCCTCCTCTCATACCTTGGGT---AAGGCAAGGGAGCAT------GAAGAGGAAGGTGATGGAGACAGTCTGGATAGTGATGAATTCTGCATCCTCGATGCCCCTGGCATAGGTGTGTGTAAAgcttgggaatggagtgtttggtaagaactactgctttcatt Alignment from Spaln_nt2Genome GTGGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCAT-T cagaaactgagagccagactttatactgtgatttcccttttccctgacagGTGGCACACTTACTCAGTCTTCCCCTAACTCAGCCTAT---TTCCCAGGTGGGCAGAGTGGTGTGCAGGCACCTTCACATCCTCCTGGTGCCTCCTCTCATACCTTGGG---TAAGGCAAGGGAGCAT------GAAGAGGAAGGTGATGGAGACAGTCTGGATAGTGATGAATTCTGCATCCTCGATGCCCCTGGCATAGGTGTGTgtaaagcttgggaatggagtgtttggtaagaactactgctttcatt Alignment from Pairagon GTGGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAG cagaaactgagagccagactttatactgtgatttcccttttccctgacagGTGGCACACTTACTCAGTCTTCCCCTAACTCAGCCTAT---TTCCCAGGTGGGCAGAGTGGTGTGCAGGCACCTTCACATCCTCCTGGTGCCTCCTCTCATACCTTGGG---TAAGGCAAGGGAGCAT------GAAGAGGAAGGTGATGGAGACAGTCTGGATAGTGATGAATTCTGCATCCTCGATGCCCCTGGCATAGgtgtgtgtaaagcttgggaatggagtgtttggtaagaactactgctttcatt Alignment from Exonerate_protein2genome GTGGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAG cagaaactgagagccagactttatactgtgatttcccttttccctgacagGTGGCACACTTACTCAGTCTTCCCCTAACTCAGCCTAT---TTCCCAGGTGGGCAGAGTGGTGTGCAGGCACCTTCACATCCTCCTGGTGCCTCCTCTCATACCTTGGGT---AAGGCAAGGGAGCAT------GAAGAGGAAGGTGATGGAGACAGTCTGGATAGTGATGAATTCTGCATCCTCGATGCCCCTGGCATAGgtgtgtgtaaagcttgggaatggagtgtttggtaagaactactgctttcatt Alignment from Exonerate_coding2genome GTGGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAG cagaaactgagagccagactttatactgtgatttcccttttccctgacagGTGGCACACTTACTCAGTCTTCCCCTAACTCAGCCTAT---TTCCCAGGTGGGCAGAGTGGTGTGCAGGCACCTTCACATCCTCCTGGTGCCTCCTCTCATACCTTGGGT---AAGGCAAGGGAGCAT------GAAGAGGAAGGTGATGGAGACAGTCTGGATAGTGATGAATTCTGCATCCTCGATGCCCCTGGCATAGgtgtgtgtaaagcttgggaatggagtgtttggtaagaactactgctttcatt Alignment from GeneWise GTGGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG------------------ cagaaactgagagccagactttatactgtgatttcccttttccctgacagGTGGCACACTTACTCAGTCTTCCCCTAACTCAGCCTAT---TTCCCAGGTGGGCAGAGTGGTGTGCAGGCACCTTCACATCCTCCTGGTGCCTCCTCTCATACCTTGGGT---AAGGCAAGGGAGCATGAA------GAGGAAGGTGATGGAGACAGTCTGGATAGTGATGAATTCTGCATCCTCGATGCCCCTGGCATAGGTGTGTGTAAAGCTTGGGAATGGAGTgtttggtaagaactactgctttcatt #### Atg2a_ID1544_33 --> 0 - 1 Original Alignment GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAG---g aatacgctctcctccacagccttaggtctgttttccttgttggtctttagGATGCCCTCTTTTTCCTAGAAGATTTTTTTACCAGCATAGCAGCTAGCACTAATCCAATGGTTCCGGGTGATACCCCTGAGATAggtaagtcattttgtagatgagtactctgttccactgctacaattcctctg Alignment from CESAR GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAG---g aatacgctctcctccacagccttaggtctgttttccttgttggtctttagGATGCCCTCTTTTTCCTAGAAGATTTTTTTACCAGCATAGCAGCTAGCACTAATCCAATGGTTCCGGGTGATACCCCTGAGATAggtaagtcattttgtagatgagtactctgttccactgctacaattcctctg Alignment from Spaln_aa2Genome GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAG---G aatacgctctcctccacagccttaggtctgttttccttgttggtctttagGATGCCCTCTTTTTCCTAGAAGATTTTTTTACCAGCATAGCAGCTAGCACTAATCCAATGGTTCCGGGTGATACCCCTGAGATAGgtaagtcattttgtagatgagtactctgttccactgctacaattcctctg Alignment from Spaln_nt2Genome GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAG---G aatacgctctcctccacagccttaggtctgttttccttgttggtctttagGATGCCCTCTTTTTCCTAGAAGATTTTTTTACCAGCATAGCAGCTAGCACTAATCCAATGGTTCCGGGTGATACCCCTGAGATAGgtaagtcattttgtagatgagtactctgttccactgctacaattcctctg Alignment from Pairagon GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAG------------------------------------------------------ aatacgctctcctccacagccttaggtctgttttccttgttggtctttagGATGCCCTCTTTTTCCTAGAAGATTTTTTTACCAGCATAGCAGCTAGCACTAATCCAATGGTTCCGGGTGATACCCCTGAGATAGGTAAGTCATTTTGTAGATGAGTACTCTGTTCCACTGCTACAATTCCTCTG Alignment from Exonerate_protein2genome GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAG---G aatacgctctcctccacagccttaggtctgttttccttgttggtctttagGATGCCCTCTTTTTCCTAGAAGATTTTTTTACCAGCATAGCAGCTAGCACTAATCCAATGGTTCCGGGTGATACCCCTGAGATAGgtaagtcattttgtagatgagtactctgttccactgctacaattcctctg Alignment from Exonerate_coding2genome GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAG---G aatacgctctcctccacagccttaggtctgttttccttgttggtctttagGATGCCCTCTTTTTCCTAGAAGATTTTTTTACCAGCATAGCAGCTAGCACTAATCCAATGGTTCCGGGTGATACCCCTGAGATAGgtaagtcattttgtagatgagtactctgttccactgctacaattcctctg Alignment from GeneWise GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAGGCT- aatacgctctcctccacagccttaggtctgttttccttgttggtctttagGATGCCCTCTTTTTCCTAGAAGATTTTTTTACCAGCATAGCAGCTAGCACTAATCCAATGGTTCCGGGTGATACCCCTGAGATAGgtaagtcattttgtagatgagtactctgttccactgctacaattcctctg #### Atg2a_ID1545_34 --> 2 - 2 Original Alignment ctCCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCT------GACCAGCAGCCTATCTACTTC---ag acaattcctctgtgctaatcttaaacactgttactcgtgttatttttcagccCCTCAGGAGACCCACAGTTGGCCAGATAGCCCCCAAGGAGGACAGTCTGAGGACACAGAGACAGCGAGTAACCCCCTGGAATCTCCGGGAAGTAGCCACAGTTCTTCTGACCAAGACCAACAGCCTGTCTACTCAGTCaggtgagtgaaaggggcattggggcaggatgaccacaaacctggtcagaagg Alignment from CESAR ctCCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCT------GACCAGCAGCCTATCTAC---TTCag acaattcctctgtgctaatcttaaacactgttactcgtgttatttttcagccCCTCAGGAGACCCACAGTTGGCCAGATAGCCCCCAAGGAGGACAGTCTGAGGACACAGAGACAGCGAGTAACCCCCTGGAATCTCCGGGAAGTAGCCACAGTTCTTCTGACCAAGACCAACAGCCTGTCTACTCAGTCaggtgagtgaaaggggcattggggcaggatgaccacaaacctggtcagaagg Alignment from Spaln_aa2Genome CTCCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCT------GACCAGCAGCCTATCTAC---TTCAG acaattcctctgtgctaatcttaaacactgttactcgtgttatttttcagCCCCTCAGGAGACCCACAGTTGGCCAGATAGCCCCCAAGGAGGACAGTCTGAGGACACAGAGACAGCGAGTAACCCCCTGGAATCTCCGGGAAGTAGCCACAGTTCTTCTGACCAAGACCAACAGCCTGTCTACTCAGTCAGgtgagtgaaaggggcattggggcaggatgaccacaaacctggtcagaagg Alignment from Spaln_nt2Genome CTCCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCTGACCAG------CAGCCTATCTACT---TCAG acaattcctctgtgctaatcttaaacactgttactcgtgttatttttcagCCCCTCAGGAGACCCACAGTTGGCCAGATAGCCCCCAAGGAGGACAGTCTGAGGACACAGAGACAGCGAGTAACCCCCTGGAATCTCCGGGAAGTAGCCACAGTTCTTCTGACCAAGACCAACAGCCTGTCTACTCAGTCAGgtgagtgaaaggggcattggggcaggatgaccacaaacctggtcagaagg Alignment from Pairagon CTCCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCT------GACCAGCAGCCTATCTACT---TCAG acaattcctctgtgctaatcttaaacactgttactcgtgttatttttcagCCCCTCAGGAGACCCACAGTTGGCCAGATAGCCCCCAAGGAGGACAGTCTGAGGACACAGAGACAGCGAGTAACCCCCTGGAATCTCCGGGAAGTAGCCACAGTTCTTCTGACCAAGACCAACAGCCTGTCTACTCAGTCAGgtgagtgaaaggggcattggggcaggatgaccacaaacctggtcagaagg Alignment from Exonerate_protein2genome CTCCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCT------GACCAGCAGCCTATCTAC---TTCAG acaattcctctgtgctaatcttaaacactgttactcgtgttatttttcagCCCCTCAGGAGACCCACAGTTGGCCAGATAGCCCCCAAGGAGGACAGTCTGAGGACACAGAGACAGCGAGTAACCCCCTGGAATCTCCGGGAAGTAGCCACAGTTCTTCTGACCAAGACCAACAGCCTGTCTACTCAGTCAGgtgagtgaaaggggcattggggcaggatgaccacaaacctggtcagaagg Alignment from Exonerate_coding2genome CTCCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCT------GACCAGCAGCCTATCTAC---TTCAG acaattcctctgtgctaatcttaaacactgttactcgtgttatttttcagCCCCTCAGGAGACCCACAGTTGGCCAGATAGCCCCCAAGGAGGACAGTCTGAGGACACAGAGACAGCGAGTAACCCCCTGGAATCTCCGGGAAGTAGCCACAGTTCTTCTGACCAAGACCAACAGCCTGTCTACTCAGTCAGgtgagtgaaaggggcattggggcaggatgaccacaaacctggtcagaagg Alignment from GeneWise CTCCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCT------GACCAGCAGCCTATCTACTTC acaattcctctgtgctaatcttaaacactgttactcgtgttatttttcagCCCCTCAGGAGACCCACAGTTGGCCAGATAGCCCCCAAGGAGGACAGTCTGAGGACACAGAGACAGCGAGTAACCCCCTGGAATCTCCGGGAAGTAGCCACAGTTCTTCTGACCAAGACCAACAGCCTGTCTACTCAgtcaggtgagtgaaaggggcattggggcaggatgaccacaaacctggtcagaagg #### B3gat3_ID2492_4 --> 0 - 0 Original Alignment ------ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG ttagtctcttcagaccaaccttctcgactaagttttaacatgtgtcgcagATTGACATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGTCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTTCTAAGTCACCTCGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtgagtggacagttagcagatcagaggaaaggggggattgtgggctaagc Alignment from CESAR ------ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG ttagtctcttcagaccaaccttctcgactaagttttaacatgtgtcgcagATTGACATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGTCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTTCTAAGTCACCTCGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtgagtggacagttagcagatcagaggaaaggggggattgtgggctaagc Alignment from Spaln_aa2Genome GAGATGCGTTGG---ACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG ttagtctcttcagaccaaccttctcgactaagttttaacatgtgtcgcagATTGACATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGTCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTTCTAAGTCACCTCGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtgagtggacagttagcagatcagaggaaaggggggattgtgggctaagc Alignment from Spaln_nt2Genome GAGATGCGTTGGACT---CGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG ttagtctcttcagaccaaccttctcgactaagttttaacatgtgtcgcagATTGACATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGTCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTTCTAAGTCACCTCGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtgagtggacagttagcagatcagaggaaaggggggattgtgggctaagc Alignment from Pairagon ------ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG ttagtctcttcagaccaaccttctcgactaagttttaacatgtgtcgcagATTGACATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGTCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTTCTAAGTCACCTCGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtgagtggacagttagcagatcagaggaaaggggggattgtgggctaagc Alignment from Exonerate_protein2genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG ttagtctcttcagaccaaccttctcgactaagttttaacatgtgtcgcagattgacATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGTCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTTCTAAGTCACCTCGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtgagtggacagttagcagatcagaggaaaggggggattgtgggctaagc Alignment from Exonerate_coding2genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG ttagtctcttcagaccaaccttctcgactaagttttaacatgtgtcgcagattgacATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGTCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTTCTAAGTCACCTCGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtgagtggacagttagcagatcagaggaaaggggggattgtgggctaagc Alignment from GeneWise ------ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG ttagtctcttcagaccaaccttctcgactaagttttaacatgtgtcgcagATTGACATGCGCTGGACTCGTGGTGTCTCCGTGTGGCCTGTTGGTCTGGTGGGTGGCCTACGATTTGAAGGTCCCCAAGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCAGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAACCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTTCTAAGTCACCTCGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgtgagtggacagttagcagatcagaggaaaggggggattgtgggctaagc #### Bbs1_ID728_6 --> 1 - 2 Original Alignment gGAAAAGGCAGACGTGCCTTTGTCTGTGCAGTCACTCag ttggtggccctcttcccgtcgttccttgataagatcatttgtctttttaggGAAAAGGCAGATTTACCCTTG---------------aggttagtatttattgcagaatacataattggaaagagggtgggtcagtgtc Alignment from CESAR gGAAAAGGCAGACGTGCCTTTGTCTGTGCAGTCACTCag ttggtggccctcttcccgtcgttccttgataagatcatttgtctttttaggGAAAAGGCAGATTTACCCTTG---------------aggttagtatttattgcagaatacataattggaaagagggtgggtcagtgtc Alignment from Spaln_aa2Genome GGAAAAGGCAGACGTGCCTTTGTC ttggtggccctcttcccgtcgttccttgataagatcatttgtctttttagGGAAAAGGCAGATTTACCCTTGAGgttagtatttattgcagaatacataattggaaagagggtgggtcagtgtc Alignment from Spaln_nt2Genome GGAAAAGGCAGACGTGCCTTTGTC ttggtggccctcttcccgtcgttccttgataagatcatttgtctttttagGGAAAAGGCAGATTTACCCTTGAGgttagtatttattgcagaatacataattggaaagagggtgggtcagtgtc Alignment from Pairagon GGAAAAGGCAGACGTGCCTTTGTCTGTGCAGTCACTCAG ttggtggccctcttcccgtcgttccttgataagatcatttgtctttttagGGAAAAGGCAGATTTACCCTTG---------------AGgttagtatttattgcagaatacataattggaaagagggtgggtcagtgtc Alignment from Exonerate_protein2genome GGAAAAGGCAGACGTGCCTTTGTCTGTGCAGTCACTC ttggtggccctcttcccgtcgttccttgataagatcatttgtctttttagGGAAAAGGCAGATTTACCCTTGAGGTTAGTATTTATTgcagaatacataattggaaagagggtgggtcagtgtc Alignment from Exonerate_coding2genome ttggtggccctcttcccgtcgttccttgataagatcatttgtctttttagggaaaaggcagatttacccttgaggttagtatttattgcagaatacataattggaaagagggtgggtcagtgtc Alignment from GeneWise ttggtggccctcttcccgtcgttccttgataagatcatttgtctttttagggaaaaggcagatttacccttgaggttagtatttattgcagaatacataattggaaagagggtgggtcagtgtc #### Bbs1_ID732_2 --> 1 - 1 Original Alignment cAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTC---TCCTCCTGCCTGt cataccttttacatctatctccccttcaacaccccatcccctttccttaggAATGAGGTAAATTCCAAATGGCTGGATGCGCACTATGACCCTATGGCTAACATCCATACTTTCTCCTCTTCCTGT---tgtgaggtgtccccatgacttacttgcagcaccaggatacaatgagaagac Alignment from CESAR cAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGt cataccttttacatctatctccccttcaacaccccatcccctttccttaggAATGAGGTAAATTCCAAATGGCTGGATGCGCACTATGACCCTATGGCTAACATCCATACTTTCTCCTCTTCCTGTtgtgaggtgtccccatgacttacttgcagcaccaggatacaatgatggttc Alignment from Spaln_aa2Genome CAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGT cataccttttacatctatctccccttcaacaccccatcccctttccttagGAATGAGGTAAATTCCAAATGGCTGGATGCGCACTATGACCCTATGGCTAACATCCATACTTTCTCCTCTTCCTGTTgtgaggtgtccccatgacttacttgcagcaccaggatacaatgagaagac Alignment from Spaln_nt2Genome CAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGT cataccttttacatctatctccccttcaacaccccatcccctttccttagGAATGAGGTAAATTCCAAATGGCTGGATGCGCACTATGACCCTATGGCTAACATCCATACTTTCTCCTCTTCCTGTTgtgaggtgtccccatgacttacttgcagcaccaggatacaatgagaagac Alignment from Pairagon CAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGT cataccttttacatctatctccccttcaacaccccatcccctttccttagGAATGAGGTAAATTCCAAATGGCTGGATGCGCACTATGACCCTATGGCTAACATCCATACTTTCTCCTCTTCCTGTTgtgaggtgtccccatgacttacttgcagcaccaggatacaatgagaagac Alignment from Exonerate_protein2genome CAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGT cataccttttacatctatctccccttcaacaccccatcccctttccttagGAATGAGGTAAATTCCAAATGGCTGGATGCGCACTATGACCCTATGGCTAACATCCATACTTTCTCCTCTTCCTGTTgtgaggtgtccccatgacttacttgcagcaccaggatacaatgagaagac Alignment from Exonerate_coding2genome cataccttttacatctatctccccttcaacaccccatcccctttccttaggaatgaggtaaattccaaatggctggatgcgcactatgaccctatggctaacatccatactttctcctcttcctgttgtgaggtgtccccatgacttacttgcagcaccaggatacaatgagaagac Alignment from GeneWise AACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGT cataccttttacatctatctccccttcaacaccccatcccctttccttaggAATGAGGTAAATTCCAAATGGCTGGATGCGCACTATGACCCTATGGCTAACATCCATACTTTCTCCTCTTCCTGTTgtgaggtgtccccatgacttacttgcagcaccaggatacaatgagaagac #### Bscl2_ID2424_7 --> 1 - 0 Original Alignment gTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG taactctaacaaccgtgtgcttttatcattaaatgtttgtttccttatagg------CTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaagtgttcttgggctcgttttctctcactagactagggaaccaatttc Alignment from CESAR gTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctaacaaccgtgtgtcattaaatgtttgtttccttatagg------CTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaagtgttcttgggctcgttttctctcactagactagggaaccaatttc Alignment from Spaln_aa2Genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG taactctaacaaccgtgtgcttttatcattaaatgtttgtttccttatagG------CTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaagtgttcttgggctcgttttctctcactagactagggaaccaatttc Alignment from Spaln_nt2Genome GCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG taactctaacaaccgtgtgcttttatcattaaatgtttgtttccttatagGCTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaagtgttcttgggctcgttttctctcactagactagggaaccaatttc Alignment from Pairagon GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG taactctaacaaccgtgtgcttttatcattaaatgtttgtttccttatag------GCTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaagtgttcttgggctcgttttctctcactagactagggaaccaatttc Alignment from Exonerate_protein2genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG taactctaacaaccgtgtgcttttatcattaaatgtttgtttccttatagG------CTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaagtgttcttgggctcgttttctctcactagactagggaaccaatttc Alignment from Exonerate_coding2genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG taactctaacaaccgtgtgcttttatcattaaatgtttgtttccttatagG------CTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaagtgttcttgggctcgttttctctcactagactagggaaccaatttc Alignment from GeneWise GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG taactctaacaaccgtgtgcttttatcattaaatgtttgtttccttatagG------CTGTACAATTTTCCCATGACTTGTGCCTTTGTAGGTGTAGCAAGCAATTTCACATTTCTCAGTGTCATTGTGCTTTTCAGTTATATGCAGTGGGCATGGGGTGCTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaagtgttcttgggctcgttttctctcactagactagggaaccaatttc #### Bscl2_ID2427_10 --> 2 - 1 Original Alignment agGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATg cagttccgatactctcccccccattgcaacacttgccatttcttgcccagagGGGCAA---CCAGAAGAGGAGAAAGCAAAGAAGTGGCCACTGAATGGGGAG---------------------------ggtaggcgtggggtggcatactcatagcagggtgtacgtgtgcaagcgatt Alignment from CESAR agGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATg cagttccgatactctcccccccattgcaacacttgccatttcttgcccagagGGGCAA---CCAGAAGAGGAGAAAGCAAAGAAGTGGCCACTGAATGGGGAG---------------------------ggtaggcgtggggtggcatactcatagcagggtgtacgtgtgcaagcgatt Alignment from Spaln_aa2Genome AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGC cagttccgatactctcccccccattgcaacacttgccatttcttgcccagAGGGGCAA---CCAGAAGAGGAGAAAGCAAAGAAGTGGCCACTGAATGGGGAGGGTAGGCgtggggtggcatactcatagcagggtgtacgtgtgcaagcgatt Alignment from Spaln_nt2Genome AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGG cagttccgatactctcccccccattgcaacacttgccatttcttgcccagAGGGGCAAC---CAGAAGAGGAGAAAGCAAAGAAGTGGCCACTGAATGGGGAGGgtaggcgtggggtggcatactcatagcagggtgtacgtgtgcaagcgatt Alignment from Pairagon AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGG cagttccgatactctcccccccattgcaacacttgccatttcttgcccagAGGGGCAAC---CAGAAGAGGAGAAAGCAAAGAAGTGGCCACTGAATGGGGAGGgtaggcgtggggtggcatactcatagcagggtgtacgtgtgcaagcgatt Alignment from Exonerate_protein2genome cagttccgatactctcccccccattgcaacacttgccatttcttgcccagaggggcaaccagaagaggagaaagcaaagaagtggccactgaatggggagggtaggcgtggggtggcatactcatagcagggtgtacgtgtgcaagcgatt Alignment from Exonerate_coding2genome AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGT---GATG cagttccgatactctcccccccattgcaacacttgccatttcttgcccagAGGGGCAA---CCAGAAGAGGAGAAAGCAAAGAAGTGGCCACTGAATGGGGAGGGTAGGCGTGGGGTGGCATACTCATAGCAGGgtgtacgtgtgcaagcgatt Alignment from GeneWise cagttccgatactctcccccccattgcaacacttgccatttcttgcccagaggggcaaccagaagaggagaaagcaaagaagtggccactgaatggggagggtaggcgtggggtggcatactcatagcagggtgtacgtgtgcaagcgatt #### Btaf1_ID7227_10 --> 0 - 0 Original Alignment ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGAA tacagagttaacattcacttgttggagagtgcgtgcgcttgtctctccagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTT------------gtaagcgcagggctggcccgtctctaaaactatgttctggaaataggtac Alignment from CESAR ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGAA tacagagttaacattcacttgttggagagtgcgtgcgcttgtctctccagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTT------------gtaagcgcagggctggcccgtctctaaaactatgttct Alignment from Spaln_aa2Genome ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGAAGTTGTAG tacagagttaacattcacttgttggagagtgcgtgcgcttgtctctccagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTTGTAAGCGCAGGGCTGGCCCgtctctaaaactatgttctggaaataggtac Alignment from Spaln_nt2Genome ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGA tacagagttaacattcacttgttggagagtgcgtgcgcttgtctctccagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTTGTAAGCGCAGGgctggcccgtctctaaaactatgttctggaaataggtac Alignment from Pairagon ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTC tacagagttaacattcacttgttggagagtgcgtgcgcttgtctctccagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTTgtaagcgcagggctggcccgtctctaaaactatgttctggaaataggtac Alignment from Exonerate_protein2genome ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGAA tacagagttaacattcacttgttggagagtgcgtgcgcttgtctctccagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTTGTAAGCGCAGGGctggcccgtctctaaaactatgttctggaaataggtac Alignment from Exonerate_coding2genome ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGAA tacagagttaacattcacttgttggagagtgcgtgcgcttgtctctccagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTTGTAAGCGCAGGGctggcccgtctctaaaactatgttctggaaataggtac Alignment from GeneWise ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGAAGTTGTAG tacagagttaacattcacttgttggagagtgcgtgcgcttgtctctccagATCATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTTGTAAGCGCAGGGCTGGCCCgtctctaaaactatgttctggaaataggtac #### Btrc_ID9463_12 --> 1 - 2 Original Alignment gCTGTGGGACATAGAGTGTGGAGCATGCCTGCGAGTGTTGGAGGGCCATGAGGAGTTGGTACGCTGCATTCGATTTGATAACAAAAGGATAGTGAGCGGAGCCTATGATgg acttgttgtgaatactgtaacttattttcagtccttaatcaggggctcaggCTCTGGGACATAGAGTGTGGAGCATGCCTGCAGGTATTGGAGGGCCATGAGGAGTTGGTACGCTGCATTCGGTTTGATAACAAAAGGATCGTAAGCAGAACGTAT---gggttagtttatcactggtaatgtcttttaatcagaaaaagagttatgaaga Alignment from CESAR gCTGTGGGACATAGAGTGTGGAGCATGCCTGCGAGTGTTGGAGGGCCATGAGGAGTTGGTACGCTGCATTCGATTTGATAACAAAAGGATAGTGAGCGGAGCCTATGATgg acttgttgtgaatactgtaacttattttcagtccttaatcaggggctcaggCTCTGGGACATAGAGTGTGGAGCATGCCTGCAGGTATTGGAGGGCCATGAGGAGTTGGTACGCTGCATTCGGTTTGATAACAAAAGGATCGTAAGCAGAACGTAT---gggttagtttatcactggtaatgtcttttaatcagaaaaagagttatgaaga Alignment from Spaln_aa2Genome GCTGTGGGACATAGAGTGTGGAGCATGCCTGCGAGTGTTGGAGGGCCATGAGGAGTTGGTACGCTGCATTCGATTTGATAACAAAAGGATAGTGAGCGGAGCCTATGA acttgttgtgaatactgtaacttattttcagtccttaatcaggggctcagGCTCTGGGACATAGAGTGTGGAGCATGCCTGCAGGTATTGGAGGGCCATGAGGAGTTGGTACGCTGCATTCGGTTTGATAACAAAAGGATCGTAAGCAGAACGTATGGgttagtttatcactggtaatgtcttttaatcagaaaaagagttatgaaga Alignment from Spaln_nt2Genome GCTGTGGGACATAGAGTGTGGAGCATGCCTGCGAGTGTTGGAGGGCCATGAGGAGTTGGTACGCTGCATTCGATTTGATAACAAAAGGATAGTGAGCGGAGCCTATGATGG acttgttgtgaatactgtaacttattttcagtccttaatcaggggctcagGCTCTGGGACATAGAGTGTGGAGCATGCCTGCAGGTATTGGAGGGCCATGAGGAGTTGGTACGCTGCATTCGGTTTGATAACAAAAGGATCGTAAGCAGAACGT---ATGGgttagtttatcactggtaatgtcttttaatcagaaaaagagttatgaaga Alignment from Pairagon GCTGTGGGACATAGAGTGTGGAGCATGCCTGCGAGTGTTGGAGGGCCATGAGGAGTTGGTACGCTGCATTCGATTTGATAACAAAAGGATAGTGAGCGGAGCCTATGATGG acttgttgtgaatactgtaacttattttcagtccttaatcaggggctcagGCTCTGGGACATAGAGTGTGGAGCATGCCTGCAGGTATTGGAGGGCCATGAGGAGTTGGTACGCTGCATTCGGTTTGATAACAAAAGGATCGTAAGCAGAACGT---ATGGgttagtttatcactggtaatgtcttttaatcagaaaaagagttatgaaga Alignment from Exonerate_protein2genome GCTGTGGGACATAGAGTGTGGAGCATGCCTGCGAGTGTTGGAGGGCCATGAGGAGTTGGTACGCTGCATTCGATTTGATAACAAAAGGATAGTGAGCGGAGCCTATGATGG acttgttgtgaatactgtaacttattttcagtccttaatcaggggctcagGCTCTGGGACATAGAGTGTGGAGCATGCCTGCAGGTATTGGAGGGCCATGAGGAGTTGGTACGCTGCATTCGGTTTGATAACAAAAGGATCGTAAGCAGAACGTAT---GGgttagtttatcactggtaatgtcttttaatcagaaaaagagttatgaaga Alignment from Exonerate_coding2genome acttgttgtgaatactgtaacttattttcagtccttaatcaggggctcaggctctgggacatagagtgtggagcatgcctgcaggtattggagggccatgaggagttggtacgctgcattcggtttgataacaaaaggatcgtaagcagaacgtatgggttagtttatcactggtaatgtcttttaatcagaaaaagagttatgaaga Alignment from GeneWise GCTGTGGGACATAGAGTGTGGAGCATGCCTGCGAGTGTTGGAGGGCCATGAGGAGTTGGTACGCTGCATTCGATTTGATAACAAAAGGATAGTGAGCGGAGCCTATGA acttgttgtgaatactgtaacttattttcagtccttaatcaggggctcagGCTCTGGGACATAGAGTGTGGAGCATGCCTGCAGGTATTGGAGGGCCATGAGGAGTTGGTACGCTGCATTCGGTTTGATAACAAAAGGATCGTAAGCAGAACGTATGGgttagtttatcactggtaatgtcttttaatcagaaaaagagttatgaaga #### C030046E11Rik_ID6307_21 --> 0 - 2 Original Alignment ---------GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAag caaagagctagcttctttgattggactttcctgcttcttgcttctcccagTCCATCTGCGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGATTACAAAAAACATTAAGTATGCCAACTGGTCCCTCTGGGAAAcggtaagtaaccagattctaaggagtaatgtaaaatgtttattgtgtggagg Alignment from CESAR ---------GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAag caaagagctagcttctttgattggactttcctgcttcttgcttctcccagTCCATCTGCGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGATTACAAAAAACATTAAGTATGCCAACTGGTCCCTCTGGGAAAcggtaagtaaccagattctaaggagtaatgtaaaatgtttattgtgtggagg Alignment from Spaln_aa2Genome GAGCCCAGTTCAAGT---------GGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG caaagagctagcttctttgattggactttcctgcttcttgcttctcccagTCCATCTGCGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGATTACAAAAAACATTAAGTATGCCAACTGGTCCCTCTGGGAAACGgtaagtaaccagattctaaggagtaatgtaaaatgtttattgtgtggagg Alignment from Spaln_nt2Genome GAGCCCAGTTCAAGTG---------GTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG caaagagctagcttctttgattggactttcctgcttcttgcttctcccagTCCATCTGCGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGATTACAAAAAACATTAAGTATGCCAACTGGTCCCTCTGGGAAACGgtaagtaaccagattctaaggagtaatgtaaaatgtttattgtgtggagg Alignment from Pairagon ---------GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG caaagagctagcttctttgattggactttcctgcttcttgcttctcccagTCCATCTGCGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGATTACAAAAAACATTAAGTATGCCAACTGGTCCCTCTGGGAAACGgtaagtaaccagattctaaggagtaatgtaaaatgtttattgtgtggagg Alignment from Exonerate_protein2genome GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG caaagagctagcttctttgattggactttcctgcttcttgcttctcccagtccatctgcGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGATTACAAAAAACATTAAGTATGCCAACTGGTCCCTCTGGGAAACGgtaagtaaccagattctaaggagtaatgtaaaatgtttattgtgtggagg Alignment from Exonerate_coding2genome GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG caaagagctagcttctttgattggactttcctgcttcttgcttctcccagtccatctgcGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGATTACAAAAAACATTAAGTATGCCAACTGGTCCCTCTGGGAAACGgtaagtaaccagattctaaggagtaatgtaaaatgtttattgtgtggagg Alignment from GeneWise ---------GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG caaagagctagcttctttgattggactttcctgcttcttgcttctcccagTCCATCTGCGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGATTACAAAAAACATTAAGTATGCCAACTGGTCCCTCTGGGAAACGgtaagtaaccagattctaaggagtaatgtaaaatgtttattgtgtggagg #### Cabp2_ID290_5 --> 2 - 0 Original Alignment gtGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG gttagccgtgcactaacccaagccctctttgaattctttttttctttaaggtGGGGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGCAGACATGATTGGGGAAAGAGAACTTAAAGACGCTTTT------gtgagtccgcctcttaggtggtgggtggcagtggctaaaggatttatagc Alignment from CESAR gtGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG gttagccgtgcactaacccaagccctctttgaattctttttttctttaaggtGGGGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGCAGACATGATTGGGGAAAGAGAACTTAAAGACGCTTTT------gtgagtccgcctcttaggtggtgggtggcagtggctaaaggatt Alignment from Spaln_aa2Genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTC gttagccgtgcactaacccaagccctctttgaattctttttttctttaagGTGGGGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGCAGACATGATTGGGGAAAGAGAACTTAAAGACGCTTTTgtgagtccgcctcttaggtggtgggtggcagtggctaaaggatttatagc Alignment from Spaln_nt2Genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTC gttagccgtgcactaacccaagccctctttgaattctttttttctttaagGTGGGGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGCAGACATGATTGGGGAAAGAGAACTTAAAGACGCTTTTgtgagtccgcctcttaggtggtgggtggcagtggctaaaggatttatagc Alignment from Pairagon GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTC gttagccgtgcactaacccaagccctctttgaattctttttttctttaagGTGGGGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGCAGACATGATTGGGGAAAGAGAACTTAAAGACGCTTTTgtgagtccgcctcttaggtggtgggtggcagtggctaaaggatttatagc Alignment from Exonerate_protein2genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG gttagccgtgcactaacccaagccctctttgaattctttttttctttaagGTGGGGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGCAGACATGATTGGGGAAAGAGAACTTAAAGACGCTTTT------gtgagtccgcctcttaggtggtgggtggcagtggctaaaggatt Alignment from Exonerate_coding2genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG gttagccgtgcactaacccaagccctctttgaattctttttttctttaagGTGGGGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGCAGACATGATTGGGGAAAGAGAACTTAAAGACGCTTTT------gtgagtccgcctcttaggtggtgggtggcagtggctaaaggatt Alignment from GeneWise GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAGTTC gttagccgtgcactaacccaagccctctttgaattctttttttctttaagGTGGGGGGAAGGTTCACTTTGAAGTCTTTGTAGAGCTGATGGGTCCCAAGCTACTAGTAGAGACAGCAGACATGATTGGGGAAAGAGAACTTAAAGACGCT---------TTTgtgagtccgcctcttaggtggtgggtggcagtggctaaaggatttatagc #### Capn1_ID1356_20 --> 2 - 0 Original Alignment ggTTTTTCAAACTTCTGGACACAGACCTGGATGGTGTTGTGACCTTTGATCTATTTAAG aacatcagggcaataagcagaaactgacatttgtctttgtttaaaaacagggTTTTCTAAACTACTAGACCGAGGCCTAGATGGTGTTGTTACCTTTGATCTCTTT---gtaaggagaaagtactccaccccacctgatcagctaatggggggtgctgc Alignment from CESAR ggTTTTTCAAACTTCTGGACACAGACCTGGATGGTGTTGTGACCTTTGATCTATTTAAG aacatcagggcaataagcagaaactgacatttgtctttgtttaaaaacagggTTTTCTAAACTACTAGACCGAGGCCTAGATGGTGTTGTTACCTTTGATCTCTTT---gtaaggagaaagtactccaccccacctgatcagctaatggggggtgc Alignment from Spaln_aa2Genome GGTTTTTCAAACTTCTGGACACAGACCTGGATGGTGTTGTGACCTTTGATCTATTT aacatcagggcaataagcagaaactgacatttgtctttgtttaaaaacagGGTTTTCTAAACTACTAGACCGAGGCCTAGATGGTGTTGTTACCTTTGATCTCTTTgtaaggagaaagtactccaccccacctgatcagctaatggggggtgctgc Alignment from Spaln_nt2Genome GGTTTTTCAAACTTCTGGACACAGACCTGGATGGTGTTGTGACCTTTGATCTATTT aacatcagggcaataagcagaaactgacatttgtctttgtttaaaaacagGGTTTTCTAAACTACTAGACCGAGGCCTAGATGGTGTTGTTACCTTTGATCTCTTTgtaaggagaaagtactccaccccacctgatcagctaatggggggtgctgc Alignment from Pairagon GGTTTTTCAAACTTCTGGACACAGACCTGGATGGTGTTGTGACCTTTGATCTATTT aacatcagggcaataagcagaaactgacatttgtctttgtttaaaaacagGGTTTTCTAAACTACTAGACCGAGGCCTAGATGGTGTTGTTACCTTTGATCTCTTTgtaaggagaaagtactccaccccacctgatcagctaatggggggtgctgc Alignment from Exonerate_protein2genome GGTTTTTCAAACTTCTGGACACAGACCTGGATGGTGTTGTGACCTTTGATCTATTT aacatcagggcaataagcagaaactgacatttgtctttgtttaaaaacagGGTTTTCTAAACTACTAGACCGAGGCCTAGATGGTGTTGTTACCTTTGATCTCTTTgtaaggagaaagtactccaccccacctgatcagctaatggggggtgctgc Alignment from Exonerate_coding2genome aacatcagggcaataagcagaaactgacatttgtctttgtttaaaaacagggttttctaaactactagaccgaggcctagatggtgttgttacctttgatctctttgtaaggagaaagtactccaccccacctgatcagctaatggggggtgctgc Alignment from GeneWise GGTTTTTCAAACTTCTGGACACAGACCTGGATGGTGTTGTGACCTTTGATCTATTTAAGTGGCTCCAGCTGACTATGTTTGCC aacatcagggcaataagcagaaactgacatttgtctttgtttaaaaacagGGTTTTCTAAACTACTAGACCGAGGCCTAGATGGTGTTGTTACCTTTGATCTCTTTGTAAGGAGAAAGTACTCCACCCCACCTgatcagctaatggggggtgctgc #### Capn1_ID1369_7 --> 0 - 2 Original Alignment ------GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACag ggggagtgtgtcctgactctgatgcaacttgtttgtttttaaaattctagAAGACAGTAACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGGGTCCAGTAGAGTGGAGAGGTCCTTGGAGTGACaggtgtgtgaatgcaagcagtttcttggagatggttttatgatcaaactcct Alignment from CESAR ------GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACag ggggagtgtgtcctgactctgatgcaacttgtttgtttttaaaattctagAAGACAGTAACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGGGTCCAGTAGAGTGGAGAGGTCCTTGGAGTGACaggtgtgtgaatgcaagcagtttcttggagatggttttatgatcaaactcct Alignment from Spaln_aa2Genome ----GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG ggggagtgtgtcctgactctgatgcaacttgtttgtttttaaaattctagAAGACAGTAACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGGGTCCAGTAGAGTGGAGAGGTCCTTGGAGTGACAGgtgtgtgaatgcaagcagtttcttggagatggttttatgatcaaactcct Alignment from Spaln_nt2Genome GTAACTTACCAGGGCCAGCGGGT------GAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG ggggagtgtgtcctgactctgatgcaacttgtttgtttttaaaattctagAAGACAGTAACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGGGTCCAGTAGAGTGGAGAGGTCCTTGGAGTGACAGgtgtgtgaatgcaagcagtttcttggagatggttttatgatcaaactcct Alignment from Pairagon ------GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG ggggagtgtgtcctgactctgatgcaacttgtttgtttttaaaattctagAAGACAGTAACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGGGTCCAGTAGAGTGGAGAGGTCCTTGGAGTGACAGgtgtgtgaatgcaagcagtttcttggagatggttttatgatcaaactcct Alignment from Exonerate_protein2genome ------GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG ggggagtgtgtcctgactctgatgcaacttgtttgtttttaaaattctagAAGACAGTAACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGGGTCCAGTAGAGTGGAGAGGTCCTTGGAGTGACAGgtgtgtgaatgcaagcagtttcttggagatggttttatgatcaaactcct Alignment from Exonerate_coding2genome ggggagtgtgtcctgactctgatgcaacttgtttgtttttaaaattctagaagacagtaacctatcagggcccacgagtgaaccttattcgtatgtggaattcctggggtccagtagagtggagaggtccttggagtgacaggtgtgtgaatgcaagcagtttcttggagatggttttatgatcaaactcct Alignment from GeneWise ---GTAACTTACCAGGGCCAGCGGGTGAACCTAATCCGGATGCGGAACCCCTGGGGTGAAGTGGAGTGGAAAGGACCCTGGAGTGACAG ggggagtgtgtcctgactctgatgcaacttgtttgtttttaaaattctagaagACAGTAACCTATCAGGGCCCACGAGTGAACCTTATTCGTATGTGGAATTCCTGGGGTCCAGTAGAGTGGAGAGGTCCTTGGAGTGACAGgtgtgtgaatgcaagcagtttcttggagatggttttatgatcaaactcct #### Capn1_ID1376_2 --> 0 - 1 Original Alignment ---------GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGg tttagaggcacatcaaagggggcccatgaaacgttctcctgtcctctcagGCTACACAGGAATTGATGTCAAACCCCCAATTCATTGTAGACGGAGCCACCCGAACAGACATCTGCCAGGGAGCACTAggtgagtaaacatccctaggcatggggtactgtgtgacttgagctatgttt Alignment from CESAR GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGg cccaccagatttagaggcacatcaaagggggccctctcctgtcctctcaggctacacagGAATTGATGTCAAACCCCCAATTCATTGTAGACGGAGCCACCCGAACAGACATCTGCCAGGGAGCACTAggtgagtaaacatccctaggcatggggtactgtgtgacttgagctatgttt Alignment from Spaln_aa2Genome GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG tttagaggcacatcaaagggggcccatgaaacgttctcctgtcctctcaggctacacagGAATTGATGTCAAACCCCCAATTCATTGTAGACGGAGCCACCCGAACAGACATCTGCCAGGGAGCACTAGgtgagtaaacatccctaggcatggggtactgtgtgacttgagctatgttt Alignment from Spaln_nt2Genome GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG tttagaggcacatcaaagggggcccatgaaacgttctcctgtcctctcaggctacacagGAATTGATGTCAAACCCCCAATTCATTGTAGACGGAGCCACCCGAACAGACATCTGCCAGGGAGCACTAGgtgagtaaacatccctaggcatggggtactgtgtgacttgagctatgttt Alignment from Pairagon GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG tttagaggcacatcaaagggggcccatgaaacgttctcctgtcctctcaggctacacagGAATTGATGTCAAACCCCCAATTCATTGTAGACGGAGCCACCCGAACAGACATCTGCCAGGGAGCACTAGgtgagtaaacatccctaggcatggggtactgtgtgacttgagctatgttt Alignment from Exonerate_protein2genome GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG tttagaggcacatcaaagggggcccatgaaacgttctcctgtcctctcaggctacacagGAATTGATGTCAAACCCCCAATTCATTGTAGACGGAGCCACCCGAACAGACATCTGCCAGGGAGCACTAGgtgagtaaacatccctaggcatggggtactgtgtgacttgagctatgttt Alignment from Exonerate_coding2genome tttagaggcacatcaaagggggcccatgaaacgttctcctgtcctctcaggctacacaggaattgatgtcaaacccccaattcattgtagacggagccacccgaacagacatctgccagggagcactaggtgagtaaacatccctaggcatggggtactgtgtgacttgagctatgttt Alignment from GeneWise GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG tttagaggcacatcaaagggggcccatgaaacgttctcctgtcctctcaggctacacagGAATTGATGTCAAACCCCCAATTCATTGTAGACGGAGCCACCCGAACAGACATCTGCCAGGGAGCACTAGgtgagtaaacatccctaggcatggggtactgtgtgacttgagctatgttt #### Carns1_ID389_3 --> 2 - 1 Original Alignment gcTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTg atacagacatggaggataggacagagccgaaacttggatttgtgtcctaggc---CCTGGGGCAGAGGTCACCTTGTGTGTTCTAGGTTCTCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTggtcaggttgtgcttctgtaataccctaccttctcctacaaaattggaaca Alignment from CESAR gcTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTg cacatacagacatggaggataggacgccgaaacttggatttgtgtcctaggc---CCTGGGGCAGAGGTCACCTTGTGTGTTCTAGGTTCTCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTggtcaggttgtgcttctgtaataccctaccttctcctacaaaattggaaca Alignment from Spaln_aa2Genome GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG atacagacatggaggataggacagagccgaaacttggatttgtgtcctagGC---CCTGGGGCAGAGGTCACCTTGTGTGTTCTAGGTTCTCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtcaggttgtgcttctgtaataccctaccttctcctacaaaattggaaca Alignment from Spaln_nt2Genome GCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG atacagacatggaggataggacagagccgaaacttggatttgtgtcctagGCCCTGGGGCAGAGGTCACCTTGTGTGTTCTAGGTTCTCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtcaggttgtgcttctgtaataccctaccttctcctacaaaattggaaca Alignment from Pairagon GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG atacagacatggaggataggacagagccgaaacttggatttgtgtcctag---GCCCTGGGGCAGAGGTCACCTTGTGTGTTCTAGGTTCTCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtcaggttgtgcttctgtaataccctaccttctcctacaaaattggaaca Alignment from Exonerate_protein2genome GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG atacagacatggaggataggacagagccgaaacttggatttgtgtcctagGC---CCTGGGGCAGAGGTCACCTTGTGTGTTCTAGGTTCTCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtcaggttgtgcttctgtaataccctaccttctcctacaaaattggaaca Alignment from Exonerate_coding2genome GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG atacagacatggaggataggacagagccgaaacttggatttgtgtcctagGC---CCTGGGGCAGAGGTCACCTTGTGTGTTCTAGGTTCTCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtcaggttgtgcttctgtaataccctaccttctcctacaaaattggaaca Alignment from GeneWise GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG atacagacatggaggataggacagagccgaaacttggatttgtgtcctagGC---CCTGGGGCAGAGGTCACCTTGTGTGTTCTAGGTTCTCTCAGCACCTTCCTATCACTGTTGCTGGAGGGTGGGGTCCAAAGCCCTGgtcaggttgtgcttctgtaataccctaccttctcctacaaaattggaaca #### Catsper1_ID926_3 --> 2 - 1 Original Alignment aaTGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGg cgatgaggccacagcctgtgtcactgtactccccacaactccccatgcagaaTGGTACTTCATGGTCCTAGACTCCATCTTCCTTACCATCTTTGTATTAGAAGCAGTC---AAACTTATTGCTTTGGGCTTAGAGTACTTTTATGACCCATCAAATAAC---ggtaggaagtgaatacaggcgatttagaatggtcagggaatacatcattta Alignment from CESAR aaTGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGg cgatgaggccacagcctgtgtcactgtactccccacaactccccatgcagaaTGGTACTTCATGGTCCTAGACTCCATCTTCCTTACCATCTTTGTATTAGAAGCAGTC---AAACTTATTGCTTTGGGCTTAGAGTACTTTTATGACCCATCAAATAAC---ggtaggaagtgaatacaggcgatttagaatggtcagggaatacatcattta Alignment from Spaln_aa2Genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAAC- cgatgaggccacagcctgtgtcactgtactccccacaactccccatgcagAATGGTACTTCATGGTCCTAGACTCCATCTTCCTTACCATCTTTGTATTAGAAGCAGTC---AAACTTATTGCTTTGGGCTTAGAGTACTTTTATGACCCATCAAATAACGgtaggaagtgaatacaggcgatttagaatggtcagggaatacatcattta Alignment from Spaln_nt2Genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG cgatgaggccacagcctgtgtcactgtactccccacaactccccatgcagAATGGTACTTCATGGTCCTAGACTCCATCTTCCTTACCATCTTTGTATTAGAAGCAG---TCAAACTTATTGCTTTGGGCTTAGAGTACTTTTATGACCCATCAAATAAC---Ggtaggaagtgaatacaggcgatttagaatggtcagggaatacatcattta Alignment from Pairagon AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG cgatgaggccacagcctgtgtcactgtactccccacaactccccatgcagAATGGTACTTCATGGTCCTAGACTCCATCTTCCTTACCATCTTTGTATTAGAAGCAG---TCAAACTTATTGCTTTGGGCTTAGAGTACTTTTATGACCCATCAAATAAC---Ggtaggaagtgaatacaggcgatttagaatggtcagggaatacatcattta Alignment from Exonerate_protein2genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG cgatgaggccacagcctgtgtcactgtactccccacaactccccatgcagAATGGTACTTCATGGTCCTAGACTCCATCTTCCTTACCATCTTTGTATTAGAAGCAGTC---AAACTTATTGCTTTGGGCTTAGAGTACTTTTATGACCCATCAAATAACGGTAggaagtgaatacaggcgatttagaatggtcagggaatacatcattta Alignment from Exonerate_coding2genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG cgatgaggccacagcctgtgtcactgtactccccacaactccccatgcagAATGGTACTTCATGGTCCTAGACTCCATCTTCCTTACCATCTTTGTATTAGAAGCAGTC---AAACTTATTGCTTTGGGCTTAGAGTACTTTTATGACCCATCAAATAACGGTAggaagtgaatacaggcgatttagaatggtcagggaatacatcattta Alignment from GeneWise AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACC cgatgaggccacagcctgtgtcactgtactccccacaactccccatgcagAATGGTACTTCATGGTCCTAGACTCCATCTTCCTTACCATCTTTGTATTAGAAGCAGTC---AAACTTATTGCTTTGGGCTTAGAGTACTTTTATGACCCATCAAATAACGgtaggaagtgaatacaggcgatttagaatggtcagggaatacatcattta #### Catsper1_ID929_6 --> 2 - 1 Original Alignment tcCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAA------g gcGCCT ggaatttcatttggttatgttgataatgatttttatgttaattttaacagtcCTCTTCTCTGTGATTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAACATCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAACTGCCGggtgggttaacctaaggctacagactgtgttctttctccatacagctGCCT Alignment from CESAR tcCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAA------g gcGCCT ggaatttcatttggttatgttgataatgatttttatgttaattttaacagtcCTCTTCTCTGTGATTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAACATCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAACTGCCGggtgggttaacctaaggctacagtattttgttacttttaaactagctGCCT Alignment from Spaln_aa2Genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAA------G GCGCCT ggaatttcatttggttatgttgataatgatttttatgttaattttaacagTCCTCTTCTCTGTGATTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAACATCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAACTGCCGGgtgggttaacctaaggctacagactgtgttctttctccatacagCTGCCT Alignment from Spaln_nt2Genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAA-----GG C-GCCT ggaatttcatttggttatgttgataatgatttttatgttaattttaacagTCCTCTTCTCTGTGATTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAACATCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAACTGCCGGgtgggttaacctaaggctacagactgtgttctttctccatacagCTGCCT Alignment from Pairagon TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCA--------------------------------------------------AGGCGCCT ggaatttcatttggttatgttgataatgatttttatgttaattttaacagTCCTCTTCTCTGTGATTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAACATCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAACTGCCGGGTGGGTTAACCTAAGGCTACAGACTGTGTTCTTTCTCCATACAGCTGCCT Alignment from Exonerate_protein2genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAA------G GCGCCT ggaatttcatttggttatgttgataatgatttttatgttaattttaacagTCCTCTTCTCTGTGATTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAACATCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAACTGCCGGgtgggttaacctaaggctacagactgtgttctttctccatacagCTGCCT Alignment from Exonerate_coding2genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAA------G GCGCCT ggaatttcatttggttatgttgataatgatttttatgttaattttaacagTCCTCTTCTCTGTGATTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAACATCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAACTGCCGGgtgggttaacctaaggctacagactgtgttctttctccatacagCTGCCT Alignment from GeneWise TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAA------G GCGCCT ggaatttcatttggttatgttgataatgatttttatgttaattttaacagTCCTCTTCTCTGTGATTCTCCAAGCACTCTTCCAGGATTCAGATCCCAAGCGTTTCCAGAACATCTTTACTACACTCTTCACCCTTTTCATGATGCTCAGCCTGGATGACTGGTCCCTTATCTACATAGAGAACAGGGCCCAACTGCCGGgtgggttaacctaaggctacagactgtgttctttctccatacagCTGCCT #### Catsper1_ID930_7 --> 2 - 2 Original Alignment CCCAAg gcGCCTGGTACATCATACCGATCCTCATGATTTACATTGTCATCCAGTACTTCATCTTCCTCaa CCCAAggtaaggtaacctaaggctacagtattttgttacttttaaactagctGCCTGGTACATCATACCAATCCTCATGATCTACATTGTTATCCAATACTTTACC------aagtacgttctttccattgaactgttccaataaccacccaccaagcacttac Alignment from CESAR CCCAAg gcGCCTGGTACATCATACCGATCCTCATGATTTACATTGTCATCCAGTACTTCATCTTCCTCaa CCCAAggtaagataacctaaggctacagtattttgttacttttaaactagctGCCTGGTACATCATACCAATCCTCATGATCTACATTGTTATCCAATACTTTACC------aagtacgttctttccattgaactgttccaataaccacccaccaagcacttac Alignment from Spaln_aa2Genome CCCAAG GCGCCTGGTACATCATACCGATCCTCATGATTTACATTGTCATCCAGTACTTCATCTT CCCAAGgtaaggtaacctaaggctacagtattttgttacttttaaactagCTGCCTGGTACATCATACCAATCCTCATGATCTACATTGTTATCCAATACTTTACCAAgtacgttctttccattgaactgttccaataaccacccaccaagcacttac Alignment from Spaln_nt2Genome CCCAAG GCGCCTGGTACATCATACCGATCCTCATGATTTACATTGTCATCCAGTACTTCATCTTCCTCAA CCCAAGgtaaggtaacctaaggctacagtattttgttacttttaaactagCTGCCTGGTACATCATACCAATCCTCATGATCTACATTGTTATCCAATACTTTA------CCAAgtacgttctttccattgaactgttccaataaccacccaccaagcacttac Alignment from Pairagon CCCAAGG--------------------------------------------CGCCTGGTACATCATACCGATCCTCATGATTTACATTGTCATCCAGTACTTCATCTTCCTCAA CCCAAGGTAAGGTAACCTAAGGCTACAGTATTTTGTTACTTTTAAACTAGCTGCCTGGTACATCATACCAATCCTCATGATCTACATTGTTATCCAATACTTTA------CCAAgtacgttctttccattgaactgttccaataaccacccaccaagcacttac Alignment from Exonerate_protein2genome CCCAAG GCGCCTGGTACATCATACCGATCCTCATGATTTACATTGTCATCCAGTACTTCATCTT CCCAAGgtaaggtaacctaaggctacagtattttgttacttttaaactagCTGCCTGGTACATCATACCAATCCTCATGATCTACATTGTTATCCAATACTTTACCAAgtacgttctttccattgaactgttccaataaccacccaccaagcacttac Alignment from Exonerate_coding2genome CCCAAG GCGCCTGGTACATCATACCGATCCTCATGATTTACATTGTCATCCAGTACTTCATCTT CCCAAGgtaaggtaacctaaggctacagtattttgttacttttaaactagCTGCCTGGTACATCATACCAATCCTCATGATCTACATTGTTATCCAATACTTTACCAAgtacgttctttccattgaactgttccaataaccacccaccaagcacttac Alignment from GeneWise CCCAAG GCGCCTGGTACATCATACCGATCCTCATGATTTACATTGTCATCCAGTACTTCATCTT CCCAAGgtaaggtaacctaaggctacagtattttgttacttttaaactagCTGCCTGGTACATCATACCAATCCTCATGATCTACATTGTTATCCAATACTTTACCAAgtacgttctttccattgaactgttccaataaccacccaccaagcacttac #### Cbwd1_ID5353_14 --> 0 - 1 Original Alignment GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATT---g aattatgtagtcctaagttgacaactgatattgtattgtatttcttttagGGCCTGGTATCTATCAAAGTCAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAAAGCCTTGTGAACTGGAAGGATGATGCAGCAAGAGCATGTCAGCTAGTTTTCATTGCTggttcgtaacactaatgtactactgaatgtactactgggttctgtgtctaa Alignment from CESAR GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATT---g aattatgtagtcctaagttgacaactgatattgtattgtatttcttttagGGCCTGGTATCTATCAAAGTCAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAAAGCCTTGTGAACTGGAAGGATGATGCAGCAAGAGCATGTCAGCTAGTTTTCATTGCTggttcgtaacactaatgtactactgaatgtactactgggttctgtgtctaa Alignment from Spaln_aa2Genome GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATT---G aattatgtagtcctaagttgacaactgatattgtattgtatttcttttagGGCCTGGTATCTATCAAAGTCAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAAAGCCTTGTGAACTGGAAGGATGATGCAGCAAGAGCATGTCAGCTAGTTTTCATTGCTGgttcgtaacactaatgtactactgaatgtactactgggttctgtgtctaa Alignment from Spaln_nt2Genome GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTG--- aattatgtagtcctaagttgacaactgatattgtattgtatttcttttagGGCCTGGTATCTATCAAAGTCAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAAAGCCTTGTGAACTGGAAGGATGATGCAGCAAGAGCATGTCAGCTAGTTTTCATTGCTGgttcgtaacactaatgtactactgaatgtactactgggttctgtgtctaa Alignment from Pairagon GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTG------- aattatgtagtcctaagttgacaactgatattgtattgtatttcttttagGGCCTGGTATCTATCAAAGTCAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAAAGCCTTGTGAACTGGAAGGATGATGCAGCAAGAGCATGTCAGCTAGTTTTCATTGCTGGTTCgtaacactaatgtactactgaatgtactactgggttctgtgtctaa Alignment from Exonerate_protein2genome GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTG aattatgtagtcctaagttgacaactgatattgtattgtatttcttttagGGCCTGGTATCTATCAAAGTCAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAAAGCCTTGTGAACTGGAAGGATGATGCAGCAAGAGCATGTCAGCTAGTTTTCATTGctggttcgtaacactaatgtactactgaatgtactactgggttctgtgtctaa Alignment from Exonerate_coding2genome GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTG aattatgtagtcctaagttgacaactgatattgtattgtatttcttttagGGCCTGGTATCTATCAAAGTCAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAAAGCCTTGTGAACTGGAAGGATGATGCAGCAAGAGCATGTCAGCTAGTTTTCATTGctggttcgtaacactaatgtactactgaatgtactactgggttctgtgtctaa Alignment from GeneWise GGACTGGTGTCTATCAAAGACAAACCACAGCAAATGATTGTGCAAGGCATCCATGAGCTGTACGACCTGGAAGAAAGCCTAGTGAACTGGAAGGATGATGCGGAGAGAGCGTGTCAGCTGGTCTTCATTGGT- aattatgtagtcctaagttgacaactgatattgtattgtatttcttttagGGCCTGGTATCTATCAAAGTCAAGCCACATCAAATGATTGTGCAAGGTATCCATGATTTGTATGACTTGGAAGAAAGCCTTGTGAACTGGAAGGATGATGCAGCAAGAGCATGTCAGCTAGTTTTCATTGCTGgttcgtaacactaatgtactactgaatgtactactgggttctgtgtctaa #### Ccdc88b_ID1824_25 --> 2 - 1 Original Alignment ggTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAA---------g gttgtgatgacctcgcctgatccatacactttctttctcattctctgcagggTCATCATCACCAGCACCCATGCACCAAATTGAGAGCTCTCTTTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCCCTGTTGGACGAAGTCCAGCATCATTCAGTCCAAGC---ACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAAGCGCCTCTggtagacgatgttttactatgatttgagttgccattgttttaggtggtcag Alignment from CESAR ggTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAg gttgtgatgacctcgcctgatccatacactttctttctcattctctgcagggTCATCATCACCAGCACCCATGCACCAAATTGAGAGCTCTCTTTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCCCTGTTGGACGAAGTCCAGCATCATTCAGTCCAAGC---ACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAagcgcctctggtagacgatgttttactatgatttgagttgccattgttttaggtggtcag Alignment from Spaln_aa2Genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG gttgtgatgacctcgcctgatccatacactttctttctcattctctgcagGGTCATCATCACCAGCACCCATGCACCAAATTGAGAGCTCTCTTTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCCCTGTTGGACGAAGTCCAGCATCATTCAGTCCAAGC---ACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAAgcgcctctggtagacgatgttttactatgatttgagttgccattgttttaggtggtcag Alignment from Spaln_nt2Genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG gttgtgatgacctcgcctgatccatacactttctttctcattctctgcagGGTCATCATCACCAGCACCCATGCACCAAATTGAGAGCTCTCTTTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCCCTGTTGGACGAAGTCCAGCATCATTCAGTCCAAG---CACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAAgcgcctctggtagacgatgttttactatgatttgagttgccattgttttaggtggtcag Alignment from Pairagon GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG gttgtgatgacctcgcctgatccatacactttctttctcattctctgcagGGTCATCATCACCAGCACCCATGCACCAAATTGAGAGCTCTCTTTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCCCTGTTGGACGAAGTCCAGCATCATTCAGTCCAAG---CACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAAgcgcctctggtagacgatgttttactatgatttgagttgccattgttttaggtggtcag Alignment from Exonerate_protein2genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG gttgtgatgacctcgcctgatccatacactttctttctcattctctgcagGGTCATCATCACCAGCACCCATGCACCAAATTGAGAGCTCTCTTTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCCCTGTTGGACGAAGTCCAGCATCATTCAGTCCA---AGCACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAAgcgcctctggtagacgatgttttactatgatttgagttgccattgttttaggtggtcag Alignment from Exonerate_coding2genome gttgtgatgacctcgcctgatccatacactttctttctcattctctgcagggtcatcatcaccagcacccatgcaccaaattgagagctctctttgcttgggagatgagaccctagctggtgggcagcgacggagtctcagttctcagttccctgttggacgaagtccagcatcattcagtccaagcacatcacggcaatggttcaaacagcaaaggccaggcccccttggggcactgagtacctacagcaaaagcgcctctggtagacgatgttttactatgatttgagttgccattgttttaggtggtcag Alignment from GeneWise GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAGGATCTGGTG gttgtgatgacctcgcctgatccatacactttctttctcattctctgcagGGTCATCATCACCAGCACCCATGCACCAAATTGAGAGCTCTCTTTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTCAGTTCTCAGTTCCCTGTTGGACGAAGTCCAGCATCATTCAGTCCA---AGCACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAAGCGCCTCTGgtagacgatgttttactatgatttgagttgccattgttttaggtggtcag #### Ccdc88b_ID1826_23 --> 1 - 2 Original Alignment ct gGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACC---------------aa ctgtaagcccacttagggccaggttaaggctgacgggtggtcccctccaggGACCAACTCAATGGCTTGCGCCAACAGAAACAGAAGCTGGTGGAT---ATCATGGACCAGTACCGCGTAGTACAGCCTGGGCCGCTACCCCATACTTTTGTTTGTGCACAGaagtaagttagcaccttatgtatcatgttagtattttgctctgttccacggc Alignment from CESAR ct gGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACC---------------aa ctgtgagtccacttagggccaggttaaggctgacgggtggtcccctccaggGACCAACTCAATGGCTTGCGCCAACAGAAACAGAAGCTGGTGGAT---ATCATGGACCAGTACCGCGTAGTACAGCCTGGGCCGCTACCCCATACTTTTGTTTGTGCACAGaagtaagttagcaccttatgtatcatgttagtattttgctctgttccacggc Alignment from Spaln_aa2Genome CT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACC------------AAGAA CTgtaagcccacttagggccaggttaaggctgacgggtggtcccctccagGGACCAACTCAATGGCTTGCGCCAACAGAAACAGAAGCTGGTGGAT---ATCATGGACCAGTACCGCGTAGTACAGCCTGGGCCGCTACCCCATACTTTTGTTTGTGCACAGAAgtaagttagcaccttatgtatcatgttagtattttgctctgttccacggc Alignment from Spaln_nt2Genome CT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA- CTgtaagcccacttagggccaggttaaggctgacgggtggtcccctccagGGACCAACTCAATGGCTTGCGCCAACAGAAACAGAAGCTGGTGG---ATATCATGGACCAGTACCGCGTAGTACAGCCTGGGCCGCTACCCCATACTTTTgtttgtgcacagaagtaagttagcaccttatgtatcatgttagtattttgctctgttccacggc Alignment from Pairagon CT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACC---------------AA CTgtaagcccacttagggccaggttaaggctgacgggtggtcccctccagGGACCAACTCAATGGCTTGCGCCAACAGAAACAGAAGCTGGTGG---ATATCATGGACCAGTACCGCGTAGTACAGCCTGGGCCGCTACCCCATACTTTTGTTTGTGCACAGAAgtaagttagcaccttatgtatcatgttagtattttgctctgttccacggc Alignment from Exonerate_protein2genome CT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACC CTgtaagcccacttagggccaggttaaggctgacgggtggtcccctccagGGACCAACTCAATGGCTTGCGCCAACAGAAACAGAAGCTGGTGGAT---ATCATGGACCAGTACCGCGTAGTACAGCCTGGGCCGCTACCCCATACTtttgtttgtgcacagaagtaagttagcaccttatgtatcatgttagtattttgctctgttccacggc Alignment from Exonerate_coding2genome ctgtaagcccacttagggccaggttaaggctgacgggtggtcccctccagggaccaactcaatggcttgcgccaacagaaacagaagctggtggatatcatggaccagtaccgcgtagtacagcctgggccgctaccccatacttttgtttgtgcacagaagtaagttagcaccttatgtatcatgttagtattttgctctgttccacggc Alignment from GeneWise CT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACC---------------AA CTgtaagcccacttagggccaggttaaggctgacgggtggtcccctccagGGACCAACTCAATGGCTTGCGCCAACAGAAACAGAAGCTGGTGGAT---ATCATGGACCAGTACCGCGTAGTACAGCCTGGGCCGCTACCCCATACTTTTGTTTGTGCACAGAAgtaagttagcaccttatgtatcatgttagtattttgctctgttccacggc #### Ccdc88b_ID1828_21 --> 1 - 0 Original Alignment aGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG gtgacattctccatttttaatatttaaagattctacattcttttgtgcagaGCCCAAATGTTACTGACCGAGGTGTCACGAGGGTGTGGAGAGATCCAGGGAGAATGCGGGGAGCTGTGGGGCCGTCTATCAAGACTGGAACTGGAGCGGGCACAACTTGAAATCCAGAGCCAGCAGCTGCGTGTGTGGGAGTCCAACCAACAATTGGATCTGAGTGCATGTCACCTGACAACTCAATGT---gtgagttggcacaacagtgggcatataaggcctcacacactaatggtcac Alignment from CESAR aGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG gtgacattctccatttttaatatttaaagattctacattcttttgtgcagaGCCCAAATGTTACTGACCGAGGTGTCACGAGGGTGTGGAGAGATCCAGGGAGAATGCGGGGAGCTGTGGGGCCGTCTATCAAGACTGGAACTGGAGCGGGCACAACTTGAAATCCAGAGCCAGCAGCTGCGTGTGTGGGAGTCCAACCAACAATTGGATCTGAGTGCATGTCACCTGACAACTCAATGT---gtgagttggcacaacagtgggcatataaggcctcacacactaatggt Alignment from Spaln_aa2Genome AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGT gtgacattctccatttttaatatttaaagattctacattcttttgtgcagAGCCCAAATGTTACTGACCGAGGTGTCACGAGGGTGTGGAGAGATCCAGGGAGAATGCGGGGAGCTGTGGGGCCGTCTATCAAGACTGGAACTGGAGCGGGCACAACTTGAAATCCAGAGCCAGCAGCTGCGTGTGTGGGAGTCCAACCAACAATTGGATCTGAGTGCATGTCACCTGACAACTCAATGTgtgagttggcacaacagtgggcatataaggcctcacacactaatggtcac Alignment from Spaln_nt2Genome AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGT gtgacattctccatttttaatatttaaagattctacattcttttgtgcagAGCCCAAATGTTACTGACCGAGGTGTCACGAGGGTGTGGAGAGATCCAGGGAGAATGCGGGGAGCTGTGGGGCCGTCTATCAAGACTGGAACTGGAGCGGGCACAACTTGAAATCCAGAGCCAGCAGCTGCGTGTGTGGGAGTCCAACCAACAATTGGATCTGAGTGCATGTCACCTGACAACTCAATGTgtgagttggcacaacagtgggcatataaggcctcacacactaatggtcac Alignment from Pairagon AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGT gtgacattctccatttttaatatttaaagattctacattcttttgtgcagAGCCCAAATGTTACTGACCGAGGTGTCACGAGGGTGTGGAGAGATCCAGGGAGAATGCGGGGAGCTGTGGGGCCGTCTATCAAGACTGGAACTGGAGCGGGCACAACTTGAAATCCAGAGCCAGCAGCTGCGTGTGTGGGAGTCCAACCAACAATTGGATCTGAGTGCATGTCACCTGACAACTCAATGTgtgagttggcacaacagtgggcatataaggcctcacacactaatggtcac Alignment from Exonerate_protein2genome AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGT gtgacattctccatttttaatatttaaagattctacattcttttgtgcagAGCCCAAATGTTACTGACCGAGGTGTCACGAGGGTGTGGAGAGATCCAGGGAGAATGCGGGGAGCTGTGGGGCCGTCTATCAAGACTGGAACTGGAGCGGGCACAACTTGAAATCCAGAGCCAGCAGCTGCGTGTGTGGGAGTCCAACCAACAATTGGATCTGAGTGCATGTCACCTGACAACTCAATGTgtgagttggcacaacagtgggcatataaggcctcacacactaatggtcac Alignment from Exonerate_coding2genome AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGT gtgacattctccatttttaatatttaaagattctacattcttttgtgcagAGCCCAAATGTTACTGACCGAGGTGTCACGAGGGTGTGGAGAGATCCAGGGAGAATGCGGGGAGCTGTGGGGCCGTCTATCAAGACTGGAACTGGAGCGGGCACAACTTGAAATCCAGAGCCAGCAGCTGCGTGTGTGGGAGTCCAACCAACAATTGGATCTGAGTGCATGTCACCTGACAACTCAATGTgtgagttggcacaacagtgggcatataaggcctcacacactaatggtcac Alignment from GeneWise AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGT------GAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGT gtgacattctccatttttaatatttaaagattctacattcttttgtgcagAGCCCAAATGTTACTGACCGAGGTGTCACGAGGGTGTGGAGAGATCCAGGGAGAATGCGGGGAGCTGTGGGGCCGTCTATCAAGACTGGAACTGGAGCGGGCACAACTTGAAATCCAGAGCCAGCAGCTGCGTGTGTGGGAGTCCAACCAACAATTGGATCTGAGTGCATGTCACCTGACAACTCAATGTgtgagttggcacaacagtgggcatataaggcctcacacactaatggtcac #### Ccdc88b_ID1829_20 --> 1 - 2 Original Alignment gCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAG---ag ctcaaaaagctggtgcgccaatggtctgttgtgctcgttttgttttgtagaCGTGGGCAGTTGCATGCCCAGCGGGCAAATGTTGAGGCTCAAGATGTAGCCCTACTGGCAGAA---GAACAATTGATGCAGGATGGGCAGTGGCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTCCATAATGAACATCAAATTaggtaactttgttagctcaggcctattccccccccctggcatagcattctca Alignment from CESAR gCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAG---ag ctcaaaaagctggtgcgccaatggtctgttgtgctcgttttgttttgtagaCGTGGGCAGTTGCATGCCCAGCGGGCAAATGTTGAGGCTCAAGATGTAGCCCTACTGGCAGAA---GAACAATTGATGCAGGATGGGCAGTGGCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTCCATAATGAACATCAAATTaggtaactttgttagctcaggcctattccccccccctggcatagcattctca Alignment from Spaln_aa2Genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAGA-- ctcaaaaagctggtgcgccaatggtctgttgtgctcgttttgttttgtagACGTGGGCAGTTGCATGCCCAGCGGGCAAATGTTGAGGCTCAAGATGTAGCCCTACTGGCAGAA---GAACAATTGATGCAGGATGGGCAGTGGCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTCCATAATGAACATCAAATTAGgtaactttgttagctcaggcctattccccccccctggcatagcattctca Alignment from Spaln_nt2Genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGA---G ctcaaaaagctggtgcgccaatggtctgttgtgctcgttttgttttgtagACGTGGGCAGTTGCATGCCCAGCGGGCAAATGTTGAGGCTCAAGATGTAGCCCTACTGGCAGA---AGAACAATTGATGCAGGATGGGCAGTGGCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTCCATAATGAACATCAAATTAGgtaactttgttagctcaggcctattccccccccctggcatagcattctca Alignment from Pairagon GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGA-------------------------------------------------------------- ctcaaaaagctggtgcgccaatggtctgttgtgctcgttttgttttgtagACGTGGGCAGTTGCATGCCCAGCGGGCAAATGTTGAGGCTCAAGATGTAGCCCTACTGGCAGAA---GAACAATTGATGCAGGATGGGCAGTGGCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTCCATAATGAACATCAAATTAGGTAACTTTGTTAGCTCAGGCCTATTCCCCCCCCCTGGCATAGCATTCTCA Alignment from Exonerate_protein2genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAG---AG ctcaaaaagctggtgcgccaatggtctgttgtgctcgttttgttttgtagACGTGGGCAGTTGCATGCCCAGCGGGCAAATGTTGAGGCTCAAGATGTAGCCCTACTGGCAGAA---GAACAATTGATGCAGGATGGGCAGTGGCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTCCATAATGAACATCAAATTAGgtaactttgttagctcaggcctattccccccccctggcatagcattctca Alignment from Exonerate_coding2genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAG---AG ctcaaaaagctggtgcgccaatggtctgttgtgctcgttttgttttgtagACGTGGGCAGTTGCATGCCCAGCGGGCAAATGTTGAGGCTCAAGATGTAGCCCTACTGGCAGAA---GAACAATTGATGCAGGATGGGCAGTGGCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTCCATAATGAACATCAAATTAGgtaactttgttagctcaggcctattccccccccctggcatagcattctca Alignment from GeneWise GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAGA-- ctcaaaaagctggtgcgccaatggtctgttgtgctcgttttgttttgtagACGTGGGCAGTTGCATGCCCAGCGGGCAAATGTTGAGGCTCAAGATGTAGCCCTACTGGCAGAA---GAACAATTGATGCAGGATGGGCAGTGGCAGTGTGGGCTGGATGAGGAGCTGCGCAGGCTCCATAATGAACATCAAATTAGgtaactttgttagctcaggcctattccccccccctggcatagcattctca #### Ccdc88b_ID1832_17 --> 0 - 0 Original Alignment CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGA---GCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT agatcgatgtggagaacaactacctgtttacctccattttttttcctgagCTACATCAGTGCCCGGTG---CTT---GAAGGGGCACGGCGAGATGGTCCTTGGGCTGTGGAGACACAGAACGGGCGGCTCATTGTAGTA---------gtatttaaggaatgctttaaggtgggggcttaccctagaggtaatagggc Alignment from CESAR CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT agatcgatgtggagaacaactacctgtttacctccattttttttcctgagCTACATCAGTGCCCGGTG---CTTGAAGGGGCACGGCGAGATGGTCCTTGGGCTGTGGAGACACAGAACGGGCGGCTCATTGTAGTA---------gtatttaaggaatgctttaaggtgggggcttaccctagagg Alignment from Spaln_aa2Genome CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTG agatcgatgtggagaacaactacctgtttacctccattttttttcctgagCTACATCAGTGCCCGGTG---CTTGAAGGGGCACGGCGAGATGGTCCTTGGGCTGTGGAGACACAGAACGGGCGGCTCATTGTAGTAgtatttaaggaatgctttaaggtgggggcttaccctagaggtaatagggc Alignment from Spaln_nt2Genome CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGG-----AGCGAA-------AT agatcgatgtggagaacaactacctgtttacctccattttttttcctgagCTACATCAGTGCCCGGTG---CTTGAAGGGGCACGGCGAGATGGTCCTTGGGCTGTGGAGACACAGAACGGGCGGCTCATTGTAGTAGTATTTAAGGAATGCTTTAAGgtgggggcttaccctagaggtaatagggc Alignment from Pairagon CTGCGCCAGTACCCGGTGGACCTGGCAACT----GGGGC---GCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTG agatcgatgtggagaacaactacctgtttacctccattttttttcctgagCTACATCAGTGCCCGGTG----------CTTGAAGGGGCACGGCGAGATGGTCCTTGGGCTGTGGAGACACAGAACGGGCGGCTCATTGTAGTAgtatttaaggaatgctttaaggtgggggcttaccctagaggtaatagggc Alignment from Exonerate_protein2genome CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT agatcgatgtggagaacaactacctgtttacctccattttttttcctgagCTACATCAGTGCCCGGTG---CTTGAAGGGGCACGGCGAGATGGTCCTTGGGCTGTGGAGACACAGAACGGGCGGCTCATTGTAGTAGTATTTAAGgaatgctttaaggtgggggcttaccctagaggtaatagggc Alignment from Exonerate_coding2genome agatcgatgtggagaacaactacctgtttacctccattttttttcctgagctacatcagtgcccggtgcttgaaggggcacggcgagatggtccttgggctgtggagacacagaacgggcggctcattgtagtagtatttaaggaatgctttaaggtgggggcttaccctagaggtaatagggc Alignment from GeneWise CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTG------------------------------------------GAGCGA-- agatcgatgtggagaacaactacctgtttacctccattttttttcctgagCTACATCAGTGCCCGGTG---CTTGAAGGGGCACGGCGAGATGGTCCTTGGGCTGTGGAGACACAGAACGGGCGGCTCATTGTAGTAGTATTTAAGGAATGCTTTAAGGTGGGGGCTTACCCTAGAGGTAATAGGGC #### Ccdc88b_ID1833_16 --> 1 - 0 Original Alignment gTACCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG cagtaaagtctagttgctatgtcctcaactaacctttgccttctctgcagg---CAGCATCTGGAGCAACGTCTTGAAGCTGAGTTGCAAGCAGCATCTGCCAGTAAGGAGCAGGCACTGATGGAGCTCAAGGTGCAAGTCTTGCAGTTGGAGGAAGAGCTCATCGAGgtaagcctgcccaactcgaaagactactggcactggtaattcattagtta Alignment from CESAR gTACCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG gagcagtaaagtctagttgctatgtcaactaacctttgccttctctgcagg---CAGCATCTGGAGCAACGTCTTGAAGCTGAGTTGCAAGCAGCATCTGCCAGTAAGGAGCAGGCACTGATGGAGCTCAAGGTGCAAGTCTTGCAGTTGGAGGAAGAGCTCATCGAGgtaagcctgcccaactcgaaagactactggcactggtaattcattagtta Alignment from Spaln_aa2Genome GTACCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG cagtaaagtctagttgctatgtcctcaactaacctttgccttctctgcagG---CAGCATCTGGAGCAACGTCTTGAAGCTGAGTTGCAAGCAGCATCTGCCAGTAAGGAGCAGGCACTGATGGAGCTCAAGGTGCAAGTCTTGCAGTTGGAGGAAGAGCTCATCGAGgtaagcctgcccaactcgaaagactactggcactggtaattcattagtta Alignment from Spaln_nt2Genome GTACCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG cagtaaagtctagttgctatgtcctcaactaacctttgccttctctgcagG---CAGCATCTGGAGCAACGTCTTGAAGCTGAGTTGCAAGCAGCATCTGCCAGTAAGGAGCAGGCACTGATGGAGCTCAAGGTGCAAGTCTTGCAGTTGGAGGAAGAGCTCATCGAGgtaagcctgcccaactcgaaagactactggcactggtaattcattagtta Alignment from Pairagon --------------------------------------------------CCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG CAGTAAAGTCTAGTTGCTATGTCCTCAACTAACCTTTGCCTTCTCTGCAGGCAGCATCTGGAGCAACGTCTTGAAGCTGAGTTGCAAGCAGCATCTGCCAGTAAGGAGCAGGCACTGATGGAGCTCAAGGTGCAAGTCTTGCAGTTGGAGGAAGAGCTCATCGAGgtaagcctgcccaactcgaaagactactggcactggtaattcattagtta Alignment from Exonerate_protein2genome GTACCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG cagtaaagtctagttgctatgtcctcaactaacctttgccttctctgCAGGCAGCATCTGGAGCAACGTCTTGAAGCTGAGTTGCAAGCAGCATCTGCCAGTAAGGAGCAGGCACTGATGGAGCTCAAGGTGCAAGTCTTGCAGTTGGAGGAAGAGCTCATCGAGgtaagcctgcccaactcgaaagactactggcactggtaattcattagtta Alignment from Exonerate_coding2genome GTACCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG cagtaaagtctagttgctatgtcctcaactaacctttgccttctctgCAGGCAGCATCTGGAGCAACGTCTTGAAGCTGAGTTGCAAGCAGCATCTGCCAGTAAGGAGCAGGCACTGATGGAGCTCAAGGTGCAAGTCTTGCAGTTGGAGGAAGAGCTCATCGAGgtaagcctgcccaactcgaaagactactggcactggtaattcattagtta Alignment from GeneWise GTACCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG cagtaaagtctagttgctatgtcctcaactaacctttgccttctctgcagG---CAGCATCTGGAGCAACGTCTTGAAGCTGAGTTGCAAGCAGCATCTGCCAGTAAGGAGCAGGCACTGATGGAGCTCAAGGTGCAAGTCTTGCAGTTGGAGGAAGAGCTCATCGAGgtaagcctgcccaactcgaaagactactggcactggtaattcattagtta #### Ccdc88b_ID1845_4 --> 0 - 1 Original Alignment GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAg acccagtagcacctagcatggatacatttggcttctccttgaccttgcagGAGGAGCTACAGCTTTTAATCTTATCAGCACCACCAGACCTCCAGCCTACAGGGTGTGAACCC------ggtaagtcgtgcagttctagcctcttctaccatttgactctcttatatacc Alignment from CESAR GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAg acccagtagcacctagcatggatacatttggcttctccttgaccttgcagGAGGAGCTACAGCTTTTAATCTTATCAGCACCACCAGACCTCCAGCCTACAGGGTGTGAACCC------ggtaagtcgtgcagttctagcctcttctaccatttgactctcttatatacc Alignment from Spaln_aa2Genome GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCC- acccagtagcacctagcatggatacatttggcttctccttgaccttgcagGAGGAGCTACAGCTTTTAATCTTATCAGCACCACCAGACCTCCAGCCTACAGGGTGTGAACCCGgtaagtcgtgcagttctagcctcttctaccatttgactctcttatatacc Alignment from Spaln_nt2Genome GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG acccagtagcacctagcatggatacatttggcttctccttgaccttgcagGAGGAGCTACAGCTTTTAATCTTATCAGCACCACCAGACCTCCAGCCTACAGGGTGTGAACCC------Ggtaagtcgtgcagttctagcctcttctaccatttgactctcttatatacc Alignment from Pairagon GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG acccagtagcacctagcatggatacatttggcttctccttgaccttgcagGAGGAGCTACAGCTTTTAATCTTATCAGCACCACCAGACCTCCAGCCTACAGGGTGTGAACCC------Ggtaagtcgtgcagttctagcctcttctaccatttgactctcttatatacc Alignment from Exonerate_protein2genome GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCT acccagtagcacctagcatggatacatttggcttctccttgaccttgcagGAGGAGCTACAGCTTTTAATCTTATCAGCACCACCAGACCTCCAGCCTACAGGGTGTGAACCCGgtaagtcgtgcagttctagcctcttctaccatttgactctcttatatacc Alignment from Exonerate_coding2genome acccagtagcacctagcatggatacatttggcttctccttgaccttgcaggaggagctacagcttttaatcttatcagcaccaccagacctccagcctacagggtgtgaacccggtaagtcgtgcagttctagcctcttctaccatttgactctcttatatacc Alignment from GeneWise GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCT acccagtagcacctagcatggatacatttggcttctccttgaccttgcagGAGGAGCTACAGCTTTTAATCTTATCAGCACCACCAGACCTCCAGCCTACAGGGTGTGAACCCGgtaagtcgtgcagttctagcctcttctaccatttgactctcttatatacc #### Ccdc88b_ID1847_2 --> 0 - 2 Original Alignment ------GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCat gcctggtattgtgtgcctgcctccctacctgctccttccccttcatccagAATAGTGCTTTAGGTTTAGCTGGCCTAGTGGGGGATGCAGAAAAGTCAGCAGGGGGAACTGAAGAGGATGAGGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGATGGAGCCTTACTTCTTCGGGTTTTGGATATTatgcaagagatacagtgaaatttagctatggatgttggccatgaatggtagg Alignment from CESAR ------GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCat gcctggtattgtgtgcctgcctccctacctgctccttccccttcatccagAATAGTGCTTTAGGTTTAGCTGGCCTAGTGGGGGATGCAGAAAAGTCAGCAGGGGGAACTGAAGAGGATGAGGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGATGGAGCCTTACTTCTTCGGGTTTTGGATATTatgcaagagatacagtgaaatttagctatggatgttggccatgaatggtagg Alignment from Spaln_aa2Genome GCACTGGGACTG------GCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT gcctggtattgtgtgcctgcctccctacctgctccttccccttcatccagAATAGTGCTTTAGGTTTAGCTGGCCTAGTGGGGGATGCAGAAAAGTCAGCAGGGGGAACTGAAGAGGATGAGGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGATGGAGCCTTACTTCTTCGGGTTTTGGATATTATgcaagagatacagtgaaatttagctatggatgttggccatgaatggtagg Alignment from Spaln_nt2Genome -GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT gcctggtattgtgtgcctgcctccctacctgctccttccccttcatccagaatagTGCTTTAGGTTTAGCTGGCCTAGTGGGGGATGCAGAAAAGTCAGCAGGGGGAACTGAAGAGGATGAGGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGATGGAGCCTTACTTCTTCGGGTTTTGGATATTATgcaagagatacagtgaaatttagctatggatgttggccatgaatggtagg Alignment from Pairagon GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT gcctggtattgtgtgcctgcctccctacctgctccttccccttcatccagaatagtgctttaggtttag-------------CTGGCCTAGTGGGGGATGCAGAAAAGTCAGCAGGGGGAACTGAAGAGGATGAGGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGATGGAGCCTTACTTCTTCGGGTTTTGGATATTATgcaagagatacagtgaaatttagctatggatgttggccatgaatggtagg Alignment from Exonerate_protein2genome ------GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT gcctggtattgtgtgcctgcctccctacctgctccttccccttcatccagAATAGTGCTTTAGGTTTAGCTGGCCTAGTGGGGGATGCAGAAAAGTCAGCAGGGGGAACTGAAGAGGATGAGGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGATGGAGCCTTACTTCTTCGGGTTTTGGATATTATgcaagagatacagtgaaatttagctatggatgttggccatgaatggtagg Alignment from Exonerate_coding2genome gcctggtattgtgtgcctgcctccctacctgctccttccccttcatccagaatagtgctttaggtttagctggcctagtgggggatgcagaaaagtcagcagggggaactgaagaggatgaggaggaagaggaggaagaaggagccctttgtacagaaaaaagatccctacggttgattgatggagccttacttcttcgggttttggatattatgcaagagatacagtgaaatttagctatggatgttggccatgaatggtagg Alignment from GeneWise ------GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATC---------ATT-- gcctggtattgtgtgcctgcctccctacctgctccttccccttcatccagAATAGTGCTTTAGGTTTAGCTGGCCTAGTGGGGGATGCAGAAAAGTCAGCAGGGGGAACTGAAGAGGATGAGGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAAGATCCCTACGGTTGATTGATGGAGCCTTACTTCTTCGGGTTTTGGATATTATGCAAGAGATACAgtgaaatttagctatggatgttggccatgaatggtagg #### Cd274_ID6274_5 --> 2 - 1 Original Alignment tgAGAATGCTAGATGTGGAGAAATGTGGCGTTGAAGATACAAGCTCAAAAAACCGAAAT---g agtttgtccttactaaaattataactcatcattgtcctgtgtccttgtagtgAGGATGCTGGATGTGGAGAAATGCAGTGTTGAGCATACAAGCTCAAAAAACCGGAATGACggtaagcggatgaatgtaaggaaattttggtgaccattatggaccagatta Alignment from CESAR tgAGAATGCTAGATGTGGAGAAATGTGGCGTTGAAGATACAAGCTCAAAAAACCGAAAT---g agtttgtccttactaaaattataactcatcattgtcctgtgtccttgtagtgAGGATGCTGGATGTGGAGAAATGCAGTGTTGAGCATACAAGCTCAAAAAACCGGAATGACggtaagcggatgaatgtaaggaaattttggtgaccattatggaccagatta Alignment from Spaln_aa2Genome TGAGAATGCTAGATGTGGAGAAATGTGGCGTTGAAGATACAAGCTCAAAAAACCGAAAT---G agtttgtccttactaaaattataactcatcattgtcctgtgtccttgtagTGAGGATGCTGGATGTGGAGAAATGCAGTGTTGAGCATACAAGCTCAAAAAACCGGAATGACGgtaagcggatgaatgtaaggaaattttggtgaccattatggaccagatta Alignment from Spaln_nt2Genome TGAGAATGCTAGATGTGGAGAAATGTGGCGTTGAAGATACAAGCTCAAAAAACCGAAATGA-- agtttgtccttactaaaattataactcatcattgtcctgtgtccttgtagTGAGGATGCTGGATGTGGAGAAATGCAGTGTTGAGCATACAAGCTCAAAAAACCGGAATGACGgtaagcggatgaatgtaaggaaattttggtgaccattatggaccagatta Alignment from Pairagon TGAGAATGCTAGATGTGGAGAAATGTGGCGTTGAAGATACAAGCTCAAAAAACCGAAATG--- agtttgtccttactaaaattataactcatcattgtcctgtgtccttgtagTGAGGATGCTGGATGTGGAGAAATGCAGTGTTGAGCATACAAGCTCAAAAAACCGGAATGACGgtaagcggatgaatgtaaggaaattttggtgaccattatggaccagatta Alignment from Exonerate_protein2genome TGAGAATGCTAGATGTGGAGAAATGTGGCGTTGAAGATACAAGCTCAAAAAACCGAAATGAT agtttgtccttactaaaattataactcatcattgtcctgtgtccttgtagTGAGGATGCTGGATGTGGAGAAATGCAGTGTTGAGCATACAAGCTCAAAAAACCGGAATGACggtaagcggatgaatgtaaggaaattttggtgaccattatggaccagatta Alignment from Exonerate_coding2genome TGAGAATGCTAGATGTGGAGAAATGTGGCGTTGAAGATACAAGCTCAAAAAACCGAAATGAT agtttgtccttactaaaattataactcatcattgtcctgtgtccttgtagTGAGGATGCTGGATGTGGAGAAATGCAGTGTTGAGCATACAAGCTCAAAAAACCGGAATGACggtaagcggatgaatgtaaggaaattttggtgaccattatggaccagatta Alignment from GeneWise TGAGAATGCTAGATGTGGAGAAATGTGGCGTTGAAGATACAAGCTCAAAAAACCGAAATGATACACAATTCGAGGAGACG agtttgtccttactaaaattataactcatcattgtcctgtgtccttgtagTGAGGATGCTGGATGTGGAGAAATGCAGTGTTGAGCATACAAGCTCAAAAAACCGGAATGACGGTAAGCGGATGAATGTAaggaaattttggtgaccattatggaccagatta #### Cdc42bpg_ID1573_3 --> 0 - 0 Original Alignment GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttggtccttctgtgagtccagtcgcatttttctgttttcctctgcttcagGTTATTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCT---gtagagggttggcacaaatgtaaaatctagaaattttgtttcaattctac Alignment from CESAR GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttggtccttctgtgagtccagtcgcatttttctgttttcctctgcttcagGTTATTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCT---gtagagggttggcacaaatgtaaaatccctcccacctggtttcctct Alignment from Spaln_aa2Genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCT ttggtccttctgtgagtccagtcgcatttttctgttttcctctgcttcagGTTATTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTgtagagggttggcacaaatgtaaaatctagaaattttgtttcaattctac Alignment from Spaln_nt2Genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGA----G ttggtccttctgtgagtccagtcgcatttttctgttttcctctgcttcagGTTATTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGTAGAGGgttggcacaaatgtaaaatctagaaattttgtttcaattctac Alignment from Pairagon GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTG------------------------------------------------- ttggtccttctgtgagtccagtcgcatttttctgttttcctctgcttcagGTTATTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGTAGAGGGTTGGCACAAATGTAAAATCTAGAAATTTTGTTTCAATTCTAC Alignment from Exonerate_protein2genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttggtccttctgtgagtccagtcgcatttttctgttttcctctgcttcagGTTATTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGTAgagggttggcacaaatgtaaaatctagaaattttgtttcaattctac Alignment from Exonerate_coding2genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttggtccttctgtgagtccagtcgcatttttctgttttcctctgcttcagGTTATTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGTAgagggttggcacaaatgtaaaatctagaaattttgtttcaattctac Alignment from GeneWise GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCT ttggtccttctgtgagtccagtcgcatttttctgttttcctctgcttcagGTTATTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAATATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTgtagagggttggcacaaatgtaaaatctagaaattttgtttcaattctac #### Cdc42bpg_ID1574_4 --> 0 - 0 Original Alignment ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aagaaaatgtaaaatctagcctcccaccttttcccctctgcttgtaacag------TGTCTCCGGGAGGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaaaaagtcctatgtcatagaggggttaccctgacagtgctgttttttt Alignment from CESAR ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG gggttggcacaaatgtaaaatctagaccttttcccctctgcttgtaacag------TGTCTCCGGGAGGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaaaaagtcctatgtcatagaggggttaccctgacagtgctgttttttt Alignment from Spaln_aa2Genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aagaaaatgtaaaatctagcctcccaccttttcccctctgcttgtaacag------TGTCTCCGGGAGGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaaaaagtcctatgtcatagaggggttaccctgacagtgctgttttttt Alignment from Spaln_nt2Genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aagaaaatgtaaaatctagcctcccaccttttcccctctgcttgtaacag------TGTCTCCGGGAGGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaaaaagtcctatgtcatagaggggttaccctgacagtgctgttttttt Alignment from Pairagon ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aagaaaatgtaaaatctagcctcccaccttttcccctctgcttgtaacag------TGTCTCCGGGAGGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaaaaagtcctatgtcatagaggggttaccctgacagtgctgttttttt Alignment from Exonerate_protein2genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aagaaaatgtaaaatctagcctcccaccttttcccctctgcttgTAACAGTGTCTCCGGGAGGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaaaaagtcctatgtcatagaggggttaccctgacagtgctgttttttt Alignment from Exonerate_coding2genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aagaaaatgtaaaatctagcctcccaccttttcccctctgcttgTAACAGTGTCTCCGGGAGGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaaaaagtcctatgtcatagaggggttaccctgacagtgctgttttttt Alignment from GeneWise TGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG aagaaaatgtaaaatctagcctcccaccttttcccctctgcttgtaacagTGTCTCCGGGAGGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaaaaagtcctatgtcatagaggggttaccctgacagtgctgttttttt #### Cdc42bpg_ID1577_7 --> 0 - 0 Original Alignment ---GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtacctcctctacctgcctccactgactgtattctctgttacacagATTGTGGATTCATCAGTTCCCGTAGGAACTCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCTCTGGTAGAGACTTACGGGAAGATCATGAACCATGAGgtacagctgtagggctcagggaccctggtattgtggaggtcatctttgta Alignment from CESAR ---GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtacctcctctacctgcctccactgactgtattctctgttacacagATTGTGGATTCATCAGTTCCCGTAGGAACTCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCTCTGGTAGAGACTTACGGGAAGATCATGAACCATGAGgtacagctgtagggctcagggaccctggtattgtggaggtcatctttgta Alignment from Spaln_aa2Genome ATGGTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtacctcctctacctgcctccactgactgtattctctgttacacagATTGTGGATTCATCAGTTCCCGTAGGAACTCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCTCTGGTAGAGACTTACGGGAAGATCATGAACCATGAGgtacagctgtagggctcagggaccctggtattgtggaggtcatctttgta Alignment from Spaln_nt2Genome ---GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtacctcctctacctgcctccactgactgtattctctgttacacagATTGTGGATTCATCAGTTCCCGTAGGAACTCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCTCTGGTAGAGACTTACGGGAAGATCATGAACCATGAGgtacagctgtagggctcagggaccctggtattgtggaggtcatctttgta Alignment from Pairagon ---GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtacctcctctacctgcctccactgactgtattctctgttacacagATTGTGGATTCATCAGTTCCCGTAGGAACTCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCTCTGGTAGAGACTTACGGGAAGATCATGAACCATGAGgtacagctgtagggctcagggaccctggtattgtggaggtcatctttgta Alignment from Exonerate_protein2genome ATGGTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtacctcctctacctgcctccactgactgtattctctgttacacagATTGTGGATTCATCAGTTCCCGTAGGAACTCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCTCTGGTAGAGACTTACGGGAAGATCATGAACCATGAGgtacagctgtagggctcagggaccctggtattgtggaggtcatctttgta Alignment from Exonerate_coding2genome ATGGTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtacctcctctacctgcctccactgactgtattctctgttacacagATTGTGGATTCATCAGTTCCCGTAGGAACTCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCTCTGGTAGAGACTTACGGGAAGATCATGAACCATGAGgtacagctgtagggctcagggaccctggtattgtggaggtcatctttgta Alignment from GeneWise ---GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtacctcctctacctgcctccactgactgtattctctgttacacagATTGTGGATTCATCAGTTCCCGTAGGAACTCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATTTGATTGGTGGTCACTGGGAGTCTGTGCCTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGTATCTCTGGTAGAGACTTACGGGAAGATCATGAACCATGAGgtacagctgtagggctcagggaccctggtattgtggaggtcatctttgta #### Cdc42bpg_ID1582_12 --> 2 - 0 Original Alignment agACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG--- gcttacagagcggggaatgattgcagcttttgtaaattatcctttaacagagACTTTGAAAGACAGCAAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATCCAGTTACAGCAGGAGAAGGATCGCCTTCAGCAGCTTgtgagtattgtgatgggaattatacagtgtgttgtttgtcaacataaacc Alignment from CESAR agACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG--- gcttacagagcggggaatgattgcagcttttgtaaattatcctttaacagagACTTTGAAAGACAGCAAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATCCAGTTACAGCAGGAGAAGGATCGCCTTCAGCAGCTTgtgagtattgtgatgggaattatacagtgtgttgtttgtcaacataaacc Alignment from Spaln_aa2Genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAGGAG gcttacagagcggggaatgattgcagcttttgtaaattatcctttaacagAGACTTTGAAAGACAGCAAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATCCAGTTACAGCAGGAGAAGGATCGCCTTCAGCAGCTTgtgagtattgtgatgggaattatacagtgtgttgtttgtcaacataaacc Alignment from Spaln_nt2Genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG--- gcttacagagcggggaatgattgcagcttttgtaaattatcctttaacagAGACTTTGAAAGACAGCAAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATCCAGTTACAGCAGGAGAAGGATCGCCTTCAGCAGCTTgtgagtattgtgatgggaattatacagtgtgttgtttgtcaacataaacc Alignment from Pairagon AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG--- gcttacagagcggggaatgattgcagcttttgtaaattatcctttaacagAGACTTTGAAAGACAGCAAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATCCAGTTACAGCAGGAGAAGGATCGCCTTCAGCAGCTTgtgagtattgtgatgggaattatacagtgtgttgtttgtcaacataaacc Alignment from Exonerate_protein2genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAGGAG gcttacagagcggggaatgattgcagcttttgtaaattatcctttaacagAGACTTTGAAAGACAGCAAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATCCAGTTACAGCAGGAGAAGGATCGCCTTCAGCAGCTTgtgagtattgtgatgggaattatacagtgtgttgtttgtcaacataaacc Alignment from Exonerate_coding2genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAGGAG gcttacagagcggggaatgattgcagcttttgtaaattatcctttaacagAGACTTTGAAAGACAGCAAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATCCAGTTACAGCAGGAGAAGGATCGCCTTCAGCAGCTTgtgagtattgtgatgggaattatacagtgtgttgtttgtcaacataaacc Alignment from GeneWise AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAGGAG gcttacagagcggggaatgattgcagcttttgtaaattatcctttaacagAGACTTTGAAAGACAGCAAGGCTTCTCTTGCACAAGCTGATGGGCCTGATGCTAGAAGCCCTGTCCCAAACATCCAGTTACAGCAGGAGAAGGATCGCCTTCAGCAGCTTgtgagtattgtgatgggaattatacagtgtgttgtttgtcaacataaacc #### Cdc42bpg_ID1583_13 --> 0 - 0 Original Alignment GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG------ ccaagctgacccctctgagtttgctccgtgtcttttctgcatctcaacagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTGTGCCAAGCA---AACCGGCAAGAAGAAGTCTTGCAGAGGCTGTGGGAAGCACAGGAGAGAGAATCTGCTGCAGCAGGGCAGCTTCAGAGCCTAAATACTCAGCTCCAAGAGGCATGGGTGGTCCGCAGGGAGTCTTTGgtaggataagagacatccaaacttccatagatgtctttagatccatgtag Alignment from CESAR GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG------ ccaagctgacccctctgagtttgctccgtgtcttttctgcatctcaacagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTGTGCCAAGCA---AACCGGCAAGAAGAAGTCTTGCAGAGGCTGTGGGAAGCACAGGAGAGAGAATCTGCTGCAGCAGGGCAGCTTCAGAGCCTAAATACTCAGCTCCAAGAGGCATGGGTGGTCCGCAGGGAGTCTTTGgtaggataagagacatccaaacttccatagatgtctttagatccatgtag Alignment from Spaln_aa2Genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG------ ccaagctgacccctctgagtttgctccgtgtcttttctgcatctcaacagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTGTGCCAAGCA---AACCGGCAAGAAGAAGTCTTGCAGAGGCTGTGGGAAGCACAGGAGAGAGAATCTGCTGCAGCAGGGCAGCTTCAGAGCCTAAATACTCAGCTCCAAGAGGCATGGGTGGTCCGCAGGGAGTCTTTGgtaggataagagacatccaaacttccatagatgtctttagatccatgtag Alignment from Spaln_nt2Genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG------ ccaagctgacccctctgagtttgctccgtgtcttttctgcatctcaacagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTGTGCCAAGC---AAACCGGCAAGAAGAAGTCTTGCAGAGGCTGTGGGAAGCACAGGAGAGAGAATCTGCTGCAGCAGGGCAGCTTCAGAGCCTAAATACTCAGCTCCAAGAGGCATGGGTGGTCCGCAGGGAGTCTTTGgtaggataagagacatccaaacttccatagatgtctttagatccatgtag Alignment from Pairagon GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG------ ccaagctgacccctctgagtttgctccgtgtcttttctgcatctcaacagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTGTGCCAAGC---AAACCGGCAAGAAGAAGTCTTGCAGAGGCTGTGGGAAGCACAGGAGAGAGAATCTGCTGCAGCAGGGCAGCTTCAGAGCCTAAATACTCAGCTCCAAGAGGCATGGGTGGTCCGCAGGGAGTCTTTGgtaggataagagacatccaaacttccatagatgtctttagatccatgtag Alignment from Exonerate_protein2genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG------ ccaagctgacccctctgagtttgctccgtgtcttttctgcatctcaacagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTGTGCCAAGCA---AACCGGCAAGAAGAAGTCTTGCAGAGGCTGTGGGAAGCACAGGAGAGAGAATCTGCTGCAGCAGGGCAGCTTCAGAGCCTAAATACTCAGCTCCAAGAGGCATGGGTGGTCCGCAGGGAGTCTTTGgtaggataagagacatccaaacttccatagatgtctttagatccatgtag Alignment from Exonerate_coding2genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG------ ccaagctgacccctctgagtttgctccgtgtcttttctgcatctcaacagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTGTGCCAAGCA---AACCGGCAAGAAGAAGTCTTGCAGAGGCTGTGGGAAGCACAGGAGAGAGAATCTGCTGCAGCAGGGCAGCTTCAGAGCCTAAATACTCAGCTCCAAGAGGCATGGGTGGTCCGCAGGGAGTCTTTGgtaggataagagacatccaaacttccatagatgtctttagatccatgtag Alignment from GeneWise GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG---CTC ccaagctgacccctctgagtttgctccgtgtcttttctgcatctcaacagGAGCTGCCTCAGGCTCAGGTAGCACTGCAAGTGCAAGATGCTGAATTGTGCCAAGCA---AACCGGCAAGAAGAAGTCTTGCAGAGGCTGTGGGAAGCACAGGAGAGAGAATCTGCTGCAGCAGGGCAGCTTCAGAGCCTAAATACTCAGCTCCAAGAGGCATGGGTGGTCCGCAGGGAGTCTTTGgtaggataagagacatccaaacttccatagatgtctttagatccatgtag #### Cdc42bpg_ID1587_17 --> 0 - 2 Original Alignment CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtg attgggtaacgaggattaacatttttaccctcgcgaatctgtatccccag------GGAGAGCTGGAACTGGAACTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCtggtgagactacacagctgggtggcaccattgatactgtgagccctcttttc Alignment from CESAR CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtg gaaaccattgggtaacgaggattaataccctcgcgaatctgtatccccag------GGAGAGCTGGAACTGGAACTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCtggtgagactacacagctgggtggcaccattgatactgtgagccctttctct Alignment from Spaln_aa2Genome CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG attgggtaacgaggattaacatttttaccctcgcgaatctgtatccccag------GGAGAGCTGGAACTGGAACTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtgagactacacagctgggtggcaccattgatactgtgagccctcttttc Alignment from Spaln_nt2Genome CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG attgggtaacgaggattaacatttttaccctcgcgaatctgtatccccag------GGAGAGCTGGAACTGGAACTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtgagactacacagctgggtggcaccattgatactgtgagccctcttttc Alignment from Pairagon ACGGCTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG attgggtaacgaggattaacatttttaccctcgcgaatctgtatccccag----------GGAGAGCTGGAACTGGAACTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtgagactacacagctgggtggcaccattgatactgtgagccctcttttc Alignment from Exonerate_protein2genome CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG attgggtaacgaggattaacatttttaccctcgcgaatctgtatCCCCAGGGAGAGCTGGAACTGGAACTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtgagactacacagctgggtggcaccattgatactgtgagccctcttttc Alignment from Exonerate_coding2genome CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG attgggtaacgaggattaacatttttaccctcgcgaatctgtatCCCCAGGGAGAGCTGGAACTGGAACTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtgagactacacagctgggtggcaccattgatactgtgagccctcttttc Alignment from GeneWise GGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG attgggtaacgaggattaacatttttaccctcgcgaatctgtatccccagGGAGAGCTGGAACTGGAACTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtgagactacacagctgggtggcaccattgatactgtgagccctcttttc #### Cdc42bpg_ID1590_20 --> 1 - 1 Original Alignment c------------------------CGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTGCAG---CAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGg cactgcaatgtatgagccctcctgggtgacttctccccaatttctggcagcCCTACAGTCATGGTTACCAAACACCGCCTGCAGGAAGCTGAGACACAAAGTAAGACACTCCAGCAGCAGGAGGTGGCTGTGCTAAGGGAAGAGCTTCAAGCTCGAGGACCAGGAggtaagaacccacttggatccaaccacaaggcctaacctgtggggaccaga Alignment from CESAR c------------------------CGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTGCAG---CAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGg cactgcaatgtatgagccctcctgggtgacttctccccaatttctggcagcCCTACAGTCATGGTTACCAAACACCGCCTGCAGGAAGCTGAGACACAAAGTAAGACACTCCAGCAGCAGGAGGTGGCTGTGCTAAGGGAAGAGCTTCAAGCTCGAGGACCAGGAggtaagaacccacttggatccaaccacaaggcctaacctgtggggaccaga Alignment from Spaln_aa2Genome GCAG------------GCTGAACGCCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTG---CAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGG cactgcaatgtatgagccctcctgggtgacttctccccaatttctggcagCCCTACAGTCATGGTTACCAAACACCGCCTGCAGGAAGCTGAGACACAAAGTAAGACACTCCAGCAGCAGGAGGTGGCTGTGCTAAGGGAAGAGCTTCAAGCTCGAGGACCAGGAGgtaagaacccacttggatccaaccacaaggcctaacctgtggggaccaga Alignment from Spaln_nt2Genome GCTCAGCGGCAGGCTGA----ACGCCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCT---GCAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGG cactgcaatgtatgagccctcctgggtgacttctccccaatttctggcagCCCTACAGTCATGGTTACCAAACACCGCCTGCAGGAAGCTGAGACACAAAGTAAGACACTCCAGCAGCAGGAGGTGGCTGTGCTAAGGGAAGAGCTTCAAGCTCGAGGACCAGGAGgtaagaacccacttggatccaaccacaaggcctaacctgtggggaccaga Alignment from Pairagon ----------------CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGC---CCTGCAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGG cactgcaatgtatgagccctcctgggtgacttctccccaatttctggcagccctacagTCATGGTTACCAAACACCGCCTGCAGGAAGCTGAGACACAAAGTAAGACACTCCAGCAGCAGGAGGTGGCTGTGCTAAGGGAAGAGCTTCAAGCTCGAGGACCAGGAGgtaagaacccacttggatccaaccacaaggcctaacctgtggggaccaga Alignment from Exonerate_protein2genome CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTG---CAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGG cactgcaatgtatgagccctcctgggtgacttctccccaatttctggcagccctacagtcatggttaccaaacaCCGCCTGCAGGAAGCTGAGACACAAAGTAAGACACTCCAGCAGCAGGAGGTGGCTGTGCTAAGGGAAGAGCTTCAAGCTCGAGGACCAGGAGgtaagaacccacttggatccaaccacaaggcctaacctgtggggaccaga Alignment from Exonerate_coding2genome CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTG---CAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGG cactgcaatgtatgagccctcctgggtgacttctccccaatttctggcagccctacagtcatggttaccaaacaCCGCCTGCAGGAAGCTGAGACACAAAGTAAGACACTCCAGCAGCAGGAGGTGGCTGTGCTAAGGGAAGAGCTTCAAGCTCGAGGACCAGGAGgtaagaacccacttggatccaaccacaaggcctaacctgtggggaccaga Alignment from GeneWise ----------------------CGCCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTGCAGCAG---GAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGG cactgcaatgtatgagccctcctgggtgacttctccccaatttctggcagCCCTACAGTCATGGTTACCAAACACCGCCTGCAGGAAGCTGAGACACAAAGTAAGACACTCCAGCAGCAGGAGGTGGCTGTGCTAAGGGAAGAGCTTCAAGCTCGAGGACCAGGAGgtaagaacccacttggatccaaccacaaggcctaacctgtggggaccaga #### Cdc42bpg_ID1591_21 --> 2 - 0 Original Alignment atGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAG gcaggacagtggtttcaagttaattgtaagttgatccttctctgttttagat---------TCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAGgtaagctggacatactgggtcaagcaagtcgcaacagctgacgataagca Alignment from CESAR atGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAG agtgttccggcaggacagtggtttcgtaagttgatccttctctgttttagat---------TCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAGgtaagctggacatactgggtcaagcaagtcgcaacagctgacgataagca Alignment from Spaln_aa2Genome ATGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAG gcaggacagtggtttcaagttaattgtaagttgatccttctctgttttagAT---------TCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAGgtaagctggacatactgggtcaagcaagtcgcaacagctgacgataagca Alignment from Spaln_nt2Genome AGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAG gcaggacagtggtttcaagttaattgtaagttgatccttctctgttttagA----TTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAGgtaagctggacatactgggtcaagcaagtcgcaacagctgacgataagca Alignment from Pairagon ATGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAG gcaggacagtggtttcaagttaattgtaagttgatccttctctgttttagA---------TTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAGgtaagctggacatactgggtcaagcaagtcgcaacagctgacgataagca Alignment from Exonerate_protein2genome ATGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAG gcaggacagtggtttcaagttaattgtaagttgatccttctctgttttagAT---------TCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAGgtaagctggacatactgggtcaagcaagtcgcaacagctgacgataagca Alignment from Exonerate_coding2genome ATGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAG gcaggacagtggtttcaagttaattgtaagttgatccttctctgttttagAT---------TCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAGgtaagctggacatactgggtcaagcaagtcgcaacagctgacgataagca Alignment from GeneWise --GATGCCAGGCC gcaggacagtggtttcaagttaattgtaagttgatccttctctgttttagattccacttccctcatccctctcctgtccttctggaacacagaggtaagctggacatactgggtcaagcaagtcgcaacagCTGACGATAAGCA #### Cdc42bpg_ID1592_22 --> 0 - 0 Original Alignment AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG------ acgataagcataaatcctgtcctgactcggcctcttacttttccccccagAAAGACTTTGCTAAGGACCCAGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCAGAAGCAGAGCTTAGACCAGAGGGCCGCCGCAGTCTACGCATGGGTAATGGGgtaagttctataaccaactagaatataactacaggggatttcctcattga Alignment from CESAR AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATG------GGG acgataagcataaatcctgtcctgactcggcctcttacttttccccccagAAAGACTTTGCTAAGGACCCAGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCAGAAGCAGAGCTTAGACCAGAGGGCCGCCGCAGTCTACGCATGGGTAATGGGgtaagttctataaccaactagaatataactacaggggatttcctcattga Alignment from Spaln_aa2Genome AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGGAGT--- acgataagcataaatcctgtcctgactcggcctcttacttttccccccagAAAGACTTTGCTAAGGACCCAGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCAGAAGCAGAGCTTAGACCAGAGGGCCGCCGCAGTCTACGCATGGGTAATGGGgtaagttctataaccaactagaatataactacaggggatttcctcattga Alignment from Spaln_nt2Genome AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGG acgataagcataaatcctgtcctgactcggcctcttacttttccccccagAAAGACTTTGCTAAGGACCCAGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCAGAAGCAGAGCTTAGACCAGAGGGCCGCCGCAGTCTACGCATGGgtaatggggtaagttctataaccaactagaatataactacaggggatttcctcattga Alignment from Pairagon AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATG------GGG acgataagcataaatcctgtcctgactcggcctcttacttttccccccagAAAGACTTTGCTAAGGACCCAGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCAGAAGCAGAGCTTAGACCAGAGGGCCGCCGCAGTCTACGCATGGGTAATGGGgtaagttctataaccaactagaatataactacaggggatttcctcattga Alignment from Exonerate_protein2genome AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATG------GGG acgataagcataaatcctgtcctgactcggcctcttacttttccccccagAAAGACTTTGCTAAGGACCCAGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCAGAAGCAGAGCTTAGACCAGAGGGCCGCCGCAGTCTACGCATGGGTAATGGGgtaagttctataaccaactagaatataactacaggggatttcctcattga Alignment from Exonerate_coding2genome AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATG------GGG acgataagcataaatcctgtcctgactcggcctcttacttttccccccagAAAGACTTTGCTAAGGACCCAGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCAGAAGCAGAGCTTAGACCAGAGGGCCGCCGCAGTCTACGCATGGGTAATGGGgtaagttctataaccaactagaatataactacaggggatttcctcattga Alignment from GeneWise AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGGAGTGTG acgataagcataaatcctgtcctgactcggcctcttacttttccccccagAAAGACTTTGCTAAGGACCCAGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCAGAAGCAGAGCTTAGACCAGAGGGCCGCCGCAGTCTACGCATGGGTAATGGGgtaagttctataaccaactagaatataactacaggggatttcctcattga #### Cdc42bpg_ID1597_27 --> 1 - 0 Original Alignment g------GACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tagggagtctacagcagggtggtctgtcgttgaggttgaatgctccgcaggTTCATCGACCCCCAATTTTCAGCGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtaaggagactaggtgatataggatatagcctccacaggcttgagcttgt Alignment from CESAR g------GACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tagggagtctacagcagggtggtctgtcgttgaggttgaatgctccgcaggTTCATCGACCCCCAATTTTCAGCGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtaaggagactaggtgatataggatatagcctccacaggcttgagcttgt Alignment from Spaln_aa2Genome GGACCCCCAGTTC------TCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tagggagtctacagcagggtggtctgtcgttgaggttgaatgctccgcagGTTCATCGACCCCCAATTTTCAGCGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtaaggagactaggtgatataggatatagcctccacaggcttgagcttgt Alignment from Spaln_nt2Genome GGACCCCCAGTT------CTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tagggagtctacagcagggtggtctgtcgttgaggttgaatgctccgcagGTTCATCGACCCCCAATTTTCAGCGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtaaggagactaggtgatataggatatagcctccacaggcttgagcttgt Alignment from Pairagon ---------------------------------------------------------GACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG TAGGGAGTCTACAGCAGGGTGGTCTGTCGTTGAGGTTGAATGCTCCGCAGGTTCATCGACCCCCAATTTTCAGCGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtaaggagactaggtgatataggatatagcctccacaggcttgagcttgt Alignment from Exonerate_protein2genome GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tagggagtctacagcagggtggtctgtcgttgaggttgaatgctccgcaggttcatCGACCCCCAATTTTCAGCGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtaaggagactaggtgatataggatatagcctccacaggcttgagcttgt Alignment from Exonerate_coding2genome GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tagggagtctacagcagggtggtctgtcgttgaggttgaatgctccgcaggttcatCGACCCCCAATTTTCAGCGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtaaggagactaggtgatataggatatagcctccacaggcttgagcttgt Alignment from GeneWise ----AGGGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tagggagtctacagcagggtggtctgtcgttgaggttgaatgctccgcagGTTCATCGACCCCCAATTTTCAGCGACTCCTGACTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGCATCTTCAGGgtaaggagactaggtgatataggatatagcctccacaggcttgagcttgt #### Cdca5_ID1429_3 --> 0 - 0 Original Alignment ACAACTCCAGCGGTCCCAGTCAGAAAGGCCATCGTCTTGAAGAAGATCGTAGCTCATGCAGTAGAG aaacagcaccttttttaattgctgcgagcttttattactgtgctttacag------------------GTTAGAAAAGCCATCATCTTGAAAAAGATAGTTGCCCATGCAGTTGAAgtaagtggttgagttggccactgagatgtccaaaaaggctctagctaaac Alignment from CESAR ACAACTCCAGCGGTCCCAGTCAGAAAGGCCATCGTCTTGAAGAAGATCGTAGCTCATGCAGTAGAG cactgttttacgcctcccaaacagcgagcttttattactgtgctttacag------------------GTTAGAAAAGCCATCATCTTGAAAAAGATAGTTGCCCATGCAGTTGAAgtaagtggttgagttggccactgagatgtccaaaaaggctctagctatat Alignment from Spaln_aa2Genome CCAGTCAGAAAGGCCATCGTCTTGAAGAAGATCGTAGCTCATGCAGTAGAG aaacagcaccttttttaattgctgcgagcttttattactgtgctttacag---GTTAGAAAAGCCATCATCTTGAAAAAGATAGTTGCCCATGCAGTTGAAgtaagtggttgagttggccactgagatgtccaaaaaggctctagctaaac Alignment from Spaln_nt2Genome GTCAGAAAGGCCATCGTCTTGAAGAAGATCGTAGCTCATGCAGTAGAG aaacagcaccttttttaattgctgcgagcttttattactgtgctttacagGTTAGAAAAGCCATCATCTTGAAAAAGATAGTTGCCCATGCAGTTGAAgtaagtggttgagttggccactgagatgtccaaaaaggctctagctaaac Alignment from Pairagon ACAACTCCAGCGGTCCCAGTCAGAAAGGCCATCGTCTTGAAGAAGATCGTAGCTCATGCAGTAGAG aaacagcaccttttttaattgctgcgagcttttattactgtgctttacag------------------GTTAGAAAAGCCATCATCTTGAAAAAGATAGTTGCCCATGCAGTTGAAgtaagtggttgagttggccactgagatgtccaaaaaggctctagctaaac Alignment from Exonerate_protein2genome GCGGTCCCAGTCAGAAAGGCCATCGTCTTGAAGAAGATCGTAGCTCATGCAGTAGAG aaacagcaccttttttaattgctgcgagcttttattactgtGCTTTACAGGTTAGAAAAGCCATCATCTTGAAAAAGATAGTTGCCCATGCAGTTGAAgtaagtggttgagttggccactgagatgtccaaaaaggctctagctaaac Alignment from Exonerate_coding2genome aaacagcaccttttttaattgctgcgagcttttattactgtgctttacaggttagaaaagccatcatcttgaaaaagatagttgcccatgcagttgaagtaagtggttgagttggccactgagatgtccaaaaaggctctagctaaac Alignment from GeneWise GTCCCAGTCAGAAAGGCCATCGTCTTGAAGAAGATCGTAGCTCATGCAGTAGAG aaacagcaccttttttaattgctgcgagcttttattactgtgctttacagGTT------AGAAAAGCCATCATCTTGAAAAAGATAGTTGCCCATGCAGTTGAAgtaagtggttgagttggccactgagatgtccaaaaaggctctagctaaac #### Cdk2ap2_ID299_3 --> 0 - 1 Original Alignment ---------------------------GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAg gacaaggcccctattgggggtacttgagagatttctgcctttgttttcagTTGATGGACACAGACCGGCGGAGGTGTGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAggtattggcaaccatgggtaagctgtgacaagacagtgtagtcaggaaagt Alignment from CESAR ---------------------------GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAg gacaaggcccctattgggggtacttgagagatttctgcctttgttttcagTTGATGGACACAGACCGGCGGAGGTGTGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAggtattggcaaccatgggtaagctgtgacaagacagtgtagtcaggaaagt Alignment from Spaln_aa2Genome ----GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gacaaggcccctattgggggtacttgagagatttctgcctttgttttcagttgatggacacagaccggcggagGTGTGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtattggcaaccatgggtaagctgtgacaagacagtgtagtcaggaaagt Alignment from Spaln_nt2Genome GCG----ATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gacaaggcccctattgggggtacttgagagatttctgcctttgttttcagttgatggacacagaccggcggagGTGTGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtattggcaaccatgggtaagctgtgacaagacagtgtagtcaggaaagt Alignment from Pairagon ---------------------------GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gacaaggcccctattgggggtacttgagagatttctgcctttgttttcagTTGATGGACACAGACCGGCGGAGGTGTGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtattggcaaccatgggtaagctgtgacaagacagtgtagtcaggaaagt Alignment from Exonerate_protein2genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gacaaggcccctattgggggtacttgagagatttctgcctttgttttcagttgatggacacagaccggcggaggtgtGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtattggcaaccatgggtaagctgtgacaagacagtgtagtcaggaaagt Alignment from Exonerate_coding2genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gacaaggcccctattgggggtacttgagagatttctgcctttgttttcagttgatggacacagaccggcggaggtgtGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtattggcaaccatgggtaagctgtgacaagacagtgtagtcaggaaagt Alignment from GeneWise -----------------ATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gacaaggcccctattgggggtacttgagagatttctgcctttgttttcagttgatggacacagACCGGCGGAGGTGTGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGACCGCCTGAAGAGAGgtattggcaaccatgggtaagctgtgacaagacagtgtagtcaggaaagt #### Col17a1_ID10282_40 --> 2 - 1 Original Alignment aaACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAA------g gaggcgaagacatctcatcatttgcagcctgacaggagccgctcttgtagtaACATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAGACCGAggtaatagcagcaacctgaaagctctaccaagtgtgaagcttcactggtat Alignment from CESAR aaACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAA------g gaggcgaagacatctcatcatttgcagcctgacaggagccgctcttgtagtaACATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAGACCGAggtaatagcagcaacctgaaagctctaccaagtgtgaagcttcactggtat Alignment from Spaln_aa2Genome AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAA------G gaggcgaagacatctcatcatttgcagcctgacaggagccgctcttgtagTAACATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAGACCGAGgtaatagcagcaacctgaaagctctaccaagtgtgaagcttcactggtat Alignment from Spaln_nt2Genome AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAG------ gaggcgaagacatctcatcatttgcagcctgacaggagccgctcttgtagTAACATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAGACCGAGgtaatagcagcaacctgaaagctctaccaagtgtgaagcttcactggtat Alignment from Pairagon AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAG------ gaggcgaagacatctcatcatttgcagcctgacaggagccgctcttgtagTAACATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAGACCGAGgtaatagcagcaacctgaaagctctaccaagtgtgaagcttcactggtat Alignment from Exonerate_protein2genome AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAA------G gaggcgaagacatctcatcatttgcagcctgacaggagccgctcttgtagTAACATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAGACCGAGgtaatagcagcaacctgaaagctctaccaagtgtgaagcttcactggtat Alignment from Exonerate_coding2genome AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAA------G gaggcgaagacatctcatcatttgcagcctgacaggagccgctcttgtagTAACATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAGACCGAGgtaatagcagcaacctgaaagctctaccaagtgtgaagcttcactggtat Alignment from GeneWise AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAA------G gaggcgaagacatctcatcatttgcagcctgacaggagccgctcttgtagTAACATTCTTTAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGTCCAAAAGGGGACCAAGACCGAGgtaatagcagcaacctgaaagctctaccaagtgtgaagcttcactggtat #### Col17a1_ID10283_39 --> 2 - 1 Original Alignment gg---GAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAg tcccactggtgagggtgttatcacatcacaccttgtgtgctgccctgcaggtGAAGAGGGTGTGCCAGGTCCACCTGGGCCTCCAGGATCTTTTTTGACTGATTCTggtaagtatacccatctgctgtgccttgcaaacagtagactgaaaaatgta Alignment from CESAR ggGAA---GGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAg tcccactggtgagggtgttatcacatcacaccttgtgtgctgccctgcaggtGAAGAGGGTGTGCCAGGTCCACCTGGGCCTCCAGGATCTTTTTTGACTGATTCTggtaagtatacccatctgctgtgccttgcaaacagtagactgaaaaatgta Alignment from Spaln_aa2Genome GG---GAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAG tcccactggtgagggtgttatcacatcacaccttgtgtgctgccctgcagGTGAAGAGGGTGTGCCAGGTCCACCTGGGCCTCCAGGATCTTTTTTGACTGATTCTGgtaagtatacccatctgctgtgccttgcaaacagtagactgaaaaatgta Alignment from Spaln_nt2Genome GGGAAG---GCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAG tcccactggtgagggtgttatcacatcacaccttgtgtgctgccctgcagGTGAAGAGGGTGTGCCAGGTCCACCTGGGCCTCCAGGATCTTTTTTGACTGATTCTGgtaagtatacccatctgctgtgccttgcaaacagtagactgaaaaatgta Alignment from Pairagon GGGAA---GGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAG tcccactggtgagggtgttatcacatcacaccttgtgtgctgccctgcagGTGAAGAGGGTGTGCCAGGTCCACCTGGGCCTCCAGGATCTTTTTTGACTGATTCTGgtaagtatacccatctgctgtgccttgcaaacagtagactgaaaaatgta Alignment from Exonerate_protein2genome GG---GAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAG tcccactggtgagggtgttatcacatcacaccttgtgtgctgccctgcagGTGAAGAGGGTGTGCCAGGTCCACCTGGGCCTCCAGGATCTTTTTTGACTGATTCTGgtaagtatacccatctgctgtgccttgcaaacagtagactgaaaaatgta Alignment from Exonerate_coding2genome GG---GAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAG tcccactggtgagggtgttatcacatcacaccttgtgtgctgccctgcagGTGAAGAGGGTGTGCCAGGTCCACCTGGGCCTCCAGGATCTTTTTTGACTGATTCTGgtaagtatacccatctgctgtgccttgcaaacagtagactgaaaaatgta Alignment from GeneWise --GGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAG tcccactggtgagggtgttatcacatcacaccttgtgtgctgccctgcaggtgaagAGGGTGTGCCAGGTCCACCTGGGCCTCCAGGATCTTTTTTGACTGATTCTGgtaagtatacccatctgctgtgccttgcaaacagtagactgaaaaatgta #### Col17a1_ID10284_38 --> 2 - 1 Original Alignment ggCCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAg ctgcaatcttaatggggggagaagcacaaaatggtaaaatgcatctttaggtCCTTCTACTCCAGGCCCACCAGGACCCCGAAGT------ggtcaggtggattgtttaattttgttaagagaggtggggactaaggccagg Alignment from CESAR ggCCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAg ctgcaatcttaatggggggagaagcacaaaatggtaaaatgcatctttaggtCCTTCTACTCCAGGCCCACCAGGACCCCGAAGT------ggtcaggtggattgtttaattttgttaagagaggtggggactaaggccagg Alignment from Spaln_aa2Genome GGCCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG ctgcaatcttaatggggggagaagcacaaaatggtaaaatgcatctttagGTCCTTCTACTCCAGGCCCACCAGGACCCCGA------AGTGgtcaggtggattgtttaattttgttaagagaggtggggactaaggccagg Alignment from Spaln_nt2Genome GGCCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG ctgcaatcttaatggggggagaagcacaaaatggtaaaatgcatctttagGTCCTTCTACTCCAGGCCCACCAGGACCCCGAAGT-GGTCAGgtggattgtttaattttgttaagagaggtggggactaaggccagg Alignment from Pairagon GGCCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG ctgcaatcttaatggggggagaagcacaaaatggtaaaatgcatctttagGTCCTTCTACTCCAGGCCCACCAGGACCCCGAAGT------Ggtcaggtggattgtttaattttgttaagagaggtggggactaaggccagg Alignment from Exonerate_protein2genome ctgcaatcttaatggggggagaagcacaaaatggtaaaatgcatctttaggtccttctactccaggcccaccaggaccccgaagtggtcaggtggattgtttaattttgttaagagaggtggggactaaggccagg Alignment from Exonerate_coding2genome GGCCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG ctgcaatcttaatggggggagaagcacaaaatggtaaaatgcatctttagGTCCTTCTACTCCAGGCCCACCAGGACCCCGAAGTGGTCAGGtggattgtttaattttgttaagagaggtggggactaaggccagg Alignment from GeneWise ctgcaatcttaatggggggagaagcacaaaatggtaaaatgcatctttaggtccttctactccaggcccaccaggaccccgaagtggtcaggtggattgtttaattttgttaagagaggtggggactaaggccagg #### Col17a1_ID10285_37 --> 2 - 1 Original Alignment aaGGTGTTGACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCACCAg cagtgttctttttgatttactgaccatgtaatgttaatctcccttggtagaa---------TTACATGGCCCCCCTGGCCCCTCTGGACCACGAGGAGCACCAggtaagccctcactgcaatcttaatggggggagaagcacatgcttgtttac Alignment from CESAR aaGGTGTTGACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCACCAg ggggctactcagtgttctttttgatatgtaatgttaatctcccttggtagaa---------TTACATGGCCCCCCTGGCCCCTCTGGACCACGAGGAGCACCAggtaagccctcactgcaatcttaatggggggagaagcacaaaatggtaaaa Alignment from Spaln_aa2Genome AAGGTGTTGACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCACCAG cagtgttctttttgatttactgaccatgtaatgttaatctcccttggtagAA---------TTACATGGCCCCCCTGGCCCCTCTGGACCACGAGGAGCACCAGgtaagccctcactgcaatcttaatggggggagaagcacatgcttgtttac Alignment from Spaln_nt2Genome ACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCACCAG cagtgttctttttgatttactgaccatgtaatgttaatctcccttggtagAATTACATGGCCCCCCTGGCCCCTCTGGACCACGAGGAGCACCAGgtaagccctcactgcaatcttaatggggggagaagcacatgcttgtttac Alignment from Pairagon AAGGTGTTGACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCACCAG cagtgttctttttgatttactgaccatgtaatgttaatctcccttggtagAA---------TTACATGGCCCCCCTGGCCCCTCTGGACCACGAGGAGCACCAGgtaagccctcactgcaatcttaatggggggagaagcacatgcttgtttac Alignment from Exonerate_protein2genome cagtgttctttttgatttactgaccatgtaatgttaatctcccttggtagaattacatggcccccctggcccctctggaccacgaggagcaccaggtaagccctcactgcaatcttaatggggggagaagcacatgcttgtttac Alignment from Exonerate_coding2genome TTGACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCACCAG cagtgttctttttgatttactgaccatgtaatgttaatctcccttggTAGAATTACATGGCCCCCCTGGCCCCTCTGGACCACGAGGAGCACCAGgtaagccctcactgcaatcttaatggggggagaagcacatgcttgtttac Alignment from GeneWise AAGGTGTTGACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCACCAG cagtgttctttttgatttactgaccatgtaatgttaatctcccttggtagAA---------TTACATGGCCCCCCTGGCCCCTCTGGACCACGAGGAGCACCAGgtaagccctcactgcaatcttaatggggggagaagcacatgcttgtttac #### Col17a1_ID10287_35 --> 2 - 1 Original Alignment gtCCAGCTGGCCCTGCTGGTCTCCCAGGACAACAAg tctaatcacggaaaagagagaatacatacaatactgtgacttttctgcaggtCCAGCTGGCCCTGGTGGTCTACCA---------ggtaaggatcacaaatgaaagcctgactgaggcagtctcagtctttgagga Alignment from CESAR gtCCAGCTGGCCCTGCTGGTCTCCCAGGACAACAAg tctaatcacggaaaagagagaatacatacaatactgtgacttttctgcaggtCCAGCTGGCCCTGGTGGTCTACCA---------ggtaaggatcacaaatgaaagcctgactgaggcagtctcagtctttgagga Alignment from Spaln_aa2Genome GTCCAGCTGGCCCTGCTGGTCTCCCA- tctaatcacggaaaagagagaatacatacaatactgtgacttttctgcagGTCCAGCTGGCCCTGGTGGTCTACCAGgtaaggatcacaaatgaaagcctgactgaggcagtctcagtctttgagga Alignment from Spaln_nt2Genome GTCCAGCTGGCCCTGCTGGTCTCCCAG tctaatcacggaaaagagagaatacatacaatactgtgacttttctgcagGTCCAGCTGGCCCTGGTGGTCTACCAGgtaaggatcacaaatgaaagcctgactgaggcagtctcagtctttgagga Alignment from Pairagon GTCCAGCTGGCCCTGCTGGTCTCCCAG tctaatcacggaaaagagagaatacatacaatactgtgacttttctgcagGTCCAGCTGGCCCTGGTGGTCTACCAGgtaaggatcacaaatgaaagcctgactgaggcagtctcagtctttgagga Alignment from Exonerate_protein2genome GTCCAGCTGGCCCTGCTGGTCTCCCAGGACAACAAG tctaatcacggaaaagagagaatacatacaatactgtgacttttctgcagGTCCAGCTGGCCCTGGTGGTCTACCAGGTAAGGATCacaaatgaaagcctgactgaggcagtctcagtctttgagga Alignment from Exonerate_coding2genome GTCCAGCTGGCCCTGCTGGTCTCCCAGGACAACAAG tctaatcacggaaaagagagaatacatacaatactgtgacttttctgcagGTCCAGCTGGCCCTGGTGGTCTACCAGGTAAGGATCacaaatgaaagcctgactgaggcagtctcagtctttgagga Alignment from GeneWise tctaatcacggaaaagagagaatacatacaatactgtgacttttctgcaggtccagctggccctggtggtctaccaggtaaggatcacaaatgaaagcctgactgaggcagtctcagtctttgagga #### Col17a1_ID10304_18 --> 2 - 1 Original Alignment ggAATCTCAGAGGAAGTCCTGGTCCAAAAg aagggtgacacagagcaggcttccttttatatcccctcccttttatatagggAATCCCAGTGGGAGTCCA---------ggcaagcgaggcggtggactagtacccccatctttcctgggacagatgagt Alignment from CESAR ggAATCTCAGAGGAAGTCCTGGTCCAAAA---g aagggtgacacagagcaggcttccttttatatcccctcccttttatatagggAATCCCAGTGGGAGTCCAGGCAAGCGAGGCggtggactagtacccccatctttcctgggacagatgagt Alignment from Spaln_aa2Genome GGAATCTCAGAGGAAGTCCTGGTCCAAAAG aagggtgacacagagcaggcttccttttatatcccctcccttttatatagGGAATCCCAGTGGGAGTCCAGGCAAGCGAGgcggtggactagtacccccatctttcctgggacagatgagt Alignment from Spaln_nt2Genome GGAATCTCAGAGGAAGTCCTG aagggtgacacagagcaggcttccttttatatcccctcccttttatatagGGAATCCCAGTGGGAGTCCAGgcaagcgaggcggtggactagtacccccatctttcctgggacagatgagt Alignment from Pairagon GGAATCTCAGAGGAAGTCCTGGTCCAAAAG aagggtgacacagagcaggcttccttttatatcccctcccttttatatagGGAATCCCAGTGGGAGTCC---------AGgcaagcgaggcggtggactagtacccccatctttcctgggacagatgagt Alignment from Exonerate_protein2genome aagggtgacacagagcaggcttccttttatatcccctcccttttatatagggaatcccagtgggagtccaggcaagcgaggcggtggactagtacccccatctttcctgggacagatgagt Alignment from Exonerate_coding2genome aagggtgacacagagcaggcttccttttatatcccctcccttttatatagggaatcccagtgggagtccaggcaagcgaggcggtggactagtacccccatctttcctgggacagatgagt Alignment from GeneWise aagggtgacacagagcaggcttccttttatatcccctcccttttatatagggaatcccagtgggagtccaggcaagcgaggcggtggactagtacccccatctttcctgggacagatgagt #### Col17a1_ID10308_14 --> 2 - 1 Original Alignment ctTCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATg cagtgcacttaagagacctccatctagatatttattcttttatttttcagca---------------ACACTGAAAAAGGAGAAGCAGGCGGCATATGCTGCTGACACCTGCCTGAAGGCAGATGTGAATggtaaagtaatagcagccactgcgtgcacaaacctgcaccttatttttctt Alignment from CESAR ctTCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATg acagagatataaagacagtgcacttagatatttattcttttatttttcagca---------------ACACTGAAAAAGGAGAAGCAGGCGGCATATGCTGCTGACACCTGCCTGAAGGCAGATGTGAATggtaaagtaatagcagccactgcgtgcacaaacctgcaccttatttttctt Alignment from Spaln_aa2Genome CTTCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATG cagtgcacttaagagacctccatctagatatttattcttttatttttcagCA---------------ACACTGAAAAAGGAGAAGCAGGCGGCATATGCTGCTGACACCTGCCTGAAGGCAGATGTGAATGgtaaagtaatagcagccactgcgtgcacaaacctgcaccttatttttctt Alignment from Spaln_nt2Genome ACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATG cagtgcacttaagagacctccatctagatatttattcttttatttttcagCAACACTGAAAAAGGAGAAGCAGGCGGCATATGCTGCTGACACCTGCCTGAAGGCAGATGTGAATGgtaaagtaatagcagccactgcgtgcacaaacctgcaccttatttttctt Alignment from Pairagon CTTCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATG cagtgcacttaagagacctccatctagatatttattcttttatttttcagC---------------AACACTGAAAAAGGAGAAGCAGGCGGCATATGCTGCTGACACCTGCCTGAAGGCAGATGTGAATGgtaaagtaatagcagccactgcgtgcacaaacctgcaccttatttttctt Alignment from Exonerate_protein2genome TCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATG cagtgcacttaagagacctccatctagatatttattcttttatTTTTCAGCAACACTGAAAAAGGAGAAGCAGGCGGCATATGCTGCTGACACCTGCCTGAAGGCAGATGTGAATGgtaaagtaatagcagccactgcgtgcacaaacctgcaccttatttttctt Alignment from Exonerate_coding2genome TCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATG cagtgcacttaagagacctccatctagatatttattcttttatTTTTCAGCAACACTGAAAAAGGAGAAGCAGGCGGCATATGCTGCTGACACCTGCCTGAAGGCAGATGTGAATGgtaaagtaatagcagccactgcgtgcacaaacctgcaccttatttttctt Alignment from GeneWise ----------TCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATG cagtgcacttaagagacctccatctagATATTTATTCTTTTATTTTTCAGCAACACTGAAAAAGGAGAAGCAGGCGGCATATGCTGCTGACACCTGCCTGAAGGCAGATGTGAATGgtaaagtaatagcagccactgcgtgcacaaacctgcaccttatttttctt #### Coro1b_ID352_2 --> 0 - 0 Original Alignment ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG------ gtagatgagccaaaaagcttaagattagttcttttttttcccccataaagACTGGCCACGTTGACAAGGCATTCCCAACAGTATGTGGGCACACAGGGTCTGTTCTAGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGCACCGGgtaacgaaaaacctgttcagtttttattgtatcaaaatcagtaactttta Alignment from CESAR ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG------ gtagatgagccaaaaagcttaagattagttcttttttttcccccataaagACTGGCCACGTTGACAAGGCATTCCCAACAGTATGTGGGCACACAGGGTCTGTTCTAGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGCACCGGgtaacgaaaaacctgttcagtttttattgtatcaaaatcagtaactttta Alignment from Spaln_aa2Genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG------ gtagatgagccaaaaagcttaagattagttcttttttttcccccataaagACTGGCCACGTTGACAAGGCATTCCCAACAGTATGTGGGCACACAGGGTCTGTTCTAGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGCACCGGgtaacgaaaaacctgttcagtttttattgtatcaaaatcagtaactttta Alignment from Spaln_nt2Genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATGG----- gtagatgagccaaaaagcttaagattagttcttttttttcccccataaagACTGGCCACGTTGACAAGGCATTCCCAACAGTATGTGGGCACACAGGGTCTGTTCTAGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGCACCGGgtaacgaaaaacctgttcagtttttattgtatcaaaatcagtaactttta Alignment from Pairagon ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG------ gtagatgagccaaaaagcttaagattagttcttttttttcccccataaagACTGGCCACGTTGACAAGGCATTCCCAACAGTATGTGGGCACACAGGGTCTGTTCTAGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGCACCGGgtaacgaaaaacctgttcagtttttattgtatcaaaatcagtaactttta Alignment from Exonerate_protein2genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gtagatgagccaaaaagcttaagattagttcttttttttcccccataaagACTGGCCACGTTGACAAGGCATTCCCAACAGTATGTGGGCACACAGGGTCTGTTCTAGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGcaccgggtaacgaaaaacctgttcagtttttattgtatcaaaatcagtaactttta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG------ gtagatgagccaaaaagcttaagattagttcttttttttcccccataaagACTGGCCACGTTGACAAGGCATTCCCAACAGTATGTGGGCACACAGGGTCTGTTCTAGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACGCACCGGgtaacgaaaaacctgttcagtttttattgtatcaaaatcagtaactttta #### Coro1b_ID353_3 --> 0 - 1 Original Alignment GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC------AAGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAg accccctcttgatgattgacctgtcactaactagtgctttgaatcaacag---TGGCAGATCCCAGAAAATGGTTTGACT---CCACTGACGGAGCCCGTAGTTGTGCCTGAGGGGCACACAATTAAACGACGTCTGGGTATTACTACTTGGCATCCTACTGCCCAGATTGTGCTTCTTGGTGCTggtaagtatatgcccaaaccatgctctctactctaattatagtccagcatg Alignment from CESAR GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC------AAGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAg gataccccctcttgatgattgacctactaactagtgctttgaatcaacag---TGGCAGATCCCAGAAAATGGTTTGACT---CCACTGACGGAGCCCGTAGTTGTGCCTGAGGGGCACACAATTAAACGACGTCTGGGTATTACTACTTGGCATCCTACTGCCCAGATTGTGCTTCTTGGTGCTggtaagtatatgcccaaaccatgctctctactctaattatagtccagcatg Alignment from Spaln_aa2Genome GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC------AAGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG accccctcttgatgattgacctgtcactaactagtgctttgaatcaacagTGGCAG---ATCCCAGAAAATGGTTTG---ACTCCACTGACGGAGCCCGTAGTTGTGCCTGAGGGGCACACAATTAAACGACGTCTGGGTATTACTACTTGGCATCCTACTGCCCAGATTGTGCTTCTTGGTGCTGgtaagtatatgcccaaaccatgctctctactctaattatagtccagcatg Alignment from Spaln_nt2Genome TGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACCA---AGCG-CGT--GGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG accccctcttgatgattgacctgtcactaactagtgctttgaatcaacagTGGCAGATCCCAGAAAATGGTTTGA---CTCCACTGACGGAGCCCGTAGTTGTGCCTGAGGGGCACACAATTAAACGACGTCTGGGTATTACTACTTGGCATCCTACTGCCCAGATTGTGCTTCTTGGTGCTGgtaagtatatgcccaaaccatgctctctactctaattatagtccagcatg Alignment from Pairagon GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACCA------AGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG accccctcttgatgattgacctgtcactaactagtgctttgaatcaacag---TGGCAGATCCCAGAAAATGGTTTGA---CTCCACTGACGGAGCCCGTAGTTGTGCCTGAGGGGCACACAATTAAACGACGTCTGGGTATTACTACTTGGCATCCTACTGCCCAGATTGTGCTTCTTGGTGCTGgtaagtatatgcccaaaccatgctctctactctaattatagtccagcatg Alignment from Exonerate_protein2genome GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC------AAGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG accccctcttgatgattgacctgtcactaactagtgctttgaatcaaCAGTGGCAGATCCCAGAAAATGGTTTGACT---CCACTGACGGAGCCCGTAGTTGTGCCTGAGGGGCACACAATTAAACGACGTCTGGGTATTACTACTTGGCATCCTACTGCCCAGATTGTGCTTCTTGGTGCTGgtaagtatatgcccaaaccatgctctctactctaattatagtccagcatg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC------AAGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG accccctcttgatgattgacctgtcactaactagtgctttgaatcaacagTGGCAGATCCCAGAAAATGGTTTGACT---CCACTGACGGAGCCCGTAGTTGTGCCTGAGGGGCACACAATTAAACGACGTCTGGGTATTACTACTTGGCATCCTACTGCCCAGATTGTGCTTCTTGGTGCTGgtaagtatatgcccaaaccatgctctctactctaattatagtccagcatg #### Coro1b_ID357_7 --> 0 - 2 Original Alignment GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCag atgaacatttctttgactgttctgttctcactgttctctcctttccatag---------AGTATTCGATACTTTGAGAACACAGATGAACCC---CACATCCATTTTTTGAACACATTTGCAAGCAAAGAACCCCAAAGGGGTATGGGCAGCATGCTGAAGAGGGGCCTGGCAGTCAGCAAGTGTGAAATAGCCaggtaagcacaatcagtggttgtatatcagttacctcaatcttagcttgaaa Alignment from CESAR GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCag tggatactaatgaacatttctttgatctcactgttctctcctttccatag---------AGTATTCGATACTTTGAGAACACAGATGAA---CCCCACATCCATTTTTTGAACACATTTGCAAGCAAAGAACCCCAAAGGGGTATGGGCAGCATGCTGAAGAGGGGCCTGGCAGTCAGCAAGTGTGAAATAGCCaggtaagcacaatcagtggttgtatatcagttacctcaatcttagcttgaaa Alignment from Spaln_aa2Genome GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG atgaacatttctttgactgttctgttctcactgttctctcctttccatag---------AGTATTCGATACTTTGAGAACACAGATGAA---CCCCACATCCATTTTTTGAACACATTTGCAAGCAAAGAACCCCAAAGGGGTATGGGCAGCATGCTGAAGAGGGGCCTGGCAGTCAGCAAGTGTGAAATAGCCAGgtaagcacaatcagtggttgtatatcagttacctcaatcttagcttgaaa Alignment from Spaln_nt2Genome GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG atgaacatttctttgactgttctgttctcactgttctctcctttccatag---------AGTATTCGATACTTTGAGAACACAGATGAACCCC---ACATCCATTTTTTGAACACATTTGCAAGCAAAGAACCCCAAAGGGGTATGGGCAGCATGCTGAAGAGGGGCCTGGCAGTCAGCAAGTGTGAAATAGCCAGgtaagcacaatcagtggttgtatatcagttacctcaatcttagcttgaaa Alignment from Pairagon GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG atgaacatttctttgactgttctgttctcactgttctctcctttccatag---------AGTATTCGATACTTTGAGAACACAGATGAACCCC---ACATCCATTTTTTGAACACATTTGCAAGCAAAGAACCCCAAAGGGGTATGGGCAGCATGCTGAAGAGGGGCCTGGCAGTCAGCAAGTGTGAAATAGCCAGgtaagcacaatcagtggttgtatatcagttacctcaatcttagcttgaaa Alignment from Exonerate_protein2genome GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG atgaacatttctttgactgttctgttctcactgttctctccTTTCCATAGAGTATTCGATACTTTGAGAACACAGATGAA---CCCCACATCCATTTTTTGAACACATTTGCAAGCAAAGAACCCCAAAGGGGTATGGGCAGCATGCTGAAGAGGGGCCTGGCAGTCAGCAAGTGTGAAATAGCCAGgtaagcacaatcagtggttgtatatcagttacctcaatcttagcttgaaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG atgaacatttctttgactgttctgttctcactgttctctcctttccatagAGT---------ATTCGATACTTTGAGAACACAGATGAACCC---CACATCCATTTTTTGAACACATTTGCAAGCAAAGAACCCCAAAGGGGTATGGGCAGCATGCTGAAGAGGGGCCTGGCAGTCAGCAAGTGTGAAATAGCCAGgtaagcacaatcagtggttgtatatcagttacctcaatcttagcttgaaa #### Cpsf7_ID2863_3 --> 0 - 2 Original Alignment TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCAAATGGCCAGTCTAAAgg gagggccatgaaccgctagacttgatctcttttctttttctctttattagTGGACTACAGATCAGCAACTGATTCAGGTTATCCGCTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCTAATGGC---------gggtaagtgtcatttccccagaaactatgggggaacccttgactcatctttt Alignment from CESAR TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCAAATGGCCAGTCTAAAgg gagggccatgaaccgctagacttgatctcttttctttttctctttattagTGGACTACAGATCAGCAACTGATTCAGGTTATCCGCTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCTAATGGC---------gggtaagtgtcatttccccagaaactatgggggaacccttgactcatctttt Alignment from Spaln_aa2Genome TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCAAATGGCCA gagggccatgaaccgctagacttgatctcttttctttttctctttattagTGGACTACAGATCAGCAACTGATTCAGGTTATCCGCTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCTAATGGCGGgtaagtgtcatttccccagaaactatgggggaacccttgactcatctttt Alignment from Spaln_nt2Genome TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCAAATGGCC- gagggccatgaaccgctagacttgatctcttttctttttctctttattagTGGACTACAGATCAGCAACTGATTCAGGTTATCCGCTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCTAATGGCGGgtaagtgtcatttccccagaaactatgggggaacccttgactcatctttt Alignment from Pairagon TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCAAATGGCCAGTCTAAAGG gagggccatgaaccgctagacttgatctcttttctttttctctttattagTGGACTACAGATCAGCAACTGATTCAGGTTATCCGCTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCTAATGGC---------GGgtaagtgtcatttccccagaaactatgggggaacccttgactcatctttt Alignment from Exonerate_protein2genome TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCAAATGGCCA gagggccatgaaccgctagacttgatctcttttctttttctctttattagTGGACTACAGATCAGCAACTGATTCAGGTTATCCGCTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCTAATGGCGGgtaagtgtcatttccccagaaactatgggggaacccttgactcatctttt Alignment from Exonerate_coding2genome TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCAAATGGCCA gagggccatgaaccgctagacttgatctcttttctttttctctttattagTGGACTACAGATCAGCAACTGATTCAGGTTATCCGCTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCTAATGGCGGgtaagtgtcatttccccagaaactatgggggaacccttgactcatctttt Alignment from GeneWise TGGACCACAGACCAGCAGCTGATCCAGGTTATCCGCTCTATAGGAGTCTATGATGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCAAATGGCCA gagggccatgaaccgctagacttgatctcttttctttttctctttattagTGGACTACAGATCAGCAACTGATTCAGGTTATCCGCTCTATAGGCATATATGACGTGGTGGAGTTGAAATTTGCAGAGAATCGTGCTAATGGCGGgtaagtgtcatttccccagaaactatgggggaacccttgactcatctttt #### Csf2ra_ID13430_10 --> 1 - 0 Original Alignment gTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG--- ttaccacgtgcatgctacgctacctgcgtgaccctactctgcctctgcaggTTGGAGGTGACACGCCGACTCTTCCCACCAATCCCAGGGATTAGGGACAAGGTGTCTGATGATGTGCGAGTGAACCCTGAGACCgtaagtagtcataggcacttagagtttagtgtgacactgggcctatggta Alignment from CESAR gTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG--- ttaccacgtgcatgctacgctacctgcgtgaccctactctgcctctgcaggTTGGAGGTGACACGCCGACTCTTCCCACCAATCCCAGGGATTAGGGACAAGGTGTCTGATGATGTGCGAGTGAACCCTGAGACCgtaagtagtcataggcacttagagtttagtgtgacactgggcctatggta Alignment from Spaln_aa2Genome GTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG--- ttaccacgtgcatgctacgctacctgcgtgaccctactctgcctctgcagGTTGGAGGTGACACGCCGACTCTTCCCACCAATCCCAGGGATTAGGGACAAGGTGTCTGATGATGTGCGAGTGAACCCTGAGACCgtaagtagtcataggcacttagagtttagtgtgacactgggcctatggta Alignment from Spaln_nt2Genome GTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAGACC ttaccacgtgcatgctacgctacctgcgtgaccctactctgcctctgcagGTTGGAGGTGACACGCCGACTCTTCCCACCAATCCCAGGGATTAGGGACAAGGTGTCTGATGATGTGCGAGTGAACCCTGAGACCgtaagtagtcataggcacttagagtttagtgtgacactgggcctatggta Alignment from Pairagon GTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG--- ttaccacgtgcatgctacgctacctgcgtgaccctactctgcctctgcagGTTGGAGGTGACACGCCGACTCTTCCCACCAATCCCAGGGATTAGGGACAAGGTGTCTGATGATGTGCGAGTGAACCCTGAGACCgtaagtagtcataggcacttagagtttagtgtgacactgggcctatggta Alignment from Exonerate_protein2genome GTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAGACCCTC ttaccacgtgcatgctacgctacctgcgtgaccctactctgcctctgcagGTTGGAGGTGACACGCCGACTCTTCCCACCAATCCCAGGGATTAGGGACAAGGTGTCTGATGATGTGCGAGTGAACCCTGAGACCGTAagtagtcataggcacttagagtttagtgtgacactgggcctatggta Alignment from Exonerate_coding2genome ttaccacgtgcatgctacgctacctgcgtgaccctactctgcctctgcaggttggaggtgacacgccgactcttcccaccaatcccagggattagggacaaggtgtctgatgatgtgcgagtgaaccctgagaccgtaagtagtcataggcacttagagtttagtgtgacactgggcctatggta Alignment from GeneWise GTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAGACCCTCAGGAAGGACCTCCTGCAGCCC ttaccacgtgcatgctacgctacctgcgtgaccctactctgcctctgcagGTTGGAGGTGACACGCCGACTCTTCCCACCAATCCCAGGGATTAGGGACAAGGTGTCTGATGATGTGCGAGTGAACCCTGAGACCGTAAGTAGTCATAGGCACTTAGAGtttagtgtgacactgggcctatggta #### Csf2ra_ID13433_7 --> 0 - 0 Original Alignment AGCGCAGAGCCAGGAAGCACACCCCGGAAG tatgcccatagctgacaaaattaatagcagccccagcaatctttctgtagAGCGCAGAACCAGGAAGCACACCTCGG---gtgggaagctggcccaatgtagcatatggcctggtttctatatggtagca Alignment from CESAR AGCGCAGAGCCAGGAAGCACACCCCGGAAG tatgcccatagctgacaaaattaatagcagccccagcaatctttctgtagAGCGCAGAACCAGGAAGCACACCTCGG---gtgggaagctggcccaatgtagcatatggcctggtttctatatggta Alignment from Spaln_aa2Genome AGCGCAGAGCCAGGAAGCACACCCCGG tatgcccatagctgacaaaattaatagcagccccagcaatctttctgtagAGCGCAGAACCAGGAAGCACACCTCGGgtgggaagctggcccaatgtagcatatggcctggtttctatatggtagca Alignment from Spaln_nt2Genome AGCGCAGAGCCAGGAAGCACACCCCGG tatgcccatagctgacaaaattaatagcagccccagcaatctttctgtagAGCGCAGAACCAGGAAGCACACCTCGGgtgggaagctggcccaatgtagcatatggcctggtttctatatggtagca Alignment from Pairagon AGCGCAGAGCCAGGAAGCACACCCCGG tatgcccatagctgacaaaattaatagcagccccagcaatctttctgtagAGCGCAGAACCAGGAAGCACACCTCGGgtgggaagctggcccaatgtagcatatggcctggtttctatatggtagca Alignment from Exonerate_protein2genome AGCGCAGAGCCAGGAAGCACACCCCGGAAG tatgcccatagctgacaaaattaatagcagccccagcaatctttctgtagAGCGCAGAACCAGGAAGCACACCTCGGGTGggaagctggcccaatgtagcatatggcctggtttctatatggtagca Alignment from Exonerate_coding2genome tatgcccatagctgacaaaattaatagcagccccagcaatctttctgtagagcgcagaaccaggaagcacacctcgggtgggaagctggcccaatgtagcatatggcctggtttctatatggtagca Alignment from GeneWise tatgcccatagctgacaaaattaatagcagccccagcaatctttctgtagagcgcagaaccaggaagcacacctcgggtgggaagctggcccaatgtagcatatggcctggtttctatatggtagca #### Ctsf_ID674_2 --> 0 - 0 Original Alignment GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG------ agtaaaggtgaaaggaagcattggccactgaaattactttgtttcattagGCTGGTCAGGGCTCGCTGTTTTCTCTGGAATCCACACTAGATGAGCCACCTTGCAATGATCCTTTGGTGTGCTCTCTCCCCGAGACAAAGAAGACCGTGTGGTCGgtagcctagtggttagattgttacagcccacctatcaagaatgttatgag Alignment from CESAR GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG agtaaaggtgaaaggaagcattggccactgaaattactttgtttcattagGCTGGTCAGGGCTCGCTGTTTTCTCTGGAATCCACACTAGATGAGCCACCTTGCAATGATCCTTTGGTGTGCTCTCTCCCCGAGACAAAGAAGACC---gtgtggtcggtagcctagtggttagattgttacagcccacctatcaagaatgttatgag Alignment from Spaln_aa2Genome GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG------ agtaaaggtgaaaggaagcattggccactgaaattactttgtttcattagGCTGGTCAGGGCTCGCTGTTTTCTCTGGAATCCACACTAGATGAGCCACCTTGCAATGATCCTTTGGTGTGCTCTCTCCCCGAGACAAAGAAGACCGTGTGGTCGgtagcctagtggttagattgttacagcccacctatcaagaatgttatgag Alignment from Spaln_nt2Genome GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG-- agtaaaggtgaaaggaagcattggccactgaaattactttgtttcattagGCTGGTCAGGGCTCGCTGTTTTCTCTGGAATCCACACTAGATGAGCCACCTTGCAATGATCCTTTGGTGTGCTCTCTCCCCGAGACAAAGAAGACCGTGTGgtcggtagcctagtggttagattgttacagcccacctatcaagaatgttatgag Alignment from Pairagon GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAAC-----------------AGTG agtaaaggtgaaaggaagcattggccactgaaattactttgtttcattagGCTGGTCAGGGCTCGCTGTTTTCTCTGGAATCCACACTAGATGAGCCACCTTGCAATGATCCTTTGGTGTGCTCTCTCCCCGAGACAAAGAAGACCGTGTGGTCGGTAGCCTAGTGgttagattgttacagcccacctatcaagaatgttatgag Alignment from Exonerate_protein2genome GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGT agtaaaggtgaaaggaagcattggccactgaaattactttgtttcattagGCTGGTCAGGGCTCGCTGTTTTCTCTGGAATCCACACTAGATGAGCCACCTTGCAATGATCCTTTGGTGTGCTCTCTCCCCGAGACAAAGAAGACCGTgtggtcggtagcctagtggttagattgttacagcccacctatcaagaatgttatgag Alignment from Exonerate_coding2genome GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGT agtaaaggtgaaaggaagcattggccactgaaattactttgtttcattagGCTGGTCAGGGCTCGCTGTTTTCTCTGGAATCCACACTAGATGAGCCACCTTGCAATGATCCTTTGGTGTGCTCTCTCCCCGAGACAAAGAAGACCGTgtggtcggtagcctagtggttagattgttacagcccacctatcaagaatgttatgag Alignment from GeneWise GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG------ agtaaaggtgaaaggaagcattggccactgaaattactttgtttcattagGCTGGTCAGGGCTCGCTGTTTTCTCTGGAATCCACACTAGATGAGCCACCTTGCAATGATCCTTTGGTGTGCTCTCTCCCCGAGACAAAGAAGACCGTGTGGTCGgtagcctagtggttagattgttacagcccacctatcaagaatgttatgag #### Ctsf_ID680_8 --> 0 - 1 Original Alignment GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGg cctcggagaaccccattagagaactctgacccttaatttgggggttctagAGCAGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGG---TTGATCCGAGGAACTCTGCTT---------------ggtaagtatcctgatcttagaaatccatagccattctgtgtttatcagaca Alignment from CESAR GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGg cctcggagaaccccattagagaactctgacccttaatttgggggttctagAGCAGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGG---TTGATCCGAGGAACTCTGCTT---------------ggtaagtatcctgatcttagaaatccatagccattctgtgtttatcagaca Alignment from Spaln_aa2Genome AACCAGGGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTC- cctcggagaaccccattagagaactctgacccttaatttgggggttctagAGC---AGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGGTTGATC---CGAGGAACTCTGCTTGgtaagtatcctgatcttagaaatccatagccattctgtgtttatcagaca Alignment from Spaln_nt2Genome AACCAGGGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCT cctcggagaaccccattagagaactctgacccttaatttgggggttctagAGC---AGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGGT---TGATCCGAGGAACTCTGCTTGgtaagtatcctgatcttagaaatccatagccattctgtgtttatcagaca Alignment from Pairagon ------------------------------------------------------GCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG CCTCGGAGAACCCCATTAGAGAACTCTGACCCTTAATTTGGGGGTTCTAGAGCAGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGGT---TGATCCGAGGAACTCTGCTT---------------Ggtaagtatcctgatcttagaaatccatagccattctgtgtttatcagaca Alignment from Exonerate_protein2genome AACCAGGGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCT cctcggagaaccccattagagaactctgacccttaatttgggggttctagAGC---AGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGGTTGATC---CGAGGAACTCTGCTTGgtaagtatcctgatcttagaaatccatagccattctgtgtttatcagaca Alignment from Exonerate_coding2genome AACCAGGGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCT cctcggagaaccccattagagaactctgacccttaatttgggggttctagAGC---AGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGGTTGATC---CGAGGAACTCTGCTTGgtaagtatcctgatcttagaaatccatagccattctgtgtttatcagaca Alignment from GeneWise ---GGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCT cctcggagaaccccattagagaactctgacccttaatttgggggttctagAGCAGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGGTTGATC---CGAGGAACTCTGCTTGgtaagtatcctgatcttagaaatccatagccattctgtgtttatcagaca #### Ctsf_ID681_9 --> 2 - 1 Original Alignment agCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTG---------------------g tcagacaaacccctccatagggttcctttaactggccgtttctcatttagagCTCTCAGATTGTGGCAAAGAGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGAATACTTGGCCATCTTTAAGggtgagttgtgctgaatccacctgtggatgatagtggctaccatgttattg Alignment from CESAR agCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTG---------------------g tcagacaaacccctccatagggttcctttaactggccgtttctcatttagagCTCTCAGATTGTGGCAAAGAGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGAATACTTGGCCATCTTTAAGggtgagttgtgctgaatccacctgtggatgatagtggctaccatgttattg Alignment from Spaln_aa2Genome AGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTG---------------------G tcagacaaacccctccatagggttcctttaactggccgtttctcatttagAGCTCTCAGATTGTGGCAAAGAGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGAATACTTGGCCATCTTTAAGGgtgagttgtgctgaatccacctgtggatgatagtggctaccatgttattg Alignment from Spaln_nt2Genome AGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG-------- tcagacaaacccctccatagggttcctttaactggccgtttctcatttagAGCTCTCAGATTGTGGCAAAGAGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGAATACTTGgccatctttaagggtgagttgtgctgaatccacctgtggatgatagtggctaccatgttattg Alignment from Pairagon AGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG--------------------- tcagacaaacccctccatagggttcctttaactggccgtttctcatttagAGCTCTCAGATTGTGGCAAAGAGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGAATACTTGGCCATCTTTAAGGgtgagttgtgctgaatccacctgtggatgatagtggctaccatgttattg Alignment from Exonerate_protein2genome AGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG tcagacaaacccctccatagggttcctttaactggccgtttctcatttagAGCTCTCAGATTGTGGCAAAGAGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGaatacttggccatctttaagggtgagttgtgctgaatccacctgtggatgatagtggctaccatgttattg Alignment from Exonerate_coding2genome AGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG tcagacaaacccctccatagggttcctttaactggccgtttctcatttagAGCTCTCAGATTGTGGCAAAGAGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGaatacttggccatctttaagggtgagttgtgctgaatccacctgtggatgatagtggctaccatgttattg Alignment from GeneWise AGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTG---------------------G tcagacaaacccctccatagggttcctttaactggccgtttctcatttagAGCTCTCAGATTGTGGCAAAGAGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGAATACTTGGCCATCTTTAAGGgtgagttgtgctgaatccacctgtggatgatagtggctaccatgttattg #### Ctsf_ID685_13 --> 2 - 0 Original Alignment gcTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG GGTTACTACTACTTGTACCG acaacaagaggcggatgatttctggctcatgctgcttctgctctctctaggtTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGT------gtgagcaggtttctgttttctactctgtagGGTTACTACTACTTATACCG Alignment from CESAR gcTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG GGTTACTACTACTT acaacaagaggcggatgatttctggctcatgctgcttctgctctctctaggtTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGT------gtgagcttataagggatttatttttcaaagGGTTACTACTACTT Alignment from Spaln_aa2Genome GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAG------------------------GAGGGTTACTACTACTTGTACCG acaacaagaggcggatgatttctggctcatgctgcttctgctctctctagGTTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGTGAGCAGGTTTCTGTTTTCTACTCTGTAGGGTTACTACTACTTATACCG Alignment from Spaln_nt2Genome GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGG GTGAGGAGGGTTACTACTAC acaacaagaggcggatgatttctggctcatgctgcttctgctctctctagGTTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGgtgtgagcaggtttctgttttctactctgtag--------GGTTACTACTAC Alignment from Pairagon GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGG------------------------AGGGTTACTACTACTTGTACCG acaacaagaggcggatgatttctggctcatgctgcttctgctctctctagGTTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGTGAGCAGGTTTCTGTTTTCTACTCTGTAGGGTTACTACTACTTATACCG Alignment from Exonerate_protein2genome GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGT GAGGAGGGTTACTACTACTT acaacaagaggcggatgatttctggctcatgctgcttctgctctctctagGTTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTgtgagcaggtttctgttttctactctgtag------GGTTACTACTACTT Alignment from Exonerate_coding2genome GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGT GAGGAGGGTTACTACTACTT acaacaagaggcggatgatttctggctcatgctgcttctgctctctctagGTTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTgtgagcaggtttctgttttctactctgtag------GGTTACTACTACTT Alignment from GeneWise GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAG------------------------GAGGGTTACTACTACTTGTACCG acaacaagaggcggatgatttctggctcatgctgcttctgctctctctagGTTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGTGAGCAGGTTTCTGTTTTCTACTCTGTAGGGTTACTACTACTTATACCG #### Ctsw_ID1022_4 --> 2 - 0 Original Alignment agGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accactcttttgccaccctgctgctacccctgctccttctcctctcccagagGAGGAGTTTGGGCAATTATATGGGCAA---AGATCACCAGAAAGGACCCCGAATATGACCAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTAAAGCAAAGAACATTATCTCATCAATCAAGAAT---gtgaggagtgccctagctcggtttgcacttatctaacccaaggtctgttc Alignment from CESAR agGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accactcttttgccaccctgctgctacccctgctccttctcctctcccagagGAGGAGTTTGGGCAATTATATGGGCAA---AGATCACCAGAAAGGACCCCGAATATGACCAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTAAAGCAAAGAACATTATCTCATCAATCAAGAAT---gtgaggagtgccctagctcggtttgcacttatctaacccaacagaat Alignment from Spaln_aa2Genome AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAGGGAAGCTGC-------- accactcttttgccaccctgctgctacccctgctccttctcctctcccagAGGAGGAGTTTGGGCAATTATATGGGCAA---AGATCACCAGAAAGGACCCCGAATATGACCAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTAAAGCAAAGAACATTATCTCATCAATCAAGAATGTGAGGAGTGCCCTAGCTCGgtttgcacttatctaacccaaggtctgttc Alignment from Spaln_nt2Genome AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAGGGAA accactcttttgccaccctgctgctacccctgctccttctcctctcccagAGGAGGAGTTTGGGCAATTATATGGGC---AAAGATCACCAGAAAGGACCCCGAATATGACCAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTAAAGCAAAGAACATTATCTCATCAATCAAGAATGTGAGGAgtgccctagctcggtttgcacttatctaacccaaggtctgttc Alignment from Pairagon AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAA--------------------------------------------------- accactcttttgccaccctgctgctacccctgctccttctcctctcccagAGGAGGAGTTTGGGCAATTATATGGGC---AAAGATCACCAGAAAGGACCCCGAATATGACCAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTAAAGCAAAGAACATTATCTCATCAATCAAGAATGTGAGGAGTGCCCTAGCTCGGTTTGCACTTATCTAACCCAAGGTCTGTTC Alignment from Exonerate_protein2genome AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAAC accactcttttgccaccctgctgctacccctgctccttctcctctcccagAGGAGGAGTTTGGGCAATTATATGGGCAA---AGATCACCAGAAAGGACCCCGAATATGACCAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTAAAGCAAAGAACATTATCTCATCAATCAAGAATgtgaggagtgccctagctcggtttgcacttatctaacccaaggtctgttc Alignment from Exonerate_coding2genome AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAAC accactcttttgccaccctgctgctacccctgctccttctcctctcccagAGGAGGAGTTTGGGCAATTATATGGGCAA---AGATCACCAGAAAGGACCCCGAATATGACCAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTAAAGCAAAGAACATTATCTCATCAATCAAGAATgtgaggagtgccctagctcggtttgcacttatctaacccaaggtctgttc Alignment from GeneWise AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAGGGAAGC---------TG accactcttttgccaccctgctgctacccctgctccttctcctctcccagAGGAGGAGTTTGGGCAATTATATGGGCAA---AGATCACCAGAAAGGACCCCGAATATGACCAAAAGGGTGGAGTCAAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTAAAGCAAAGAACATTATCTCATCAATCAAGAATGTGAGGAGTGCCCTAGCTCGgtttgcacttatctaacccaaggtctgttc #### Cyp17a1_ID9994_6 --> 0 - 2 Original Alignment GTGAAGAGGAAGATCCAAAAGGAGATTGACCAGTATGTAGGCTTCAGTCGAACACCGTCTTTCAATGACCGGACTCACCTCCTCATGCTGGAGGCCACTATCCGAGAAGTGCTTCGTATCAGGCCGGTGGCCCCCTTGCTCATCCCACACAAGGCTAACATTGACTCC------ag attcctttgttcctcttgcaaatatgtatcatctccttttcccctcccagGTGCGGAGGAAGATCAAAAAGGAGATTGACCAGTATGTAGGTTTCAGACAAACTCCATCTTTCAATGACCGAACACACCTTCTCACACTGGAGGCCACAATGCGGGAGGTTCTTCGTATCAGGCCAGTGGCCCCCCTGCTCATTCCCCACAAAGCTAATATTGACTCCCTAGAAaggtatggccttcttgctgaattatctacttaggtttcagccaatcggtttc Alignment from CESAR GTGAAGAGGAAGATCCAAAAGGAGATTGACCAGTATGTAGGCTTCAGTCGAACACCGTCTTTCAATGACCGGACTCACCTCCTCATGCTGGAGGCCACTATCCGAGAAGTGCTTCGTATCAGGCCGGTGGCCCCCTTGCTCATCCCACACAAGGCTAACATTGACTCC------ag attcctttgttcctcttgcaaatatgtatcatctccttttcccctcccagGTGCGGAGGAAGATCAAAAAGGAGATTGACCAGTATGTAGGTTTCAGACAAACTCCATCTTTCAATGACCGAACACACCTTCTCACACTGGAGGCCACAATGCGGGAGGTTCTTCGTATCAGGCCAGTGGCCCCCCTGCTCATTCCCCACAAAGCTAATATTGACTCCCTAGAAaggtatggccttcttgctgaattatctacttaggtttcagccaatcggtttc Alignment from Spaln_aa2Genome GTGAAGAGGAAGATCCAAAAGGAGATTGACCAGTATGTAGGCTTCAGTCGAACACCGTCTTTCAATGACCGGACTCACCTCCTCATGCTGGAGGCCACTATCCGAGAAGTGCTTCGTATCAGGCCGGTGGCCCCCTTGCTCATCCCACACAAGGCTAACATTGACTCCAGC----- attcctttgttcctcttgcaaatatgtatcatctccttttcccctcccagGTGCGGAGGAAGATCAAAAAGGAGATTGACCAGTATGTAGGTTTCAGACAAACTCCATCTTTCAATGACCGAACACACCTTCTCACACTGGAGGCCACAATGCGGGAGGTTCTTCGTATCAGGCCAGTGGCCCCCCTGCTCATTCCCCACAAAGCTAATATTGACTCCCTAGAAAGgtatggccttcttgctgaattatctacttaggtttcagccaatcggtttc Alignment from Spaln_nt2Genome GTGAAGAGGAAGATCCAAAAGGAGATTGACCAGTATGTAGGCTTCAGTCGAACACCGTCTTTCAATGACCGGACTCACCTCCTCATGCTGGAGGCCACTATCCGAGAAGTGCTTCGTATCAGGCCGGTGGCCCCCTTGCTCATCCCACACAAGGCTAACATTGACTCC------AG attcctttgttcctcttgcaaatatgtatcatctccttttcccctcccagGTGCGGAGGAAGATCAAAAAGGAGATTGACCAGTATGTAGGTTTCAGACAAACTCCATCTTTCAATGACCGAACACACCTTCTCACACTGGAGGCCACAATGCGGGAGGTTCTTCGTATCAGGCCAGTGGCCCCCCTGCTCATTCCCCACAAAGCTAATATTGACTCCCTAGAAAGgtatggccttcttgctgaattatctacttaggtttcagccaatcggtttc Alignment from Pairagon GTGAAGAGGAAGATCCAAAAGGAGATTGACCAGTATGTAGGCTTCAGTCGAACACCGTCTTTCAATGACCGGACTCACCTCCTCATGCTGGAGGCCACTATCCGAGAAGTGCTTCGTATCAGGCCGGTGGCCCCCTTGCTCATCCCACACAAGGCTAACATTGACTCC------AG attcctttgttcctcttgcaaatatgtatcatctccttttcccctcccagGTGCGGAGGAAGATCAAAAAGGAGATTGACCAGTATGTAGGTTTCAGACAAACTCCATCTTTCAATGACCGAACACACCTTCTCACACTGGAGGCCACAATGCGGGAGGTTCTTCGTATCAGGCCAGTGGCCCCCCTGCTCATTCCCCACAAAGCTAATATTGACTCCCTAGAAAGgtatggccttcttgctgaattatctacttaggtttcagccaatcggtttc Alignment from Exonerate_protein2genome GTGAAGAGGAAGATCCAAAAGGAGATTGACCAGTATGTAGGCTTCAGTCGAACACCGTCTTTCAATGACCGGACTCACCTCCTCATGCTGGAGGCCACTATCCGAGAAGTGCTTCGTATCAGGCCGGTGGCCCCCTTGCTCATCCCACACAAGGCTAACATTGACTCC------AG attcctttgttcctcttgcaaatatgtatcatctccttttcccctcccagGTGCGGAGGAAGATCAAAAAGGAGATTGACCAGTATGTAGGTTTCAGACAAACTCCATCTTTCAATGACCGAACACACCTTCTCACACTGGAGGCCACAATGCGGGAGGTTCTTCGTATCAGGCCAGTGGCCCCCCTGCTCATTCCCCACAAAGCTAATATTGACTCCCTAGAAAGgtatggccttcttgctgaattatctacttaggtttcagccaatcggtttc Alignment from Exonerate_coding2genome GTGAAGAGGAAGATCCAAAAGGAGATTGACCAGTATGTAGGCTTCAGTCGAACACCGTCTTTCAATGACCGGACTCACCTCCTCATGCTGGAGGCCACTATCCGAGAAGTGCTTCGTATCAGGCCGGTGGCCCCCTTGCTCATCCCACACAAGGCTAACATTGACTCC------AG attcctttgttcctcttgcaaatatgtatcatctccttttcccctcccagGTGCGGAGGAAGATCAAAAAGGAGATTGACCAGTATGTAGGTTTCAGACAAACTCCATCTTTCAATGACCGAACACACCTTCTCACACTGGAGGCCACAATGCGGGAGGTTCTTCGTATCAGGCCAGTGGCCCCCCTGCTCATTCCCCACAAAGCTAATATTGACTCCCTAGAAAGgtatggccttcttgctgaattatctacttaggtttcagccaatcggtttc Alignment from GeneWise GTGAAGAGGAAGATCCAAAAGGAGATTGACCAGTATGTAGGCTTCAGTCGAACACCGTCTTTCAATGACCGGACTCACCTCCTCATGCTGGAGGCCACTATCCGAGAAGTGCTTCGTATCAGGCCGGTGGCCCCCTTGCTCATCCCACACAAGGCTAACATTGACTCC------AG attcctttgttcctcttgcaaatatgtatcatctccttttcccctcccagGTGCGGAGGAAGATCAAAAAGGAGATTGACCAGTATGTAGGTTTCAGACAAACTCCATCTTTCAATGACCGAACACACCTTCTCACACTGGAGGCCACAATGCGGGAGGTTCTTCGTATCAGGCCAGTGGCCCCCCTGCTCATTCCCCACAAAGCTAATATTGACTCCCTAGAAAGgtatggccttcttgctgaattatctacttaggtttcagccaatcggtttc #### Cyp17a1_ID9995_5 --> 0 - 0 Original Alignment GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG------ ataataggtgagcagacatataacaatctctcttgctcctcccttcacagGAGAAATTCAACAGTGAGTCCCTTTCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGACATCTTG------GGCGTAGAAACAACTAGTTCTGTGCTGAATTGGCTACTGATGTTTTTAGTTCATAACCCTCAGAGGATCgtaggaatgtgtcttaaccaccggaaaggccatgcctgtgaccatagtca Alignment from CESAR GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG------ ataataggtgagcagacatataacaatctctcttgctcctcccttcacagGAGAAATTCAACAGTGAGTCCCTTTCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGACATCTTG------GGCGTAGAAACAACTAGTTCTGTGCTGAATTGGCTACTGATGTTTTTAGTTCATAACCCTCAGAGGATCgtaggaatgtgtcttaaccaccggaaaggccatgcctgtgaccatagtca Alignment from Spaln_aa2Genome GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG------ ataataggtgagcagacatataacaatctctcttgctcctcccttcacagGAGAAATTCAACAGTGAGTCCCTTTCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGACATCTTG------GGCGTAGAAACAACTAGTTCTGTGCTGAATTGGCTACTGATGTTTTTAGTTCATAACCCTCAGAGGATCgtaggaatgtgtcttaaccaccggaaaggccatgcctgtgaccatagtca Alignment from Spaln_nt2Genome GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG------ ataataggtgagcagacatataacaatctctcttgctcctcccttcacagGAGAAATTCAACAGTGAGTCCCTTTCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGACATCTT------GGGCGTAGAAACAACTAGTTCTGTGCTGAATTGGCTACTGATGTTTTTAGTTCATAACCCTCAGAGGATCgtaggaatgtgtcttaaccaccggaaaggccatgcctgtgaccatagtca Alignment from Pairagon GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG------ ataataggtgagcagacatataacaatctctcttgctcctcccttcacagGAGAAATTCAACAGTGAGTCCCTTTCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGACATCTT------GGGCGTAGAAACAACTAGTTCTGTGCTGAATTGGCTACTGATGTTTTTAGTTCATAACCCTCAGAGGATCgtaggaatgtgtcttaaccaccggaaaggccatgcctgtgaccatagtca Alignment from Exonerate_protein2genome GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG ataataggtgagcagacatataacaatctctcttgctcctcccttcacagGAGAAATTCAACAGTGAGTCCCTTTCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGACATCTTG------GGCGTAGAAACAACTAGTTCTGTGCTGAATTGGCTACTGATGTTTTTAGTTCATAACCCTCAGaggatcgtaggaatgtgtcttaaccaccggaaaggccatgcctgtgaccatagtca Alignment from Exonerate_coding2genome GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG ataataggtgagcagacatataacaatctctcttgctcctcccttcacagGAGAAATTCAACAGTGAGTCCCTTTCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGACATCTTG------GGCGTAGAAACAACTAGTTCTGTGCTGAATTGGCTACTGATGTTTTTAGTTCATAACCCTCAGaggatcgtaggaatgtgtcttaaccaccggaaaggccatgcctgtgaccatagtca Alignment from GeneWise GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG------ ataataggtgagcagacatataacaatctctcttgctcctcccttcacagGAGAAATTCAACAGTGAGTCCCTTTCCAGCCTGACAGACATTCTTATACAGGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGTCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGACATCTTGGGC------GTAGAAACAACTAGTTCTGTGCTGAATTGGCTACTGATGTTTTTAGTTCATAACCCTCAGAGGATCgtaggaatgtgtcttaaccaccggaaaggccatgcctgtgaccatagtca #### Cyp26a1_ID7416_4 --> 0 - 0 Original Alignment CTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG--------- ATTCAGCGGTCTGTACCGTgtacagcataaaggatgatgtcttcttctagGGTGTT---ACTCGTAATATAATACAGGCATGCATTGAGGAGAACATTCATGCAAATATCCACCAGCTCCAGGCCACAGAACCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCAAGCACTCATGGGAG---GGTGAAGAATTAGACATACAGAGATGGGTTgtaggcaacaatttcaaaaggtaccaaagggcagctgagtgtattcccaa Alignment from CESAR CTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG--------- ATTCAGCGGTCTGTACCGTgtattacataaaggatgatgtcttcttctagGGTGTT---ACTCGTAATATAATACAGGCATGCATTGAGGAGAACATTCATGCAAATATCCACCAGCTCCAGGCCACAGAACCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCAAGCACTCATGGGAG---GGTGAAGAATTAGACATACAGAGATGGGTTgtaggcaacaatttcaaaaggtaccaaagggcagctgagtgtattcccaa Alignment from Spaln_aa2Genome CTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG------ ATTCAGCGGTCTGTACCGTgtacagcataaaggatgatgtcttcttctagGGTGTT---ACTCGTAATATAATACAGGCATGCATTGAGGAGAACATTCATGCAAATATCCACCAGCTCCAGGCCACAGAACCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCAAGCACTCATGGGAG---GGTGAAGAATTAGACATACAGAGATGGgttgtaggcaacaatttcaaaaggtaccaaagggcagctgagtgtattcccaa Alignment from Spaln_nt2Genome CTTTAGCGGCCTGTACCGG-------------------------------GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGA ATTCAGCGGTCTGTACCGTGTACAGCATAAAGGATGATGTCTTCTTCTAGGGTGTTA---CTCGTAATATAATACAGGCATGCATTGAGGAGAACATTCATGCAAATATCCACCAGCTCCAGGCCACAGAACCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCAAGCACTCATGGGAGGgtgaagaattagacatacagagatgggttgtaggcaacaatttcaaaaggtaccaaagggcagctgagtgtattcccaa Alignment from Pairagon CGTGAAGGCGCGGAACCTT-------------------------------------------------ATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG ------------------TGTACAGCATAAAGGATGATGTCTTCTTCTAGGGTGTTACTCGTAATATAATACAGGCATGCATTGAGGAGAACATTCATGCAAATATCCACCAGCTCCAGGCCACAGAACCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCAAGCACTCATGGGAG-----------------------Ggtgaagaattagacatacagagatgggttgtaggcaacaatttcaaaaggtaccaaagggcagctgagtgtattcccaa Alignment from Exonerate_protein2genome CTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG ATTCAGCGGTCTGTACCGTgtacagcataaaggatgatgtcttcttctagGGTGTT---ACTCGTAATATAATACAGGCATGCATTGAGGAGAACATTCATGCAAATATCCACCAGCTCCAGGCCACAGAACCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCAAGCACTCATGGGAG---GGTGAAGAATTAGACATACAGagatgggttgtaggcaacaatttcaaaaggtaccaaagggcagctgagtgtattcccaa Alignment from Exonerate_coding2genome CTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG ATTCAGCGGTCTGTACCGTgtacagcataaaggatgatgtcttcttctagGGTGTT---ACTCGTAATATAATACAGGCATGCATTGAGGAGAACATTCATGCAAATATCCACCAGCTCCAGGCCACAGAACCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCAAGCACTCATGGGAG---GGTGAAGAATTAGACATACAGagatgggttgtaggcaacaatttcaaaaggtaccaaagggcagctgagtgtattcccaa Alignment from GeneWise CTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG------ ATTCAGCGGTCTGTACCGTgtacagcataaaggatgatgtcttcttctagGGTGTT---ACTCGTAATATAATACAGGCATGCATTGAGGAGAACATTCATGCAAATATCCACCAGCTCCAGGCCACAGAACCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCAAGCACTCATGGGAG---GGTGAAGAATTAGACATACAGAGATGGgttgtaggcaacaatttcaaaaggtaccaaagggcagctgagtgtattcccaa #### Cyp2c37_ID7840_3 --> 2 - 1 Original Alignment gcCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg tttttccttgtccctacgtgctgcacagtactcattttgtcttaatccagga---ACATTCAGTAAAGGGAATGTATGGAGAAACATGAAGCACTTCTCAGTCATGCCATTGCGTAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAGACTAACtgtgagctaggtctatgggtaattctgttcttatcaaatgcgattgtcaca Alignment from CESAR gcCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg tcttttttccttgtccctacgtgctcagtactcattttgtcttaatccagga---ACATTCAGTAAAGGGAATGTATGGAGAAACATGAAGCACTTCTCAGTCATGCCATTGCGTAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAGACTAACtgtgagctaggtctatgggtaattctgttcttatcaaatgcgattgtcaca Alignment from Spaln_aa2Genome GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG tttttccttgtccctacgtgctgcacagtactcattttgtcttaatccagGA---ACATTCAGTAAAGGGAATGTATGGAGAAACATGAAGCACTTCTCAGTCATGCCATTGCGTAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAGACTAACTgtgagctaggtctatgggtaattctgttcttatcaaatgcgattgtcaca Alignment from Spaln_nt2Genome GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG tttttccttgtccctacgtgctgcacagtactcattttgtcttaatccagG---AACATTCAGTAAAGGGAATGTATGGAGAAACATGAAGCACTTCTCAGTCATGCCATTGCGTAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAGACTAACTgtgagctaggtctatgggtaattctgttcttatcaaatgcgattgtcaca Alignment from Pairagon -----CCTTG-------------------------------------------CATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG TTTTTCCTTGTCCCTACGTGCTGCACAGTACTCATTTTGTCTTAATCCAGGAACATTCAGTAAAGGGAATGTATGGAGAAACATGAAGCACTTCTCAGTCATGCCATTGCGTAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAGACTAACTgtgagctaggtctatgggtaattctgttcttatcaaatgcgattgtcaca Alignment from Exonerate_protein2genome GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG tttttccttgtccctacgtgctgcacagtactcattttgtcttaatccagGA---ACATTCAGTAAAGGGAATGTATGGAGAAACATGAAGCACTTCTCAGTCATGCCATTGCGTAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAGACTAACTgtgagctaggtctatgggtaattctgttcttatcaaatgcgattgtcaca Alignment from Exonerate_coding2genome GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG tttttccttgtccctacgtgctgcacagtactcattttgtcttaatccagGA---ACATTCAGTAAAGGGAATGTATGGAGAAACATGAAGCACTTCTCAGTCATGCCATTGCGTAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAGACTAACTgtgagctaggtctatgggtaattctgttcttatcaaatgcgattgtcaca Alignment from GeneWise GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG tttttccttgtccctacgtgctgcacagtactcattttgtcttaatccagGA---ACATTCAGTAAAGGGAATGTATGGAGAAACATGAAGCACTTCTCAGTCATGCCATTGCGTAATTTAGGTATGAGGAAGAGGAGCATTAAGGGGCAGATTCAAGATGAAGCACATTGTCTTGTTGAGGAACTTAGGAAGACTAACTgtgagctaggtctatgggtaattctgttcttatcaaatgcgattgtcaca #### Cyp2c50_ID7861_2 --> 0 - 1 Original Alignment ------TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg attgcattgcagtcaaatctttctagtctccctttcatatgtcctcacagCGCGCATTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTATTACAGGGATATGAGGCAGTGAAGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACTACCCGTTTTTGATAAAGCTACCAATGGAATGggtatcaataggtttgcaataccagtgaaagaatgtgtgagtccatcccag Alignment from CESAR ------TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg attgcattgcagtcaaatctttctagtctccctttcatatgtcctcacagCGCGCATTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTATTACAGGGATATGAGGCAGTGAAGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACTACCCGTTTTTGATAAAGCTACCAATGGAATGggtatcaataggtttgcaataccagtgaaagaatgtgtgagtccatcccag Alignment from Spaln_aa2Genome ------TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATG attgcattgcagtcaaatctttctagtctccctttcatatgtcctcacagCGCGCATTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTATTACAGGGATATGAGGCAGTGAAGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACTACCCGTTTTTGATAAAGCTACCAATGGAATGGgtatcaataggtttgcaataccagtgaaagaatgtgtgagtccatcccag Alignment from Spaln_nt2Genome ------TTATCAAAAGTTTATG---GCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG attgcattgcagtcaaatctttctagtctccctttcatatgtcctcacagCGCGCATTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTATTACAGGGATATGAGGCAGTGAAGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACTACCCGTTTTTGATAAAGCTACCAATGGAATGGgtatcaataggtttgcaataccagtgaaagaatgtgtgagtccatcccag Alignment from Pairagon ------TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG attgcattgcagtcaaatctttctagtctccctttcatatgtcctcacagCGCGCATTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTATTACAGGGATATGAGGCAGTGAAGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACTACCCGTTTTTGATAAAGCTACCAATGGAATGGgtatcaataggtttgcaataccagtgaaagaatgtgtgagtccatcccag Alignment from Exonerate_protein2genome ------TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG attgcattgcagtcaaatctttctagtctccctttcatatgtcctcacagCGCGCATTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTATTACAGGGATATGAGGCAGTGAAGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACTACCCGTTTTTGATAAAGCTACCAATGGAATGGgtatcaataggtttgcaataccagtgaaagaatgtgtgagtccatcccag Alignment from Exonerate_coding2genome ------TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG attgcattgcagtcaaatctttctagtctccctttcatatgtcctcacagCGCGCATTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTATTACAGGGATATGAGGCAGTGAAGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACTACCCGTTTTTGATAAAGCTACCAATGGAATGGgtatcaataggtttgcaataccagtgaaagaatgtgtgagtccatcccag Alignment from GeneWise ------TTATCAAAAGTTTAT---GGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATG--------------------------------------------------- attgcattgcagtcaaatctttctagtctccctttcatatgtcctcacagCGCGCATTATCCAAAGTCTATGATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTATTACAGGGATATGAGGCAGTGAAGGAATCATTAGTTGACCATGGGGAAGAATTTGCTGGGAGAGAAAGACTACCCGTTTTTGATAAAGCTACCAATGGAATGGGTATCAATAGGTTTGCAATACCAGTGAAAGAATGTGTGAGTCCATCCCAG #### Cyp2c50_ID7862_3 --> 2 - 1 Original Alignment gc---------ATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg agtgaaagaatgtgtgagtccatcccaggtatcttcttcacattttacagggCATTCTGCTATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAAGAAGACCAATggtgcgtcaaagtgcagacccagaacctagtgtgattttaatcaagttttt Alignment from CESAR gc---------ATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg agtgaaagaatgtgtgagtccatcccaggtatcttcttcacattttacagggCATTCTGCTATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAAGAAGACCAATggtgcgtcaaagtgcagacccagaacctagtgtgattttaatcaagttttt Alignment from Spaln_aa2Genome GCATTATATTTAGT---------AAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agtgaaagaatgtgtgagtccatcccaggtatcttcttcacattttacagGGCATTCTGCTATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAAGAAGACCAATGgtgcgtcaaagtgcagacccagaacctagtgtgattttaatcaagttttt Alignment from Spaln_nt2Genome GCATTATATTTAG---------TAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agtgaaagaatgtgtgagtccatcccaggtatcttcttcacattttacagGGCATTCTGCTATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAAGAAGACCAATGgtgcgtcaaagtgcagacccagaacctagtgtgattttaatcaagttttt Alignment from Pairagon ------------------------------------------------------------CATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG AGTGAAAGAATGTGTGAGTCCATCCCAGGTATCTTCTTCACATTTTACAGGGCATTCTGCTATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAAGAAGACCAATGgtgcgtcaaagtgcagacccagaacctagtgtgattttaatcaagttttt Alignment from Exonerate_protein2genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agtgaaagaatgtgtgagtccatcccaggtatcttcttcacattttacagggcattctgCTATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAAGAAGACCAATGgtgcgtcaaagtgcagacccagaacctagtgtgattttaatcaagttttt Alignment from Exonerate_coding2genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG agtgaaagaatgtgtgagtccatcccaggtatcttcttcacattttacagggcattctgCTATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAAGAAGACCAATGgtgcgtcaaagtgcagacccagaacctagtgtgattttaatcaagttttt Alignment from GeneWise -------------------------------------------------------------ATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG AGTGAAAGAATGTGTGAGTCCATCCCAGGTATCTTCTTCACATTTTACAGGGCATTCTGCTATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCCTGTTGAGGAACTTAAGAAGACCAATGgtgcgtcaaagtgcagacccagaacctagtgtgattttaatcaagttttt #### Cyp2c54_ID7855_3 --> 2 - 1 Original Alignment gc---------ATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg ctgctgtagcaccaaggttgttcatgtaccatgtcctgtgttctcttcaggcACCAACATCATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATggtacaaaaaaaaaaagggaggtagccaactgggtcttgcaaatcctgtct Alignment from CESAR gc---------ATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg ctgctgtagcaccaaggttgttcatgtaccatgtcctgtgttctcttcaggcACCAACATCATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATggtacaaaaaaaaaaagggaggtagccaactgggtcttgcaaatcctgtct Alignment from Spaln_aa2Genome GCATTGGATTT---------AGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgtagcaccaaggttgttcatgtaccatgtcctgtgttctcttcagGCACCAACATCATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATGgtacaaaaaaaaaaagggaggtagccaactgggtcttgcaaatcctgtct Alignment from Spaln_nt2Genome GCATTGGATT---------TAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgtagcaccaaggttgttcatgtaccatgtcctgtgttctcttcagGCACCAACATCATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATGgtacaaaaaaaaaaagggaggtagccaactgggtcttgcaaatcctgtct Alignment from Pairagon G---------CATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgtagcaccaaggttgttcatgtaccatgtcctgtgttctcttcagGCACCAACATCATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATGgtacaaaaaaaaaaagggaggtagccaactgggtcttgcaaatcctgtct Alignment from Exonerate_protein2genome GC---------ATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgtagcaccaaggttgttcatgtaccatgtcctgtgttctcttcagGCACCAACATCATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATGgtacaaaaaaaaaaagggaggtagccaactgggtcttgcaaatcctgtct Alignment from Exonerate_coding2genome GC---------ATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgtagcaccaaggttgttcatgtaccatgtcctgtgttctcttcagGCACCAACATCATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATGgtacaaaaaaaaaaagggaggtagccaactgggtcttgcaaatcctgtct Alignment from GeneWise --------GGCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgtagcaccaaggttgttcatgtaccatgtcctgtgttctcttcagGCACCAACATCATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTCATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATGgtacaaaaaaaaaaagggaggtagccaactgggtcttgcaaatcctgtct #### Dagla_ID2755_15 --> 1 - 0 Original Alignment gATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA gaataaagatgttagcaaagaaggacacggcagcctgtctcttcctgtaggGTTGGCCTTTCCCAACTAGAAGGA------------------------------------------------gtgagcactgttcagatctacagcaccaaaaaagccctgtgactcccacg Alignment from CESAR gATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA gaataaagatgttagcaaagaaggacacggcagcctgtctcttcctgtaggGTTGGCCTTTCCCAACTAGAAGGA------------------------------------------------gt Alignment from Spaln_aa2Genome GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA gaataaagatgttagcaaagaaggacacggcagcctgtctcttcctgtagGGTTGGCCTTTCCCAACTAGAAGGA---------------GTGAGCACTGTTCAGATCTACAGCACCAAAAAAgc Alignment from Spaln_nt2Genome GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCA gaataaagatgttagcaaagaaggacacggcagcctgtctcttcctgtagGGTTGGCCTTTCCCAACTAGAAGG----AGTGAGCACTGTTCAGATCTACAGCACCAAAAAAgccctgtgactcccacg Alignment from Pairagon GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA gaataaagatgttagcaaagaaggacacggcagcctgtctcttcctgtagGGTTGGCCTTTCCCAACTAGAAGG------------------------------------------------Agtgagcactgttcagatctacagcaccaaaaaagccctgtgactcccacg Alignment from Exonerate_protein2genome GATTGGCCTTTCCCAGCTGGAAGGT gaataaagatgttagcaaagaaggacacggcagcctgtctcttcctgtagGGTTGGCCTTTCCCAACTAGAAGGAgtgagcactgttcagatctacagcaccaaaaaagccctgtgactcccacg Alignment from Exonerate_coding2genome gaataaagatgttagcaaagaaggacacggcagcctgtctcttcctgtagggttggcctttcccaactagaaggagtgagcactgttcagatctacagcaccaaaaaagccctgtgactcccacg Alignment from GeneWise gaataaagatgttagcaaagaaggacacggcagcctgtctcttcctgtagggttggcctttcccaactagaaggagtgagcactgttcagatctacagcaccaaaaaagccctgtgactcccacg #### Dagla_ID2760_10 --> 0 - 0 Original Alignment GTCTATGAAACTCCCTTCTACGTAGCTGTGGACCATGACAAGAAGAAAGTGGTGATCAGTATCCGGGGAACACTGTCCCCCAAG tcaactccaaagtgcattatgtaatgtctgccctctgtcatgtaatgcag---------ACTCCCTTTTATGTTGCTGTTGACCATGATAAGAAGAAAGTGGTGGTCAGCATCCGGGGAACTTTATCCCCGAAAgtaatagctattgtatccaactttacactgtacttttgttaaactaccac Alignment from CESAR GTCTATGAAACTCCCTTCTACGTAGCTGTGGACCATGACAAGAAGAAAGTGGTGATCAGTATCCGGGGAACACTGTCCCCCAAG tgttgcttatcaactccaaagtgcagtctgccctctgtcatgtaatgcag---------ACTCCCTTTTATGTTGCTGTTGACCATGATAAGAAGAAAGTGGTGGTCAGCATCCGGGGAACTTTATCCCCGAAAgtaatagctattgtatccaactttacactgtacttttgttaaactaccac Alignment from Spaln_aa2Genome GTCTATGAAACTCCCTTCTACGTAGCTGTGGACCATGACAAGAAGAAAGTGGTGATCAGTATCCGGGGAACACTGTCCCCCAAG tcaactccaaagtgcattatgtaatgtctgccctctgtcatgtaatgcag---------ACTCCCTTTTATGTTGCTGTTGACCATGATAAGAAGAAAGTGGTGGTCAGCATCCGGGGAACTTTATCCCCGAAAgtaatagctattgtatccaactttacactgtacttttgttaaactaccac Alignment from Spaln_nt2Genome AAACTCCCTTCTACGTAGCTGTGGACCATGACAAGAAGAAAGTGGTGATCAGTATCCGGGGAACACTGTCCCCCAAG tcaactccaaagtgcattatgtaatgtctgccctctgtcatgtaatgcag--ACTCCCTTTTATGTTGCTGTTGACCATGATAAGAAGAAAGTGGTGGTCAGCATCCGGGGAACTTTATCCCCGAAAgtaatagctattgtatccaactttacactgtacttttgttaaactaccac Alignment from Pairagon GTCTATGAAACTCCCTTCTACGTAGCTGTGGACCATGACAAGAAGAAAGTGGTGATCAGTATCCGGGGAACACTGTCCCCCAAG tcaactccaaagtgcattatgtaatgtctgccctctgtcatgtaatgcag---------ACTCCCTTTTATGTTGCTGTTGACCATGATAAGAAGAAAGTGGTGGTCAGCATCCGGGGAACTTTATCCCCGAAAgtaatagctattgtatccaactttacactgtacttttgttaaactaccac Alignment from Exonerate_protein2genome GTCTATGAAACTCCCTTCTACGTAGCTGTGGACCATGACAAGAAGAAAGTGGTGATCAGTATCCGGGGAACACTGTCCCCCAAG tcaactccaaagtgcattatgtaatgtctgccctctgtcatGTAATGCAGACTCCCTTTTATGTTGCTGTTGACCATGATAAGAAGAAAGTGGTGGTCAGCATCCGGGGAACTTTATCCCCGAAAgtaatagctattgtatccaactttacactgtacttttgttaaactaccac Alignment from Exonerate_coding2genome tcaactccaaagtgcattatgtaatgtctgccctctgtcatgtaatgcagactcccttttatgttgctgttgaccatgataagaagaaagtggtggtcagcatccggggaactttatccccgaaagtaatagctattgtatccaactttacactgtacttttgttaaactaccac Alignment from GeneWise --------------------------------TATGAAACTCCCTTCTACGTAGCTGTGGACCATGACAAGAAGAAAGTGGTGATCAGTATCCGGGGAACACTGTCCCCCAAG tcaactccaaagTGCATTATGTAATGTCTGCCCTCTGTCATGTAATGCAGACTCCCTTTTATGTTGCTGTTGACCATGATAAGAAGAAAGTGGTGGTCAGCATCCGGGGAACTTTATCCCCGAAAgtaatagctattgtatccaactttacactgtacttttgttaaactaccac #### Dak_ID2902_11 --> 2 - 1 Original Alignment atGCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTG------------------ACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGA---g gtatgtccaggcactattggtgtatgaactatgtcaaattattttttcagatGCTGAGTCAACTGCAAAACGT---TAT---ATGACCAAAGTCTCTGTCATGACCAAAGTCTCTGTAACTGGGAGGAAACAGATCAGGGCATCCCCCACGGAGCCACCTGAGTCCCCTGAAGCTACTGTTGCAGGGATCggtaattagcccagatctgaatactaaggccccttggcagctgaacctcta Alignment from CESAR atGCTGAAACTACTGCAAAAGCCTGG------------CCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGA---g gtatgtccaggcactattggtgtatgaactatgtcaaattattttttcagatGCTGAGTCAACTGCAAAACGTTATATGACCAAAGTCTCTGTCATGACCAAAGTCTCTGTAACTGGGAGGAAACAGATCAGGGCATCCCCCACGGAGCCACCTGAGTCCCCTGAAGCTACTGTTGCAGGGATCggtaattagcccagatctgaatactaaggccccttggcagctgaacctcta Alignment from Spaln_aa2Genome ATGCTGAAACTACTGCAAAAGCCTGG------------CCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGA---G gtatgtccaggcactattggtgtatgaactatgtcaaattattttttcagATGCTGAGTCAACTGCAAAACGTTATATGACCAAAGTCTCTGTCATGACCAAAGTCTCTGTAACTGGGAGGAAACAGATCAGGGCATCCCCCACGGAGCCACCTGAGTCCCCTGAAGCTACTGTTGCAGGGATCGgtaattagcccagatctgaatactaaggccccttggcagctgaacctcta Alignment from Spaln_nt2Genome ATGCTGAAACTACTGCAAAAGCCTG----------GCCTCA--CATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGA---G gtatgtccaggcactattggtgtatgaactatgtcaaattattttttcagATGCTGAGTCAACTGCAAAACGTTATATGACCAAAGTCTCTGTCATGACCAAAGTCTCTGTAACTGGGAGGAAACAGATCAGGGCATCCCCCACGGAGCCACCTGAGTCCCCTGAAGCTACTGTTGCAGGGATCGgtaattagcccagatctgaatactaaggccccttggcagctgaacctcta Alignment from Pairagon ATGCTGAAACTACTGCA---------------AAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGG------------------------------------------------------- gtatgtccaggcactattggtgtatgaactatgtcaaattattttttcagATGCTGAGTCAACTGCAAAACGTTATATGACCAAAGTCT---CTGTCATGACCAAAGTCTCTGTAACTGGGAGGAAACAGATCAGGGCATCCCCCACGGAGCCACCTGAGTCCCCTGAAGCTACTGTTGCAGGGATCGGTAATTAGCCCAGATCTGAATACTAAGGCCCCTTGGCAGCTGAACCTCTA Alignment from Exonerate_protein2genome ATGCTGAAACTACTGCAAAAGCCTGG------------CCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGA---G gtatgtccaggcactattggtgtatgaactatgtcaaattattttttcagATGCTGAGTCAACTGCAAAACGTTATATGACCAAAGTCTCTGTCATGACCAAAGTCTCTGTAACTGGGAGGAAACAGATCAGGGCATCCCCCACGGAGCCACCTGAGTCCCCTGAAGCTACTGTTGCAGGGATCGgtaattagcccagatctgaatactaaggccccttggcagctgaacctcta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATGCTGAAACTACTGCAAAAGCCTGG------------CCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAGGT- gtatgtccaggcactattggtgtatgaactatgtcaaattattttttcagATGCTGAGTCAACTGCAAAACGTTATATGACCAAAGTCTCTGTCATGACCAAAGTCTCTGTAACTGGGAGGAAACAGATCAGGGCATCCCCCACGGAGCCACCTGAGTCCCCTGAAGCTACTGTTGCAGGGATCGgtaattagcccagatctgaatactaaggccccttggcagctgaacctcta #### Dak_ID2907_6 --> 2 - 1 Original Alignment gt---------ACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGg caaccccttctaaattaccaactatccctatggacctctctctttctcaggtCGTCTTAAAACCCTAGGTGTCACCTTGTCATCCTGTAGTGTGCCTGGCACCACACACACTTTTGAGCTTGCAGCTGATGAAATAGAGTTGGGCTTGggtatggatgctgtcataatgcatgttacgttgtgtcagctgccaggcaca Alignment from CESAR gt---------ACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGg caaccccttctaaattaccaactatccctatggacctctctctttctcaggtCGTCTTAAAACCCTAGGTGTCACCTTGTCATCCTGTAGTGTGCCTGGCACCACACACACTTTTGAGCTTGCAGCTGATGAAATAGAGTTGGGCTTGggtatggatgctgtcataatgcatgttacgttgtgtcagctgccaggcaca Alignment from Spaln_aa2Genome GGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGG caaccccttctaaattaccaactatccctatggacctctctctttctcaggtcgtcttaaaaccctagGTGTCACCTTGTCATCCTGTAGTGTGCCTGGCACCACACACACTTTTGAGCTTGCAGCTGATGAAATAGAGTTGGGCTTGGgtatggatgctgtcataatgcatgttacgttgtgtcagctgccaggcaca Alignment from Spaln_nt2Genome GT---------ACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGG caaccccttctaaattaccaactatccctatggacctctctctttctcagGTCGTCTTAAAACCCTAGGTGTCACCTTGTCATCCTGTAGTGTGCCTGGCACCACACACACTTTTGAGCTTGCAGCTGATGAAATAGAGTTGGGCTTGGgtatggatgctgtcataatgcatgttacgttgtgtcagctgccaggcaca Alignment from Pairagon GT---------ACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGG caaccccttctaaattaccaactatccctatggacctctctctttctcagGTCGTCTTAAAACCCTAGGTGTCACCTTGTCATCCTGTAGTGTGCCTGGCACCACACACACTTTTGAGCTTGCAGCTGATGAAATAGAGTTGGGCTTGGgtatggatgctgtcataatgcatgttacgttgtgtcagctgccaggcaca Alignment from Exonerate_protein2genome GGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGG caaccccttctaaattaccaactatccctatggacctctctctttctcaggtcgtcttaaaaccctagGTGTCACCTTGTCATCCTGTAGTGTGCCTGGCACCACACACACTTTTGAGCTTGCAGCTGATGAAATAGAGTTGGGCTTGGgtatggatgctgtcataatgcatgttacgttgtgtcagctgccaggcaca Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGGGGATCCATGGGGAAGCTGGTGTTCGTCGGATAAAGATAG caaccccttctaaattaccaactatccctatggacctctctctttctcaggtcgtcttaaaaccctagGTGTCACCTTGTCATCCTGTAGTGTGCCTGGCACCACACACACTTTTGAGCTTGCAGCTGATGAAATAGAGTTGGGCTTGGGTATG------GATGCTGTCATAATGCATGTTACGTTGTgtcagctgcca #### Dak_ID2910_3 --> 2 - 1 Original Alignment gt---TTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAg tgcagctttgggacaactatgcatacctctgctcttgctcttcccctcaggtATTTTTATTGGCAAAGGGATGCTAACAGGTATTATTGTAGGGTTGGTGTTTGCCTCTCCTCCTGTGGGCAGTATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACGggtaagttgtgcttgtacagggttggataggttgtggaggggagcacattg Alignment from CESAR gt---TTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAg tgcagctttgggacaactatgcatacctctgctcttgctcttcccctcaggtATTTTTATTGGCAAAGGGATGCTAACAGGTATTATTGTAGGGTTGGTGTTTGCCTCTCCTCCTGTGGGCAGTATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACGggtaagttgtgcttgtacagggttggataggttgtggaggggagcacattg Alignment from Spaln_aa2Genome GT---TTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcagctttgggacaactatgcatacctctgctcttgctcttcccctcagGTATTTTTATTGGCAAAGGGATGCTAACAGGTATTATTGTAGGGTTGGTGTTTGCCTCTCCTCCTGTGGGCAGTATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACGGgtaagttgtgcttgtacagggttggataggttgtggaggggagcacattg Alignment from Spaln_nt2Genome GT---TTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcagctttgggacaactatgcatacctctgctcttgctcttcccctcagGTATTTTTATTGGCAAAGGGATGCTAACAGGTATTATTGTAGGGTTGGTGTTTGCCTCTCCTCCTGTGGGCAGTATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACGGgtaagttgtgcttgtacagggttggataggttgtggaggggagcacattg Alignment from Pairagon G---TTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcagctttgggacaactatgcatacctctgctcttgctcttcccctcagGTATTTTTATTGGCAAAGGGATGCTAACAGGTATTATTGTAGGGTTGGTGTTTGCCTCTCCTCCTGTGGGCAGTATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACGGgtaagttgtgcttgtacagggttggataggttgtggaggggagcacattg Alignment from Exonerate_protein2genome GT---TTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcagctttgggacaactatgcatacctctgctcttgctcttcccctcagGTATTTTTATTGGCAAAGGGATGCTAACAGGTATTATTGTAGGGTTGGTGTTTGCCTCTCCTCCTGTGGGCAGTATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACGGgtaagttgtgcttgtacagggttggataggttgtggaggggagcacattg Alignment from Exonerate_coding2genome GT---TTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcagctttgggacaactatgcatacctctgctcttgctcttcccctcagGTATTTTTATTGGCAAAGGGATGCTAACAGGTATTATTGTAGGGTTGGTGTTTGCCTCTCCTCCTGTGGGCAGTATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACGGgtaagttgtgcttgtacagggttggataggttgtggaggggagcacattg Alignment from GeneWise --GGTTTTATCGGGAAAGGGATGCTAACAGGTGTCATCGCAGGATCTGTGTTTGCCTCTCCTCCTGTGGGCAGCATCCTGGCAGCCATTAGAGCTGTGGCCCAGGCAGGCACAG tgcagctttgggacaactatgcatacctctgctcttgctcttcccctcagGTATTTTTATTGGCAAAGGGATGCTAACAGGTATTATTGTAGGGTTGGTGTTTGCCTCTCCTCCTGTGGGCAGTATCTTAGCAGCCATTAGAGCTGTGGCACAGGCAGGCACGGgtaagttgtgcttgtacagggttggataggttgtggaggggagcacattg #### Ddb1_ID2936_21 --> 2 - 0 Original Alignment ga---------------AAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG aggcacctgaggaaaagcctattaagaacatctgtgttcttatttttcaggaACCCCTGATGACCTTAAGCTG---ACTGTCACTGATAAGGAAGTGAAAGGAGCGGTGTACTCCATGGTGGAGTTTAATGGGAAATTATTGGCCAGCACCAATAGCACAgtatggggcaagggtttacatgctcgtggattgattcttctcttctgagc Alignment from CESAR ga---------------AAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG aggcacctgaggaaaagcctattaagaacatctgtgttcttatttttcaggaACCCCTGATGACCTTAAGCTG---ACTGTCACTGATAAGGAAGTGAAAGGAGCGGTGTACTCCATGGTGGAGTTTAATGGGAAATTATTGGCCAGCACCAATAGCACAgtatggggcaagggtttacatgctcgtggattgattcttctcttctgagc Alignment from Spaln_aa2Genome GAAAACTACAG------------ACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG aggcacctgaggaaaagcctattaagaacatctgtgttcttatttttcagGAACCCCTGATGACCTTAAGCTGACTGTCACTGATAAGGAAGTGAAAGGAGCGGTGTACTCCATGGTGGAGTTTAATGGGAAATTATTGGCCAGCACCAATAGCACAgtatggggcaagggtttacatgctcgtggattgattcttctcttctgagc Alignment from Spaln_nt2Genome CAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG aggcacctgaggaaaagcctattaagaacatctgtgttcttatttttcaggaacccctgatgaccttaagCTGACTGTCACTGATAAGGAAGTGAAAGGAGCGGTGTACTCCATGGTGGAGTTTAATGGGAAATTATTGGCCAGCACCAATAGCACAgtatggggcaagggtttacatgctcgtggattgattcttctcttctgagc Alignment from Pairagon GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG aggcacctgaggaaaagcctattaagaacatctgtgttcttatttttcaggaacccctgatgaccttaag--------CTGACTGTCACTGATAAGGAAGTGAAAGGAGCGGTGTACTCCATGGTGGAGTTTAATGGGAAATTATTGGCCAGCACCAATAGCACAgtatggggcaagggtttacatgctcgtggattgattcttctcttctgagc Alignment from Exonerate_protein2genome GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG aggcacctgaggaaaagcctattaagaacatctgtgttcttatttttcaggaacccctgatgACCTTAAGCTGACTGTCACTGATAAGGAAGTGAAAGGAGCGGTGTACTCCATGGTGGAGTTTAATGGGAAATTATTGGCCAGCACCAATAGCACAgtatggggcaagggtttacatgctcgtggattgattcttctcttctgagc Alignment from Exonerate_coding2genome GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG aggcacctgaggaaaagcctattaagaacatctgtgttcttatttttcaggaacccctgatgACCTTAAGCTGACTGTCACTGATAAGGAAGTGAAAGGAGCGGTGTACTCCATGGTGGAGTTTAATGGGAAATTATTGGCCAGCACCAATAGCACAgtatggggcaagggtttacatgctcgtggattgattcttctcttctgagc Alignment from GeneWise --------GGAAAACTACAG---ACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG aggcacctgaggaaaagcctattaagaacatctgtgttcttatttttcagGAACCCCTGATGACCTTAAGCTGACTGTCACTGATAAGGAAGTGAAAGGAGCGGTGTACTCCATGGTGGAGTTTAATGGGAAATTATTGGCCAGCACCAATAGCACAgtatggggcaagggtttacatgctcgtggattgattcttctcttctgagc #### Ddb1_ID2939_24 --> 1 - 1 Original Alignment tGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAg gtagagagaagtgctctggcctcacctgcttggttggtttttttgtttagt---------ACTGTTGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCACCTAGGTGAGTTTGTCATTGTGTTCTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACTCAGGGATCAGTCCTTTTTGGCACAGTCAATGTCATGATAggtaagcgctcaagctcttgtgagatggcttgcttatgcaaaatcggctgg Alignment from CESAR tGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAg tagagcctggtagagagaagtgctcctgcttggttggtttttttgtttagt---------ACTGTTGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCACCTAGGTGAGTTTGTCATTGTGTTCTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACTCAGGGATCAGTCCTTTTTGGCACAGTCAATGTCATGATAggtaagcgctcaagctcttgtgagatggcttgcttatgcaaaagtaacttt Alignment from Spaln_aa2Genome TGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCT---ACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG gtagagagaagtgctctggcctcacctgcttggttggtttttttgtttagTACTGTT---------GAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCACCTAGGTGAGTTTGTCATTGTGTTCTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACTCAGGGATCAGTCCTTTTTGGCACAGTCAATGTCATGATAGgtaagcgctcaagctcttgtgagatggcttgcttatgcaaaatcggctgg Alignment from Spaln_nt2Genome CACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG gtagagagaagtgctctggcctcacctgcttggttggtttttttgtttagTACTGTTGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCACCTAGGTGAGTTTGTCATTGTGTTCTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACTCAGGGATCAGTCCTTTTTGGCACAGTCAATGTCATGATAGgtaagcgctcaagctcttgtgagatggcttgcttatgcaaaatcggctgg Alignment from Pairagon TGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG gtagagagaagtgctctggcctcacctgcttggttggtttttttgtttagT---------ACTGTTGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCACCTAGGTGAGTTTGTCATTGTGTTCTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACTCAGGGATCAGTCCTTTTTGGCACAGTCAATGTCATGATAGgtaagcgctcaagctcttgtgagatggcttgcttatgcaaaatcggctgg Alignment from Exonerate_protein2genome TGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCT---ACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG gtagagagaagtgctctggcctcacctgcttggttggttttTTTGTTTAGTACTGTTGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCACCTAGGTGAGTTTGTCATTGTGTTCTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACTCAGGGATCAGTCCTTTTTGGCACAGTCAATGTCATGATAGgtaagcgctcaagctcttgtgagatggcttgcttatgcaaaatcggctgg Alignment from Exonerate_coding2genome TGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCT---ACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG gtagagagaagtgctctggcctcacctgcttggttggttttTTTGTTTAGTACTGTTGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCACCTAGGTGAGTTTGTCATTGTGTTCTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACTCAGGGATCAGTCCTTTTTGGCACAGTCAATGTCATGATAGgtaagcgctcaagctcttgtgagatggcttgcttatgcaaaatcggctgg Alignment from GeneWise TGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG gtagagagaagtgctctggcctcacctgcttggttggtttttttgtttagT---------ACTGTTGAGGAACGTCAGCATTTACAGGAAATAGTTCTCTTCCACCTAGGTGAGTTTGTCATTGTGTTCTGCCACAGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACTCAGGGATCAGTCCTTTTTGGCACAGTCAATGTCATGATAGgtaagcgctcaagctcttgtgagatggcttgcttatgcaaaatcggctgg #### Dock8_ID5396_17 --> 1 - 0 Original Alignment gTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG acctgtgccttacatcacaattgcttgcctctgtctctcctccctcctaggTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCCAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGG------gtaagtcccagataacaagaactgatggtttcctaccttccagtttggtt Alignment from CESAR gTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG acctgtgccttacatcacaattgcttgcctctgtctctcctccctcctaggTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCCAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGG------gtaagtcccagataacaagaactgatggtttcctaccttccagt Alignment from Spaln_aa2Genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTAC acctgtgccttacatcacaattgcttgcctctgtctctcctccctcctagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCCAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGG gtaagtcccagataacaagaactgatggtttcctaccttccagtttg Alignment from Spaln_nt2Genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGG acctgtgccttacatcacaattgcttgcctctgtctctcctccctcctagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCCAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGgtaagtcccagataacaagaactgatggtttcctaccttccagtttggtt Alignment from Pairagon GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGG acctgtgccttacatcacaattgcttgcctctgtctctcctccctcctagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCCAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGgtaagtcccagataacaagaactgatggtttcctaccttccagtttggtt Alignment from Exonerate_protein2genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG acctgtgccttacatcacaattgcttgcctctgtctctcctccctcctagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCCAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGG------gtaagtcccagataacaagaactgatggtttcctaccttccagt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG acctgtgccttacatcacaattgcttgcctctgtctctcctccctcctagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGCCAAGCTGACAGTGAATCATCATCTTCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTG------GGGgtaagtcccagataacaagaactgatggtttcctaccttccagtttggtt #### Dock8_ID5413_32 --> 0 - 1 Original Alignment GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCA---g tgttcgtggagacctagtaaactcaaagtcccctctacctctgtctttagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCATCGggtaagattccaacactgtaacctcaagttagtcaaggttgttgcatagag Alignment from CESAR GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCA---g tgttcgtggagacctagtaaactcaaagtcccctctacctctgtctttagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCATCGggtaagattccaacactgtaacctcaagttagtcaaggttgttgcatagag Alignment from Spaln_aa2Genome GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCA---G tgttcgtggagacctagtaaactcaaagtcccctctacctctgtctttagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCATCGGgtaagattccaacactgtaacctcaagttagtcaaggttgttgcatagag Alignment from Spaln_nt2Genome GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCA---G tgttcgtggagacctagtaaactcaaagtcccctctacctctgtctttagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCATCGGgtaagattccaacactgtaacctcaagttagtcaaggttgttgcatagag Alignment from Pairagon GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCA---G tgttcgtggagacctagtaaactcaaagtcccctctacctctgtctttagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCATCGGgtaagattccaacactgtaacctcaagttagtcaaggttgttgcatagag Alignment from Exonerate_protein2genome GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCA---G tgttcgtggagacctagtaaactcaaagtcccctctacctctgtctttagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCATCGGgtaagattccaacactgtaacctcaagttagtcaaggttgttgcatagag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGGG- tgttcgtggagacctagtaaactcaaagtcccctctacctctgtctttagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCGTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCATCGGgtaagattccaacactgtaacctcaagttagtcaaggttgttgcatagag #### Dpf2_ID1305_8 --> 2 - 1 Original Alignment cc---------------------------------AAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAg agagacatgctgacaaaattaaagaaaaagtccactctccctggccgtagccGGGTTCCAGCTGCCAAAGCCGCTTGAGCCCCTTAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAggtattcctgtgatcctgaaacctactatacactccatgctccaggtccaa Alignment from CESAR ttaatatgtgttaatgatacttaagttggaggccgaatagcttacactcat Alignment from Spaln_aa2Genome GACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG agagacatgctgacaaaattaaagaaaaagtccactctccctggccgtagccgggttccagctgccaaagccgcttgagccccttaagaaagGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtattcctgtgatcctgaaacctactatacactccatgctccaggtccaa Alignment from Spaln_nt2Genome CC----AAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG agagacatgctgacaaaattaaagaaaaagtccactctccctggccgtagccgggttccagctgccaaagccgcttgagCCCCTTAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtattcctgtgatcctgaaacctactatacactccatgctccaggtccaa Alignment from Pairagon CC---------------------------------AAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG agagacatgctgacaaaattaaagaaaaagtccactctccctggccgtagCCGGGTTCCAGCTGCCAAAGCCGCTTGAGCCCCTTAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtattcctgtgatcctgaaacctactatacactccatgctccaggtccaa Alignment from Exonerate_protein2genome AAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG agagacatgctgacaaaattaaagaaaaagtccactctccctggccgtagccgggttccagctgccaaagccgcttgagccccttaagAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtattcctgtgatcctgaaacctactatacactccatgctccaggtccaa Alignment from Exonerate_coding2genome AAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG agagacatgctgacaaaattaaagaaaaagtccactctccctggccgtagccgggttccagctgccaaagccgcttgagccccttaagAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtattcctgtgatcctgaaacctactatacactccatgctccaggtccaa Alignment from GeneWise --------------------------------TCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG agagacatgctgacaaaattaaagaaaaagtccactctccctggccgtagCCGGGTTCCAGCTGCCAAAGCCGCTTGAGCCCCTTAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtattcctgtgatcctgaaacctactatacactccatgctccaggtccaa #### Dpp3_ID741_12 --> 0 - 0 Original Alignment GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAG aagaagcatagatcaagagtggtggagatgtgttctttattcctatatag------AAAGGTGCTTTCAACTTTGACAAGGAAACGGTAATCAACCCCGAGACCGGGGAGCAGgtaagaaatacattatgggatgagggaattgcaatggggtagacagccaa Alignment from CESAR GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAG catcctaagaagcatagatcaagagagatgtgttctttattcctatatag------AAAGGTGCTTTCAACTTTGACAAGGAAACGGTAATCAACCCCGAGACCGGGGAGCAGgtaagaaatacattatgggatgagggaattgcaatggggtagacagccaa Alignment from Spaln_aa2Genome GTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAG aagaagcatagatcaagagtggtggagatgtgttctttattcctatatagaaagGTGCTTTCAACTTTGACAAGGAAACGGTAATCAACCCCGAGACCGGGGAGCAGgtaagaaatacattatgggatgagggaattgcaatggggtagacagccaa Alignment from Spaln_nt2Genome AAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAG aagaagcatagatcaagagtggtggagatgtgttctttattcctatatagAAAGGTGCTTTCAACTTTGACAAGGAAACGGTAATCAACCCCGAGACCGGGGAGCAGgtaagaaatacattatgggatgagggaattgcaatggggtagacagccaa Alignment from Pairagon GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAG aagaagcatagatcaagagtggtggagatgtgttctttattcctatatag------AAAGGTGCTTTCAACTTTGACAAGGAAACGGTAATCAACCCCGAGACCGGGGAGCAGgtaagaaatacattatgggatgagggaattgcaatggggtagacagccaa Alignment from Exonerate_protein2genome AGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAG aagaagcatagatcaagagtggtggagatgtgttctttattcctatatAGAAAGGTGCTTTCAACTTTGACAAGGAAACGGTAATCAACCCCGAGACCGGGGAGCAGgtaagaaatacattatgggatgagggaattgcaatggggtagacagccaa Alignment from Exonerate_coding2genome AGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAG aagaagcatagatcaagagtggtggagatgtgttctttattcctatatAGAAAGGTGCTTTCAACTTTGACAAGGAAACGGTAATCAACCCCGAGACCGGGGAGCAGgtaagaaatacattatgggatgagggaattgcaatggggtagacagccaa Alignment from GeneWise AAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAG aagaagcatagatcaagagtggtggagatgtgttctttattcctatatagAAAGGTGCTTTCAACTTTGACAAGGAAACGGTAATCAACCCCGAGACCGGGGAGCAGgtaagaaatacattatgggatgagggaattgcaatggggtagacagccaa #### Dpp3_ID742_11 --> 0 - 0 Original Alignment GACCTGTATATCCGCTGGAAGGGGCCGTCCTTTGATGTGCAGGTGGGGTTACACGAGCTGTTGGGCCATGGCAGCGGCAAGCTCTTTGTACAG------------ tgtcatagtgtggctgtggtggccagtgtttttttttttccccctaatagGATCTGTATATCCACTGGAAAGGGCCATCGTTTGATGTACAAGTGGGCTTACATGAGCTATTAAGCCATGGCAGTGGCAAGCTCTTTGTGCAGCTCGACCTGCGTgtaaatggtcctaaaggcagatcctgttacaggtgctaccgatcatgccc Alignment from CESAR GACCTGTATATCCGCTGGAAGGGGCCGTCCTTTGATGTGCAGGTGGGGTTACACGAGCTGTTGGGCCATGGCAGCGGCAAGCTCTTTGTACAG------------ tgtcatagtgtggctgtggtggccagtgtttttttttttccccctaatagGATCTGTATATCCACTGGAAAGGGCCATCGTTTGATGTACAAGTGGGCTTACATGAGCTATTAAGCCATGGCAGTGGCAAGCTCTTTGTGCAGCTCGACCTGCGTgtaaatggtcctaaaggcagatcctgttacaggtgctaccgatcatgccc Alignment from Spaln_aa2Genome GACCTGTATATCCGCTGGAAGGGGCCGTCCTTTGATGTGCAGGTGGGGTTACACGAGCTGTTGGGCCATGGCAGCGGCAAGCTCTTTGTACAG------------ tgtcatagtgtggctgtggtggccagtgtttttttttttccccctaatagGATCTGTATATCCACTGGAAAGGGCCATCGTTTGATGTACAAGTGGGCTTACATGAGCTATTAAGCCATGGCAGTGGCAAGCTCTTTGTGCAGCTCGACCTGCGTgtaaatggtcctaaaggcagatcctgttacaggtgctaccgatcatgccc Alignment from Spaln_nt2Genome GACCTGTATATCCGCTGGAAGGGGCCGTCCTTTGATGTGCAGGTGGGGTTACACGAGCTGTTGGGCCATGGCAGCGGCAAGCTCTTTGTACA tgtcatagtgtggctgtggtggccagtgtttttttttttccccctaatagGATCTGTATATCCACTGGAAAGGGCCATCGTTTGATGTACAAGTGGGCTTACATGAGCTATTAAGCCATGGCAGTGGCAAGCTCTTTGTGCAgctcgacctgcgtgtaaatggtcctaaaggcagatcctgttacaggtgctaccgatcatgccc Alignment from Pairagon GACCTGTATATCCGCTGGAAGGGGCCGTCCTTTGATGTGCAGGTGGGGTTACACGAGCTGTTGGGCCATGGCAGCGGCAAGCTCTTTGTACAG------------ tgtcatagtgtggctgtggtggccagtgtttttttttttccccctaatagGATCTGTATATCCACTGGAAAGGGCCATCGTTTGATGTACAAGTGGGCTTACATGAGCTATTAAGCCATGGCAGTGGCAAGCTCTTTGTGCAGCTCGACCTGCGTgtaaatggtcctaaaggcagatcctgttacaggtgctaccgatcatgccc Alignment from Exonerate_protein2genome GACCTGTATATCCGCTGGAAGGGGCCGTCCTTTGATGTGCAGGTGGGGTTACACGAGCTGTTGGGCCATGGCAGCGGCAAGCTCTTTGTACAG tgtcatagtgtggctgtggtggccagtgtttttttttttccccctaatagGATCTGTATATCCACTGGAAAGGGCCATCGTTTGATGTACAAGTGGGCTTACATGAGCTATTAAGCCATGGCAGTGGCAAGCTCTTTGTGCAGctcgacctgcgtgtaaatggtcctaaaggcagatcctgttacaggtgctaccgatcatgccc Alignment from Exonerate_coding2genome GACCTGTATATCCGCTGGAAGGGGCCGTCCTTTGATGTGCAGGTGGGGTTACACGAGCTGTTGGGCCATGGCAGCGGCAAGCTCTTTGTACAG tgtcatagtgtggctgtggtggccagtgtttttttttttccccctaatagGATCTGTATATCCACTGGAAAGGGCCATCGTTTGATGTACAAGTGGGCTTACATGAGCTATTAAGCCATGGCAGTGGCAAGCTCTTTGTGCAGctcgacctgcgtgtaaatggtcctaaaggcagatcctgttacaggtgctaccgatcatgccc Alignment from GeneWise GACCTGTATATCCGCTGGAAGGGGCCGTCCTTTGATGTGCAGGTGGGGTTACACGAGCTGTTGGGCCATGGCAGCGGCAAGCTCTTTGTACAG------------ tgtcatagtgtggctgtggtggccagtgtttttttttttccccctaatagGATCTGTATATCCACTGGAAAGGGCCATCGTTTGATGTACAAGTGGGCTTACATGAGCTATTAAGCCATGGCAGTGGCAAGCTCTTTGTGCAGCTCGACCTGCGTgtaaatggtcctaaaggcagatcctgttacaggtgctaccgatcatgccc #### Dpp3_ID746_7 --> 0 - 2 Original Alignment GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAG------------------------------ag gactgtgtggatcaatcgaaatgaggattgtactgtctccctgtccccagGCCTATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTATTGTAAAAGTGCGGGACCATTACCGCTCAAGAGGACTCaggtaggttgtcatccaagcctcccaatatctcttccaatacaccctctagg Alignment from CESAR GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGag gactgtgtggatcaatcgaaatgaggattgtactgtctccctgtccccagGCCTATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTATTGTAAAAgtgcgggaccattaccgctcaagaggactcaggtaggttgtcatccaagcctcccaatatctcttccaatacaccctctagg Alignment from Spaln_aa2Genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gactgtgtggatcaatcgaaatgaggattgtactgtctccctgtccccagGCCTATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTATTGTAAAAGTgcgggaccattaccgctcaagaggactcaggtaggttgtcatccaagcctcccaatatctcttccaatacaccctctagg Alignment from Spaln_nt2Genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAG gactgtgtggatcaatcgaaatgaggattgtactgtctccctgtccccagGCCTATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTATTGTAAAAgtgcgggaccattaccgctcaagaggactcaggtaggttgtcatccaagcctcccaatatctcttccaatacaccctctagg Alignment from Pairagon GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAG gactgtgtggatcaatcgaaatgaggattgtactgtctccctgtccccagGCCTATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTATTGTAAAAgtgcgggaccattaccgctcaagaggactcaggtaggttgtcatccaagcctcccaatatctcttccaatacaccctctagg Alignment from Exonerate_protein2genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATT gactgtgtggatcaatcgaaatgaggattgtactgtctccctgtccccagGCCTATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTATTgtaaaagtgcgggaccattaccgctcaagaggactcaggtaggttgtcatccaagcctcccaatatctcttccaatacaccctctagg Alignment from Exonerate_coding2genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATT gactgtgtggatcaatcgaaatgaggattgtactgtctccctgtccccagGCCTATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTATTgtaaaagtgcgggaccattaccgctcaagaggactcaggtaggttgtcatccaagcctcccaatatctcttccaatacaccctctagg Alignment from GeneWise GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAG------------------------------AG gactgtgtggatcaatcgaaatgaggattgtactgtctccctgtccccagGCCTATGCAGCCAACTGCCACCAGAAACAAATGCTGTCCCAGTATGTGGAAAGCTTCACTGAGGGATCCATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCTATTGTAAAAGTGCGGGACCATTACCGCTCAAGAGGACTCAGgtaggttgtcatccaagcctcccaatatctcttccaatacaccctctagg #### Drap1_ID984_6 --> 0 - 2 Original Alignment GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGag tggatgactgggataatgtcccaaaatctctctgctatcttctttcttagGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGCCACCCTCCTGCCCATTAT---aggtcagtacatttacataggtagtgtaacactttttttatcctgacactgg Alignment from CESAR GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGag tggatgactgggataatgtcccaaaatctctctgctatcttctttcttagGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGCCACCCTCCTGCCCATTAT---aggtcagtacatttacataggtagtgtaacactttttttatcctgacactgg Alignment from Spaln_aa2Genome GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCA tggatgactgggataatgtcccaaaatctctctgctatcttctttcttagGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGCCACCCTCCTGCCCATTATAGgtcagtacatttacataggtagtgtaacactttttttatcctgacactgg Alignment from Spaln_nt2Genome GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG tggatgactgggataatgtcccaaaatctctctgctatcttctttcttagGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGCCACCCTCCTGCCCA---TTATAGgtcagtacatttacataggtagtgtaacactttttttatcctgacactgg Alignment from Pairagon GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG tggatgactgggataatgtcccaaaatctctctgctatcttctttcttagGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGCCACCCTCCTGCCCA---TTATAGgtcagtacatttacataggtagtgtaacactttttttatcctgacactgg Alignment from Exonerate_protein2genome GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCA tggatgactgggataatgtcccaaaatctctctgctatcttctttcttagGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGCCACCCTCCTGCCCATTATAGgtcagtacatttacataggtagtgtaacactttttttatcctgacactgg Alignment from Exonerate_coding2genome AGGATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCA tggatgactgggataatgtcccaaaatctctctgctatcttctttcttAGGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGCCACCCTCCTGCCCATTATAGgtcagtacatttacataggtagtgtaacactttttttatcctgacactgg Alignment from GeneWise GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCA tggatgactgggataatgtcccaaaatctctctgctatcttctttcttagGATAAGTCTGAGGATATGGATACTGATGGAGAGGAGGAGACACCCCAGCTTCCACCTCAGGCCAGCCACCCTCCTGCCCATTATAGgtcagtacatttacataggtagtgtaacactttttttatcctgacactgg #### Efemp2_ID1029_2 --> 0 - 1 Original Alignment GAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAGCACTGCCGG---g actaactaagatagcaataataatgatgactgtttctttattggttatagGAGTGTGCAGATGGCTGCGAATGGGATGCAGATAGCCAACATTGCCAATTTggtgagtcctagtccctacctatgctctctgtaagtagaagattcaagaat Alignment from CESAR GAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAGCACTGCCGG---g actaactaagatagcaataataatgatgactgtttctttattggttatagGAGTGTGCAGATGGCTGCGAATGGGATGCAGATAGCCAACATTGCCAATTTggtgagtcctagtccctacctatgctctctgtaagtagaagattcaagaat Alignment from Spaln_aa2Genome GAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAGCACTGCCGG---G actaactaagatagcaataataatgatgactgtttctttattggttatagGAGTGTGCAGATGGCTGCGAATGGGATGCAGATAGCCAACATTGCCAATTTGgtgagtcctagtccctacctatgctctctgtaagtagaagattcaagaat Alignment from Spaln_nt2Genome GAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAGCACTGCCGG---G actaactaagatagcaataataatgatgactgtttctttattggttatagGAGTGTGCAGATGGCTGCGAATGGGATGCAGATAGCCAACATTGCCAATTTGgtgagtcctagtccctacctatgctctctgtaagtagaagattcaagaat Alignment from Pairagon GAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAGCACTGCCGG---G actaactaagatagcaataataatgatgactgtttctttattggttatagGAGTGTGCAGATGGCTGCGAATGGGATGCAGATAGCCAACATTGCCAATTTGgtgagtcctagtccctacctatgctctctgtaagtagaagattcaagaat Alignment from Exonerate_protein2genome GAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAGCACTGCCGG---G actaactaagatagcaataataatgatgactgtttctttattggttatagGAGTGTGCAGATGGCTGCGAATGGGATGCAGATAGCCAACATTGCCAATTTGgtgagtcctagtccctacctatgctctctgtaagtagaagattcaagaat Alignment from Exonerate_coding2genome actaactaagatagcaataataatgatgactgtttctttattggttataggagtgtgcagatggctgcgaatgggatgcagatagccaacattgccaatttggtgagtcctagtccctacctatgctctctgtaagtagaagattcaagaat Alignment from GeneWise GAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAGCACTGCCGGGAT- actaactaagatagcaataataatgatgactgtttctttattggttatagGAGTGTGCAGATGGCTGCGAATGGGATGCAGATAGCCAACATTGCCAATTTGgtgagtcctagtccctacctatgctctctgtaagtagaagattcaagaat #### Efemp2_ID1034_7 --> 2 - 1 Original Alignment atATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAA---------g tctcaaattttccgcatgaccaataattggtaacctatatttctgacaagatATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACGAGCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAAGACCTCCTggtgagtaggcttgggtggacaagcacaaaaagcccataacttaccatgag Alignment from CESAR atATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAA---------g tctcaaattttccgcatgaccaataattggtaacctatatttctgacaagatATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACGAGCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAAGACCTCCTggtgagtaggcttgggtggacaagcacaaaaagcccataacttaccatgag Alignment from Spaln_aa2Genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAA---------G tctcaaattttccgcatgaccaataattggtaacctatatttctgacaagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACGAGCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAAGACCTCCTGgtgagtaggcttgggtggacaagcacaaaaagcccataacttaccatgag Alignment from Spaln_nt2Genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAA-GATAT--TG tctcaaattttccgcatgaccaataattggtaacctatatttctgacaagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACGAGCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAAGACCTCCTGgtgagtaggcttgggtggacaagcacaaaaagcccataacttaccatgag Alignment from Pairagon ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAA------------------------------------------------------------ tctcaaattttccgcatgaccaataattggtaacctatatttctgacaagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACGAGCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAAGACCTCCTGGTGAGTAGGCTTGGGTGGACAAGCACAAAAAGCCCATAACTTACCATGAG Alignment from Exonerate_protein2genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAGATATTGACG tctcaaattttccgcatgaccaataattggtaacctatatttctgacaagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACGAGCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAAGACCTCCTGgtgagtaggcttgggtggacaagcacaaaaagcccataacttaccatgag Alignment from Exonerate_coding2genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAGATATTGACG tctcaaattttccgcatgaccaataattggtaacctatatttctgacaagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACGAGCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAAGACCTCCTGgtgagtaggcttgggtggacaagcacaaaaagcccataacttaccatgag Alignment from GeneWise ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAGATATTGACG tctcaaattttccgcatgaccaataattggtaacctatatttctgacaagATATTGATGAGTGTGGCTACTCCAGTTATCTTGGGCAATACCGCTGTGTAAACGAGCCTGGCCAATTCTCCTGCCACTGCCCACAGGGCTACCAGCTGTTGGCAACAAGGCTCTGCCAAAGACCTCCTGgtgagtaggcttgggtggacaagcacaaaaagcccataacttaccatgag #### Ehbp1l1_ID1230_5 --> 0 - 2 Original Alignment GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCC------ac ctcccccacccctgccagagcagagaacaagatatttcactttactttagGAGTCAAAGGGACAGCGGAAAGTATTAGCAACAGTTGGTGTCAATTCAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCGTCAAAGTTGTGCATGCTGAGCTTAGCCTCACACTTGCAGTC---CTTCTACAAGAAGGCCGTGCCTTCATCatgtgagcggacctatcctctgtcttgcacttaggcttgtcagcaggcatta Alignment from CESAR GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCC------ac ctcccccacccctgccagagcagagaacaagatatttcactttactttagGAGTCAAAGGGACAGCGGAAAGTATTAGCAACAGTTGGTGTCAATTCAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCGTCAAAGTTGTGCATGCTGAGCTTAGCCTCACACTTGCA---GTCCTTCTACAAGAAGGCCGTGCCTTCATCatgtgagcggacctatcctctgtcttgcacttaggcttgtcagcaggcatta Alignment from Spaln_aa2Genome GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCACG----- ctcccccacccctgccagagcagagaacaagatatttcactttactttagGAGTCAAAGGGACAGCGGAAAGTATTAGCAACAGTTGGTGTCAATTCAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCGTCAAAGTTGTGCATGCTGAGCTTAGCCTCACACTTGCA---GTCCTTCTACAAGAAGGCCGTGCCTTCATCATgtgagcggacctatcctctgtcttgcacttaggcttgtcagcaggcatta Alignment from Spaln_nt2Genome GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCC------AC ctcccccacccctgccagagcagagaacaagatatttcactttactttagGAGTCAAAGGGACAGCGGAAAGTATTAGCAACAGTTGGTGTCAATTCAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCGTCAAAGTTGTGCATGCTGAGCTTAGCCTCACACT---TGCAGTCCTTCTACAAGAAGGCCGTGCCTTCATCATgtgagcggacctatcctctgtcttgcacttaggcttgtcagcaggcatta Alignment from Pairagon GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGC------CAC ctcccccacccctgccagagcagagaacaagatatttcactttactttagGAGTCAAAGGGACAGCGGAAAGTATTAGCAACAGTTGGTGTCAATTCAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCGTCAAAGTTGTGCATGCTGAGCTTAGCCTCACACT---TGCAGTCCTTCTACAAGAAGGCCGTGCCTTCATCATgtgagcggacctatcctctgtcttgcacttaggcttgtcagcaggcatta Alignment from Exonerate_protein2genome ctcccccacccctgccagagcagagaacaagatatttcactttactttaggagtcaaagggacagcggaaagtattagcaacagttggtgtcaattcagaccatcatgcagggcccctacctgcccagatctcacttcaattgcggcagaagcccaagtccgtcaaagttgtgcatgctgagcttagcctcacacttgcagtccttctacaagaaggccgtgccttcatcatgtgagcggacctatcctctgtcttgcacttaggcttgtcagcaggcatta Alignment from Exonerate_coding2genome ctcccccacccctgccagagcagagaacaagatatttcactttactttaggagtcaaagggacagcggaaagtattagcaacagttggtgtcaattcagaccatcatgcagggcccctacctgcccagatctcacttcaattgcggcagaagcccaagtccgtcaaagttgtgcatgctgagcttagcctcacacttgcagtccttctacaagaaggccgtgccttcatcatgtgagcggacctatcctctgtcttgcacttaggcttgtcagcaggcatta Alignment from GeneWise GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCC------AC ctcccccacccctgccagagcagagaacaagatatttcactttactttagGAGTCAAAGGGACAGCGGAAAGTATTAGCAACAGTTGGTGTCAATTCAGACCATCATGCAGGGCCCCTACCTGCCCAGATCTCACTTCAATTGCGGCAGAAGCCCAAGTCCGTCAAAGTTGTGCATGCTGAGCTTAGCCTCACACTTGCA---GTCCTTCTACAAGAAGGCCGTGCCTTCATCATgtgagcggacctatcctctgtcttgcacttaggcttgtcagcaggcatta #### Eml3_ID2508_7 --> 1 - 2 Original Alignment t---------TATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGAtg ttccttctgctaacccccttccatggccattcttttgccttccttcctagtGAGGATGAATATGGTTATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCTCTGGGGAGGTCGTCTATCTTATTGCCTGTGTAGTGGTACTGTACCGGCCGGGAGGAGGCCCGGGTGGACCAGGAGGTGGTGGTCAGAGACATTATCGGGGTCACACAGACTGTGTTCGAtggtaagcattgtggtaaatactttattcctgttgccttcaaggaacatctt Alignment from CESAR t---------TATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGAtg ttccttctgctaacccccttccatggccattcttttgccttccttcctagtGAGGATGAATATGGTTATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCTCTGGGGAGGTCGTCTATCTTATTGCCTGTGTAGTGGTACTGTACCGGCCGGGAGGAGGCCCGGGTGGACCAGGAGGTGGTGGTCAGAGACATTATCGGGGTCACACAGACTGTGTTCGAtggtaagcattgtggtaaatactttattcctgttgccttcaaggaacatctt Alignment from Spaln_aa2Genome TTATGGGTACAGG---------GGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttccttctgctaacccccttccatggccattcttttgccttccttcctagTGAGGATGAATATGGTTATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCTCTGGGGAGGTCGTCTATCTTATTGCCTGTGTAGTGGTACTGTACCGGCCGGGAGGAGGCCCGGGTGGACCAGGAGGTGGTGGTCAGAGACATTATCGGGGTCACACAGACTGTGTTCGATGgtaagcattgtggtaaatactttattcctgttgccttcaaggaacatctt Alignment from Spaln_nt2Genome TTATGGGTACAGGGGTCGTGATT---------CTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttccttctgctaacccccttccatggccattcttttgccttccttcctagTGAGGATGAATATGGTTATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCTCTGGGGAGGTCGTCTATCTTATTGCCTGTGTAGTGGTACTGTACCGGCCGGGAGGAGGCCCGGGTGGACCAGGAGGTGGTGGTCAGAGACATTATCGGGGTCACACAGACTGTGTTCGATGgtaagcattgtggtaaatactttattcctgttgccttcaaggaacatctt Alignment from Pairagon T---------TATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttccttctgctaacccccttccatggccattcttttgccttccttcctagTGAGGATGAATATGGTTATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCTCTGGGGAGGTCGTCTATCTTATTGCCTGTGTAGTGGTACTGTACCGGCCGGGAGGAGGCCCGGGTGGACCAGGAGGTGGTGGTCAGAGACATTATCGGGGTCACACAGACTGTGTTCGATGgtaagcattgtggtaaatactttattcctgttgccttcaaggaacatctt Alignment from Exonerate_protein2genome GTTTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttccttctgctaacccccttccatggccattcttttgccttccttcctagtgaggatGAATATGGTTATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCTCTGGGGAGGTCGTCTATCTTATTGCCTGTGTAGTGGTACTGTACCGGCCGGGAGGAGGCCCGGGTGGACCAGGAGGTGGTGGTCAGAGACATTATCGGGGTCACACAGACTGTGTTCGATGgtaagcattgtggtaaatactttattcctgttgccttcaaggaacatctt Alignment from Exonerate_coding2genome GTTTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttccttctgctaacccccttccatggccattcttttgccttccttcctagtgaggatGAATATGGTTATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCTCTGGGGAGGTCGTCTATCTTATTGCCTGTGTAGTGGTACTGTACCGGCCGGGAGGAGGCCCGGGTGGACCAGGAGGTGGTGGTCAGAGACATTATCGGGGTCACACAGACTGTGTTCGATGgtaagcattgtggtaaatactttattcctgttgccttcaaggaacatctt Alignment from GeneWise ---GTTTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttccttctgctaacccccttccatggccattcttttgccttccttcctagtgagGATGAATATGGTTATAGAGGTCAGGATTCTCGCTCAAATTTATTTGTGCTACGCTCTGGGGAGGTCGTCTATCTTATTGCCTGTGTAGTGGTACTGTACCGGCCGGGAGGAGGCCCGGGTGGACCAGGAGGTGGTGGTCAGAGACATTATCGGGGTCACACAGACTGTGTTCGATGgtaagcattgtggtaaatactttattcctgttgccttcaaggaacatctt #### Eml3_ID2514_13 --> 2 - 0 Original Alignment agACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG ttatgctccatgatatagcaaatgcttgtccagtgtgtctccccctacagagACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCACTCTGTCTTCATCAGGATGGAACAGTACTGACTGGTGGTGGGTGGCATCGACGACTGGTGCAGTGGGGGCCTGGGCTGGTGGCGCTCCAGGAG------gtgggcctacgacctgtcctggacccggagagtaggaagggatggggaga Alignment from CESAR agACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG ttatgctccatgatatagcaaatgcttgtccagtgtgtctccccctacagagACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCACTCTGTCTTCATCAGGATGGAACAGTACTGACTGGTGGTGGGTGGCATCGACGACTGGTGCAGTGGGGGCCTGGGCTGGTGGCGCTCCAG------GAGgtgggcctacgacctgtcctggacccggagagtaggaagggatggggaga Alignment from Spaln_aa2Genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAG ttatgctccatgatatagcaaatgcttgtccagtgtgtctccccctacagAGACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCACTCTGTCTTCATCAGGATGGAACAGTACTGACTGGTGGTGGGTGGCATCGACGACTGGTGCAGTGGGGGCCTGGGCTGGTGGCGCTCCAGGAGgtgggcctacgacctgtcctggacccggagagtaggaagggatggggaga Alignment from Spaln_nt2Genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAG ttatgctccatgatatagcaaatgcttgtccagtgtgtctccccctacagAGACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCACTCTGTCTTCATCAGGATGGAACAGTACTGACTGGTGGTGGGTGGCATCGACGACTGGTGCAGTGGGGGCCTGGGCTGGTGGCGCTCCAGGAGgtgggcctacgacctgtcctggacccggagagtaggaagggatggggaga Alignment from Pairagon AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAG---------------------------------------------- ttatgctccatgatatagcaaatgcttgtccagtgtgtctccccctacagAGACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCACTCTGTCTTCATCAGGATGGAACAGTACTGACTGGTGGTGGGTGGCATCGACGACTGGTGCAGTGGGGGCCTGGGCTGGTGGCGCTCCAGGAGGTGGGCCTACGACCTGTCCTGGACCCGGAGAGTAGGAAGGGATGGGGAGA Alignment from Exonerate_protein2genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG ttatgctccatgatatagcaaatgcttgtccagtgtgtctccccctacagAGACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCACTCTGTCTTCATCAGGATGGAACAGTACTGACTGGTGGTGGGTGGCATCGACGACTGGTGCAGTGGGGGCCTGGGCTGGTGGCGCTCCAGGAGGTGGGCctacgacctgtcctggacccggagagtaggaagggatggggaga Alignment from Exonerate_coding2genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG ttatgctccatgatatagcaaatgcttgtccagtgtgtctccccctacagAGACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCACTCTGTCTTCATCAGGATGGAACAGTACTGACTGGTGGTGGGTGGCATCGACGACTGGTGCAGTGGGGGCCTGGGCTGGTGGCGCTCCAGGAGGTGGGCctacgacctgtcctggacccggagagtaggaagggatggggaga Alignment from GeneWise AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG ttatgctccatgatatagcaaatgcttgtccagtgtgtctccccctacagAGACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCACTCTGTCTTCATCAGGATGGAACAGTACTGACTGGTGGTGGGTGGCATCGACGACTGGTGCAGTGGGGGCCTGGGCTGGTGGCGCTCCAG------GAGgtgggcctacgacctgtcctggacccggagagtaggaagggatggggaga #### Eml3_ID2515_14 --> 0 - 0 Original Alignment ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG ggagacatggtagatagtataattttttaataaagtattttccattctag------GAACACTTCGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGATCTGAACTACTGGTGGGGACCACAAAGAATGCATTACTGAGAGCAGACCTTGCCCAAGGATTCTCTCCTGTTATCCAGgtaagtactctagcaatccgctgggggaggggcacccgccattgcccagg Alignment from CESAR ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG ggatggggagacatggtagatagtatttaataaagtattttccattctag------GAACACTTCGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGATCTGAACTACTGGTGGGGACCACAAAGAATGCATTACTGAGAGCAGACCTTGCCCAAGGATTCTCTCCTGTTATCCAGgtaagtactctagcaatccgctgggggaggggcacccgccattgcccagg Alignment from Spaln_aa2Genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG ggagacatggtagatagtataattttttaataaagtattttccattctag------GAACACTTCGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGATCTGAACTACTGGTGGGGACCACAAAGAATGCATTACTGAGAGCAGACCTTGCCCAAGGATTCTCTCCTGTTATCCAGgtaagtactctagcaatccgctgggggaggggcacccgccattgcccagg Alignment from Spaln_nt2Genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG ggagacatggtagatagtataattttttaataaagtattttccattctag------GAACACTTCGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGATCTGAACTACTGGTGGGGACCACAAAGAATGCATTACTGAGAGCAGACCTTGCCCAAGGATTCTCTCCTGTTATCCAGgtaagtactctagcaatccgctgggggaggggcacccgccattgcccagg Alignment from Pairagon ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG ggagacatggtagatagtataattttttaataaagtattttccattctag------GAACACTTCGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGATCTGAACTACTGGTGGGGACCACAAAGAATGCATTACTGAGAGCAGACCTTGCCCAAGGATTCTCTCCTGTTATCCAGgtaagtactctagcaatccgctgggggaggggcacccgccattgcccagg Alignment from Exonerate_protein2genome GAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG ggagacatggtagatagtataattttttaataaagtattttccattctagGAACACTTCGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGATCTGAACTACTGGTGGGGACCACAAAGAATGCATTACTGAGAGCAGACCTTGCCCAAGGATTCTCTCCTGTTATCCAGgtaagtactctagcaatccgctgggggaggggcacccgccattgcccagg Alignment from Exonerate_coding2genome GAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG ggagacatggtagatagtataattttttaataaagtattttccattctagGAACACTTCGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGATCTGAACTACTGGTGGGGACCACAAAGAATGCATTACTGAGAGCAGACCTTGCCCAAGGATTCTCTCCTGTTATCCAGgtaagtactctagcaatccgctgggggaggggcacccgccattgcccagg Alignment from GeneWise ---CACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG ggagacatggtagatagtataattttttaataaagtattttccattctagGAACACTTCGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGATCTGAACTACTGGTGGGGACCACAAAGAATGCATTACTGAGAGCAGACCTTGCCCAAGGATTCTCTCCTGTTATCCAGgtaagtactctagcaatccgctgggggaggggcacccgccattgcccagg #### Eml3_ID2517_16 --> 0 - 2 Original Alignment GAGACGGGTTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTTGTAGGACTGAACACAGGGag ctcatgcacccccaaacactgaagcagtcactctaacctcctgccaacag---------TTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTCGTAGGACTGAACACTGGGaggtgagtgagtggggaccttggaagataaagagggcgatccagggataact Alignment from CESAR GAGACGGGTTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTTGTAGGACTGAACACAGGGag tctcctatcctcatgcacccccaaaagtcactctaacctcctgccaacag---------TTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTCGTAGGACTGAACACTGGGaggtgagtgagtggggaccttggaagataaagagggcgatccagggataact Alignment from Spaln_aa2Genome GAGACGGGTTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTTGTAGGACTGAACACAGGGAG ctcatgcacccccaaacactgaagcagtcactctaacctcctgccaacag---------TTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTCGTAGGACTGAACACTGGGAGgtgagtgagtggggaccttggaagataaagagggcgatccagggataact Alignment from Spaln_nt2Genome TTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTTGTAGGACTGAACACAGGGAG ctcatgcacccccaaacactgaagcagtcactctaacctcctgccaacagTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTCGTAGGACTGAACACTGGGAGgtgagtgagtggggaccttggaagataaagagggcgatccagggataact Alignment from Pairagon GAGACGGGTTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTTGTAGGACTGAACACAGGGAG ctcatgcacccccaaacactgaagcagtcactctaacctcctgccaacag---------TTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTCGTAGGACTGAACACTGGGAGgtgagtgagtggggaccttggaagataaagagggcgatccagggataact Alignment from Exonerate_protein2genome GAGACGGGTTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTTGTAGGACTGAACACAGGGAG ctcatgcacccccaaacactgaagcagtcactctaacctccTGCCAACAGTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTCGTAGGACTGAACACTGGGAGgtgagtgagtggggaccttggaagataaagagggcgatccagggataact Alignment from Exonerate_coding2genome GAGACGGGTTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTTGTAGGACTGAACACAGGGAG ctcatgcacccccaaacactgaagcagtcactctaacctccTGCCAACAGTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTCGTAGGACTGAACACTGGGAGgtgagtgagtggggaccttggaagataaagagggcgatccagggataact Alignment from GeneWise ---TGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTTGTAGGACTGAACACAGGGAG ctcatgcacccccaaacactgaagcagtcactctaacctcctgccaacagTTATGTGCTGACTTCCACCCAAGTGGGGCAGTTGTGGTCGTAGGACTGAACACTGGGAGgtgagtgagtggggaccttggaagataaagagggcgatccagggataact #### Eml3_ID2518_17 --> 1 - 1 Original Alignment g---TGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAg aagtgtaaggcaaaatcttttctctatgttgtggcatttcctttctccaggGCCTGGTTGGTCTTGGACACCGAGACCAGGGAAATTGTGTCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGGTACAGCCCAggtgaggatgcttccccttgcctgaatcctgccctgagtcgtggcttgttc Alignment from CESAR g---TGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAg aagtgtaaggcaaaatcttttctctatgttgtggcatttcctttctccaggGCCTGGTTGGTCTTGGACACCGAGACCAGGGAAATTGTGTCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGGTACAGCCCAggtgaggatgcttccccttgcctgaatcctgccctgagtcgtggcttgttc Alignment from Spaln_aa2Genome GTGGTTGGTT---TTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaaaatcttttctctatgttgtggcatttcctttctccagGGCCTGGTTGGTCTTGGACACCGAGACCAGGGAAATTGTGTCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGGTACAGCCCAGgtgaggatgcttccccttgcctgaatcctgccctgagtcgtggcttgttc Alignment from Spaln_nt2Genome GTGGTTGGTTTTG---GACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaaaatcttttctctatgttgtggcatttcctttctccagGGCCTGGTTGGTCTTGGACACCGAGACCAGGGAAATTGTGTCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGGTACAGCCCAGgtgaggatgcttccccttgcctgaatcctgccctgagtcgtggcttgttc Alignment from Pairagon G---TGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaaaatcttttctctatgttgtggcatttcctttctccagGGCCTGGTTGGTCTTGGACACCGAGACCAGGGAAATTGTGTCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGGTACAGCCCAGgtgaggatgcttccccttgcctgaatcctgccctgagtcgtggcttgttc Alignment from Exonerate_protein2genome G---TGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaaaatcttttctctatgttgtggcatttcctttctccagGGCCTGGTTGGTCTTGGACACCGAGACCAGGGAAATTGTGTCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGGTACAGCCCAGgtgaggatgcttccccttgcctgaatcctgccctgagtcgtggcttgttc Alignment from Exonerate_coding2genome G---TGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaaaatcttttctctatgttgtggcatttcctttctccagGGCCTGGTTGGTCTTGGACACCGAGACCAGGGAAATTGTGTCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGGTACAGCCCAGgtgaggatgcttccccttgcctgaatcctgccctgagtcgtggcttgttc Alignment from GeneWise ----TGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaaaatcttttctctatgttgtggcatttcctttctccagGGCCTGGTTGGTCTTGGACACCGAGACCAGGGAAATTGTGTCTGATGTCACGGATGGCAATGAGCAACTCTCAGTTGTCCGGTACAGCCCAGgtgaggatgcttccccttgcctgaatcctgccctgagtcgtggcttgttc #### Eno4_ID12833_5 --> 2 - 0 Original Alignment ga---------CGGAGGGATACGCTTTTGGAGAAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttcaacgttgccttggaaaagactagatttctcgaacctttctatttaggaTATTTCATGCGGAGGGATATGCTTTTGGAGAGACCTGTGTCACCCCCAGAGCCACCCGAACCGGTTCAGCATGGTAGCATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCAGTGATCCTCTCTACTCAGCCCTGGCATCACTGAAACAAGATCAAgtttgttaatgttgtggatgtggaaaaagatatggtggcagtatgtagag Alignment from CESAR ga---------CGGAGGGATACGCTTTTGGAGAAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttcaacgttgccttggaaaagactagatttctcgaacctttctatttaggaTATTTCATGCGGAGGGATATGCTTTTGGAGAGACCTGTGTCACCCCCAGAGCCACCCGAACCGGTTCAGCATGGTAGCATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCAGTGATCCTCTCTACTCAGCCCTGGCATCACTGAAACAAGATCAAgtttgttaatgttgtggatgtggaaaaagatatggtggcagtatgtagag Alignment from Spaln_aa2Genome GACGGAGGGATACGCTT---------TTGGAGAAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttcaacgttgccttggaaaagactagatttctcgaacctttctatttagGATATTTCATGCGGAGGGATATGCTTTTGGAGAGACCTGTGTCACCCCCAGAGCCACCCGAACCGGTTCAGCATGGTAGCATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCAGTGATCCTCTCTACTCAGCCCTGGCATCACTGAAACAAGATCAAgtttgttaatgttgtggatgtggaaaaagatatggtggcagtatgtagag Alignment from Spaln_nt2Genome GACGGAGGGAT---------ACGCTTTTGGAGAAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttcaacgttgccttggaaaagactagatttctcgaacctttctatttagGATATTTCATGCGGAGGGATATGCTTTTGGAGAGACCTGTGTCACCCCCAGAGCCACCCGAACCGGTTCAGCATGGTAGCATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCAGTGATCCTCTCTACTCAGCCCTGGCATCACTGAAACAAGATCAAgtttgttaatgttgtggatgtggaaaaagatatggtggcagtatgtagag Alignment from Pairagon GA---------CGGAGGGATACGCTTTTGGAGAAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttcaacgttgccttggaaaagactagatttctcgaacctttctatttagGATATTTCATGCGGAGGGATATGCTTTTGGAGAGACCTGTGTCACCCCCAGAGCCACCCGAACCGGTTCAGCATGGTAGCATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCAGTGATCCTCTCTACTCAGCCCTGGCATCACTGAAACAAGATCAAgtttgttaatgttgtggatgtggaaaaagatatggtggcagtatgtagag Alignment from Exonerate_protein2genome GA---------CGGAGGGATACGCTTTTGGAGAAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttcaacgttgccttggaaaagactagatttctcgaacctttctatttagGATATTTCATGCGGAGGGATATGCTTTTGGAGAGACCTGTGTCACCCCCAGAGCCACCCGAACCGGTTCAGCATGGTAGCATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCAGTGATCCTCTCTACTCAGCCCTGGCATCACTGAAACAAGATCAAgtttgttaatgttgtggatgtggaaaaagatatggtggcagtatgtagag Alignment from Exonerate_coding2genome GA---------CGGAGGGATACGCTTTTGGAGAAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATG tttcaacgttgccttggaaaagactagatttctcgaacctttctatttagGATATTTCATGCGGAGGGATATGCTTTTGGAGAGACCTGTGTCACCCCCAGAGCCACCCGAACCGGTTCAGCATGGTAGCATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCAGTGATCCTCTCTACTCAGCCCTGGCATCACTGAAACAAGatcaagtttgttaatgttgtggatgtggaaaaagatatggtggcagtatgtagag Alignment from GeneWise --------GGACGGAGGGATACGCTTTTGGAGAAACCTGTTTCACCCCCGGAGCCCCCTGAACCAGTCCTCCATGGTAGCATGGCCATAGGCGCTGTGTCCCTGGCAGTGGCCAAAGCCAGCGCAACCTTGGCCAGCGATCCTCTCTACTTAACCCTGGCGTCACTGAAGCATGATCAG tttcaacgttgccttggaaaagactagatttctcgaacctttctatttagGATATTTCATGCGGAGGGATATGCTTTTGGAGAGACCTGTGTCACCCCCAGAGCCACCCGAACCGGTTCAGCATGGTAGCATGGCCCTAGGTGCTGTGTCACTGGCAGTGGCTAAAGCTAGTGCTACCTTGGCCAGTGATCCTCTCTACTCAGCCCTGGCATCACTGAAACAAGATCAAgtttgttaatgttgtggatgtggaaaaagatatggtggcagtatgtagag #### Exosc1_ID8337_2 --> 2 - 0 Original Alignment gc------GAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgactgtttcctttggtttgataggtGAATTTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGGCATGGCTACATCTCTTCATCATTGGCTGGCTGTCCTATGAAGACCAGCGAGAATGGTGCAgtaagcaaggaggctccctagactgtgttcactcctccctgtgagctatt Alignment from CESAR gc------GAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgactgtttcctttggtttgataggtGAATTTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGGCATGGCTACATCTCTTCATCATTGGCTGGCTGTCCTATGAAGACCAGCGAGAATGGTGCAgtaagcaaggaggctccctagactgtgttcactcctccctgtgagctatt Alignment from Spaln_aa2Genome GC------GAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgactgtttcctttggtttgatagGTGAATTTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGGCATGGCTACATCTCTTCATCATTGGCTGGCTGTCCTATGAAGACCAGCGAGAATGGTGCAgtaagcaaggaggctccctagactgtgttcactcctccctgtgagctatt Alignment from Spaln_nt2Genome GCGAA------CGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgactgtttcctttggtttgatagGTGAATTTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGGCATGGCTACATCTCTTCATCATTGGCTGGCTGTCCTATGAAGACCAGCGAGAATGGTGCAgtaagcaaggaggctccctagactgtgttcactcctccctgtgagctatt Alignment from Pairagon GC------------------------------------GAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcagGCAACTTGACTGTTTCCTTTGGTTTGATAGGTGAATTTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGGCATGGCTACATCTCTTCATCATTGGCTGGCTGTCCTATGAAGACCAGCGAGAATGGTGCAgtaagcaaggaggctccctagactgtgttcactcctccctgtgagctatt Alignment from Exonerate_protein2genome GC------GAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgactgtttcctttggtttgatagGTGAATTTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGGCATGGCTACATCTCTTCATCATTGGCTGGCTGTCCTATGAAGACCAGCGAGAATGGTGCAgtaagcaaggaggctccctagactgtgttcactcctccctgtgagctatt Alignment from Exonerate_coding2genome GAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG cacttttgcatgtgttgcaggcaacttgactgtttcctttggtttgataggtgaatttGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGGCATGGCTACATCTCTTCATCATTGGCTGGCTGTCCTATGAAGACCAGCGAGAATGGTGCAgtaagcaaggaggctccctagactgtgttcactcctccctgtgagctatt Alignment from GeneWise GCACCACCGGTGAGGTACTGCATCCCCGGCGAA------CGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG tgcatgtgttgcaggcaacttg------ACTGTTTCCTTTGGTTTGATAGGTGAATTTGAACATCTGTGCAACTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGGCATGGCTACATCTCTTCATCATTGGCTGGCTGTCCTATGAAGACCAGCGAGAATGGTGCAgtaagcaaggaggctccctagactgtgttcactcctccctgtgagctatt #### Fads1_ID2690_4 --> 0 - 0 Original Alignment ------------------------GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACC---TCGACATGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttccgactccagcattggtatctaggggttttcttaacttcgaatgccagTCTCTCATCCGGAGCAAACTCTTCGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTGATTGGACACCTAAAGgtgagtactcaaggtatggttgtcaatattttgtcaagtttttgcaaact Alignment from CESAR GCT------------------------CAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttccgactccagcattggtatctaggggttttcttaacttcgaatgccagTCTCTCATCCGGAGCAAACTCTTCGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTGATTGGACACCTAAAGgtgagtactcaaggtatggttgtcaatattttgtcaagtttttgcaaact Alignment from Spaln_aa2Genome GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttccgactccagcattggtatctaggggttttcttaacttcgaatgccagtctctcatccggagcaaactcttcggtcag------GCAGGTTGGCTACAGCATGACTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTGATTGGACACCTAAAGgtgagtactcaaggtatggttgtcaatattttgtcaagtttttgcaaact Alignment from Spaln_nt2Genome GCTCAGGCAGG----------TTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttccgactccagcattggtatctaggggttttcttaacttcgaatgccagtctctcatccggagCAAACTCTTCGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTGATTGGACACCTAAAGgtgagtactcaaggtatggttgtcaatattttgtcaagtttttgcaaact Alignment from Pairagon ------------------------GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttccgactccagcattggtatctaggggttttcttaacttcgaatgccagTCTCTCATCCGGAGCAAACTCTTCGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTGATTGGACACCTAAAGgtgagtactcaaggtatggttgtcaatattttgtcaagtttttgcaaact Alignment from Exonerate_protein2genome GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttccgactccagcattggtatctaggggttttcttaacttcgaatgccagtctctcatccggagcaaactcttcGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTGATTGGACACCTAAAGgtgagtactcaaggtatggttgtcaatattttgtcaagtttttgcaaact Alignment from Exonerate_coding2genome GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttccgactccagcattggtatctaggggttttcttaacttcgaatgccagtctctcatccggagcaaactcttcGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTGATTGGACACCTAAAGgtgagtactcaaggtatggttgtcaatattttgtcaagtttttgcaaact Alignment from GeneWise ------------------------GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ttccgactccagcattggtatctaggggttttcttaacttcgaatgccagTCTCTCATCCGGAGCAAACTCTTCGGTCAGGCAGGTTGGCTACAGCATGACTTTGGGCGTTTGTCACTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTGATTGGACACCTAAAGgtgagtactcaaggtatggttgtcaatattttgtcaagtttttgcaaact #### Fads1_ID2694_8 --> 0 - 2 Original Alignment GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCag cctttaagaacagcaaaaaccttgcatgcctaactgccaccaccttttag---TTGGCCTGGATGCTCAGTTTCTATGCCCACATCTTTTTAGCCTATATATCACTCCCAGGGCTGAAGGGCTTCCTAGGGCTCTTCTTCATTGTTaggtaagtataatcagtgaatttatacaagtaagcctagacaccaccagtaa Alignment from CESAR GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCag aatcctttaagaacagcaaaaacctatgcctaactgccaccaccttttag---TTGGCCTGGATGCTCAGTTTCTATGCCCACATCTTTTTAGCCTATATATCACTCCCAGGGCTGAAGGGCTTCCTAGGGCTCTTCTTCATTGTTaggtaagtataatcagtgaatttatacaagtaagcctagacaccaccagtaa Alignment from Spaln_aa2Genome GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG cctttaagaacagcaaaaaccttgcatgcctaactgccaccaccttttag---TTGGCCTGGATGCTCAGTTTCTATGCCCACATCTTTTTAGCCTATATATCACTCCCAGGGCTGAAGGGCTTCCTAGGGCTCTTCTTCATTGTTAGgtaagtataatcagtgaatttatacaagtaagcctagacaccaccagtaa Alignment from Spaln_nt2Genome TTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG cctttaagaacagcaaaaaccttgcatgcctaactgccaccaccttttagTTGGCCTGGATGCTCAGTTTCTATGCCCACATCTTTTTAGCCTATATATCACTCCCAGGGCTGAAGGGCTTCCTAGGGCTCTTCTTCATTGTTAGgtaagtataatcagtgaatttatacaagtaagcctagacaccaccagtaa Alignment from Pairagon GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG cctttaagaacagcaaaaaccttgcatgcctaactgccaccaccttttag---TTGGCCTGGATGCTCAGTTTCTATGCCCACATCTTTTTAGCCTATATATCACTCCCAGGGCTGAAGGGCTTCCTAGGGCTCTTCTTCATTGTTAGgtaagtataatcagtgaatttatacaagtaagcctagacaccaccagtaa Alignment from Exonerate_protein2genome TTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG cctttaagaacagcaaaaaccttgcatgcctaactgccaccaccttttagTTGGCCTGGATGCTCAGTTTCTATGCCCACATCTTTTTAGCCTATATATCACTCCCAGGGCTGAAGGGCTTCCTAGGGCTCTTCTTCATTGTTAGgtaagtataatcagtgaatttatacaagtaagcctagacaccaccagtaa Alignment from Exonerate_coding2genome TTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG cctttaagaacagcaaaaaccttgcatgcctaactgccaccaccttttagTTGGCCTGGATGCTCAGTTTCTATGCCCACATCTTTTTAGCCTATATATCACTCCCAGGGCTGAAGGGCTTCCTAGGGCTCTTCTTCATTGTTAGgtaagtataatcagtgaatttatacaagtaagcctagacaccaccagtaa Alignment from GeneWise TTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG cctttaagaacagcaaaaaccttgcatgcctaactgccaccaccttttagTTGGCCTGGATGCTCAGTTTCTATGCCCACATCTTTTTAGCCTATATATCACTCCCAGGGCTGAAGGGCTTCCTAGGGCTCTTCTTCATTGTTAGgtaagtataatcagtgaatttatacaagtaagcctagacaccaccagtaa #### Fads1_ID2696_10 --> 0 - 2 Original Alignment CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACAC---------ca tgatccctacactgatacatggaaattttcactgtcctcgtttccttcagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACACCTGAATTTCCAGATTGAACACGCCATCAACcagtaagatcatatctccaggaaacatgggtggcacagggagaagggtaggc Alignment from CESAR CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACAC---------ca tgatccctacactgatacatggaaattttcactgtcctcgtttccttcagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACACCTGAATTTCCAGATTGAACACGCCATCAACcagtaagatcatatctccaggaaacatgggtggcacagggagaagggtaggc Alignment from Spaln_aa2Genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCACCTC----- tgatccctacactgatacatggaaattttcactgtcctcgtttccttcagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACACCTGAATTTCCAGATTGAACACGCCATCAACCAgtaagatcatatctccaggaaacatgggtggcacagggagaagggtaggc Alignment from Spaln_nt2Genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACAC---------CA tgatccctacactgatacatggaaattttcactgtcctcgtttccttcagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACACCTGAATTTCCAGATTGAACACGCCATCAACCAgtaagatcatatctccaggaaacatgggtggcacagggagaagggtaggc Alignment from Pairagon CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAAC---------ACCA tgatccctacactgatacatggaaattttcactgtcctcgtttccttcagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACACCTGAATTTCCAGATTGAACACGCCATCAACCAgtaagatcatatctccaggaaacatgggtggcacagggagaagggtaggc Alignment from Exonerate_protein2genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACAC tgatccctacactgatacatggaaattttcactgtcctcgtttccttcagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACACCTGAATTTCCAGATTGAACACgccatcaaccagtaagatcatatctccaggaaacatgggtggcacagggagaagggtaggc Alignment from Exonerate_coding2genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACAC tgatccctacactgatacatggaaattttcactgtcctcgtttccttcagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACACCTGAATTTCCAGATTGAACACgccatcaaccagtaagatcatatctccaggaaacatgggtggcacagggagaagggtaggc Alignment from GeneWise CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACAC---------CA tgatccctacactgatacatggaaattttcactgtcctcgtttccttcagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACACCTGAATTTCCAGATTGAACACGCCATCAACCAgtaagatcatatctccaggaaacatgggtggcacagggagaagggtaggc #### Fads3_ID2662_5 --> 0 - 0 Original Alignment ---------GGCTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tagcacgcttgtacacaacaatgcagcaaccgtttgcttatctattacagAAACGTCATGAC---TCTGCCCACTGGTGGAATTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtaaatggtagtccctgcgtctagaggagctgtttcccctggaatcctct Alignment from CESAR GGCTTT------TCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tagcacgcttgtacacaacaatgcagcaaccgtttgcttatctattacagAAACGTCATGACTCTGCCCACTGGTGGAATTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtaaatggtagtccctgcgtctagaggagctgtttcccctggcctctctc Alignment from Spaln_aa2Genome GGCTTT------TCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tagcacgcttgtacacaacaatgcagcaaccgtttgcttatctattacagAAACGTCATGACTCTGCCCACTGGTGGAATTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtaaatggtagtccctgcgtctagaggagctgtttcccctggaatcctct Alignment from Spaln_nt2Genome ----GGCTTT--TCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tagcacgcttgtacacaacaatgcagcaaccgtttgcttatctattacagAAACGTCATGACTCTGCCCACTGGTGGAATTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtaaatggtagtccctgcgtctagaggagctgtttcccctggaatcctct Alignment from Pairagon -----------------------------------GCTT----------------------TTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG TAGCACGCTTGTACACAACAATGCAGCAACCGTTTGCTTATCTATTACAGAAACGTCATGACTCTGCCCACTGGTGGAATTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtaaatggtagtccctgcgtctagaggagctgtttcccctggaatcctct Alignment from Exonerate_protein2genome TTGAAAGGCTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tagcacgcttgtacacaacaatgcagcaaccgtttgcttatctattacagAAACGTCATGACTCTGCCCACTGGTGGAATTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtaaatggtagtccctgcgtctagaggagctgtttcccctggaatcctct Alignment from Exonerate_coding2genome TTGAAAGGCTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tagcacgcttgtacacaacaatgcagcaaccgtttgcttatctattacagAAACGTCATGACTCTGCCCACTGGTGGAATTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtaaatggtagtccctgcgtctagaggagctgtttcccctggaatcctct Alignment from GeneWise ------GGCTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tagcacgcttgtacacaacaatgcagcaaccgtttgcttatctattacagAAACGTCATGACTCTGCCCACTGGTGGAATTTCCGGCACTTGAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGATGTAACTGTTGCACCTGTCTTCCTGCTTGGTGTGTCATCTGTGGAAgtaaatggtagtccctgcgtctagaggagctgtttcccctggaatcctct #### Fads3_ID2663_6 --> 0 - 1 Original Alignment TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTGa ctagaggagctgtttcccctggcctctcataattttttttttaattttag------AAGAAGAAACAACGATACCTGCCATACAATCATCAACATCTATACTTCTTCCTGggtgagtggtgccagcaagcatttattggtggcagttggcagtcctaaggt Alignment from CESAR TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTGa ctgcgtctagaggagctgtttccccctcataattttttttttaattttag------AAGAAGAAACAACGATACCTGCCATACAATCATCAACATCTATACTTCTTCCTGggtgagtggtgccagcaagcatttattggtggcagttggcagtcctaaggt Alignment from Spaln_aa2Genome TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTGA ctagaggagctgtttcccctggcctctcataattttttttttaattttag------AAGAAGAAACAACGATACCTGCCATACAATCATCAACATCTATACTTCTTCCTGGgtgagtggtgccagcaagcatttattggtggcagttggcagtcctaaggt Alignment from Spaln_nt2Genome TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTGA ctagaggagctgtttcccctggcctctcataattttttttttaattttag------AAGAAGAAACAACGATACCTGCCATACAATCATCAACATCTATACTTCTTCCTGGgtgagtggtgccagcaagcatttattggtggcagttggcagtcctaaggt Alignment from Pairagon TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTGA ctagaggagctgtttcccctggcctctcataattttttttttaattttag------AAGAAGAAACAACGATACCTGCCATACAATCATCAACATCTATACTTCTTCCTGGgtgagtggtgccagcaagcatttattggtggcagttggcagtcctaaggt Alignment from Exonerate_protein2genome TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTGA ctagaggagctgtttcccctggcctctcataattttttttttaaTTTTAGAAGAAGAAACAACGATACCTGCCATACAATCATCAACATCTATACTTCTTCCTGGgtgagtggtgccagcaagcatttattggtggcagttggcagtcctaaggt Alignment from Exonerate_coding2genome TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTGA ctagaggagctgtttcccctggcctctcataattttttttttaaTTTTAGAAGAAGAAACAACGATACCTGCCATACAATCATCAACATCTATACTTCTTCCTGGgtgagtggtgccagcaagcatttattggtggcagttggcagtcctaaggt Alignment from GeneWise AAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTGA ctagaggagctgtttcccctggcctctcataattttttttttaattttagAAGAAGAAACAACGATACCTGCCATACAATCATCAACATCTATACTTCTTCCTGGgtgagtggtgccagcaagcatttattggtggcagttggcagtcctaaggt #### Fads3_ID2665_8 --> 0 - 2 Original Alignment GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCag ccctaggtccccagacaacgtgtctccccctaaataatttttccccctag---------TGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTTGTTGTGaggtaggatgcaacatgctggccacccaaatccatttaggtcctgtggactt Alignment from CESAR GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCag tttctgggcccctaggtccccagacccccctaaataatttttccccctag---------TGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTTGTTGTGaggtaggatgcaacatgctggccacccaaatccatttaggtcctgtggactt Alignment from Spaln_aa2Genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ccctaggtccccagacaacgtgtctccccctaaataatttttccccctag---------TGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTTGTTGTGAGgtaggatgcaacatgctggccacccaaatccatttaggtcctgtggactt Alignment from Spaln_nt2Genome TGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ccctaggtccccagacaacgtgtctccccctaaataatttttccccctagTGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTTGTTGTGAGgtaggatgcaacatgctggccacccaaatccatttaggtcctgtggactt Alignment from Pairagon GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ccctaggtccccagacaacgtgtctccccctaaataatttttccccctag---------TGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTTGTTGTGAGgtaggatgcaacatgctggccacccaaatccatttaggtcctgtggactt Alignment from Exonerate_protein2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ccctaggtccccagacaacgtgtctccccctaaataatttttccccctag---------TGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTTGTTGTGAGgtaggatgcaacatgctggccacccaaatccatttaggtcctgtggactt Alignment from Exonerate_coding2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ccctaggtccccagacaacgtgtctccccctaaataatttttccccctag---------TGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTTGTTGTGAGgtaggatgcaacatgctggccacccaaatccatttaggtcctgtggactt Alignment from GeneWise TGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ccctaggtccccagacaacgtgtctccccctaaataatttttccccctagTGGGCTGCCAGTTTCTACACCCACTTTTTTTTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTTGTTGTGAGgtaggatgcaacatgctggccacccaaatccatttaggtcctgtggactt #### Fads3_ID2666_9 --> 1 - 0 Original Alignment gGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG--------- actccatagactgtatcaatgatcctgtttcggatttctctgtcttacaggGTGTTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCACATCCCCAAGAAGATAGGACATGAAAAACATCGGGACTGGGCAACCTCTCAGTTAACTCTGgtaagtgctcttaagtacatactagtggtgaaagtgtctgtgctttaagt Alignment from CESAR gGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG--------- actccatagactgtatcaatgatcctgtttcggatttctctgtcttacaggGTGTTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCACATCCCCAAGAAGATAGGACATGAAAAACATCGGGACTGGGCAACCTCTCAGTTAACTCTGgtaagtgctcttaagtacatactagtggtgaaagtgtctgtgctttaagt Alignment from Spaln_aa2Genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAGCTGGCAGCC actccatagactgtatcaatgatcctgtttcggatttctctgtcttacagGGTGTTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCACATCCCCAAGAAGATAGGACATGAAAAACATCGGGACTGGGCAACCTCTCAGTTAACTCTGgtaagtgctcttaagtacatactagtggtgaaagtgtctgtgctttaagt Alignment from Spaln_nt2Genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAGCTGGCA--G C actccatagactgtatcaatgatcctgtttcggatttctctgtcttacagGGTGTTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCACATCCCCAAGAAGATAGGACATGAAAAACATCGGGACTGGGCAACCTCTCAGTTAACTCTGgtaagtgctcttaagtacatactagtggtgaaagtgtctgtgctttaagT Alignment from Pairagon GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG--------- actccatagactgtatcaatgatcctgtttcggatttctctgtcttacagGGTGTTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCACATCCCCAAGAAGATAGGACATGAAAAACATCGGGACTGGGCAACCTCTCAGTTAACTCTGgtaagtgctcttaagtacatactagtggtgaaagtgtctgtgctttaagt Alignment from Exonerate_protein2genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAGCTGGCAGCC actccatagactgtatcaatgatcctgtttcggatttctctgtcttacagGGTGTTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCACATCCCCAAGAAGATAGGACATGAAAAACATCGGGACTGGGCAACCTCTCAGTTAACTCTGgtaagtgctcttaagtacatactagtggtgaaagtgtctgtgctttaagt Alignment from Exonerate_coding2genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAGCTGGCAGCC actccatagactgtatcaatgatcctgtttcggatttctctgtcttacagGGTGTTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCACATCCCCAAGAAGATAGGACATGAAAAACATCGGGACTGGGCAACCTCTCAGTTAACTCTGgtaagtgctcttaagtacatactagtggtgaaagtgtctgtgctttaagt Alignment from GeneWise GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAGCTGGCAGCCACCTGCAATG actccatagactgtatcaatgatcctgtttcggatttctctgtcttacagGGTGTTGGAGAGCCACTGGTTTGTGTGGATCACACAAATGAACCACATCCCCAAGAAGATAGGACATGAAAAACATCGGGACTGGGCAACCTCTCAGTTA------ACTCTGGTAAgtgctcttaagtacatactagtggtgaaagtgtctgtgctttaagt #### Fads3_ID2667_10 --> 0 - 2 Original Alignment ---------CTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCACca ccaaggcaatgaaacagttgtctcaattcactctgtccccctctccacagGGCTATTTGTTGGCAGCCACT------------TCATCACTCTTCATTGACTGGTTCAGTGGTCACCTTAATTTTCAAATTGAACACtagtagagattgcattgaggggttagtggcaggacccaaacctagagctatg Alignment from CESAR ---------CTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCACca ccaaggcaatgaaacagttgtctcaattcactctgtccccctctccacagGGCTATTTGTTGGCAGCCACT------------TCATCACTCTTCATTGACTGGTTCAGTGGTCACCTTAATTTTCAAATTGAACACtagtagagattgcattgaggggttagtggcaggacccaaacctagagctatg Alignment from Spaln_aa2Genome GCC---ACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCACCA ccaaggcaatgaaacagttgtctcaattcactctgtccccctctccacagGGCTATTTGTTGGCAGCCACTTCATCACTCTTCATTGACTGGTTCAGTGGTCACCTTAATTTTCAAATTGAACACTAgtagagattgcattgaggggttagtggcaggacccaaacctagagctatg Alignment from Spaln_nt2Genome GAACCT--TCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCACCA ccaaggcaatgaaacagttgtctcaattcactctgtccccctctccacagggctatttgttggcagCCACTTCATCACTCTTCATTGACTGGTTCAGTGGTCACCTTAATTTTCAAATTGAACACTAgtagagattgcattgaggggttagtggcaggacccaaacctagagctatg Alignment from Pairagon ----------------------------------------------------------GCTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCACCA CCAAGGCAATGAAACAGTTGTCTCAATTCACTCTGTCCCCCTCTCCACAGGGCTATTTGTTGGCAGCCACTT------------CATCACTCTTCATTGACTGGTTCAGTGGTCACCTTAATTTTCAAATTGAACACTAgtagagattgcattgaggggttagtggcaggacccaaacctagagctatg Alignment from Exonerate_protein2genome GCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCACCA ccaaggcaatgaaacagttgtctcaattcactctgtccccctctccacagGGCTATTTGTTGGCAGCCACTTCATCACTCTTCATTGACTGGTTCAGTGGTCACCTTAATTTTCAAATTGAACACTAgtagagattgcattgaggggttagtggcaggacccaaacctagagctatg Alignment from Exonerate_coding2genome GCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCACCA ccaaggcaatgaaacagttgtctcaattcactctgtccccctctccacagGGCTATTTGTTGGCAGCCACTTCATCACTCTTCATTGACTGGTTCAGTGGTCACCTTAATTTTCAAATTGAACACTAgtagagattgcattgaggggttagtggcaggacccaaacctagagctatg Alignment from GeneWise ---------CTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCACCA ccaaggcaatgaaacagttgtctcaattcactctgtccccctctccacagGGCTATTTGTTGGCAGCCACT------------TCATCACTCTTCATTGACTGGTTCAGTGGTCACCTTAATTTTCAAATTGAACACTAgtagagattgcattgaggggttagtggcaggacccaaacctagagctatg #### Fam160b1_ID12356_7 --> 0 - 2 Original Alignment GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGG---gg tccatttatgctaaatctgacaatctccagatttctcccctaccctgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGTGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTGTGTGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTGGACCCCTTGGACATTGAAACGGTGGAGGCAGTAAACTGGGTGgggtaagcatccatttggtagaccgcttggacagtgaaatggtggaagcagt Alignment from CESAR GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGG---gg tccatttatgctaaatctgacaatctccagatttctcccctaccctgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGTGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTGTGTGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTGGACCCCTTGGACATTGAAACGGTGGAGGCAGTAAACTGGGTGgggtaagcatccatttggtagaccgcttggacagtgaaatggtggaagcagt Alignment from Spaln_aa2Genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGGG-- tccatttatgctaaatctgacaatctccagatttctcccctaccctgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGTGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTGTGTGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTGGACCCCTTGGACATTGAAACGGTGGAGGCAGTAAACTGGGTGGGgtaagcatccatttggtagaccgcttggacagtgaaatggtggaagcagt Alignment from Spaln_nt2Genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGG---G tccatttatgctaaatctgacaatctccagatttctcccctaccctgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGTGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTGTGTGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTGGACCCCTTGGACATTGAAACGGTGGAGGCAGTAAACTGGGTGGGgtaagcatccatttggtagaccgcttggacagtgaaatggtggaagcagt Alignment from Pairagon GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTG---GGG tccatttatgctaaatctgacaatctccagatttctcccctaccctgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGTGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTGTGTGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTGGACCCCTTGGACATTGAAACGGTGGAGGCAGTAAACTGGGTGGGgtaagcatccatttggtagaccgcttggacagtgaaatggtggaagcagt Alignment from Exonerate_protein2genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGG---GG tccatttatgctaaatctgacaatctccagatttctcccctaccctgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGTGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTGTGTGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTGGACCCCTTGGACATTGAAACGGTGGAGGCAGTAAACTGGGTGGGgtaagcatccatttggtagaccgcttggacagtgaaatggtggaagcagt Alignment from Exonerate_coding2genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGG---GG tccatttatgctaaatctgacaatctccagatttctcccctaccctgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGTGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTGTGTGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTGGACCCCTTGGACATTGAAACGGTGGAGGCAGTAAACTGGGTGGGgtaagcatccatttggtagaccgcttggacagtgaaatggtggaagcagt Alignment from GeneWise GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGGG-- tccatttatgctaaatctgacaatctccagatttctcccctaccctgcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCAATGCTCTTAGTGAGCCTACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTGTGTGAGCTGCTGACTGGAAGACTCACCTCCTTGTACAAGTCATTACCTCAGTCAGTGGACCCCTTGGACATTGAAACGGTGGAGGCAGTAAACTGGGTGGGgtaagcatccatttggtagaccgcttggacagtgaaatggtggaagcagt #### Fam160b1_ID12357_8 --> 1 - 0 Original Alignment gTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG cctttgtccagatctagtgtccttttcattgtttctttttctttaattagg---GACTCTTACAGCCACAAAGAAGATACATCAGCGTTCCCAGGGAAGCGGGCCTTGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtacttagcttgatgttatcttcatagtgcttatggacatcaagctgtct Alignment from CESAR gTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG tttcctttgtccagatctagtgtcctcattgtttctttttctttaattagg---GACTCTTACAGCCACAAAGAAGATACATCAGCGTTCCCAGGGAAGCGGGCCTTGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtacttagcttgatgttatcttcatagtgcttatggacatcaagctgtct Alignment from Spaln_aa2Genome GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG cctttgtccagatctagtgtccttttcattgtttctttttctttaattagGGACTCTTACAGCCAC---AAAGAAGATACATCAGCGTTCCCAGGGAAGCGGGCCTTGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtacttagcttgatgttatcttcatagtgcttatggacatcaagctgtct Alignment from Spaln_nt2Genome GGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG cctttgtccagatctagtgtccttttcattgtttctttttctttaattagGGACTCTTACAGCCACAAAGAAGATACATCAGCGTTCCCAGGGAAGCGGGCCTTGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtacttagcttgatgttatcttcatagtgcttatggacatcaagctgtct Alignment from Pairagon GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG cctttgtccagatctagtgtccttttcattgtttctttttctttaattag---GGACTCTTACAGCCACAAAGAAGATACATCAGCGTTCCCAGGGAAGCGGGCCTTGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtacttagcttgatgttatcttcatagtgcttatggacatcaagctgtct Alignment from Exonerate_protein2genome GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG cctttgtccagatctagtgtccttttcattgtttctttttctttaatTAGGGACTCTTACAGCCACAAAGAAGATACATCAGCGTTCCCAGGGAAGCGGGCCTTGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtacttagcttgatgttatcttcatagtgcttatggacatcaagctgtct Alignment from Exonerate_coding2genome GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG cctttgtccagatctagtgtccttttcattgtttctttttctttaatTAGGGACTCTTACAGCCACAAAGAAGATACATCAGCGTTCCCAGGGAAGCGGGCCTTGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtacttagcttgatgttatcttcatagtgcttatggacatcaagctgtct Alignment from GeneWise GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG cctttgtccagatctagtgtccttttcattgtttctttttctttaattagG---GACTCTTACAGCCACAAAGAAGATACATCAGCGTTCCCAGGGAAGCGGGCCTTGATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtacttagcttgatgttatcttcatagtgcttatggacatcaagctgtct #### Fau_ID1403_3 --> 2 - 0 Original Alignment gt---------------------------AAAGTTCACGGTTCCCTGGCTCGGGCTGGAAAAGTGAGAGGTCAGACTCCCAAG ccctgtgattctgctaattagtttgaactgacctgtgtttgtctctgcaggcAATCTATTTTGTTTTGGTGATAATGATATAGTTCATGGCTCCCTGGCCCGAGCTGGAAAAGTAAGAGGCCAGACTCCCAAAgtaagaggcaggggtgaagcttcctttaagacagaatgagcatggacagc Alignment from CESAR aaccagcaggactctgttgtttttgcccagctggagaagcactgcctgcac Alignment from Spaln_aa2Genome GTCAATGTTGTGCCCACCTTTGGGAAGAAGAAGGGCCCCAATGCCAATTCC aaccagcaggactctgttgtttttgcccagccacattgttttgaatttcag Alignment from Spaln_nt2Genome TTCACGGTTCCCTGGCTCGGGCTGGAAAAGTGAGAGGTCAGACTCCCAAG ccctgtgattctgctaattagtttgaactgacctgtgtttgtctctgcaggcaatctattttgttttggtgataatgatatagTTCATGGCTCCCTGGCCCGAGCTGGAAAAGTAAGAGGCCAGACTCCCAAAgtaagaggcaggggtgaagcttcctttaagacagaatgagcatggacagc Alignment from Pairagon GTAA---------------------------AGTTCACGGTTCCCTGGCTCGGGCTGGAAAAGTGAGAGGTCAGACTCCCAAG ccctgtgattctgctaattagtttgaactgacctgtgtttgtctctgcagGCAATCTATTTTGTTTTGGTGATAATGATATAGTTCATGGCTCCCTGGCCCGAGCTGGAAAAGTAAGAGGCCAGACTCCCAAAgtaagaggcaggggtgaagcttcctttaagacagaatgagcatggacagc Alignment from Exonerate_protein2genome AGTTCACGGTTCCCTGGCTCGGGCTGGAAAAGTGAGAGGTCAGACTCCCAAG ccctgtgattctgctaattagtttgaactgacctgtgtttgtctctgcaggcaatctattttgttttggtgataatgatatAGTTCATGGCTCCCTGGCCCGAGCTGGAAAAGTAAGAGGCCAGACTCCCAAAgtaagaggcaggggtgaagcttcctttaagacagaatgagcatggacagc Alignment from Exonerate_coding2genome ccctgtgattctgctaattagtttgaactgacctgtgtttgtctctgcaggcaatctattttgttttggtgataatgatatagttcatggctccctggcccgagctggaaaagtaagaggccagactcccaaagtaagaggcaggggtgaagcttcctttaagacagaatgagcatggacagc Alignment from GeneWise GTAAAGTTCACGGTTCCCTGGCTCGGGCTGGAAAAGTGAGAGGTCAGACTCCCAAG ccctgtgattctgctaattagtttgaactgacctgtgtttgtctctgcaggcaatctattttgttttggtgataatgatatagTT------CATGGCTCCCTGGCCCGAGCTGGAAAAGTAAGAGGCCAGACTCCCAAAgtaagaggcaggggtgaagcttcctttaagacagaatgagcatggacagc #### Fgf8_ID9566_3 --> 0 - 0 Original Alignment ------------------------GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacagtcacgttgtggcatggtcccgcccctctctccccacagCCTATCTTCTCGTCCACTTCTGATGGAGGCCCAGGAGGGGGGCCTGCGCTGGGCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGGAACCTCAAGGTGTTTCCCAACAAgtgagtagttggggttggtttatccatttcaggccccgggtccccaagca Alignment from CESAR ------------------------GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacagtcacgttgtggcatggtcccgcccctctctccccacagCCTATCTTCTCGTCCACTTCTGATGGAGGCCCAGGAGGGGGGCCTGCGCTGGGCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGGAACCTCAAGGTGTTTCCCAACAAgtgagtagttggggttggtttatccatttcaggccccgggtccccaagca Alignment from Spaln_aa2Genome GCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacagtcacgttgtggcatggtcccgcccctctctccccacagcctatcttctcgtccacttctgatggagGCCCAGGAGGGGGGCCTGCGCTGGGCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGGAACCTCAAGGTGTTTCCCAACAAgtgagtagttggggttggtttatccatttcaggccccgggtccccaagca Alignment from Spaln_nt2Genome GCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacagtcacgttgtggcatggtcccgcccctctctccccacagcctatcttctcgtccacttctgatggagGCCCAGGAGGGGGGCCTGCGCTGGGCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGGAACCTCAAGGTGTTTCCCAACAAgtgagtagttggggttggtttatccatttcaggccccgggtccccaagca Alignment from Pairagon AGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacagtcacgttgtggcatggtcccgcccctctctccccacagcctatcttctcgtccacttctgatggAGGCCCAGGAGGGGGGCCTGCGCTGGGCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGGAACCTCAAGGTGTTTCCCAACAAgtgagtagttggggttggtttatccatttcaggccccgggtccccaagca Alignment from Exonerate_protein2genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacagtcacgttgtggcatggtcccgcccctctctccccacagcctatcttctcgtccacttctgatGGAGGCCCAGGAGGGGGGCCTGCGCTGGGCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGGAACCTCAAGGTGTTTCCCAACAAgtgagtagttggggttggtttatccatttcaggccccgggtccccaagca Alignment from Exonerate_coding2genome GGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacagtcacgttgtggcatggtcccgcccctctctccccacagcctatcttctcgtccacttctgatggaGGCCCAGGAGGGGGGCCTGCGCTGGGCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGGAACCTCAAGGTGTTTCCCAACAAgtgagtagttggggttggtttatccatttcaggccccgggtccccaagca Alignment from GeneWise GGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG ggcatggcacagtcacgttgtggcatggtcccgcccctctctccccacagcctatcttctcgtccacttctgatggaGGCCCAGGAGGGGGGCCTGCGCTGGGCAGGGAGCCAACATCCCTGCTCCGAGCTGGTCGGGAACCTCAAGGTGTTTCCCAACAAgtgagtagttggggttggtttatccatttcaggccccgggtccccaagca #### Fibp_ID1009_6 --> 2 - 2 Original Alignment acTCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGag acatgaatatccaagatggtttatgcataaatttatgtttttctcaccagacCCTCAGGTGGATGACATGGATGTTGACCTAGATAAAGAATTCCTCCAAGACTTCAAGGAGCTTAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCTG------aggtgagcaacaacgcgggatctttgggagctgaacttactatactcagtct Alignment from CESAR acTCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGag acatgaatatccaagatggtttatgcataaatttatgtttttctcaccagacCCTCAGGTGGATGACATGGATGTTGACCTAGATAAAGAATTCCTCCAAGACTTCAAGGAGCTTAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCTG------aggtgagcaacaacgcgggatctttgggagctgaacttactatactcaggaa Alignment from Spaln_aa2Genome ACTCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCA acatgaatatccaagatggtttatgcataaatttatgtttttctcaccagACCCTCAGGTGGATGACATGGATGTTGACCTAGATAAAGAATTCCTCCAAGACTTCAAGGAGCTTAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCTGAGgtgagcaacaacgcgggatctttgggagctgaacttactatactcagtct Alignment from Spaln_nt2Genome ACTCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAG acatgaatatccaagatggtttatgcataaatttatgtttttctcaccagACCCTCAGGTGGATGACATGGATGTTGACCTAGATAAAGAATTCCTCCAAGACTTCAAGGAGCTTAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCT------GAGgtgagcaacaacgcgggatctttgggagctgaacttactatactcagtct Alignment from Pairagon ACTCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAG acatgaatatccaagatggtttatgcataaatttatgtttttctcaccagACCCTCAGGTGGATGACATGGATGTTGACCTAGATAAAGAATTCCTCCAAGACTTCAAGGAGCTTAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCT------GAGgtgagcaacaacgcgggatctttgggagctgaacttactatactcagtct Alignment from Exonerate_protein2genome ACTCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCA acatgaatatccaagatggtttatgcataaatttatgtttttctcaccagACCCTCAGGTGGATGACATGGATGTTGACCTAGATAAAGAATTCCTCCAAGACTTCAAGGAGCTTAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCTGAGgtgagcaacaacgcgggatctttgggagctgaacttactatactcagtct Alignment from Exonerate_coding2genome ACTCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCA acatgaatatccaagatggtttatgcataaatttatgtttttctcaccagACCCTCAGGTGGATGACATGGATGTTGACCTAGATAAAGAATTCCTCCAAGACTTCAAGGAGCTTAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCTGAGgtgagcaacaacgcgggatctttgggagctgaacttactatactcagtct Alignment from GeneWise ACTCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCA acatgaatatccaagatggtttatgcataaatttatgtttttctcaccagACCCTCAGGTGGATGACATGGATGTTGACCTAGATAAAGAATTCCTCCAAGACTTCAAGGAGCTTAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCTGAGgtgagcaacaacgcgggatctttgggagctgaacttactatactcagtct #### Fibp_ID1010_7 --> 1 - 0 Original Alignment cCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG--- ctgaacttactatactcagtctacagaacctcctactgtgcctcctgcagcCTAGTCTGCACTGCCCTTCGTGGAAAACTTGGTGTCTTCTCTGAGATGGAATCCAACTTCAAGAACgtaagtttgcttggcatccatagtcccctggttagatcactgagtgcctt Alignment from CESAR cCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG--- ctgaacttactatactcagtctacagaacctcctactgtgcctcctgcagcCTAGTCTGCACTGCCCTTCGTGGAAAACTTGGTGTCTTCTCTGAGATGGAATCCAACTTCAAGAACgtaagtttgcttggcatccatagtcccctggttagatcactgagtgcctt Alignment from Spaln_aa2Genome CCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAGAATCTGTCTCG ctgaacttactatactcagtctacagaacctcctactgtgcctcctgcagCCTAGTCTGCACTGCCCTTCGTGGAAAACTTGGTGTCTTCTCTGAGATGGAATCCAACTTCAAGAACGTAAGTTTgcttggcatccatagtcccctggttagatcactgagtgcctt Alignment from Spaln_nt2Genome CCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG--- ctgaacttactatactcagtctacagaacctcctactgtgcctcctgcagCCTAGTCTGCACTGCCCTTCGTGGAAAACTTGGTGTCTTCTCTGAGATGGAATCCAACTTCAAGAACgtaagtttgcttggcatccatagtcccctggttagatcactgagtgcctt Alignment from Pairagon CCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG--- ctgaacttactatactcagtctacagaacctcctactgtgcctcctgcagCCTAGTCTGCACTGCCCTTCGTGGAAAACTTGGTGTCTTCTCTGAGATGGAATCCAACTTCAAGAACgtaagtttgcttggcatccatagtcccctggttagatcactgagtgcctt Alignment from Exonerate_protein2genome CCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG--- ctgaacttactatactcagtctacagaacctcctactgtgcctcctgcagCCTAGTCTGCACTGCCCTTCGTGGAAAACTTGGTGTCTTCTCTGAGATGGAATCCAACTTCAAGAACgtaagtttgcttggcatccatagtcccctggttagatcactgagtgcctt Alignment from Exonerate_coding2genome CCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG--- ctgaacttactatactcagtctacagaacctcctactgtgcctcctgcagCCTAGTCTGCACTGCCCTTCGTGGAAAACTTGGTGTCTTCTCTGAGATGGAATCCAACTTCAAGAACgtaagtttgcttggcatccatagtcccctggttagatcactgagtgcctt Alignment from GeneWise ------------------------------------------------AGCCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAGAAT CTGAACTTACTATACTCAGTCTACAGAACCTCCTACTGTGCCTCCTGCAGCCTAGTCTGCACTGCCCTTCGTGGAAAACTTGGTGTCTTCTCTGAGATGGAATCCAACTTCAAGAACgtaagtttgcttggcatccatagtcccctggttagatcactgagtgcctt #### Fkbp2_ID1946_3 --> 1 - 1 Original Alignment gATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTG---g gttgacttttggctagctgtttttatgcatgcccatatctttctttacaggATGTGTGAAGGAGAGAGGCGGAAGTTGGTCATCCTGTCAGAATTGATCggtatgggaacatggtggccagaaccaatccagaattagactagtttcatg Alignment from CESAR gATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTG---g gttgacttttggctagctgtttttatgcatgcccatatctttctttacaggATGTGTGAAGGAGAGAGGCGGAAGTTGGTCATCCTGTCAGAATTGATCggtatgggaacatggtggccagaaccaatccagaattagactagtttcatg Alignment from Spaln_aa2Genome GATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTG---G gttgacttttggctagctgtttttatgcatgcccatatctttctttacagGATGTGTGAAGGAGAGAGGCGGAAGTTGGTCATCCTGTCAGAATTGATCGgtatgggaacatggtggccagaaccaatccagaattagactagtttcatg Alignment from Spaln_nt2Genome GATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTG---G gttgacttttggctagctgtttttatgcatgcccatatctttctttacagGATGTGTGAAGGAGAGAGGCGGAAGTTGGTCATCCTGTCAGAATTGATCGgtatgggaacatggtggccagaaccaatccagaattagactagtttcatg Alignment from Pairagon GATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCC gttgacttttggctagctgtttttatgcatgcccatatctttctttacagGATGTGTGAAGGAGAGAGGCGGAAGTTGGTCATCCTgtcagaattgatcggtatgggaacatggtggccagaaccaatccagaattagactagtttcatg Alignment from Exonerate_protein2genome GATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTG---G gttgacttttggctagctgtttttatgcatgcccatatctttctttacagGATGTGTGAAGGAGAGAGGCGGAAGTTGGTCATCCTGTCAGAATTGATCGgtatgggaacatggtggccagaaccaatccagaattagactagtttcatg Alignment from Exonerate_coding2genome GATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTG---G gttgacttttggctagctgtttttatgcatgcccatatctttctttacagGATGTGTGAAGGAGAGAGGCGGAAGTTGGTCATCCTGTCAGAATTGATCGgtatgggaacatggtggccagaaccaatccagaattagactagtttcatg Alignment from GeneWise GATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTGGGG- gttgacttttggctagctgtttttatgcatgcccatatctttctttacagGATGTGTGAAGGAGAGAGGCGGAAGTTGGTCATCCTGTCAGAATTGATCGgtatgggaacatggtggccagaaccaatccagaattagactagtttcatg #### Fkbp2_ID1947_2 --> 0 - 2 Original Alignment GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGgg caatctctcctgggcgttgcatggtctgccttccttccttcttttcctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGTCTA---gggtaagtagattggcatataatccaagttgcagtgaatgctataataaagg Alignment from CESAR GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGgg caatctctcctgggcgttgcatggtctgccttccttccttcttttcctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGT---CTAgggtaagtagattggcatataatccaagttgcagtgaatgctataataaagg Alignment from Spaln_aa2Genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG caatctctcctgggcgttgcatggtctgccttccttccttcttttcctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGT---CTAGGgtaagtagattggcatataatccaagttgcagtgaatgctataataaagg Alignment from Spaln_nt2Genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG caatctctcctgggcgttgcatggtctgccttccttccttcttttcctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGG---TCTAGGgtaagtagattggcatataatccaagttgcagtgaatgctataataaagg Alignment from Pairagon GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG caatctctcctgggcgttgcatggtctgccttccttccttcttttcctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGG---TCTAGGgtaagtagattggcatataatccaagttgcagtgaatgctataataaagg Alignment from Exonerate_protein2genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG caatctctcctgggcgttgcatggtctgccttccttccttcttttcctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGT---CTAGGgtaagtagattggcatataatccaagttgcagtgaatgctataataaagg Alignment from Exonerate_coding2genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG caatctctcctgggcgttgcatggtctgccttccttccttcttttcctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGT---CTAGGgtaagtagattggcatataatccaagttgcagtgaatgctataataaagg Alignment from GeneWise GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCT caatctctcctgggcgttgcatggtctgccttccttccttcttttcctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGTCTAGGgtaagtagattggcatataatccaagttgcagtgaatgctataataaagg #### Ganab_ID2468_7 --> 1 - 0 Original Alignment gCAAGAATCAAAAGACCCAGCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG ctgccatcctcacttcactttaggtaatcacatctctgctccacatctagg---GAATCAAAAGACCCCGCTGAGGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGTGACAAGgtaggatggttgagggttgagggtggccttaggtctgcttaagaggatgg Alignment from CESAR gCAAGAATCAAAAGACCCAGCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG cagctgccatcctcacttcactttaaatcacatctctgctccacatctagg---GAATCAAAAGACCCCGCTGAGGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGTGACAAGgtaggatggttgagggttgagggtggccttaggtctgcttaagaggatgg Alignment from Spaln_aa2Genome GCAAGAATCAAAAGACCCAGCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG ctgccatcctcacttcactttaggtaatcacatctctgctccacatctagG---GAATCAAAAGACCCCGCTGAGGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGTGACAAGgtaggatggttgagggttgagggtggccttaggtctgcttaagaggatgg Alignment from Spaln_nt2Genome GCAAGAATCAAAAGACCCAGCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG ctgccatcctcacttcactttaggtaatcacatctctgctccacatctagG---GAATCAAAAGACCCCGCTGAGGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGTGACAAGgtaggatggttgagggttgagggtggccttaggtctgcttaagaggatgg Alignment from Pairagon GCAA------------------------GAATCAAAAGACCCAGCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG ctgccatcctcacttcactttagGTAATCACATCTCTGCTCCACATCTAGGGAATCAAAAGACCCCGCTGAGGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGTGACAAGgtaggatggttgagggttgagggtggccttaggtctgcttaagaggatgg Alignment from Exonerate_protein2genome GCAAGAATCAAAAGACCCAGCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG ctgccatcctcacttcactttaggtaatcacatctctgctccacatctagG---GAATCAAAAGACCCCGCTGAGGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGTGACAAGgtaggatggttgagggttgagggtggccttaggtctgcttaagaggatgg Alignment from Exonerate_coding2genome GCAAGAATCAAAAGACCCAGCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG ctgccatcctcacttcactttaggtaatcacatctctgctccacatctagG---GAATCAAAAGACCCCGCTGAGGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGTGACAAGgtaggatggttgagggttgagggtggccttaggtctgcttaagaggatgg Alignment from GeneWise GCAAGAATCAAAAGACCCAGCTGAAGGCAATGGAGCCCAGCCTGAAGCAACACCTGGGGATGGTGACAAG ctgccatcctcacttcactttaggtaatcacatctctgctccacatctagG---GAATCAAAAGACCCCGCTGAGGGCAATGGGGCCCAGCCCGAGGCGACACCTGGGGATGGTGACAAGgtaggatggttgagggttgagggtggccttaggtctgcttaagaggatgg #### Ganab_ID2469_8 --> 0 - 1 Original Alignment ---CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATg ggagtggagggtgcaagtgggtatgaattcattgcttctttctttgacagGCTCCAGAGGAGACCCAAGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATggtgagcaattggcaagtcttaatagtaatttccttagctagatcctctag Alignment from CESAR ---CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATg ggagtggagggtgcaagtgggtatgaattcattgcttctttctttgacagGCTCCAGAGGAGACCCAAGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATggtgagcaattggcaagtcttaatagtaaaagccttaacctgttttgaaag Alignment from Spaln_aa2Genome CCAGAGGAG---ACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ggagtggagggtgcaagtgggtatgaattcattgcttctttctttgacagGCTCCAGAGGAGACCCAAGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtgagcaattggcaagtcttaatagtaatttccttagctagatcctctag Alignment from Spaln_nt2Genome CCAGAGGAG---ACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ggagtggagggtgcaagtgggtatgaattcattgcttctttctttgacagGCTCCAGAGGAGACCCAAGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtgagcaattggcaagtcttaatagtaatttccttagctagatcctctag Alignment from Pairagon ---CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ggagtggagggtgcaagtgggtatgaattcattgcttctttctttgacagGCTCCAGAGGAGACCCAAGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtgagcaattggcaagtcttaatagtaatttccttagctagatcctctag Alignment from Exonerate_protein2genome ---CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ggagtggagggtgcaagtgggtatgaattcattgcttctttctttgacagGCTCCAGAGGAGACCCAAGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtgagcaattggcaagtcttaatagtaatttccttagctagatcctctag Alignment from Exonerate_coding2genome ---CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ggagtggagggtgcaagtgggtatgaattcattgcttctttctttgacagGCTCCAGAGGAGACCCAAGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtgagcaattggcaagtcttaatagtaatttccttagctagatcctctag Alignment from GeneWise ---CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ggagtggagggtgcaagtgggtatgaattcattgcttctttctttgacagGCTCCAGAGGAGACCCAAGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtgagcaattggcaagtcttaatagtaatttccttagctagatcctctag #### Ganab_ID2470_9 --> 2 - 2 Original Alignment gc------CCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTga gtaaggaattggcaagtcttaatagtaatctttaactatccctgcttcaggtGTATGCCCCATGTCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTgagtaagtccatgatgaggtgtgataacagtggtaatgaaagacctaacttt Alignment from CESAR gc------CCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTga gtgagcaattggcaagtcttaatagtaatctttaactatccctgcttcaggtGTATGCCCCATGTCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTgagtaagtccatgatgaggtgtgataacagtggtaatgaaagacctaacttt Alignment from Spaln_aa2Genome GC------CCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA gtaaggaattggcaagtcttaatagtaatctttaactatccctgcttcagGTGTATGCCCCATGTCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTGAgtaagtccatgatgaggtgtgataacagtggtaatgaaagacctaacttt Alignment from Spaln_nt2Genome GCCCCACGTCTG------TAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA gtaaggaattggcaagtcttaatagtaatctttaactatccctgcttcagGTGTATGCCCCATGTCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTGAgtaagtccatgatgaggtgtgataacagtggtaatgaaagacctaacttt Alignment from Pairagon --------------------------------------------------------GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA GTAAGGAATTGGCAAGTCTTAATAGTAATCTTTAACTATCCCTGCTTCAGGTGTATGCCCCATGTCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTGAgtaagtccatgatgaggtgtgataacagtggtaatgaaagacctaacttt Alignment from Exonerate_protein2genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA gtaaggaattggcaagtcttaatagtaatctttaactatccctgcttcaggtgtatGCCCCATGTCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTGAgtaagtccatgatgaggtgtgataacagtggtaatgaaagacctaacttt Alignment from Exonerate_coding2genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA gtaaggaattggcaagtcttaatagtaatctttaactatccctgcttcaggtgtatGCCCCATGTCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTGAgtaagtccatgatgaggtgtgataacagtggtaatgaaagacctaacttt Alignment from GeneWise -----GGCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA gtaaggaattggcaagtcttaatagtaatctttaactatccctgcttcagGTGTATGCCCCATGTCTGTTGGTTTAGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTGAgtaagtccatgatgaggtgtgataacagtggtaatgaaagacctaacttt #### Ganab_ID2471_10 --> 1 - 0 Original Alignment g---GGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG ccctggagacacttgagtgttcactgtagacgtctgtccactctcctcagaTTGGGTGGTGAGCCATATCGCTTGTACAATTTAGATGTATTGCAGTATGAGCTAAACAACCCAACGGCTCTTTATGGGTCTGTACCCGTG---CTGGCACACAGCTTTCATCGAGACCTGGGAATCTTCTGGCTCAACGCAGCTGAGACTTGGGTTGATATATCATCCAACACA------AAGgtaagtcatgggtatgtgagacttggggtcaggctttgccatccctgatg Alignment from CESAR g---GGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG ccctggagacacttgagtgttcactgtagacgtctgtccactctcctcagaTTGGGTGGTGAGCCATATCGCTTGTACAATTTAGATGTATTGCAGTATGAGCTAAACAACCCAACGGCTCTTTATGGGTCTGTACCCGTG---CTGGCACACAGCTTTCATCGAGACCTGGGAATCTTCTGGCTCAACGCAGCTGAGACTTGGGTTGATATATCATCCAACACA------AAGgtaagtcatgggtatgtgagacttggggtcaggctttgccatccctgatg Alignment from Spaln_aa2Genome GGGCGGTGAGCCG---TACCGCCTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG ccctggagacacttgagtgttcactgtagacgtctgtccactctcctcagATTGGGTGGTGAGCCATATCGCTTGTACAATTTAGATGTATTGCAGTATGAGCTAAACAACCCAACGGCTCTTTATGGGTCTGTACCCGTG---CTGGCACACAGCTTTCATCGAGACCTGGGAATCTTCTGGCTCAACGCAGCTGAGACTTGGGTTGATATATCATCCAACACA------AAGgtaagtcatgggtatgtgagacttggggtcaggctttgccatccctgatg Alignment from Spaln_nt2Genome GGGCGGTGAGCC---GTACCGCCTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCT ccctggagacacttgagtgttcactgtagacgtctgtccactctcctcagATTGGGTGGTGAGCCATATCGCTTGTACAATTTAGATGTATTGCAGTATGAGCTAAACAACCCAACGGCTCTTTATGGGTCTGTACCCGTG---CTGGCACACAGCTTTCATCGAGACCTGGGAATCTTCTGGCTCAACGCAGCTGAGACTTGGGTTGATATATCATCCAACACAAAGgtaagtcatgggtatgtgagacttggggtcaggctttgccatccctgatg Alignment from Pairagon ---GGGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG ccctggagacacttgagtgttcactgtagacgtctgtccactctcctcagATTGGGTGGTGAGCCATATCGCTTGTACAATTTAGATGTATTGCAGTATGAGCTAAACAACCCAACGGCTCTTTATGGGTCTGTACCCGTG---CTGGCACACAGCTTTCATCGAGACCTGGGAATCTTCTGGCTCAACGCAGCTGAGACTTGGGTTGATATATCATCCAACAC------AAAGgtaagtcatgggtatgtgagacttggggtcaggctttgccatccctgatg Alignment from Exonerate_protein2genome G---GGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG ccctggagacacttgagtgttcactgtagacgtctgtccactctcctcagATTGGGTGGTGAGCCATATCGCTTGTACAATTTAGATGTATTGCAGTATGAGCTAAACAACCCAACGGCTCTTTATGGGTCTGTACCCGTG---CTGGCACACAGCTTTCATCGAGACCTGGGAATCTTCTGGCTCAACGCAGCTGAGACTTGGGTTGATATATCATCCAACACA------AAGgtaagtcatgggtatgtgagacttggggtcaggctttgccatccctgatg Alignment from Exonerate_coding2genome G---GGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG ccctggagacacttgagtgttcactgtagacgtctgtccactctcctcagATTGGGTGGTGAGCCATATCGCTTGTACAATTTAGATGTATTGCAGTATGAGCTAAACAACCCAACGGCTCTTTATGGGTCTGTACCCGTG---CTGGCACACAGCTTTCATCGAGACCTGGGAATCTTCTGGCTCAACGCAGCTGAGACTTGGGTTGATATATCATCCAACACA------AAGgtaagtcatgggtatgtgagacttggggtcaggctttgccatccctgatg Alignment from GeneWise -GAGGGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG ccctggagacacttgagtgttcactgtagacgtctgtccactctcctcagATTGGGTGGTGAGCCATATCGCTTGTACAATTTAGATGTATTGCAGTATGAGCTAAACAACCCAACGGCTCTTTATGGGTCTGTACCCGTGCTG---GCACACAGCTTTCATCGAGACCTGGGAATCTTCTGGCTCAACGCAGCTGAGACTTGGGTTGATATATCATCCAACACA------AAGgtaagtcatgggtatgtgagacttggggtcaggctttgccatccctgatg #### Ganab_ID2473_12 --> 2 - 0 Original Alignment ggACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG ataaagtatttacacttttaccagcctggttttctttcttatttgaacagggTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGCTGGATGTTGAACACGCCGATGGCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAGCCACTCAATATGCTTGATCACTTGACTTCAAAA---------gtgggtggttcacttcgcgttacagctgtccacatgtcttttgtccagtg Alignment from CESAR ggACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG ataaagtatttacacttttaccagcctggttttctttcttatttgaacagggTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGCTGGATGTTGAACACGCCGATGGCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAGCCACTCAATATGCTTGATCACTTGACTTCA---------AAAgtgggtggttcacttcgcgttacagctgtccacatgtcttttgtccagtg Alignment from Spaln_aa2Genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAG ataaagtatttacacttttaccagcctggttttctttcttatttgaacagGGTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGCTGGATGTTGAACACGCCGATGGCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAGCCACTCAATATGCTTGATCACTTGACTTCAAAAgtgggtggttcacttcgcgttacagctgtccacatgtcttttgtccagtg Alignment from Spaln_nt2Genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG ataaagtatttacacttttaccagcctggttttctttcttatttgaacagGGTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGCTGGATGTTGAACACGCCGATGGCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAGCCACTCAATATGCTTGATCACTTGACTTC--AAAAGTGGGTGgttcacttcgcgttacagctgtccacatgtcttttgtccagtg Alignment from Pairagon GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCG--------------------------------------------- ataaagtatttacacttttaccagcctggttttctttcttatttgaacagGGTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGCTGGATGTTGAACACGCCGATGGCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAGCCACTCAATATGCTTGATCACTTGACTTCAAAAGTGGGTGGTTCACTTCGCGTTACAGCTGTCCACATGTCTTTTGTCCAGTG Alignment from Exonerate_protein2genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGC ataaagtatttacacttttaccagcctggttttctttcttatttgaacagGGTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGCTGGATGTTGAACACGCCGATGGCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAGCCACTCAATATGCTTGATCACTTGACTTCAAAAGTGGgtggttcacttcgcgttacagctgtccacatgtcttttgtccagtg Alignment from Exonerate_coding2genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGC ataaagtatttacacttttaccagcctggttttctttcttatttgaacagGGTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGCTGGATGTTGAACACGCCGATGGCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAGCCACTCAATATGCTTGATCACTTGACTTCAAAAGTGGgtggttcacttcgcgttacagctgtccacatgtcttttgtccagtg Alignment from GeneWise GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG ataaagtatttacacttttaccagcctggttttctttcttatttgaacagGGTCCCAGGCATTGCCCCCCCCCTCATCCCTTGGCTATCATCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTAGAGGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGCTGGATGTTGAACACGCCGATGGCAAGAGGTACTTCACCTGGGACCCCACCCAATTCCCCCAGCCACTCAATATGCTTGATCACTTGACTTCA---------AAAgtgggtggttcacttcgcgttacagctgtccacatgtcttttgtccagtg #### Ganab_ID2476_15 --> 0 - 0 Original Alignment GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG ctttttctccccttttccaaaagcctttaatccgaattgtgcacatgtag---------CCTAATCTGTATGTATGGATTGAGATGAATGAACCCTCTGTCTTCAATGGTCCTGAGGTCACTATGTTAAAGGATGCAGTGCACTATGGGGGCTGGGAGCACCGGGATATCCATAATTTTTATGGATTATATGTGgtaatgcaggtaaatgagaaggcagtcaggcaaagaggacaaaacagttg Alignment from CESAR GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG tgtaatctcctttttctcccctttttttaatccgaattgtgcacatgtag---------CCTAATCTGTATGTATGGATTGAGATGAATGAACCCTCTGTCTTCAATGGTCCTGAGGTCACTATGTTAAAGGATGCAGTGCACTATGGGGGCTGGGAGCACCGGGATATCCATAATTTTTATGGATTATATGTGgtaatgcaggtaaatgagaaggcagtcaggcaaagaggacaaaacagttg Alignment from Spaln_aa2Genome GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG ctttttctccccttttccaaaagcctttaatccgaattgtgcacatgtag---------CCTAATCTGTATGTATGGATTGAGATGAATGAACCCTCTGTCTTCAATGGTCCTGAGGTCACTATGTTAAAGGATGCAGTGCACTATGGGGGCTGGGAGCACCGGGATATCCATAATTTTTATGGATTATATGTGgtaatgcaggtaaatgagaaggcagtcaggcaaagaggacaaaacagttg Alignment from Spaln_nt2Genome CCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG ctttttctccccttttccaaaagcctttaatccgaattgtgcacatgtagCCTAATCTGTATGTATGGATTGAGATGAATGAACCCTCTGTCTTCAATGGTCCTGAGGTCACTATGTTAAAGGATGCAGTGCACTATGGGGGCTGGGAGCACCGGGATATCCATAATTTTTATGGATTATATGTGgtaatgcaggtaaatgagaaggcagtcaggcaaagaggacaaaacagttg Alignment from Pairagon GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG ctttttctccccttttccaaaagcctttaatccgaattgtgcacatgtag---------CCTAATCTGTATGTATGGATTGAGATGAATGAACCCTCTGTCTTCAATGGTCCTGAGGTCACTATGTTAAAGGATGCAGTGCACTATGGGGGCTGGGAGCACCGGGATATCCATAATTTTTATGGATTATATGTGgtaatgcaggtaaatgagaaggcagtcaggcaaagaggacaaaacagttg Alignment from Exonerate_protein2genome GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG ctttttctccccttttccaaaagcctttaatccgaattgtgCACATGTAGCCTAATCTGTATGTATGGATTGAGATGAATGAACCCTCTGTCTTCAATGGTCCTGAGGTCACTATGTTAAAGGATGCAGTGCACTATGGGGGCTGGGAGCACCGGGATATCCATAATTTTTATGGATTATATGTGgtaatgcaggtaaatgagaaggcagtcaggcaaagaggacaaaacagttg Alignment from Exonerate_coding2genome GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG ctttttctccccttttccaaaagcctttaatccgaattgtgCACATGTAGCCTAATCTGTATGTATGGATTGAGATGAATGAACCCTCTGTCTTCAATGGTCCTGAGGTCACTATGTTAAAGGATGCAGTGCACTATGGGGGCTGGGAGCACCGGGATATCCATAATTTTTATGGATTATATGTGgtaatgcaggtaaatgagaaggcagtcaggcaaagaggacaaaacagttg Alignment from GeneWise CCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG ctttttctccccttttccaaaagcctttaatccgaattgtgcacatgtagCCTAATCTGTATGTATGGATTGAGATGAATGAACCCTCTGTCTTCAATGGTCCTGAGGTCACTATGTTAAAGGATGCAGTGCACTATGGGGGCTGGGAGCACCGGGATATCCATAATTTTTATGGATTATATGTGgtaatgcaggtaaatgagaaggcagtcaggcaaagaggacaaaacagttg #### Ganab_ID2478_17 --> 2 - 1 Original Alignment gaGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGA---------g cttctactattttgtgggtactcagaattgtcttactctccaccctaaaggaGCTGTGTGGACAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCTTGGCATTGGTGGGGCTTTCCTTCTGTGGAGAGAACAAGggtaagtggagtaatcatttggggtcttgcattggatgcttgtggtgggta Alignment from CESAR gaGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGA---------g cttctactattttgtgggtactcagaattgtcttactctccaccctaaaggaGCTGTGTGGACAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCTTGGCATTGGTGGGGCTTTCCTTCTGTGGAGAGAACAAGggtaagtggagtaatcatttggggtcttgcattggatgcttgtggtgggta Alignment from Spaln_aa2Genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAGCGGATGTGG cttctactattttgtgggtactcagaattgtcttactctccaccctaaagGAGCTGTGTGGACAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCTTGGCATTGGTGGGGCTTTCCTTCTGTGGAGAGAACAAGGgtaagtggagtaatcatttggggtcttgcattggatgcttgtggtgggta Alignment from Spaln_nt2Genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAGCG------G cttctactattttgtgggtactcagaattgtcttactctccaccctaaagGAGCTGTGTGGACAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCTTGGCATTGGTGGGGCTTTCCTTCTGTGGAGAGAACAAGGgtaagtggagtaatcatttggggtcttgcattggatgcttgtggtgggta Alignment from Pairagon GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG--------- cttctactattttgtgggtactcagaattgtcttactctccaccctaaagGAGCTGTGTGGACAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCTTGGCATTGGTGGGGCTTTCCTTCTGTGGAGAGAACAAGGgtaagtggagtaatcatttggggtcttgcattggatgcttgtggtgggta Alignment from Exonerate_protein2genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG cttctactattttgtgggtactcagaattgtcttactctccaccctaaagGAGCTGTGTGGACAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCTTGGCATTGGTGGGGCTTTCCTTCTGTGGAGagaacaagggtaagtggagtaatcatttggggtcttgcattggatgcttgtggtgggta Alignment from Exonerate_coding2genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG cttctactattttgtgggtactcagaattgtcttactctccaccctaaagGAGCTGTGTGGACAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCTTGGCATTGGTGGGGCTTTCCTTCTGTGGAGagaacaagggtaagtggagtaatcatttggggtcttgcattggatgcttgtggtgggta Alignment from GeneWise GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGA---------G cttctactattttgtgggtactcagaattgtcttactctccaccctaaagGAGCTGTGTGGACAGGGGACAACACTGCTGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCTTGGCATTGGTGGGGCTTTCCTTCTGTGGAGAGAACAAGGgtaagtggagtaatcatttggggtcttgcattggatgcttgtggtgggta #### Ganab_ID2483_22 --> 0 - 0 Original Alignment ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gaaaggaatgaagtcacctactgaagcccctttttctttgtttatattag---------TTCCAGCGTGGTGGAACCATTGTGCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaagtatccaatcaccaggactgggttaattatagattcattttaaatg Alignment from CESAR ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gcaaagcatgaaaggaatgaagtcagcccctttttctttgtttatattag---------TTCCAGCGTGGTGGAACCATTGTGCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaagtatccaatcaccaggactgggttaattatagattcattttaaatg Alignment from Spaln_aa2Genome TTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gaaaggaatgaagtcacctactgaagcccctttttctttgtttatattagTTCCAGCGTGGTGGAACCATTGTGCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaagtatccaatcaccaggactgggttaattatagattcattttaaatg Alignment from Spaln_nt2Genome CGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gaaaggaatgaagtcacctactgaagcccctttttctttgtttatattag----TTCCAGCGTGGTGGAACCATTGTGCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaagtatccaatcaccaggactgggttaattatagattcattttaaatg Alignment from Pairagon ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gaaaggaatgaagtcacctactgaagcccctttttctttgtttatattag---------TTCCAGCGTGGTGGAACCATTGTGCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaagtatccaatcaccaggactgggttaattatagattcattttaaatg Alignment from Exonerate_protein2genome TTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gaaaggaatgaagtcacctactgaagcccctttttctttgtttatattagTTCCAGCGTGGTGGAACCATTGTGCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaagtatccaatcaccaggactgggttaattatagattcattttaaatg Alignment from Exonerate_coding2genome TTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gaaaggaatgaagtcacctactgaagcccctttttctttgtttatattagTTCCAGCGTGGTGGAACCATTGTGCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaagtatccaatcaccaggactgggttaattatagattcattttaaatg Alignment from GeneWise ---CAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gaaaggaatgaagtcacctactgaagcccctttttctttgtttatattagTTCCAGCGTGGTGGAACCATTGTGCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGCATGAAGGATGATCCTATCACTCTTTTCGTTGCTCTCAGTCCCCAGgtaagtatccaatcaccaggactgggttaattatagattcattttaaatg #### Ganab_ID2484_23 --> 0 - 2 Original Alignment GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCTag aggtgaacagaccacactgtttgttaggcttacctgtctgacaattctagGGTACTGCACAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTCTCTGGCAGCACA---------aggtaagggacatttcaccttcttatgccctgcctccagggttctagacaca Alignment from CESAR GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCTag aggtgaacagaccacactgtttgttaggcttacctgtctgacaattctagGGTACTGCACAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTCTCTGGCAGCACA---------aggtaagggacatttcaccttcttatgccctgcctccagggttgttcttacc Alignment from Spaln_aa2Genome GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACT aggtgaacagaccacactgtttgttaggcttacctgtctgacaattctagGGTACTGCACAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTCTCTGGCAGCACAAGgtaagggacatttcaccttcttatgccctgcctccagggttctagacaca Alignment from Spaln_nt2Genome GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCTAG aggtgaacagaccacactgtttgttaggcttacctgtctgacaattctagGGTACTGCACAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTCTCTGGCAGCACA---------AGgtaagggacatttcaccttcttatgccctgcctccagggttctagacaca Alignment from Pairagon GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCTAGTTCAG aggtgaacagaccacactgtttgttaggcttacctgtctgacaattctagGGTACTGCACAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTCTCTGGCAGCACA--------------AGgtaagggacatttcaccttcttatgccctgcctccagggttctagacaca Alignment from Exonerate_protein2genome GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACT aggtgaacagaccacactgtttgttaggcttacctgtctgacaattctagGGTACTGCACAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTCTCTGGCAGCACAAGgtaagggacatttcaccttcttatgccctgcctccagggttctagacaca Alignment from Exonerate_coding2genome GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACT aggtgaacagaccacactgtttgttaggcttacctgtctgacaattctagGGTACTGCACAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTCTCTGGCAGCACAAGgtaagggacatttcaccttcttatgccctgcctccagggttctagacaca Alignment from GeneWise GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACT aggtgaacagaccacactgtttgttaggcttacctgtctgacaattctagGGTACTGCACAGGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTTTCTTTCTCTGGCAGCACAAGgtaagggacatttcaccttcttatgccctgcctccagggttctagacaca #### Gbf1_ID9784_6 --> 2 - 2 Original Alignment ag------TTATTGAGAAAATCCGCAGAGCACACTCTGGTAGACATGGTGCAGCTGCTCTTCACAag aatagtacactaagtattgtcacctgttaaacacccgtggactcttccagagAATGATTTATTGAGAAAATCTGCGGAGCACACTCTGGTGGACATGGTGCAGCTGCTCTTCACAaggtaggcctactacaactcagcattaacctgccagcttccacacagctgcc Alignment from CESAR ag------TTATTGAGAAAATCCGCAGAGCACACTCTGGTAGACATGGTGCAGCTGCTCTTCACAag aatagtacactaagtattgtcacctgttaaacacccgtggactcttccagagAATGATTTATTGAGAAAATCTGCGGAGCACACTCTGGTGGACATGGTGCAGCTGCTCTTCACAaggtaggcctactacaactcagcattaacctgccagcttccacacagctgcc Alignment from Spaln_aa2Genome AG------TTATTGAGAAAATCCGCAGAGCACACTCTGGTAGACATGGTGCAGCTGCTCTTCACAAG aatagtacactaagtattgtcacctgttaaacacccgtggactcttccagAGAATGATTTATTGAGAAAATCTGCGGAGCACACTCTGGTGGACATGGTGCAGCTGCTCTTCACAAGgtaggcctactacaactcagcattaacctgccagcttccacacagctgcc Alignment from Spaln_nt2Genome AG------TTATTGAGAAAATCCGCAGAGCACACTCTGGTAGACATGGTGCAGCTGCTCTTCACAAG aatagtacactaagtattgtcacctgttaaacacccgtggactcttccagAGAATGATTTATTGAGAAAATCTGCGGAGCACACTCTGGTGGACATGGTGCAGCTGCTCTTCACAAGgtaggcctactacaactcagcattaacctgccagcttccacacagctgcc Alignment from Pairagon AG------TTATTGAGAAAATCCGCAGAGCACACTCTGGTAGACATGGTGCAGCTGCTCTTCACAAG aatagtacactaagtattgtcacctgttaaacacccgtggactcttccagAGAATGATTTATTGAGAAAATCTGCGGAGCACACTCTGGTGGACATGGTGCAGCTGCTCTTCACAAGgtaggcctactacaactcagcattaacctgccagcttccacacagctgcc Alignment from Exonerate_protein2genome aatagtacactaagtattgtcacctgttaaacacccgtggactcttccagagaatgatttattgagaaaatctgcggagcacactctggtggacatggtgcagctgctcttcacaaggtaggcctactacaactcagcattaacctgccagcttccacacagctgcc Alignment from Exonerate_coding2genome AGTTATTGAGAAAATCCGCAGAGCACACTCTGGTAGACATGGTGCAGCTGCTCTTCACAAG aatagtacactaagtattgtcacctgttaaacacccgtggactcttccagagaatgATTTATTGAGAAAATCTGCGGAGCACACTCTGGTGGACATGGTGCAGCTGCTCTTCACAAGgtaggcctactacaactcagcattaacctgccagcttccacacagctgcc Alignment from GeneWise -----GAGTTATTGAGAAAATCCGCAGAGCACACTCTGGTAGACATGGTGCAGCTGCTCTTCACAAG aatagtacactaagtattgtcacctgttaaacacccgtggactcttccagAGAATGATTTATTGAGAAAATCTGCGGAGCACACTCTGGTGGACATGGTGCAGCTGCTCTTCACAAGgtaggcctactacaactcagcattaacctgccagcttccacacagctgcc #### Gbf1_ID9795_14 --> 0 - 1 Original Alignment AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGt acagtataccactggctgggtcacatagcctgtgtctttcattttctaagAATGCATTTCCTGTATCTGGTCAGCTCGATACTACACATCTTCTGTCCCTTGATGCTCTTTTGACTTTTATTGACAGTACTGAGTTTCATTCTCAAGCCAAAGTTCTCAATGCCCTCAACCAGCAAGAGAAAAAGGAAACATCGAGGCCTGGTTTTGAA------------------------------tgtgagtaacctaattatgttattattactactattggcaggtaatccagt Alignment from CESAR AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGt acagtataccactggctgggtcacatagcctgtgtctttcattttctaagAATGCATTTCCTGTATCTGGTCAGCTCGATACTACACATCTTCTGTCCCTTGATGCTCTTTTGACTTTTATTGACAGTACTGAGTTTCATTCTCAAGCCAAAGTTCTCAATGCCCTCAACCAGCAAGAGAAAAAGGAAACATCGAGGCCTGGTTTTGAA------------------------------tgtgagtaacctaattatgttattattactactattggcaggtaatccagt Alignment from Spaln_aa2Genome AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAG- acagtataccactggctgggtcacatagcctgtgtctttcattttctaagAATGCATTTCCTGTATCTGGTCAGCTCGATACTACACATCTTCTGTCCCTTGATGCTCTTTTGACTTTTATTGACAGTACTGAGTTTCATTCTCAAGCCAAAGTTCTCAATGCCCTCAACCAGCAAGAGAAAAAGGAAACATCGAGGCCTGGTTTTGAATgtgagtaacctaattatgttattattactactattggcaggtaatccagt Alignment from Spaln_nt2Genome AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGG acagtataccactggctgggtcacatagcctgtgtctttcattttctaagAATGCATTTCCTGTATCTGGTCAGCTCGATACTACACATCTTCTGTCCCTTGATGCTCTTTTGACTTTTATTGACAGTACTGAGTTTCATTCTCAAGCCAAAGTTCTCAATGCCCTCAACCAGCAAGAGAAAAAGGAAACATCGAGGCCTGGTTTTGAATgtgagtaacctaattatgttattattactactattggcaggtaatccagt Alignment from Pairagon AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT acagtataccactggctgggtcacatagcctgtgtctttcattttctaagAATGCATTTCCTGTATCTGGTCAGCTCGATACTACACATCTTCTGTCCCTTGATGCTCTTTTGACTTTTATTGACAGTACTGAGTTTCATTCTCAAGCCAAAGTTCTCAATGCCCTCAACCAGCAAGAGAAAAAGGAAACATCGAGGCCTGGTTTTG------------------------------AATgtgagtaacctaattatgttattattactactattggcaggtaatccagt Alignment from Exonerate_protein2genome acagtataccactggctgggtcacatagcctgtgtctttcattttctaagaatgcatttcctgtatctggtcagctcgatactacacatcttctgtcccttgatgctcttttgacttttattgacagtactgagtttcattctcaagccaaagttctcaatgccctcaaccagcaagagaaaaaggaaacatcgaggcctggttttgaatgtgagtaacctaattatgttattattactactattggcaggtaatccagt Alignment from Exonerate_coding2genome GAATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCA--ACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGG---CAGTGGATGGCAACCCAGAAACTAACAAGTCTGAGAG acagtataccactggctgggtcacatagcctgtgtctttcattttctaaGAATGCATTTCCTGTATCTGGTCAGCTCGATACTACACATCTTCTGTCCCTTGATGCTCTTTTGACTTTTATTGACAGTACTGAGTTTCATTCTCAAGCCAA--AGTTCTCAATGCCCTCAACCAGCAAGAGAAAAAGGAAACATCGAGGCCTGGTTTTGAATGTGAGTAACCTAATTATGTTATTATTACTACTATTGGCAGgtaatccagt Alignment from GeneWise AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGG acagtataccactggctgggtcacatagcctgtgtctttcattttctaagAATGCATTTCCTGTATCTGGTCAGCTCGATACTACACATCTTCTGTCCCTTGATGCTCTTTTGACTTTTATTGACAGTACTGAGTTTCATTCTCAAGCCAAAGTTCTCAATGCCCTCAACCAGCAAGAGAAAAAGGAAACATCGAGGCCTGGTTTTGAATgtgagtaacctaattatgttattattactactattggcaggtaatccagt #### Gbf1_ID9796_15 --> 2 - 1 Original Alignment ctGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGg cacaaggtttacgagaatgttttgtctcctgctttcattttctgaaacagct---------ACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGGGGTCTTTACTTTCCCAGTGGAGGGTGGTTG---ACAGACTATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCAGGTGACTCTAGCcgtgagaatccagtatattcttcctggctgaacccccagtcaatgttttac Alignment from CESAR ctGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGg atcaccagccacaaggtttacgagactcctgctttcattttctgaaacagct---------ACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGGGGTCTTTACTTTCCCAGTGGAGGGTGGTTG---ACAGACTATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCAGGTGACTCTAGCcgtgagaatccagtatattcttcctggctgaacccccagtcaatgttttac Alignment from Spaln_aa2Genome TCTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG tacgagaatgttttgtctcctgctttcattttctgaaaca gCTACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGGGGTCTTTACTTTCCCAGTGGAGGGTGGTTG---ACAGACTATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCAGGTGACTCTAGCCgtgagaatccagtatattcttcctggctgaacccccagtcaatgttttac Alignment from Spaln_nt2Genome CAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG cacaaggtttacgagaatgttttgtctcctgctttcattttctgaaacagCTACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGGGGTCTTTACTTTCCCAGTGGAGGGTGGTTG---ACAGACTATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCAGGTGACTCTAGCCgtgagaatccagtatattcttcctggctgaacccccagtcaatgttttac Alignment from Pairagon -----------------------------------------CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG CACAAGGTTTACGAGAATGTTTTGTCTCCTGCTTTCATTTTCTGAAACAGCTACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGGGGTCTTTACTTTCCCAGTGGAGGGTGGTTG---ACAGACTATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCAGGTGACTCTAGCCgtgagaatccagtatattcttcctggctgaacccccagtcaatgttttac Alignment from Exonerate_protein2genome AGTCTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG cacaaggtttacgagaatgttttgtctcctgctttcatTTTCTGAAACAGCTACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGGGGTCTTTACTTTCCCAGTGGAGGGTGGTTG---ACAGACTATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCAGGTGACTCTAGCCgtgagaatccagtatattcttcctggctgaacccccagtcaatgttttac Alignment from Exonerate_coding2genome AGTCTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG cacaaggtttacgagaatgttttgtctcctgctttcatTTTCTGAAACAGCTACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGGGGTCTTTACTTTCCCAGTGGAGGGTGGTTG---ACAGACTATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCAGGTGACTCTAGCCgtgagaatccagtatattcttcctggctgaacccccagtcaatgttttac Alignment from GeneWise ----------------------AAGTCTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG cacaaggtttacgagAATGTTTTGTCTCCTGCTTTCATTTTCTGAAACAGCTACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATTCTCGGGGTCTTTACTTTCCCAGTGGAGGGTGGTTG---ACAGACTATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCAGGTGACTCTAGCCgtgagaatccagtatattcttcctggctgaacccccagtcaatgttttac #### Gbf1_ID9800_19 --> 0 - 0 Original Alignment ---AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcattatgaggtgttacacagtggcttctgtcgtctctagTGCAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCTTAGCCTATGGTGCCATCATGCTGAACACTGACCAGCATAACCACAATGTTCGAAAGCAGAATGCATCCATGACTCTAGAAgtaagtacagaatagctgtctaacttcagaagtcaggtgacttgtggcaa Alignment from CESAR ---AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcattatgaggtgttacacagtggcttctgtcgtctctagTGCAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCTTAGCCTATGGTGCCATCATGCTGAACACTGACCAGCATAACCACAATGTTCGAAAGCAGAATGCATCCATGACTCTAGAAgtaagtacagaatagctgtctaacttcagaagtcaggtgacttgtggcaa Alignment from Spaln_aa2Genome AGTTGTAAT---GGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcattatgaggtgttacacagtggcttctgtcgtctctagTGCAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCTTAGCCTATGGTGCCATCATGCTGAACACTGACCAGCATAACCACAATGTTCGAAAGCAGAATGCATCCATGACTCTAGAAgtaagtacagaatagctgtctaacttcagaagtcaggtgacttgtggcaa Alignment from Spaln_nt2Genome AGTTGTAATGGCT---CCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcattatgaggtgttacacagtggcttctgtcgtctctagTGCAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCTTAGCCTATGGTGCCATCATGCTGAACACTGACCAGCATAACCACAATGTTCGAAAGCAGAATGCATCCATGACTCTAGAAgtaagtacagaatagctgtctaacttcagaagtcaggtgacttgtggcaa Alignment from Pairagon ---AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcattatgaggtgttacacagtggcttctgtcgtctctagTGCAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCTTAGCCTATGGTGCCATCATGCTGAACACTGACCAGCATAACCACAATGTTCGAAAGCAGAATGCATCCATGACTCTAGAAgtaagtacagaatagctgtctaacttcagaagtcaggtgacttgtggcaa Alignment from Exonerate_protein2genome ---AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcattatgaggtgttacacagtggcttctgtcgtctctagTGCAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCTTAGCCTATGGTGCCATCATGCTGAACACTGACCAGCATAACCACAATGTTCGAAAGCAGAATGCATCCATGACTCTAGAAgtaagtacagaatagctgtctaacttcagaagtcaggtgacttgtggcaa Alignment from Exonerate_coding2genome ---AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcattatgaggtgttacacagtggcttctgtcgtctctagTGCAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCTTAGCCTATGGTGCCATCATGCTGAACACTGACCAGCATAACCACAATGTTCGAAAGCAGAATGCATCCATGACTCTAGAAgtaagtacagaatagctgtctaacttcagaagtcaggtgacttgtggcaa Alignment from GeneWise ---AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ggtaaaaatttcattatgaggtgttacacagtggcttctgtcgtctctagTGCAGCTGCAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTCTGCCTTAGCCTATGGTGCCATCATGCTGAACACTGACCAGCATAACCACAATGTTCGAAAGCAGAATGCATCCATGACTCTAGAAgtaagtacagaatagctgtctaacttcagaagtcaggtgacttgtggcaa #### Gbf1_ID9803_22 --> 1 - 0 Original Alignment gAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ctggtaaatgtgcaccaggtgtttctgtgcgtccttatttccccttttagg---TGTGCCACAATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtaagaaattaacaagtaaactagtcagaggccaatgctccacctcctcc Alignment from CESAR gAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ggcctggtaaatgtgcaccaggtgttgtgcgtccttatttccccttttagg---TGTGCCACAATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtaagaaattaacaagtaaactagtcagaggccaatgctccacctcctcc Alignment from Spaln_aa2Genome GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ctggtaaatgtgcaccaggtgtttctgtgcgtccttatttccccttttagGTGTGCCACAATC---TCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtaagaaattaacaagtaaactagtcagaggccaatgctccacctcctcc Alignment from Spaln_nt2Genome GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ctggtaaatgtgcaccaggtgtttctgtgcgtccttatttccccttttag---GTGTGCCACAATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtaagaaattaacaagtaaactagtcagaggccaatgctccacctcctcc Alignment from Pairagon GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ctggtaaatgtgcaccaggtgtttctgtgcgtccttatttccccttttag---GTGTGCCACAATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtaagaaattaacaagtaaactagtcagaggccaatgctccacctcctcc Alignment from Exonerate_protein2genome GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ctggtaaatgtgcaccaggtgtttctgtgcgtccttatttccccttttagG---TGTGCCACAATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtaagaaattaacaagtaaactagtcagaggccaatgctccacctcctcc Alignment from Exonerate_coding2genome GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ctggtaaatgtgcaccaggtgtttctgtgcgtccttatttccccttttagG---TGTGCCACAATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtaagaaattaacaagtaaactagtcagaggccaatgctccacctcctcc Alignment from GeneWise GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG ctggtaaatgtgcaccaggtgtttctgtgcgtccttatttccccttttagG---TGTGCCACAATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTTTAAGTAGTGAGgtaagaaattaacaagtaaactagtcagaggccaatgctccacctcctcc #### Gbf1_ID9807_26 --> 0 - 0 Original Alignment ------CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttctttgcttatcatagtacttttccttctttttaagTACGAGCAGTGTGACCCAGAAAAGATGATCACGGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtgggttgtgaacagatcgtggaaagatagaatcttactggtgcagtgca Alignment from CESAR ------CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttctttgcttatcatagtacttttccttctttttaagTACGAGCAGTGTGACCCAGAAAAGATGATCACGGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtgggttgtgaacagatcgtggaaagatagaatcttactggtgcagtgca Alignment from Spaln_aa2Genome CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttctttgcttatcatagtacttttccttctttttaagtacgagCAGTGTGACCCAGAAAAGATGATCACGGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtgggttgtgaacagatcgtggaaagatagaatcttactggtgcagtgca Alignment from Spaln_nt2Genome CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttctttgcttatcatagtacttttccttctttttaagtacgagCAGTGTGACCCAGAAAAGATGATCACGGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtgggttgtgaacagatcgtggaaagatagaatcttactggtgcagtgca Alignment from Pairagon CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttctttgcttatcatagtacttttccttctttttaagtacgagCAGTGTGACCCAGAAAAGATGATCACGGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtgggttgtgaacagatcgtggaaagatagaatcttactggtgcagtgca Alignment from Exonerate_protein2genome CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttctttgcttatcatagtacttttccttctttttaagtacgagCAGTGTGACCCAGAAAAGATGATCACGGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtgggttgtgaacagatcgtggaaagatagaatcttactggtgcagtgca Alignment from Exonerate_coding2genome CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttctttgcttatcatagtacttttccttctttttaagtacgagCAGTGTGACCCAGAAAAGATGATCACGGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtgggttgtgaacagatcgtggaaagatagaatcttactggtgcagtgca Alignment from GeneWise CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cttgccctgaactttctttgcttatcatagtacttttccttctttttaagtacgagCAGTGTGACCCAGAAAAGATGATCACGGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAACTCATGAAGgtgggttgtgaacagatcgtggaaagatagaatcttactggtgcagtgca #### Gbf1_ID9815_34 --> 2 - 0 Original Alignment ga---ATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG actcaaacacacacttgatgacttacacctcccctacttctatgttaaaggaGGAATTGCTTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACATATCTACAGCACGCACTTCTCGTGCCCGATCTGCAGAAACTGGATGCCCTGGAGTGGGAATCTTGTTCTAACAAGgtaagtcttcaagtggacagcagtccaaataaccctgcctgggctcaaga Alignment from CESAR ga---ATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG actcaaacacacacttgatgacttacacctcccctacttctatgttaaaggaGGAATTGCTTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACATATCTACAGCACGCACTTCTCGTGCCCGATCTGCAGAAACTGGATGCCCTGGAGTGGGAATCTTGTTCTAACAAGgtaagtcttcaagtggacagcagtccaaataaccctgcctgggctcaaga Alignment from Spaln_aa2Genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG actcaaacacacacttgatgacttacacctcccctacttctatgttaaaggagGAATTGCTTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACATATCTACAGCACGCACTTCTCGTGCCCGATCTGCAGAAACTGGATGCCCTGGAGTGGGAATCTTGTTCTAACAAGgtaagtcttcaagtggacagcagtccaaataaccctgcctgggctcaaga Alignment from Spaln_nt2Genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG actcaaacacacacttgatgacttacacctcccctacttctatgttaaaggagGAATTGCTTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACATATCTACAGCACGCACTTCTCGTGCCCGATCTGCAGAAACTGGATGCCCTGGAGTGGGAATCTTGTTCTAACAAGgtaagtcttcaagtggacagcagtccaaataaccctgcctgggctcaaga Alignment from Pairagon GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG actcaaacacacacttgatgacttacacctcccctacttctatgttaaaggagGAATTGCTTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACATATCTACAGCACGCACTTCTCGTGCCCGATCTGCAGAAACTGGATGCCCTGGAGTGGGAATCTTGTTCTAACAAGgtaagtcttcaagtggacagcagtccaaataaccctgcctgggctcaaga Alignment from Exonerate_protein2genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG actcaaacacacacttgatgacttacacctcccctacttctatgttaaaggagGAATTGCTTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACATATCTACAGCACGCACTTCTCGTGCCCGATCTGCAGAAACTGGATGCCCTGGAGTGGGAATCTTGTTCTAACAAGgtaagtcttcaagtggacagcagtccaaataaccctgcctgggctcaaga Alignment from Exonerate_coding2genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG actcaaacacacacttgatgacttacacctcccctacttctatgttaaaggagGAATTGCTTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACATATCTACAGCACGCACTTCTCGTGCCCGATCTGCAGAAACTGGATGCCCTGGAGTGGGAATCTTGTTCTAACAAGgtaagtcttcaagtggacagcagtccaaataaccctgcctgggctcaaga Alignment from GeneWise --GGAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG actcaaacacacacttgatgacttacacctcccctacttctatgttaaagGAGGAATTGCTTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACATATCTACAGCACGCACTTCTCGTGCCCGATCTGCAGAAACTGGATGCCCTGGAGTGGGAATCTTGTTCTAACAAGgtaagtcttcaagtggacagcagtccaaataaccctgcctgggctcaaga #### Gbf1_ID9818_37 --> 0 - 1 Original Alignment TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGg agtctccattcaaaacactacttctcctcattgaaattctttccacccagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCTCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTC------ggtaccttcatgcgcagatttgataaccaagcactttactcacagaactac Alignment from CESAR TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGg agtctccattcaaaacactacttctcctcattgaaattctttccacccagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCTCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTC------ggtaccttcatgcgcagatttgataaccaagcactttactcacagaactac Alignment from Spaln_aa2Genome TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTC- agtctccattcaaaacactacttctcctcattgaaattctttccacccagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCTCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTCGgtaccttcatgcgcagatttgataaccaagcactttactcacagaactac Alignment from Spaln_nt2Genome TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCA agtctccattcaaaacactacttctcctcattgaaattctttccacccagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCTCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTCGgtaccttcatgcgcagatttgataaccaagcactttactcacagaactac Alignment from Pairagon TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtctccattcaaaacactacttctcctcattgaaattctttccacccagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCTCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTC------Ggtaccttcatgcgcagatttgataaccaagcactttactcacagaactac Alignment from Exonerate_protein2genome TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCA agtctccattcaaaacactacttctcctcattgaaattctttccacccagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCTCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTCGgtaccttcatgcgcagatttgataaccaagcactttactcacagaactac Alignment from Exonerate_coding2genome TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCA agtctccattcaaaacactacttctcctcattgaaattctttccacccagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCTCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTCGgtaccttcatgcgcagatttgataaccaagcactttactcacagaactac Alignment from GeneWise TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTC- agtctccattcaaaacactacttctcctcattgaaattctttccacccagACAGAAGCTATCCCTGAGTCTCTGAAGAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCAGATGCAAGAGGAGGAGGTCCTACTGCTCTCTGGGAGATCACATGGGAGCGCATTGTATGCTTCTTGCCACACTTGCGTGATGAACTCTTCAAGCAGACTGTCGgtaccttcatgcgcagatttgataaccaagcactttactcacagaactac #### Gif_ID3278_2 --> 2 - 1 Original Alignment ctGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCA---------g gtcattctgtggagcagcacacatgtagacacctgttcctatccttgcagctGTTCCCCCAGATCAGCAGCCTTGGGTTGAGGGCTTACAAACACTCATGGAAAATTCAGTGACTGACTCTGACTTCCCAAACCCAACCATG---ATTGCCAAGAACCTGGCTGGTGCATACATTGTGGAACCTCAAAAACTCCTGACTTACCAGCTAATGGCCAGTGACAGTGCAGTTTCACCAggtaccgcactaagggcacatcctcaccctgagtctctcatgctcacccaa Alignment from CESAR ctGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCA---------g gtcattctgtggagcagcacacatgtagacacctgttcctatccttgcagctGTTCCCCCAGATCAGCAGCCTTGGGTTGAGGGCTTACAAACACTCATGGAAAATTCAGTGACTGACTCTGACTTCCCAAACCCAACC---ATGATTGCCAAGAACCTGGCTGGTGCATACATTGTGGAACCTCAAAAACTCCTGACTTACCAGCTAATGGCCAGTGACAGTGCAGTTTCACCAggtaccgcactaagggcacatcctcaccctgagtctctcatgctcacccaa Alignment from Spaln_aa2Genome CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCA---------G gtcattctgtggagcagcacacatgtagacacctgttcctatccttgcagCTGTTCCCCCAGATCAGCAGCCTTGGGTTGAGGGCTTACAAACACTCATGGAAAATTCAGTGACTGACTCTGACTTCCCAAACCCAACCATG---ATTGCCAAGAACCTGGCTGGTGCATACATTGTGGAACCTCAAAAACTCCTGACTTACCAGCTAATGGCCAGTGACAGTGCAGTTTCACCAGgtaccgcactaagggcacatcctcaccctgagtctctcatgctcacccaa Alignment from Spaln_nt2Genome CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG--------- gtcattctgtggagcagcacacatgtagacacctgttcctatccttgcagCTGTTCCCCCAGATCAGCAGCCTTGGGTTGAGGGCTTACAAACACTCATGGAAAATTCAGTGACTGACTCTGACTTCCCAAACCCAACCA---TGATTGCCAAGAACCTGGCTGGTGCATACATTGTGGAACCTCAAAAACTCCTGACTTACCAGCTAATGGCCAGTGACAGTGCAGTTTCACCAGgtaccgcactaagggcacatcctcaccctgagtctctcatgctcacccaa Alignment from Pairagon CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG--------- gtcattctgtggagcagcacacatgtagacacctgttcctatccttgcagCTGTTCCCCCAGATCAGCAGCCTTGGGTTGAGGGCTTACAAACACTCATGGAAAATTCAGTGACTGACTCTGACTTCCCAAACCCAACCA---TGATTGCCAAGAACCTGGCTGGTGCATACATTGTGGAACCTCAAAAACTCCTGACTTACCAGCTAATGGCCAGTGACAGTGCAGTTTCACCAGgtaccgcactaagggcacatcctcaccctgagtctctcatgctcacccaa Alignment from Exonerate_protein2genome CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG gtcattctgtggagcagcacacatgtagacacctgttcctatccttgcagCTGTTCCCCCAGATCAGCAGCCTTGGGTTGAGGGCTTACAAACACTCATGGAAAATTCAGTGACTGACTCTGACTTCCCAAACCCAACC---ATGATTGCCAAGAACCTGGCTGGTGCATACATTGTGGAACCTCAAAAACTCCTGACTTACCAGCTAATGGCCAGTGACAGTGCAGtttcaccaggtaccgcactaagggcacatcctcaccctgagtctctcatgctcacccaa Alignment from Exonerate_coding2genome CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG gtcattctgtggagcagcacacatgtagacacctgttcctatccttgcagCTGTTCCCCCAGATCAGCAGCCTTGGGTTGAGGGCTTACAAACACTCATGGAAAATTCAGTGACTGACTCTGACTTCCCAAACCCAACC---ATGATTGCCAAGAACCTGGCTGGTGCATACATTGTGGAACCTCAAAAACTCCTGACTTACCAGCTAATGGCCAGTGACAGTGCAGtttcaccaggtaccgcactaagggcacatcctcaccctgagtctctcatgctcacccaa Alignment from GeneWise CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCA---------G gtcattctgtggagcagcacacatgtagacacctgttcctatccttgcagCTGTTCCCCCAGATCAGCAGCCTTGGGTTGAGGGCTTACAAACACTCATGGAAAATTCAGTGACTGACTCTGACTTCCCAAACCCAACC---ATGATTGCCAAGAACCTGGCTGGTGCATACATTGTGGAACCTCAAAAACTCCTGACTTACCAGCTAATGGCCAGTGACAGTGCAGTTTCACCAGgtaccgcactaagggcacatcctcaccctgagtctctcatgctcacccaa #### Gldc_ID6401_14 --> 0 - 0 Original Alignment GGATCCTGCACCATGAAGCTCAATAGCTCCTCCGAACTTGCA--------- ggtcatagcaagcattactgggtatgtcttctcttctctccttactgcagGGATCTTGCACCATGAAGCTCAATAGCTCAGCTGAGCTTGGTAGTTCTTCAgtgagtcccagtcattaccatatgatgtcatactcacttcgtgagtgcag Alignment from CESAR GGATCCTGCACCATGAAGCTCAATAGCTCCTCCGAACTT---------GCA ggtcatagcaagcattactgggtatgtcttctcttctctccttactgcagGGATCTTGCACCATGAAGCTCAATAGCTCAGCTGAGCTTGGTAGTTCTTCAgtgagtcccagtcattaccatatgatgtcatactcacttcgtgagtgcag Alignment from Spaln_aa2Genome GGATCCTGCACCATGAAGCTCAATAGCTCCTCCGAACTT---------GCA ggtcatagcaagcattactgggtatgtcttctcttctctccttactgcagGGATCTTGCACCATGAAGCTCAATAGCTCAGCTGAGCTTGGTAGTTCTTCAgtgagtcccagtcattaccatatgatgtcatactcacttcgtgagtgcag Alignment from Spaln_nt2Genome GGATCCTGCACCATGAAGCTCAATAGCTCCTCCGAACTTG ggtcatagcaagcattactgggtatgtcttctcttctctccttactgcagGGATCTTGCACCATGAAGCTCAATAGCTCAGCTGAGCTTGgtagttcttcagtgagtcccagtcattaccatatgatgtcatactcacttcgtgagtgcag Alignment from Pairagon GGATCCTGCACCATGAAGCTCAATAGCTCCTCCGAACTTG---------CA ggtcatagcaagcattactgggtatgtcttctcttctctccttactgcagGGATCTTGCACCATGAAGCTCAATAGCTCAGCTGAGCTTGGTAGTTCTTCAgtgagtcccagtcattaccatatgatgtcatactcacttcgtgagtgcag Alignment from Exonerate_protein2genome GGATCCTGCACCATGAAGCTCAATAGCTCCTCCGAACTTG ggtcatagcaagcattactgggtatgtcttctcttctctccttactgcagGGATCTTGCACCATGAAGCTCAATAGCTCAGCTGAGCTTGgtagttcttcagtgagtcccagtcattaccatatgatgtcatactcacttcgtgagtgcag Alignment from Exonerate_coding2genome GGATCCTGCACCATGAAGCTCAATAGCTCCTCCGAACTTG ggtcatagcaagcattactgggtatgtcttctcttctctccttactgcagGGATCTTGCACCATGAAGCTCAATAGCTCAGCTGAGCTTGgtagttcttcagtgagtcccagtcattaccatatgatgtcatactcacttcgtgagtgcag Alignment from GeneWise GGATCCTGCACCATGAAGCTCAATAGCTCCTCCGAACTTGCA--------- ggtcatagcaagcattactgggtatgtcttctcttctctccttactgcagGGATCTTGCACCATGAAGCTCAATAGCTCAGCTGAGCTTGGTAGTTCTTCAgtgagtcccagtcattaccatatgatgtcatactcacttcgtgagtgcag #### Gpam_ID11543_6 --> 1 - 0 Original Alignment gCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG--- gtgcccattctccggctatcgtgacgcactcttggcactgtgtgttgtaggTTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGCCCgtaagatctgaatttaaaaacctgagggaaggtgtgcattactggatgtt Alignment from CESAR gCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG--- gtgcccattctccggctatcgtgacgcactcttggcactgtgtgttgtaggTTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGCCCgtaagatctgaatttaaaaacctgagggaaggtgtgcattactggatgtt Alignment from Spaln_aa2Genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG--- gtgcccattctccggctatcgtgacgcactcttggcactgtgtgttgtagGTTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGCCCgtaagatctgaatttaaaaacctgagggaaggtgtgcattactggatgtt Alignment from Spaln_nt2Genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAGACG gtgcccattctccggctatcgtgacgcactcttggcactgtgtgttgtagGTTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGCCCgtaagatctgaatttaaaaacctgagggaaggtgtgcattactggatgtt Alignment from Pairagon GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG--- gtgcccattctccggctatcgtgacgcactcttggcactgtgtgttgtagGTTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGCCCgtaagatctgaatttaaaaacctgagggaaggtgtgcattactggatgtt Alignment from Exonerate_protein2genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG--- gtgcccattctccggctatcgtgacgcactcttggcactgtgtgttgtagGTTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGCCCgtaagatctgaatttaaaaacctgagggaaggtgtgcattactggatgtt Alignment from Exonerate_coding2genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG--- gtgcccattctccggctatcgtgacgcactcttggcactgtgtgttgtagGTTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGCCCgtaagatctgaatttaaaaacctgagggaaggtgtgcattactggatgtt Alignment from GeneWise GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAGACG gtgcccattctccggctatcgtgacgcactcttggcactgtgtgttgtagGTTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGCCCgtaagatctgaatttaaaaacctgagggaaggtgtgcattactggatgtt #### Gpr137_ID1885_6 --> 0 - 2 Original Alignment AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCag aggttgcagcagaagggcggaacaccggtcggtattttttctgacatcagAGCACCAGTCAAATCCTTAATGGCCAAGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATAGCTGCTCCGGGGAGCACAGCCAAAGCAAG------aggtaaggtttttgaccctgacctttaccccaataggagaggcctaagtaga Alignment from CESAR AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCag aggttgcagcagaagggcggaacaccggtcggtattttttctgacatcagAGCACCAGTCAAATCCTTAATGGCCAAGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATAGCTGCTCCGGGGAGCACAGCCAAAGCAAG------aggtaaggtttttgaccctgacctttaccccaataggagaggcctaagtaga Alignment from Spaln_aa2Genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAG aggttgcagcagaagggcggaacaccggtcggtattttttctgacatcagAGCACCAGTCAAATCCTTAATGGCCAAGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATAGCTGCTCCGGGGAGCACAGCCAAAGCAAGAGgtaaggtttttgaccctgacctttaccccaataggagaggcctaagtaga Alignment from Spaln_nt2Genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAG aggttgcagcagaagggcggaacaccggtcggtattttttctgacatcagAGCACCAGTCAAATCCTTAATGGCCAAGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATAGCTGCTCCGGGGAGCACAGCCAAAGCAAGAGgtaaggtttttgaccctgacctttaccccaataggagaggcctaagtaga Alignment from Pairagon AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAG aggttgcagcagaagggcggaacaccggtcggtattttttctgacatcagAGCACCAGTCAAATCCTTAATGGCCAAGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATAGCTGCTCCGGGGAGCACAGCC------AAAGCAAGAGgtaaggtttttgaccctgacctttaccccaataggagaggcctaagtaga Alignment from Exonerate_protein2genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAG aggttgcagcagaagggcggaacaccggtcggtattttttctgacatcagAGCACCAGTCAAATCCTTAATGGCCAAGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATAGCTGCTCCGGGGAGCACAGCCAAAGCAAGAGgtaaggtttttgaccctgacctttaccccaataggagaggcctaagtaga Alignment from Exonerate_coding2genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAG aggttgcagcagaagggcggaacaccggtcggtattttttctgacatcagAGCACCAGTCAAATCCTTAATGGCCAAGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATAGCTGCTCCGGGGAGCACAGCCAAAGCAAGAGgtaaggtttttgaccctgacctttaccccaataggagaggcctaagtaga Alignment from GeneWise AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAG aggttgcagcagaagggcggaacaccggtcggtattttttctgacatcagAGCACCAGTCAAATCCTTAATGGCCAAGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATAGCTGCTCCGGGGAGCACAGCCAAAGCAAGAGgtaaggtttttgaccctgacctttaccccaataggagaggcctaagtaga #### Gpr137_ID1887_4 --> 0 - 0 Original Alignment GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG gtagacatacctagaaactcaggaccccctccccgccccgccccatacagGGGACAAGTGTATGTCAGGTGGCTGCAATAGGG---ACCATGATCTTGATTTATGCCAGCCGGGCCTGCTATAACCTGGCAGCCCTGGCCTTGGCACCTCGGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTATCA------gtactggaacggtacacattattccgggctgacaaggctgcacattagtg Alignment from CESAR GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG gtagacatacctagaaactcaggaccccctccccgccccgccccatacagGGGACAAGTGTATGTCAGGTGGCTGCAATAGGG---ACCATGATCTTGATTTATGCCAGCCGGGCCTGCTATAACCTGGCAGCCCTGGCCTTGGCACCTCGGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTATCA------gtactggaacggtacacattattccgggctgacaaggctgcaca Alignment from Spaln_aa2Genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCT gtagacatacctagaaactcaggaccccctccccgccccgccccatacagGGGACAAGTGTATGTCAGGTGGCTGCAATA---GGGACCATGATCTTGATTTATGCCAGCCGGGCCTGCTATAACCTGGCAGCCCTGGCCTTGGCACCTCGGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTATCAgtactggaacggtacacattattccgggctgacaaggctgcacattagtg Alignment from Spaln_nt2Genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAGG---- gtagacatacctagaaactcaggaccccctccccgccccgccccatacagGGGACAAGTGTATGTCAGGTGGCTGCAATAGGG---ACCATGATCTTGATTTATGCCAGCCGGGCCTGCTATAACCTGGCAGCCCTGGCCTTGGCACCTCGGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTATCAGTACTGGAACGgtacacattattccgggctgacaaggctgcacattagtg Alignment from Pairagon GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTG------------------------------------------------- gtagacatacctagaaactcaggaccccctccccgccccgccccatacagGGGACAAGTGTATGTCAGGTGGCTGCAATAGGG---ACCATGATCTTGATTTATGCCAGCCGGGCCTGCTATAACCTGGCAGCCCTGGCCTTGGCACCTCGGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTATCAGTACTGGAACGGTACACATTATTCCGGGCTGACAAGGCTGCACATTAGTG Alignment from Exonerate_protein2genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG gtagacatacctagaaactcaggaccccctccccgccccgccccatacagGGGACAAGTGTATGTCAGGTGGCTGCAATA---GGGACCATGATCTTGATTTATGCCAGCCGGGCCTGCTATAACCTGGCAGCCCTGGCCTTGGCACCTCGGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTATCAGTACTGgaacggtacacattattccgggctgacaaggctgcacattagtg Alignment from Exonerate_coding2genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG gtagacatacctagaaactcaggaccccctccccgccccgccccatacagGGGACAAGTGTATGTCAGGTGGCTGCAATA---GGGACCATGATCTTGATTTATGCCAGCCGGGCCTGCTATAACCTGGCAGCCCTGGCCTTGGCACCTCGGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTATCAGTACTGgaacggtacacattattccgggctgacaaggctgcacattagtg Alignment from GeneWise GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG gtagacatacctagaaactcaggaccccctccccgccccgccccatacagGGGACAAGTGTATGTCAGGTGGCTGCAATAGGG---ACCATGATCTTGATTTATGCCAGCCGGGCCTGCTATAACCTGGCAGCCCTGGCCTTGGCACCTCGGAGTCGGCTAGATGCCTTTGATTATGACTGGTATAATGTA------TCAgtactggaacggtacacattattccgggctgacaaggctgcacattagtg #### Gpr137_ID1888_3 --> 1 - 0 Original Alignment g---CTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtacagccactgcagtgagggtgtccaattgcctcgtatttctcgacaggGGCCTGGCTGTTCGAGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACGACAACCCTGGATTCTTTTACTGGTACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGT------GCTCTTGCTGCATGCCTCTGCCTTGTAGCCCGTCGTGCCCCGACCACCAGTATCTACTTAGATGCAAAGgtaagggtgccatatagatgcggcattgttggatttgtggacagagtact Alignment from CESAR g---CTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtacagccactgcagtgagggtgtccaattgcctcgtatttctcgacaggGGCCTGGCTGTTCGAGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACGACAACCCTGGATTCTTTTACTGGTACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGCATGCCTCTGCCTTGTAGCCCGTCGTGCCCCGACCACCAGTATCTACTTAGATGCAAAGgtaagggtgccatatagatgcggcattgttggatttgtggacagagtact Alignment from Spaln_aa2Genome GCTGGCTGTCCGA---GGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtacagccactgcagtgagggtgtccaattgcctcgtatttctcgacagGGGCCTGGCTGTTCGAGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACGACAACCCTGGATTCTTTTACTGGTACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGCATGCCTCTGCCTTGTAGCCCGTCGTGCCCCGACCACCAGTATCTACTTAGATGCAAAGgtaagggtgccatatagatgcggcattgttggatttgtggacagagtact Alignment from Spaln_nt2Genome G---CTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtacagccactgcagtgagggtgtccaattgcctcgtatttctcgacagGGGCCTGGCTGTTCGAGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACGACAACCCTGGATTCTTTTACTGGTACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTG------CTCTTGCTGCATGCCTCTGCCTTGTAGCCCGTCGTGCCCCGACCACCAGTATCTACTTAGATGCAAAGgtaagggtgccatatagatgcggcattgttggatttgtggacagagtact Alignment from Pairagon G---CTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtacagccactgcagtgagggtgtccaattgcctcgtatttctcgacagGGGCCTGGCTGTTCGAGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACGACAACCCTGGATTCTTTTACTGGTACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGCATGCCTCTGCCTTGTAGCCCGTCGTGCCCCGACCACCAGTATCTACTTAGATGCAAAGgtaagggtgccatatagatgcggcattgttggatttgtggacagagtact Alignment from Exonerate_protein2genome G---CTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtacagccactgcagtgagggtgtccaattgcctcgtatttctcgacagGGGCCTGGCTGTTCGAGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACGACAACCCTGGATTCTTTTACTGGTACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGCATGCCTCTGCCTTGTAGCCCGTCGTGCCCCGACCACCAGTATCTACTTAGATGCAAAGgtaagggtgccatatagatgcggcattgttggatttgtggacagagtact Alignment from Exonerate_coding2genome CCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTTGCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtacagccactgcagTGAGGGTGTCCAATTGCCTCGTATTTCTCGACAGGGGCCTGGCTGTTCGAGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACGACAACCCTGGATTCTTTTACTGGTACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCT------CTTGCTGCATGCCTCTGCCTTGTAGCCCGTCGTGCCCCGACCACCAGTATCTACTTAGATGCAAAGgtaagggtgccatatagatgcggcattgttggatttgtggacagagtact Alignment from GeneWise -TTGCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtacagccactgcagtgagggtgtccaattgcctcgtatttctcgacagGGGCCTGGCTGTTCGAGGTGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTGGTGAATGTACTGTGTGCAGTTCTGTCATGCCAGCGTCAACGACAACCCTGGATTCTTTTACTGGTACATGTCTTGGTAAGTGACTCTCTCTTTGTCATCTGTGCTCTT------GCTGCATGCCTCTGCCTTGTAGCCCGTCGTGCCCCGACCACCAGTATCTACTTAGATGCAAAGgtaagggtgccatatagatgcggcattgttggatttgtggacagagtact #### Gpr137_ID1889_2 --> 0 - 2 Original Alignment GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCtt ggtaagctcacacataaaaaaaagccctccccgtcctatttcttctgcag------TTTAAGGCCAAAGCTAAGCGTCGACCTGCAATGAGCCGGGGActgtgggtataagaccttactggcagtgaggccgtggatgagatatggggaa Alignment from CESAR GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCtt aggaagggtaagctcacacataaaacctccccgtcctatttcttctgcag------TTTAAGGCCAAAGCTAAGCGTCGACCTGCAATGAGCCGGGGActgtgggtataagaccttactggcagtgaggccgtggatgagatatggggaa Alignment from Spaln_aa2Genome GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT ggtaagctcacacataaaaaaaagccctccccgtcctatttcttctgcag------TTTAAGGCCAAAGCTAAGCGTCGACCTGCAATGAGCCGGGGACTgtgggtataagaccttactggcagtgaggccgtggatgagatatggggaa Alignment from Spaln_nt2Genome GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT ggtaagctcacacataaaaaaaagccctccccgtcctatttcttctgcag------TTTAAGGCCAAAGCTAAGCGTCGACCTGCAATGAGCCGGGGACTgtgggtataagaccttactggcagtgaggccgtggatgagatatggggaa Alignment from Pairagon GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT ggtaagctcacacataaaaaaaagccctccccgtcctatttcttctgcag------TTTAAGGCCAAAGCTAAGCGTCGACCTGCAATGAGCCGGGGACTgtgggtataagaccttactggcagtgaggccgtggatgagatatggggaa Alignment from Exonerate_protein2genome GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT ggtaagctcacacataaaaaaaagccctccccgtcctatttcttCTGCAGTTTAAGGCCAAAGCTAAGCGTCGACCTGCAATGAGCCGGGGACTgtgggtataagaccttactggcagtgaggccgtggatgagatatggggaa Alignment from Exonerate_coding2genome ggtaagctcacacataaaaaaaagccctccccgtcctatttcttctgcagtttaaggccaaagctaagcgtcgacctgcaatgagccggggactgtgggtataagaccttactggcagtgaggccgtggatgagatatggggaa Alignment from GeneWise TTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT ggtaagctcacacataaaaaaaagccctccccgtcctatttcttctgcagTTTAAGGCCAAAGCTAAGCGTCGACCTGCAATGAGCCGGGGACTgtgggtataagaccttactggcagtgaggccgtggatgagatatggggaa #### Hells_ID7708_15 --> 0 - 0 Original Alignment ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG------------ tcagtaattcaaaattctattgctgcaataaaagtttacatatattgcagAATGATGAAGAGTTTGTAACAAATTCTGGGAAGTTCTTGATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGCGGTCACACTCAgtaagaatggctagaatttgtgctgtccagtgtaatatggatcagtctag Alignment from CESAR ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG------------ tcagtaattcaaaattctattgctgcaataaaagtttacatatattgcagAATGATGAAGAGTTTGTAACAAATTCTGGGAAGTTCTTGATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGCGGTCACACTCAgtaagaatggctagaatttgtgctgtccagtgtaatatggatcagtctag Alignment from Spaln_aa2Genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG------------ tcagtaattcaaaattctattgctgcaataaaagtttacatatattgcagAATGATGAAGAGTTTGTAACAAATTCTGGGAAGTTCTTGATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGCGGTCACACTCAgtaagaatggctagaatttgtgctgtccagtgtaatatggatcagtctag Alignment from Spaln_nt2Genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG-- tcagtaattcaaaattctattgctgcaataaaagtttacatatattgcagAATGATGAAGAGTTTGTAACAAATTCTGGGAAGTTCTTGATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGCGgtcacactcagtaagaatggctagaatttgtgctgtccagtgtaatatggatcagtctag Alignment from Pairagon ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG------------ tcagtaattcaaaattctattgctgcaataaaagtttacatatattgcagAATGATGAAGAGTTTGTAACAAATTCTGGGAAGTTCTTGATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGCGGTCACACTCAgtaagaatggctagaatttgtgctgtccagtgtaatatggatcagtctag Alignment from Exonerate_protein2genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG tcagtaattcaaaattctattgctgcaataaaagtttacatatattgcagAATGATGAAGAGTTTGTAACAAATTCTGGGAAGTTCTTGATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGcggtcacactcagtaagaatggctagaatttgtgctgtccagtgtaatatggatcagtctag Alignment from Exonerate_coding2genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG tcagtaattcaaaattctattgctgcaataaaagtttacatatattgcagAATGATGAAGAGTTTGTAACAAATTCTGGGAAGTTCTTGATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGcggtcacactcagtaagaatggctagaatttgtgctgtccagtgtaatatggatcagtctag Alignment from GeneWise ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG-------------------------------------------------------------- tcagtaattcaaaattctattgctgcaataaaagtttacatatattgcagAATGATGAAGAGTTTGTAACAAATTCTGGGAAGTTCTTGATTTCAGATCGAATGCTGCCAGAACTTAAGAAAAGAGGTCATAAGCGGTCACACTCAGTAAGAATGGCTAGAATTTGTGCTGTCCAGTGTAATATGGATCAGTCTAG #### Hnrnpul2_ID2400_4 --> 2 - 0 Original Alignment at------ACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttgtagtgacgtataccccttctcgtctgcagatTACCTAACATCTGATCTGCACTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCAGAAAAATTCCCTACCCTTTGGTCTGGGGCAAGAAGTACCTATGGTGTAACAAAGGGGAAAGTATGCTTTGAAGCTAGGgtatgtcactagcttcagtgggacaaagtatgctagcttgttcctcactc Alignment from CESAR at------ACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttgtagtgacgtataccccttctcgtctgcagatTACCTAACATCTGATCTGCACTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCAGAAAAATTCCCTACCCTTTGGTCTGGGGCAAGAAGTACCTATGGTGTAACAAAGGGGAAAGTATGCTTTGAAGCTAGGgtatgtcactagcttcagtgggacaaagtatgctagcttgttcctcactc Alignment from Spaln_aa2Genome AT------ACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttgtagtgacgtataccccttctcgtctgcagATTACCTAACATCTGATCTGCACTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCAGAAAAATTCCCTACCCTTTGGTCTGGGGCAAGAAGTACCTATGGTGTAACAAAGGGGAAAGTATGCTTTGAAGCTAGGgtatgtcactagcttcagtgggacaaagtatgctagcttgttcctcactc Alignment from Spaln_nt2Genome AT------ACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttgtagtgacgtataccccttctcgtctgcagATTACCTAACATCTGATCTGCACTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCAGAAAAATTCCCTACCCTTTGGTCTGGGGCAAGAAGTACCTATGGTGTAACAAAGGGGAAAGTATGCTTTGAAGCTAGGgtatgtcactagcttcagtgggacaaagtatgctagcttgttcctcactc Alignment from Pairagon AT------ACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttgtagtgacgtataccccttctcgtctgcagATTACCTAACATCTGATCTGCACTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCAGAAAAATTCCCTACCCTTTGGTCTGGGGCAAGAAGTACCTATGGTGTAACAAAGGGGAAAGTATGCTTTGAAGCTAGGgtatgtcactagcttcagtgggacaaagtatgctagcttgttcctcactc Alignment from Exonerate_protein2genome AT------ACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttgtagtgacgtataccccttctcgtctgcagATTACCTAACATCTGATCTGCACTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCAGAAAAATTCCCTACCCTTTGGTCTGGGGCAAGAAGTACCTATGGTGTAACAAAGGGGAAAGTATGCTTTGAAGCTAGGgtatgtcactagcttcagtgggacaaagtatgctagcttgttcctcactc Alignment from Exonerate_coding2genome AT------ACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttgtagtgacgtataccccttctcgtctgcagATTACCTAACATCTGATCTGCACTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCAGAAAAATTCCCTACCCTTTGGTCTGGGGCAAGAAGTACCTATGGTGTAACAAAGGGGAAAGTATGCTTTGAAGCTAGGgtatgtcactagcttcagtgggacaaagtatgctagcttgttcctcactc Alignment from GeneWise -----TATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cctcttcagcactgaatgttgtagtgacgtataccccttctcgtctgcagATTACCTAACATCTGATCTGCACTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGTTCTCAGAAAAATTCCCTACCCTTTGGTCTGGGGCAAGAAGTACCTATGGTGTAACAAAGGGGAAAGTATGCTTTGAAGCTAGGgtatgtcactagcttcagtgggacaaagtatgctagcttgttcctcactc #### Hnrnpul2_ID2404_8 --> 0 - 0 Original Alignment ------GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtaggaaacctaataatgcttctaatccttcctttctttcatctccagTCCCACGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtgagtaattggcgaggtctgattagcagaattggcagaggtcatagccc Alignment from CESAR ------GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtaggaaacctaataatgcttctaatccttcctttctttcatctccagTCCCACGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtgagtaattggcgaggtctgattagcagaattggcagaggtcatagccc Alignment from Spaln_aa2Genome GTGATTCTGATGGTG------GGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtaggaaacctaataatgcttctaatccttcctttctttcatctccagTCCCACGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtgagtaattggcgaggtctgattagcagaattggcagaggtcatagccc Alignment from Spaln_nt2Genome GTGATTCTGATG------GTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtaggaaacctaataatgcttctaatccttcctttctttcatctccagTCCCACGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtgagtaattggcgaggtctgattagcagaattggcagaggtcatagccc Alignment from Pairagon ------GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtaggaaacctaataatgcttctaatccttcctttctttcatctccagTCCCACGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtgagtaattggcgaggtctgattagcagaattggcagaggtcatagccc Alignment from Exonerate_protein2genome GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtaggaaacctaataatgcttctaatccttcctttctttcatctccagtcccacGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtgagtaattggcgaggtctgattagcagaattggcagaggtcatagccc Alignment from Exonerate_coding2genome GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtaggaaacctaataatgcttctaatccttcctttctttcatctccagtcccacGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtgagtaattggcgaggtctgattagcagaattggcagaggtcatagccc Alignment from GeneWise ------GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tagtaggaaacctaataatgcttctaatccttcctttctttcatctccagTCCCACGTGATTCTGATGGTGGGAGTCCCTGGATCAGCAAAGACGCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTCCTCACGCAAATGAGGgtgagtaattggcgaggtctgattagcagaattggcagaggtcatagccc #### Hnrnpul2_ID2408_12 --> 2 - 0 Original Alignment tg------------------------GGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG caaattatttctttgtgaatctgcaatatgttttgatttatcttctgaagtgATTTATTACTTGACCTACATCCTTGGTGGGCAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGCCTGGAACCAGAGGGgtgagtgcacacccttcttcactcctccctccaccctgtgaaggaattgg Alignment from CESAR tg------------------------GGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG caaattatttctttgtgaatctgcaatatgttttgatttatcttctgaagtgATTTATTACTTGACCTACATCCTTGGTGGGCAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGCCTGGAACCAGAGGGgtgagtgcacacccttcttcactcctccctccaccctgtgaaggaattgg Alignment from Spaln_aa2Genome TG------------------------GGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG caaattatttctttgtgaatctgcaatatgttttgatttatcttctgaagTGATTTATTACTTGACCTACATCCTTGGTGGGCAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGCCTGGAACCAGAGGGgtgagtgcacacccttcttcactcctccctccaccctgtgaaggaattgg Alignment from Spaln_nt2Genome CGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG caaattatttctttgtgaatctgcaatatgttttgatttatcttctgaagtgatttattacttgacctacatccttggtgggcagCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGCCTGGAACCAGAGGGgtgagtgcacacccttcttcactcctccctccaccctgtgaaggaattgg Alignment from Pairagon TG------------------------GGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG caaattatttctttgtgaatctgcaatatgttttgatttatcttctgaagTGATTTATTACTTGACCTACATCCTTGGTGGGCAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGCCTGGAACCAGAGGGgtgagtgcacacccttcttcactcctccctccaccctgtgaaggaattgg Alignment from Exonerate_protein2genome TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG caaattatttctttgtgaatctgcaatatgttttgatttatcttctgaagtgatttattacttgacctacatccTTGGTGGGCAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGCCTGGAACCAGAGGGgtgagtgcacacccttcttcactcctccctccaccctgtgaaggaattgg Alignment from Exonerate_coding2genome TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG caaattatttctttgtgaatctgcaatatgttttgatttatcttctgaagtgatttattacttgacctacatccTTGGTGGGCAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGCCTGGAACCAGAGGGgtgagtgcacacccttcttcactcctccctccaccctgtgaaggaattgg Alignment from GeneWise -----------------------GTGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG caaattatttctttgtgaatctgcaatatgttttgatttatcttctgaagTGATTTATTACTTGACCTACATCCTTGGTGGGCAGCACCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGCCTGGAACCAGAGGGgtgagtgcacacccttcttcactcctccctccaccctgtgaaggaattgg #### Hoga1_ID8380_3 --> 2 - 0 Original Alignment ccACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG tggaaatagacctatccaattgtggttgcctctcttttcactacttgcagccATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTCGGTGCTGATGTGGCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCAGTGCAGCAATTATTCACCAC---------gtaagaaggtggacgagtaatggttgaaatgtgctgtagatcttgattgg Alignment from CESAR ccACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG tggaaatagacctatccaattgtggttgcctctcttttcactacttgcagccATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTCGGTGCTGATGTGGCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCAGTGCAGCAATTATTCACCAC---------gtaagaaggtggacgagtaatggttgaaatgtgctgtagat Alignment from Spaln_aa2Genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCAC tggaaatagacctatccaattgtggttgcctctcttttcactacttgcagCCATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTCGGTGCTGATGTGGCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCAGTGCAGCAATTATTCACCACgtaagaaggtggacgagtaatggttgaaatgtgctgtagatcttgattgg Alignment from Spaln_nt2Genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG tggaaatagacctatccaattgtggttgcctctcttttcactacttgcagCCATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTCGGTGCTGATGTGGCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCAGTGCAGCAATTATTCACCAC-GTAAGAAGgtggacgagtaatggttgaaatgtgctgtagatcttgattg Alignment from Pairagon CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCAC tggaaatagacctatccaattgtggttgcctctcttttcactacttgcagCCATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTCGGTGCTGATGTGGCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCAGTGCAGCAATTATTCACCACgtaagaaggtggacgagtaatggttgaaatgtgctgtagatcttgattgg Alignment from Exonerate_protein2genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCAC tggaaatagacctatccaattgtggttgcctctcttttcactacttgcagCCATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTCGGTGCTGATGTGGCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCAGTGCAGCAATTATTCACCACgtaagaaggtggacgagtaatggttgaaatgtgctgtagatcttgattgg Alignment from Exonerate_coding2genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCAC tggaaatagacctatccaattgtggttgcctctcttttcactacttgcagCCATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTCGGTGCTGATGTGGCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCAGTGCAGCAATTATTCACCACgtaagaaggtggacgagtaatggttgaaatgtgctgtagatcttgattgg Alignment from GeneWise CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCAC tggaaatagacctatccaattgtggttgcctctcttttcactacttgcagCCATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTCGGTGCTGATGTGGCCATGGTGGTGACTCCATGTTACTATCATGGCCATATGAGCAGTGCAGCAATTATTCACCACgtaagaaggtggacgagtaatggttgaaatgtgctgtagatcttgattgg #### Hoga1_ID8381_4 --> 0 - 0 Original Alignment GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT--------- ataaacaagggttaagactgcaaatggcttatgtgtctgcttcttttcagATTGCTGACGTTTCCCCAATCCCTGTAGTATTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATGGCCGGTTGgtaatgctttgcagcatccaatttgcccaaacacccaccaccccaggtcg Alignment from CESAR GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT--------- ataaacaagggttaagactgcaaatggcttatgtgtctgcttcttttcagATTGCTGACGTTTCCCCAATCCCTGTAGTATTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATGGCCGGTTGgtaatgctttgcagcatccaatttgcccaaacacccaccaccccaggtcg Alignment from Spaln_aa2Genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT--------- ataaacaagggttaagactgcaaatggcttatgtgtctgcttcttttcagATTGCTGACGTTTCCCCAATCCCTGTAGTATTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATGGCCGGTTGgtaatgctttgcagcatccaatttgcccaaacacccaccaccccaggtcg Alignment from Spaln_nt2Genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT- ataaacaagggttaagactgcaaatggcttatgtgtctgcttcttttcagATTGCTGACGTTTCCCCAATCCCTGTAGTATTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATGgccggttggtaatgctttgcagcatccaatttgcccaaacacccaccaccccaggtcg Alignment from Pairagon GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT--------- ataaacaagggttaagactgcaaatggcttatgtgtctgcttcttttcagATTGCTGACGTTTCCCCAATCCCTGTAGTATTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATGGCCGGTTGgtaatgctttgcagcatccaatttgcccaaacacccaccaccccaggtcg Alignment from Exonerate_protein2genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaagggttaagactgcaaatggcttatgtgtctgcttcttttcagATTGCTGACGTTTCCCCAATCCCTGTAGTATTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATggccggttggtaatgctttgcagcatccaatttgcccaaacacccaccaccccaggtcg Alignment from Exonerate_coding2genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT ataaacaagggttaagactgcaaatggcttatgtgtctgcttcttttcagATTGCTGACGTTTCCCCAATCCCTGTAGTATTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATggccggttggtaatgctttgcagcatccaatttgcccaaacacccaccaccccaggtcg Alignment from GeneWise GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT--------- ataaacaagggttaagactgcaaatggcttatgtgtctgcttcttttcagATTGCTGACGTTTCCCCAATCCCTGTAGTATTATACAGTGTCCCAGCCAATACAGGGCTAGAGCTACCTGTGGATGCTGTGGTCACATTGTCTCAACACCCAAATATTATTGGCCTGAAGGACAGTGGTGGAGATGGCCGGTTGgtaatgctttgcagcatccaatttgcccaaacacccaccaccccaggtcg #### Hps1_ID8616_12 --> 0 - 2 Original Alignment AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGga tttgtggggaacactctcttatgtagttctaacttctggtctctttctagAATGCCTGGCTGGAGTTTAAGAGTAAAGCCTTTTCTAAGGGTCAGCCAGGTTCATCC---gagtaggtagtctataaaatcaaagcttatgcacagtcatttgccttgtttt Alignment from CESAR AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGga tttgtggggaacactctcttatgtagttctaacttctggtctctttctagAATGCCTGGCTGGAGTTTAAGAGTAAAGCCTTTTCTAAGGGTCAGCCAGGTTCATCC---gagtaggtagtctataaaatcaaagcttatgcacagtcatttgccttgtttt Alignment from Spaln_aa2Genome AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTG tttgtggggaacactctcttatgtagttctaacttctggtctctttctagAATGCCTGGCTGGAGTTTAAGAGTAAAGCCTTTTCTAAGGGTCAGCCAGGTTCATCCGAgtaggtagtctataaaatcaaagcttatgcacagtcatttgccttgtttt Alignment from Spaln_nt2Genome AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGGA tttgtggggaacactctcttatgtagttctaacttctggtctctttctagAATGCCTGGCTGGAGTTTAAGAGTAAAGCCTTTTCTAAGGGTCAGCCAGGTTCATCC---GAgtaggtagtctataaaatcaaagcttatgcacagtcatttgccttgtttt Alignment from Pairagon AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGGA tttgtggggaacactctcttatgtagttctaacttctggtctctttctagAATGCCTGGCTGGAGTTTAAGAGTAAAGCCTTTTCTAAGGGTCAGCCAGGTTCATCC---GAgtaggtagtctataaaatcaaagcttatgcacagtcatttgccttgtttt Alignment from Exonerate_protein2genome AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGGA tttgtggggaacactctcttatgtagttctaacttctggtctctttctagAATGCCTGGCTGGAGTTTAAGAGTAAAGCCTTTTCTAAGGGTCAGCCAGGTTCATCCGAGTAggtagtctataaaatcaaagcttatgcacagtcatttgccttgtttt Alignment from Exonerate_coding2genome AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGGA tttgtggggaacactctcttatgtagttctaacttctggtctctttctagAATGCCTGGCTGGAGTTTAAGAGTAAAGCCTTTTCTAAGGGTCAGCCAGGTTCATCCGAGTAggtagtctataaaatcaaagcttatgcacagtcatttgccttgtttt Alignment from GeneWise AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTG tttgtggggaacactctcttatgtagttctaacttctggtctctttctagAATGCCTGGCTGGAGTTTAAGAGTAAAGCCTTTTCTAAGGGTCAGCCAGGTTCATCCGAgtaggtagtctataaaatcaaagcttatgcacagtcatttgccttgtttt #### Hps1_ID8617_11 --> 0 - 0 Original Alignment ------AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG tgtgttatcccatgccctgggtgccccacagcttgtgtgtcttctgatagTGGCTGAGCCCTGGTGCCCCACTGACCCAAATTCTATGCCAACTGCTGGATGGATTCTCACTTCTGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGCAGTGCCTTACGATCCCAGCCCTTTGTGACTGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTTCAGgtagtttctcagaactaatgtggaccaattttggaggaccctgactaggg Alignment from CESAR ------AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG tgtgttatcccatgccctgggtgccccacagcttgtgtgtcttctgatagTGGCTGAGCCCTGGTGCCCCACTGACCCAAATTCTATGCCAACTGCTGGATGGATTCTCACTTCTGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGCAGTGCCTTACGATCCCAGCCCTTTGTGACTGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTTCAGgtagtttctcagaactaatgtggaccaattttggaggaccctgactaggg Alignment from Spaln_aa2Genome ----AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG tgtgttatcccatgccctgggtgccccacagcttgtgtgtcttctgatagTGGCTGAGCCCTGGTGCCCCACTGACCCAAATTCTATGCCAACTGCTGGATGGATTCTCACTTCTGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGCAGTGCCTTACGATCCCAGCCCTTTGTGACTGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTTCAGgtagtttctcagaactaatgtggaccaattttggaggaccctgactaggg Alignment from Spaln_nt2Genome ------AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG tgtgttatcccatgccctgggtgccccacagcttgtgtgtcttctgatagTGGCTGAGCCCTGGTGCCCCACTGACCCAAATTCTATGCCAACTGCTGGATGGATTCTCACTTCTGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGCAGTGCCTTACGATCCCAGCCCTTTGTGACTGACCCACACCAGAACA---ACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTTCAGgtagtttctcagaactaatgtggaccaattttggaggaccctgactaggg Alignment from Pairagon -------------------------AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG tgtgttatcccatgccctgggtgccccacagCTTGTGTGTCTTCTGATAGTGGCTGAGCCCTGGTGCCCCACTGACCCAAATTCTATGCCAACTGCTGGATGGATTCTCACTTCTGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGCAGTGCCTTACGATCCCAGCCCTTTGTGACTGACCCACACCAGAACA---ACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTTCAGgtagtttctcagaactaatgtggaccaattttggaggaccctgactaggg Alignment from Exonerate_protein2genome AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG tgtgttatcccatgccctgggtgccccacagcttgtgtgtcttctgatagtggctgAGCCCTGGTGCCCCACTGACCCAAATTCTATGCCAACTGCTGGATGGATTCTCACTTCTGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGCAGTGCCTTACGATCCCAGCCCTTTGTGACTGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTTCAGgtagtttctcagaactaatgtggaccaattttggaggaccctgactaggg Alignment from Exonerate_coding2genome AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG tgtgttatcccatgccctgggtgccccacagcttgtgtgtcttctgatagtggctgAGCCCTGGTGCCCCACTGACCCAAATTCTATGCCAACTGCTGGATGGATTCTCACTTCTGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGCAGTGCCTTACGATCCCAGCCCTTTGTGACTGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTTCAGgtagtttctcagaactaatgtggaccaattttggaggaccctgactaggg Alignment from GeneWise ------AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG tgtgttatcccatgccctgggtgccccacagcttgtgtgtcttctgatagTGGCTGAGCCCTGGTGCCCCACTGACCCAAATTCTATGCCAACTGCTGGATGGATTCTCACTTCTGGAGAAAAGGTTGAAGGAGGGCCAGGAGGCTGGCAGTGCCTTACGATCCCAGCCCTTTGTGACTGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGGTTCAGgtagtttctcagaactaatgtggaccaattttggaggaccctgactaggg #### Hps1_ID8620_8 --> 0 - 1 Original Alignment GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAg ataaggtggtctggaatgtccctttgtgctccttttttttctctctctag------------AATTCC---CCTGAAGAGTATTTCACTCCTTCTCCTTCCCCAAGT------GGTCCAggtgagtgtagcaggtgtgttgccccgttgtgtcacttagatatgttcaga Alignment from CESAR GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAg gaagatgttataaggtggtctggaagtgctccttttttttctctctctagAATTCC---------------CCTGAAGAGTATTTCACTCCTTCTCCTTCCCCAAGT------GGTCCAggtgagtgtagcaggtgtgttgccccgttgtgtcacttagatatgttcaga Alignment from Spaln_aa2Genome GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAGGTA ataaggtggtctggaatgtccctttgtgctccttttttttctctctctagAATTCC---------------CCTGAAGAGTATTTCACTCCTTCTCCTTCCCCAAGTGGTCCAGGTGAGTGTAgcaggtgtgttgccccgttgtgtcacttagatatgttcaga Alignment from Spaln_nt2Genome GCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAG ataaggtggtctggaatgtccctttgtgctccttttttttctctctctagAATTC-----CCCTGAAGAGTATTTCACTCCTTCTCCTTCCCCAAGTG------GTCCAGgtgagtgtagcaggtgtgttgccccgttgtgtcacttagatatgttcaga Alignment from Pairagon GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAG ataaggtggtctggaatgtccctttgtgctccttttttttctctctctagAATTC---------------CCCTGAAGAGTATTTCACTCCTTCTCCTTCCCCAAGTG------GTCCAGgtgagtgtagcaggtgtgttgccccgttgtgtcacttagatatgttcaga Alignment from Exonerate_protein2genome CTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAGGTAGCCT ataaggtggtctggaatgtccctttgtgctccttttttttctctctctaGAATTCCCCTGAAGAGTATTTCACTCCTTCTCCTTCCCCAAGTGGTCCAGGTGAGTGTAGCAGgtgtgttgccccgttgtgtcacttagatatgttcaga Alignment from Exonerate_coding2genome TCTGGCTGGATGGTGGCACCCCGCCCAGCGATGCTCTTCAGATGGCTGAGGACACCCCCGAGGGGCTGGCGTCTCACTCCCCAGAACTTCCCAGCCCCA ATAAGGTGGTCTGGAATGTCCCTTTGTGCTCCTTTTTTTTCTCTCTCTAGAATTCCCCTGAAGAGTATTTCACTCCTTCTCCTTCCCCAAGTGGTCCAGgtgagtgtagcaggtgtgttgccccgttgtgtcacttagatatgttcaga Alignment from GeneWise GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAG ataaggtggtctggaatgtccctttgtgctccttttttttctctctctagAATTCC---------------CCTGAAGAGTATTTCACTCCTTCTCCTTCCCCAAGTGGTCCAGGTGAGTgtagcaggtgtgttgccccgttgtgtcacttagatatgttcaga #### Hps1_ID8621_7 --> 0 - 0 Original Alignment AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tgtgccatgctattctgctccgtcattagagccactttactttgcactagAGGCGTCCAAAGAGTAGCCAAAACATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCT---------------------gtgagacctaggctgtaagcagcaaggtgctacgtctcgagtaaataggg Alignment from CESAR AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tgtgccatgctattctgctccgtcattagagccactttactttgcactagAGGCGTCCAAAGAGTAGCCAAAACATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCT---------------------gtgagacctaggctgtaagcagcaaggtg Alignment from Spaln_aa2Genome AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCC tgtgccatgctattctgctccgtcattagagccactttactttgcactagAGGCGTCCAAAGAGTAGCCAAAACATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTgtgagacctaggctgtaagcagcaaggtgctacgtctcgagtaaataggg Alignment from Spaln_nt2Genome AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAG-GAGTTCCAGGGAGACAGACA tgtgccatgctattctgctccgtcattagagccactttactttgcactagAGGCGTCCAAAGAGTAGCCAAAACATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGT----ACCTGTGAGACCTAGGCTGTAAG-CAgcaaggtgctacgtctcgagtaaatagg Alignment from Pairagon AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACAGACACAGACAGCATCTCCCT tgtgccatgctattctgctccgtcattagagccactttactttgcactagAGGCGTCCAAAGAGTAGCCAAAACATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAG-----------------------------------------TACCTgtgagacctaggctgtaagcagcaaggtgctacgtctcgagtaaataggg Alignment from Exonerate_protein2genome AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCC tgtgccatgctattctgctccgtcattagagccactttactttgcactagAGGCGTCCAAAGAGTAGCCAAAACATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTgtgagacctaggctgtaagcagcaaggtgctacgtctcgagtaaataggg Alignment from Exonerate_coding2genome AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACAGACACAGACAGCATCTCCCTCCCTGAAGA tgtgccatgctattctgctccgtcattagagccactttactttgcactagAGGCGTCCAAAGAGTAGCCAAAACATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTGTGAGACCTAGGCTGTAAGCAGCAAGGTGCTACGTCTCGAGTAAATAGGG Alignment from GeneWise AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCC tgtgccatgctattctgctccgtcattagagccactttactttgcactagAGGCGTCCAAAGAGTAGCCAAAACATACCAGTGCCACAGGCCAGGAGCCAGAGTACCTCAGTACCTgtgagacctaggctgtaagcagcaaggtgctacgtctcgagtaaataggg #### Incenp_ID2605_14 --> 1 - 0 Original Alignment g---GAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttgttggaaactagcttcatttgtagacgagtggctcccttgctttgcaggGAAGAGATGCAAGAGAGAGAGAAGGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGGGGGAAAAGAAGCAGAAGgtaagagccttgtagacatatattctccacagtaaatctgatctggagca Alignment from CESAR g---GAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttgttggaaactagcttcatttgtagacgagtggctcccttgctttgcaggGAAGAGATGCAAGAGAGAGAGAAGGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGGGGGAAAAGAAGCAGAAGgtaagagccttgtagacatatattctccacagtaaatctgatctggagca Alignment from Spaln_aa2Genome AGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttgttggaaactagcttcatttgtagacgagtggctcccttgctttgcagggaagAGATGCAAGAGAGAGAGAAGGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGGGGGAAAAGAAGCAGAAGgtaagagccttgtagacatatattctccacagtaaatctgatctggagca Alignment from Spaln_nt2Genome GGAGATGCAGGA---GAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttgttggaaactagcttcatttgtagacgagtggctcccttgctttgcagGGAAGAGATGCAAGAGAGAGAGAAGGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGGGGGAAAAGAAGCAGAAGgtaagagccttgtagacatatattctccacagtaaatctgatctggagca Alignment from Pairagon G---GAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttgttggaaactagcttcatttgtagacgagtggctcccttgctttgcagGGAAGAGATGCAAGAGAGAGAGAAGGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGGGGGAAAAGAAGCAGAAGgtaagagccttgtagacatatattctccacagtaaatctgatctggagca Alignment from Exonerate_protein2genome G---GAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttgttggaaactagcttcatttgtagacgagtggctcccttgctttgcagGGAAGAGATGCAAGAGAGAGAGAAGGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGGGGGAAAAGAAGCAGAAGgtaagagccttgtagacatatattctccacagtaaatctgatctggagca Alignment from Exonerate_coding2genome G---GAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttgttggaaactagcttcatttgtagacgagtggctcccttgctttgcagGGAAGAGATGCAAGAGAGAGAGAAGGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGGGGGAAAAGAAGCAGAAGgtaagagccttgtagacatatattctccacagtaaatctgatctggagca Alignment from GeneWise AGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttgttggaaactagcttcatttgtagacgagtggctcccttgctttgcagggaagAGATGCAAGAGAGAGAGAAGGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGGGGGAAAAGAAGCAGAAGgtaagagccttgtagacatatattctccacagtaaatctgatctggagca #### Incenp_ID2608_11 --> 1 - 0 Original Alignment gAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG--------------- tgagcccctcagaagttacagaggctctattgctttcctttgcattgcaggAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAAATGAAAGAGGAGAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAATAGAAACTCGTAGTgtaaggctaccctataacacattaacacagggcagtgccttcctttggct Alignment from CESAR gAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG--------------- tgagcccctcagaagttacagaggctctattgctttcctttgcattgcaggAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAAATGAAAGAGGAGAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAATAGAAACTCGTAGTgtaaggctaccctataacacattaacacagggcagtgccttcctttggct Alignment from Spaln_aa2Genome GAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAGGCTAAG---G tgagcccctcagaagttacagaggctctattgctttcctttgcattgcagGAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAAATGAAAGAGGAGAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAATAGAAACTCgtagtgtaaggctaccctataacacattaacacagggcagtgccttcctttggct Alignment from Spaln_nt2Genome GAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG---GCTAAGG tgagcccctcagaagttacagaggctctattgctttcctttgcattgcagGAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAAATGAAAGAGGAGAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAATAGAAACTCgtagtgtaaggctaccctataacacattaacacagggcagtgccttcctttggct Alignment from Pairagon GAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG--------------- tgagcccctcagaagttacagaggctctattgctttcctttgcattgcagGAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAAATGAAAGAGGAGAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAATAGAAACTCGTAGTgtaaggctaccctataacacattaacacagggcagtgccttcctttggct Alignment from Exonerate_protein2genome GAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAG tgagcccctcagaagttacagaggctctattgctttcctttgcattgcagGAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAAATGAAAGAGGAGAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAatagaaactcgtagtgtaaggctaccctataacacattaacacagggcagtgccttcctttggct Alignment from Exonerate_coding2genome CTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAGGCTAAGGAGGAGCGTCTGGCAGAGAAGGCAAAGAAGAAGGCAACTGCC---AAGAAGATGGAAGAGGTAGAGGCACGAAGG CCTCAGAAGTTA------CAGAGGCTCTATTGCTTTCCTTTGCATTGCAGGAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAAATGAAAGAGGAGAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAATAGAAACTCGTAGTgtaaggctaccctataacacattaacacagggcagtgccttcctttggct Alignment from GeneWise GAAGCGTGAAGAGCGCCTCCGCAAGGTGTTGCAGGCCCGTGAGAGGGTGGAACAGATGAAGGAGGAAAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAGATTGATGAGAAGACAGAAAAGGCTAAGGAGGAGCGT tgagcccctcagaagttacagaggctctattgctttcctttgcattgcagGAAGCGTGAAGAGCGGCTCCGCAAGGTGTTGCAAGCCCGTGAGAGGGTAGAACAAATGAAAGAGGAGAAGAAGAAGCAGATTGAGCAGAAGTTTGCTCAAATTGATGAGAAGACAGAAAAAATAGAAACTCGTAGTgtaaggctaccctataacacattaacacagggcagtgccttcctttggct #### Jak2_ID6243_19 --> 2 - 0 Original Alignment gt---CGGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG tggactaactcatagtggcatataaaacactgctgcttcctgttttctaggtGCGAGGCACAATCTAAGATTAATTATGGAATATTTACCTTATGGAAGCCTACGAGACTATCTCCAAAAACATAAAGAACGAATAGATCACAAGAAACTCCTGCAATACACATCTCAGATATGCAAGgtaagcaccacttcacatcatttttggtgcagcatgcatgctgaatgcac Alignment from CESAR gt---CGGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG tggactaactcatagtggcatataaaacactgctgcttcctgttttctaggtGCGAGGCACAATCTAAGATTAATTATGGAATATTTACCTTATGGAAGCCTACGAGACTATCTCCAAAAACATAAAGAACGAATAGATCACAAGAAACTCCTGCAATACACATCTCAGATATGCAAGgtaagcaccacttcacatcatttttggtgcagcatgcatgctgaatgcac Alignment from Spaln_aa2Genome GCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG tggactaactcatagtggcatataaaacactgctgcttcctgttttctaggtgcgagGCACAATCTAAGATTAATTATGGAATATTTACCTTATGGAAGCCTACGAGACTATCTCCAAAAACATAAAGAACGAATAGATCACAAGAAACTCCTGCAATACACATCTCAGATATGCAAGgtaagcaccacttcacatcatttttggtgcagcatgcatgctgaatgcac Alignment from Spaln_nt2Genome GTC---GGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG tggactaactcatagtggcatataaaacactgctgcttcctgttttctagGTGCGAGGCACAATCTAAGATTAATTATGGAATATTTACCTTATGGAAGCCTACGAGACTATCTCCAAAAACATAAAGAACGAATAGATCACAAGAAACTCCTGCAATACACATCTCAGATATGCAAGgtaagcaccacttcacatcatttttggtgcagcatgcatgctgaatgcac Alignment from Pairagon GTC---GGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG tggactaactcatagtggcatataaaacactgctgcttcctgttttctagGTGCGAGGCACAATCTAAGATTAATTATGGAATATTTACCTTATGGAAGCCTACGAGACTATCTCCAAAAACATAAAGAACGAATAGATCACAAGAAACTCCTGCAATACACATCTCAGATATGCAAGgtaagcaccacttcacatcatttttggtgcagcatgcatgctgaatgcac Alignment from Exonerate_protein2genome GT---CGGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG tggactaactcatagtggcatataaaacactgctgcttcctgttttctagGTGCGAGGCACAATCTAAGATTAATTATGGAATATTTACCTTATGGAAGCCTACGAGACTATCTCCAAAAACATAAAGAACGAATAGATCACAAGAAACTCCTGCAATACACATCTCAGATATGCAAGgtaagcaccacttcacatcatttttggtgcagcatgcatgctgaatgcac Alignment from Exonerate_coding2genome GT---CGGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG tggactaactcatagtggcatataaaacactgctgcttcctgttttctagGTGCGAGGCACAATCTAAGATTAATTATGGAATATTTACCTTATGGAAGCCTACGAGACTATCTCCAAAAACATAAAGAACGAATAGATCACAAGAAACTCCTGCAATACACATCTCAGATATGCAAGgtaagcaccacttcacatcatttttggtgcagcatgcatgctgaatgcac Alignment from GeneWise GCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG tggactaactcatagtggcatataaaacactgctgcttcctgttttctaggtgcgagGCACAATCTAAGATTAATTATGGAATATTTACCTTATGGAAGCCTACGAGACTATCTCCAAAAACATAAAGAACGAATAGATCACAAGAAACTCCTGCAATACACATCTCAGATATGCAAGgtaagcaccacttcacatcatttttggtgcagcatgcatgctgaatgcac #### Kat5_ID1109_13 --> 1 - 0 Original Alignment tGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG--- gtggtagggtttccacagatggaaactgaatttttacttttcttacacagtGAGATTAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGATAgtaagtgggcataactaactagatgacacaacttgcttatacttaaacac Alignment from CESAR tGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG--- gtggtagggtttccacagatggaaactgaatttttacttttcttacacagtGAGATTAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGATAgtaagtgggcataactaactagatgacacaacttgcttatacttaaacac Alignment from Spaln_aa2Genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG--- gtggtagggtttccacagatggaaactgaatttttacttttcttacacagTGAGATTAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGATAgtaagtgggcataactaactagatgacacaacttgcttatacttaaacac Alignment from Spaln_nt2Genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG--- gtggtagggtttccacagatggaaactgaatttttacttttcttacacagTGAGATTAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGATAgtaagtgggcataactaactagatgacacaacttgcttatacttaaacac Alignment from Pairagon TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG--- gtggtagggtttccacagatggaaactgaatttttacttttcttacacagTGAGATTAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGATAgtaagtgggcataactaactagatgacacaacttgcttatacttaaacac Alignment from Exonerate_protein2genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtagggtttccacagatggaaactgaatttttacttttcttacacagTGAGATTAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGatagtaagtgggcataactaactagatgacacaacttgcttatacttaaacac Alignment from Exonerate_coding2genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG gtggtagggtttccacagatggaaactgaatttttacttttcttacacagTGAGATTAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGatagtaagtgggcataactaactagatgacacaacttgcttatacttaaacac Alignment from GeneWise TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAGGGC gtggtagggtttccacagatggaaactgaatttttacttttcttacacagTGAGATTAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACGCTGCAGTATCTCAACCTAATCAATTACTACAAGATAgtaagtgggcataactaactagatgacacaacttgcttatacttaaacac #### Kat5_ID1110_12 --> 2 - 2 Original Alignment gcTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCaa gtaccagggatgaaggtctgcagggccgctgtagcttctctgctcctcaggc---GAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCaagtgagtgaaagtgctaaccggggggatgtggtagggtttccacagatgga Alignment from CESAR gcTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCaa cctgtaccagggatgaaggtctgcaccgctgtagcttctctgctcctcaggc---GAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCaagtgagtgaaagtgctaaccggggggatgtggtagggtttccacagatgga Alignment from Spaln_aa2Genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA gtaccagggatgaaggtctgcagggccgctgtagcttctctgctcctcagGC---GAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtgagtgaaagtgctaaccggggggatgtggtagggtttccacagatgga Alignment from Spaln_nt2Genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA gtaccagggatgaaggtctgcagggccgctgtagcttctctgctcctcagGC---GAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtgagtgaaagtgctaaccggggggatgtggtagggtttccacagatgga Alignment from Pairagon GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA gtaccagggatgaaggtctgcagggccgctgtagcttctctgctcctcagGC---GAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtgagtgaaagtgctaaccggggggatgtggtagggtttccacagatgga Alignment from Exonerate_protein2genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA gtaccagggatgaaggtctgcagggccgctgtagcttctctgctcctcagGC---GAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtgagtgaaagtgctaaccggggggatgtggtagggtttccacagatgga Alignment from Exonerate_coding2genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA gtaccagggatgaaggtctgcagggccgctgtagcttctctgctcctcagGC---GAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtgagtgaaagtgctaaccggggggatgtggtagggtttccacagatgga Alignment from GeneWise GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA gtaccagggatgaaggtctgcagggccgctgtagcttctctgctcctcagGC---GAACTCTCAAAAGTAGATGGGAAGACTGGCACCCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtgagtgaaagtgctaaccggggggatgtggtagggtttccacagatgga #### Kat5_ID1111_11 --> 0 - 1 Original Alignment GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCa gtccatgtccctaccctccaacctgttcactgttccaatcttccccacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCCTACCAGCGGCGCGGCTATGGTAGGTTGCTTATTGAG---agtgagtaatatatgctatctgctcatggtctggtagctaaagagatgagg Alignment from CESAR GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCa gtccatgtccctaccctccaacctgttcactgttccaatcttccccacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCCTACCAGCGGCGCGGCTATGGTAGGTTGCTTATTGAG---agtgagtaatatatgctatctgctcatggtctggtagctaaagagatgagg Alignment from Spaln_aa2Genome GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAG- gtccatgtccctaccctccaacctgttcactgttccaatcttccccacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCCTACCAGCGGCGCGGCTATGGTAGGTTGCTTATTGAGAgtgagtaatatatgctatctgctcatggtctggtagctaaagagatgagg Alignment from Spaln_nt2Genome GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA gtccatgtccctaccctccaacctgttcactgttccaatcttccccacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCCTACCAGCGGCGCGGCTATGGTAGGTTGCTTATTGAG---Agtgagtaatatatgctatctgctcatggtctggtagctaaagagatgagg Alignment from Pairagon GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA gtccatgtccctaccctccaacctgttcactgttccaatcttccccacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCCTACCAGCGGCGCGGCTATGGTAGGTTGCTTATTGAG---Agtgagtaatatatgctatctgctcatggtctggtagctaaagagatgagg Alignment from Exonerate_protein2genome GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA gtccatgtccctaccctccaacctgttcactgttccaatcttccccacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCCTACCAGCGGCGCGGCTATGGTAGGTTGCTTATTGAG---Agtgagtaatatatgctatctgctcatggtctggtagctaaagagatgagg Alignment from Exonerate_coding2genome GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA gtccatgtccctaccctccaacctgttcactgttccaatcttccccacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCCTACCAGCGGCGCGGCTATGGTAGGTTGCTTATTGAG---Agtgagtaatatatgctatctgctcatggtctggtagctaaagagatgagg Alignment from GeneWise GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGT gtccatgtccctaccctccaacctgttcactgttccaatcttccccacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCCTACCAGCGGCGCGGCTATGGTAGGTTGCTTATTGAGAgtgagtaatatatgctatctgctcatggtctggtagctaaagagatgagg #### Kat5_ID1116_6 --> 0 - 0 Original Alignment AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG ctcataccagctcctgtgtcttctagcctaagtgattttgtttcttctagAAACGGAAGATTGAGGTAGTTTCGCCAACCAGTTTGGTGCCTAGTGAGACGGCTGCAGTCTCTGTTTTC------gtaaatgggtcacttcaaccgcttccttagagatagataagtttggtctt Alignment from CESAR AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG ctcataccagctcctgtgtcttctagcctaagtgattttgtttcttctagAAACGGAAGATTGAGGTAGTTTCGCCAACCAGTTTGGTGCCTAGTGAGACGGCTGCAGTCTCTGTTTTC------gtaaatgggtcacttcaaccgcttccttagagatagataagttt Alignment from Spaln_aa2Genome AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTC ctcataccagctcctgtgtcttctagcctaagtgattttgtttcttctagAAACGGAAGATTGAGGTAGTTTCGCCAACCAGTTTGGTGCCTAGTGAGACGGCTGCAGTCTCTGTTTTCgtaaatgggtcacttcaaccgcttccttagagatagataagtttggtctt Alignment from Spaln_nt2Genome AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTC ctcataccagctcctgtgtcttctagcctaagtgattttgtttcttctagAAACGGAAGATTGAGGTAGTTTCGCCAACCAGTTTGGTGCCTAGTGAGACGGCTGCAGTCTCTGTTTTCgtaaatgggtcacttcaaccgcttccttagagatagataagtttggtctt Alignment from Pairagon AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTC ctcataccagctcctgtgtcttctagcctaagtgattttgtttcttctagAAACGGAAGATTGAGGTAGTTTCGCCAACCAGTTTGGTGCCTAGTGAGACGGCTGCAGTCTCTGTTTTCgtaaatgggtcacttcaaccgcttccttagagatagataagtttggtctt Alignment from Exonerate_protein2genome AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG ctcataccagctcctgtgtcttctagcctaagtgattttgtttcttctagAAACGGAAGATTGAGGTAGTTTCGCCAACCAGTTTGGTGCCTAGTGAGACGGCTGCAGTCTCTGTTTTCGTAAATgggtcacttcaaccgcttccttagagatagataagtttggtctt Alignment from Exonerate_coding2genome ctcataccagctcctgtgtcttctagcctaagtgattttgtttcttctagaaacggaagattgaggtagtttcgccaaccagtttggtgcctagtgagacggctgcagtctctgttttcgtaaatgggtcacttcaaccgcttccttagagatagataagtttggtctt Alignment from GeneWise AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTC ctcataccagctcctgtgtcttctagcctaagtgattttgtttcttctagAAACGGAAGATTGAGGTAGTTTCGCCAACCAGTTTGGTGCCTAGTGAGACGGCTGCAGTCTCTGTTTTCgtaaatgggtcacttcaaccgcttccttagagatagataagtttggtctt #### Kcnip2_ID9604_8 --> 0 - 0 Original Alignment GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG------ ggagtgctatgctacccttaaccatttagagttttctggcttttcttcagGAGATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTATCCTGCACTCCGGGAGGAAGCCCCAAGAGAACACGTGGAGAGCTTCTTCCAACCAAATgtgactggtgtaactttcggatcagtgagacatgtctagtctaggagtta Alignment from CESAR GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG------ ggagtgctatgctacccttaaccatttagagttttctggcttttcttcagGAGATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTATCCTGCACTCCGGGAGGAAGCCCCAAGAGAACACGTGGAGAGCTTCTTCCAACCAAATgtgactggtgtaactttcggatcagtgagacatgtctagtctaggagtta Alignment from Spaln_aa2Genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG------ ggagtgctatgctacccttaaccatttagagttttctggcttttcttcagGAGATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTATCCTGCACTCCGGGAGGAAGCCCCAAGAGAACACGTGGAGAGCTTCTTCCAACCAAATgtgactggtgtaactttcggatcagtgagacatgtctagtctaggagtta Alignment from Spaln_nt2Genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG------ ggagtgctatgctacccttaaccatttagagttttctggcttttcttcagGAGATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTATCCTGCACTCCGGGAGGAAGCCCCAAGAGAACACGTGGAGAGCTTCTTCCAACCAAATgtgactggtgtaactttcggatcagtgagacatgtctagtctaggagtta Alignment from Pairagon GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG------ ggagtgctatgctacccttaaccatttagagttttctggcttttcttcagGAGATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTATCCTGCACTCCGGGAGGAAGCCCCAAGAGAACACGTGGAGAGCTTCTTCCAACCAAATgtgactggtgtaactttcggatcagtgagacatgtctagtctaggagtta Alignment from Exonerate_protein2genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ggagtgctatgctacccttaaccatttagagttttctggcttttcttcagGAGATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTATCCTGCACTCCGGGAGGAAGCCCCAAGAGAACACGTGGAGAGCTTCTTCCAAccaaatgtgactggtgtaactttcggatcagtgagacatgtctagtctaggagtta Alignment from Exonerate_coding2genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ggagtgctatgctacccttaaccatttagagttttctggcttttcttcagGAGATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTATCCTGCACTCCGGGAGGAAGCCCCAAGAGAACACGTGGAGAGCTTCTTCCAAccaaatgtgactggtgtaactttcggatcagtgagacatgtctagtctaggagtta Alignment from GeneWise GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAGAAGATG ggagtgctatgctacccttaaccatttagagttttctggcttttcttcagGAGATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTATCCTGCACTCCGGGAGGAAGCCCCAAGAGAACACGTGGAGAGCTTCTTCCAACCAAATgtgactggtgtaactttcggatcagtgagacatgtctagtctaggagtta #### Kcnip2_ID9606_6 --> 2 - 0 Original Alignment acTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG tagatatgaatccgctctgtgggtcaccttcacatcaagtctctttgcagac---------------ACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTTAGTTTTGAAgtaagacaagaaaaaagatgcactaaggaaaccaaccccgttaactgtgc Alignment from CESAR acTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG agagccaagggaacgtagatatgaaaccttcacatcaagtctctttgcagac---------------ACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTTAGTTTTGAAgtaagacaagaaaaaagatgcactaaggaaaccaaccccgttaactgtgc Alignment from Spaln_aa2Genome CAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG tagatatgaatccgctctgtgggtcaccttcacatcaagTCTCTTTGCAGACACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTTAGTTTTGAAgtaagacaagaaaaaagatgcactaaggaaaccaaccccgttaactgtgc Alignment from Spaln_nt2Genome ACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG tagatatgaatccgctctgtgggtcaccttcacatcaagtctctttgcagAC---ACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTTAGTTTTGAAgtaagacaagaaaaaagatgcactaaggaaaccaaccccgttaactgtgc Alignment from Pairagon ACTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG tagatatgaatccgctctgtgggtcaccttcacatcaagtctctttgcagAC---------------ACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTTAGTTTTGAAgtaagacaagaaaaaagatgcactaaggaaaccaaccccgttaactgtgc Alignment from Exonerate_protein2genome ACTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG tagatatgaatccgctctgtgggtcaccttcacatCAAGTCTCTTTGCAGACACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTTAGTTTTGAAgtaagacaagaaaaaagatgcactaaggaaaccaaccccgttaactgtgc Alignment from Exonerate_coding2genome ACTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG tagatatgaatccgctctgtgggtcaccttcacatCAAGTCTCTTTGCAGACACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTTAGTTTTGAAgtaagacaagaaaaaagatgcactaaggaaaccaaccccgttaactgtgc Alignment from GeneWise CAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG tagatatgaatccgctctgtgggtcaccttcacatcaagTCTCTTTGCAGACACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTTAGTTTTGAAgtaagacaagaaaaaagatgcactaaggaaaccaaccccgttaactgtgc #### Kcnip2_ID9607_5 --> 0 - 1 Original Alignment GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCCAAGGAg agcgccacattctgtgattggttatattccttactggtgctttgttttagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTTTATTCACAGTTCTTTCCA------ggtatgaacgggtcacaggcatagtgggaagatgtaaggacagcagagcca Alignment from CESAR GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCCAAGGAg agcgccacattctgtgattggttatattccttactggtgctttgttttagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTTTATTCACAGTTCTTTCCA------ggtatgaacgggtcacaggcatagtgggaagatgtaaggacagcagagcca Alignment from Spaln_aa2Genome GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCC- agcgccacattctgtgattggttatattccttactggtgctttgttttagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTTTATTCACAGTTCTTTCCAGgtatgaacgggtcacaggcatagtgggaagatgtaaggacagcagagcca Alignment from Spaln_nt2Genome GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCCAAGGAG agcgccacattctgtgattggttatattccttactggtgctttgttttagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTTTATTCACAGTTCTTTCC------AGgtatgaacgggtcacaggcatagtgggaagatgtaaggacagcagagcca Alignment from Pairagon GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCC-------------------------------------------------CCA agcgccacattctgtgattggttatattccttactggtgctttgttttagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTTTATTCACAGTTCTTTCCAGGTATGAACGGGTCACAGGCATAGTGGGAAGATGTAAGGACAGCAGAGCCA Alignment from Exonerate_protein2genome GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCC agcgccacattctgtgattggttatattccttactggtgctttgttttagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTTTATTCACAGTTCTTTCCAGgtatgaacgggtcacaggcatagtgggaagatgtaaggacagcagagcca Alignment from Exonerate_coding2genome GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCC agcgccacattctgtgattggttatattccttactggtgctttgttttagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTTTATTCACAGTTCTTTCCAGgtatgaacgggtcacaggcatagtgggaagatgtaaggacagcagagcca Alignment from GeneWise GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCC agcgccacattctgtgattggttatattccttactggtgctttgttttagGAATGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAGGTTTATTCACAGTTCTTTCCAGgtatgaacgggtcacaggcatagtgggaagatgtaaggacagcagagcca #### Kcnk4_ID1876_4 --> 0 - 1 Original Alignment ------AAGTGGCATGTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCg ctagggtctcctggtatcttgatggatgtcatcattctttttccttatagTTCGTGAAGTGGCATGTTCCACCAGGACTGGTCAGAAGCCTGTCTGCAGTGCTCTTCCTGTTAATTGGCTGCCTACTCTTTGTCCTGACTCCTACCTTCACATTGCCATACATGGAGAGCTCCAGCAAGTTGGATGCTATCTACTTTGTTATAGTAACTCTCACCAGTGTGGGCTTTGGTGATTATGTCCCGggtaagaccacccttgccttgcatttaatatttttttctttaatttatttg Alignment from CESAR ------AAGTGGCATGTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCg ctagggtctcctggtatcttgatggatgtcatcattctttttccttatagTTCGTGAAGTGGCATGTTCCACCAGGACTGGTCAGAAGCCTGTCTGCAGTGCTCTTCCTGTTAATTGGCTGCCTACTCTTTGTCCTGACTCCTACCTTCACATTGCCATACATGGAGAGCTCCAGCAAGTTGGATGCTATCTACTTTGTTATAGTAACTCTCACCAGTGTGGGCTTTGGTGATTATGTCCCGggtaagaccacccttgccttgcatttaatatttttttctttaatttatttg Alignment from Spaln_aa2Genome TTG---AAGTGGCATGTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCG ctagggtctcctggtatcttgatggatgtcatcattctttttccttatagTTCGTGAAGTGGCATGTTCCACCAGGACTGGTCAGAAGCCTGTCTGCAGTGCTCTTCCTGTTAATTGGCTGCCTACTCTTTGTCCTGACTCCTACCTTCACATTGCCATACATGGAGAGCTCCAGCAAGTTGGATGCTATCTACTTTGTTATAGTAACTCTCACCAGTGTGGGCTTTGGTGATTATGTCCCGGgtaagaccacccttgccttgcatttaatatttttttctttaatttatttg Alignment from Spaln_nt2Genome CAATC TTCTTGAAGTGGCATGTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCG CTAGGgtctcctggtatcttgatggatgtcatcattctttttccttatagTTCGTGAAGTGGCATGTTCCACCAGGACTGGTCAGAAGCCTGTCTGCAGTGCTCTTCCTGTTAATTGGCTGCCTACTCTTTGTCCTGACTCCTACCTTCACATTGCCATACATGGAGAGCTCCAGCAAGTTGGATGCTATCTACTTTGTTATAGTAACTCTCACCAGTGTGGGCTTTGGTGATTATGTCCCGGgtaagaccacccttgccttgcatttaatatttttttctttaatttatttg Alignment from Pairagon TTCTTGAAGTGGCATGTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCG ctagggtctcctggtatcttgatggatgtcatcattctttttccttatagTTCGTGAAGTGGCATGTTCCACCAGGACTGGTCAGAAGCCTGTCTGCAGTGCTCTTCCTGTTAATTGGCTGCCTACTCTTTGTCCTGACTCCTACCTTCACATTGCCATACATGGAGAGCTCCAGCAAGTTGGATGCTATCTACTTTGTTATAGTAACTCTCACCAGTGTGGGCTTTGGTGATTATGTCCCGGgtaagaccacccttgccttgcatttaatatttttttctttaatttatttg Alignment from Exonerate_protein2genome TTCTTGAAGTGGCATGTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCG ctagggtctcctggtatcttgatggatgtcatcattctttttccttatagTTCGTGAAGTGGCATGTTCCACCAGGACTGGTCAGAAGCCTGTCTGCAGTGCTCTTCCTGTTAATTGGCTGCCTACTCTTTGTCCTGACTCCTACCTTCACATTGCCATACATGGAGAGCTCCAGCAAGTTGGATGCTATCTACTTTGTTATAGTAACTCTCACCAGTGTGGGCTTTGGTGATTATGTCCCGGgtaagaccacccttgccttgcatttaatatttttttctttaatttatttg Alignment from Exonerate_coding2genome TTCTTGAAGTGGCATGTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCG ctagggtctcctggtatcttgatggatgtcatcattctttttccttatagTTCGTGAAGTGGCATGTTCCACCAGGACTGGTCAGAAGCCTGTCTGCAGTGCTCTTCCTGTTAATTGGCTGCCTACTCTTTGTCCTGACTCCTACCTTCACATTGCCATACATGGAGAGCTCCAGCAAGTTGGATGCTATCTACTTTGTTATAGTAACTCTCACCAGTGTGGGCTTTGGTGATTATGTCCCGGgtaagaccacccttgccttgcatttaatatttttttctttaatttatttg Alignment from GeneWise TGGCATGTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCG ctagggtctcctggtatcttgatggatgtcatcattctttttccttatagttcgtgaagTGGCATGTTCCACCAGGACTGGTCAGAAGCCTGTCTGCAGTGCTCTTCCTGTTAATTGGCTGCCTACTCTTTGTCCTGACTCCTACCTTCACATTGCCATACATGGAGAGCTCCAGCAAGTTGGATGCTATCTACTTTGTTATAGTAACTCTCACCAGTGTGGGCTTTGGTGATTATGTCCCGGgtaagaccacccttgccttgcatttaatatttttttctttaatttatttg #### Kif11_ID7318_8 --> 0 - 0 Original Alignment ---GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG agctgcaacttccacagttcaacaacttgctaactccctgttttccccagCGTGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTTAAGAGGGCACGGGAAGCTGGAAATATCAACCAATCCCTCTTAACTCTGGGAAGAGTAATTACTGCTCTCTTGGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCATCTTTCAATCTTGAAgtcagacaagtagtagccatggcacttgggaggcctctgcagccattgca Alignment from CESAR ---GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG agctgcaacttccacagttcaacaacttgctaactccctgttttccccagCGTGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTTAAGAGGGCACGGGAAGCTGGAAATATCAACCAATCCCTCTTAACTCTGGGAAGAGTAATTACTGCTCTCTTGGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCATCTTTCAATCTTGAAgtcagacaagtagtagccatggcacttgggaggcctctgcagccattgca Alignment from Spaln_aa2Genome ATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG agctgcaacttccacagttcaacaacttgctaactccctgttttccccagcgtgtagATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTTAAGAGGGCACGGGAAGCTGGAAATATCAACCAATCCCTCTTAACTCTGGGAAGAGTAATTACTGCTCTCTTGGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCATCTTTCAATCTTGAAgtcagacaagtagtagccatggcacttgggaggcctctgcagccattgca Alignment from Spaln_nt2Genome GTTGATCTTGCAGG---AAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG agctgcaacttccacagttcaacaacttgctaactccctgttttccccagCGTGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTTAAGAGGGCACGGGAAGCTGGAAATATCAACCAATCCCTCTTAACTCTGGGAAGAGTAATTACTGCTCTCTTGGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCATCTTTCAATCTTGAAgtcagacaagtagtagccatggcacttgggaggcctctgcagccattgca Alignment from Pairagon ---GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG agctgcaacttccacagttcaacaacttgctaactccctgttttccccagCGTGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTTAAGAGGGCACGGGAAGCTGGAAATATCAACCAATCCCTCTTAACTCTGGGAAGAGTAATTACTGCTCTCTTGGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCATCTTTCAATCTTGAAgtcagacaagtagtagccatggcacttgggaggcctctgcagccattgca Alignment from Exonerate_protein2genome GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG agctgcaacttccacagttcaacaacttgctaactccctgttttccccagcgtGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTTAAGAGGGCACGGGAAGCTGGAAATATCAACCAATCCCTCTTAACTCTGGGAAGAGTAATTACTGCTCTCTTGGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCATCTTTCAATCTTGAAgtcagacaagtagtagccatggcacttgggaggcctctgcagccattgca Alignment from Exonerate_coding2genome GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG agctgcaacttccacagttcaacaacttgctaactccctgttttccccagcgtGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTTAAGAGGGCACGGGAAGCTGGAAATATCAACCAATCCCTCTTAACTCTGGGAAGAGTAATTACTGCTCTCTTGGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCATCTTTCAATCTTGAAgtcagacaagtagtagccatggcacttgggaggcctctgcagccattgca Alignment from GeneWise ---GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG agctgcaacttccacagttcaacaacttgctaactccctgttttccccagCGTGTAGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGTTAAGAGGGCACGGGAAGCTGGAAATATCAACCAATCCCTCTTAACTCTGGGAAGAGTAATTACTGCTCTCTTGGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACTAGGACTTCTATAATTGCAACTATTTCACCAGCATCTTTCAATCTTGAAgtcagacaagtagtagccatggcacttgggaggcctctgcagccattgca #### Kif20b_ID6998_3 --> 0 - 0 Original Alignment GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG tctgactataaacacactctctcattagtggatgtatctgtccctttcag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCTCAGAGTATGCTTGGTCACTTGAGTCAGAAAAGCTCTGGCCAGGTA---CAGGAATTTAGT---------gtaggcatagggttttaaagtatggtggattgaccacattgaagcctcta Alignment from CESAR GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG tctgactataaacacactctctcattagtggatgtatctgtccctttcag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCTCAGAGTATGCTTGGTCACTTGAGTCAGAAAAGCTCTGGCCAGGTA---CAGGAATTTAGT---------gtaggcatagggttttaaagtatggtggattgaccacattg Alignment from Spaln_aa2Genome GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGT tctgactataaacacactctctcattagtggatgtatctgtccctttcag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCTCAGAGTATGCTTGGTCACTTGAGTCAGAAAAGCTCTGGCCAGGTA---CAGGAATTTAGTgtaggcatagggttttaaagtatggtggattgaccacattgaagcctcta Alignment from Spaln_nt2Genome GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGT tctgactataaacacactctctcattagtggatgtatctgtccctttcag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCTCAGAGTATGCTTGGTCACTTGAGTCAGAAAAGCTCTGGCCAGGT---ACAGGAATTTAGTgtaggcatagggttttaaagtatggtggattgaccacattgaagcctcta Alignment from Pairagon GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGT tctgactataaacacactctctcattagtggatgtatctgtccctttcag------GTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCTCAGAGTATGCTTGGTCACTTGAGTCAGAAAAGCTCTGGCCAGGT---ACAGGAATTTAGTgtaggcatagggttttaaagtatggtggattgaccacattgaagcctcta Alignment from Exonerate_protein2genome GTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTT tctgactataaacacactctctcattagtggatgtatctgtccctttcagGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCTCAGAGTATGCTTGGTCACTTGAGTCAGAAAAGCTCTGGCCAGGTA---CAGGAATTTAGTGTAGgcatagggttttaaagtatggtggattgaccacattgaagcctcta Alignment from Exonerate_coding2genome GTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTT tctgactataaacacactctctcattagtggatgtatctgtccctttcagGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCTCAGAGTATGCTTGGTCACTTGAGTCAGAAAAGCTCTGGCCAGGTA---CAGGAATTTAGTGTAGgcatagggttttaaagtatggtggattgaccacattgaagcctcta Alignment from GeneWise ---CAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTC- tctgactataaacacactctctcattagtggatgtatctgtccctttcagGTGCAAATTTTGGATTCACACTCTGTTTTGCTGGAAGACCCTCAGAGTATGCTTGGTCACTTGAGTCAGAAAAGCTCTGGCCAGGTA---CAGGAATTTAgtgtaggcatagggttttaaagtatggtggattgaccacattgaagcctcta #### Kif20b_ID7002_7 --> 2 - 1 Original Alignment gaCACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAg gatacattttggggattgcagttaaagtaaactgttcatttgtgttacagggCACTTTACGAACTCTCTAACTATCCCAGAGTTTGAAGAACCTGTCAACAGG---------TCCAGTTTAAATGTGGATAATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATTTACAACAAAAGCATTTAC---TTGTTTGTGCCTGTTTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGAATTGCCCAGGACATAAAGGGATATTCT---------ggtaacgccaccagaaccctcttgttaaagaaggagcatacattccaacta Alignment from CESAR gaCACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAg gatacattttggggattgcagttaaagtaaactgttcatttgtgttacagggCACTTTACGAACTCTCTAACTATCCCAGAGTTTGAAGAACCTGTCAAC---------AGGTCCAGTTTAAATGTGGATAATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATTTACAACAAAAGCATTTAC---TTGTTTGTGCCTGTTTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGAATTGCCCAGGACATAAAGGGATATTCT---------ggtaacgccaccagaaccctcttgttaaagaaggagcatacattccaacta Alignment from Spaln_aa2Genome GACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCT- gatacattttggggattgcagttaaagtaaactgttcatttgtgttacagGGCACTTTACGAACTCTCTAACTATCCCAGAGTTTGAAGAACCTGTCAAC---------AGGTCCAGTTTAAATGTGGATAATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATTTACAACAAAAGCATTTAC---TTGTTTGTGCCTGTTTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGAATTGCCCAGGACATAAAGGGATATTCTGgtaacgccaccagaaccctcttgttaaagaaggagcatacattccaacta Alignment from Spaln_nt2Genome GACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTT gatacattttggggattgcagttaaagtaaactgttcatttgtgttacagGGCACTTTACGAACTCTCTAACTATCCCAGAGTTTGAAGAACCTGTCAACAG---------GTCCAGTTTAAATGTGGATAATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATTTACAACAAAAGCATTTAC---TTGTTTGTGCCTGTTTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGAATTGCCCAGGACATAAAGGGATATTCTGgtaacgccaccagaaccctcttgttaaagaaggagcatacattccaacta Alignment from Pairagon GACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAG gatacattttggggattgcagttaaagtaaactgttcatttgtgttacagGGCACTTTACGAACTCTCTAACTATCCCAGAGTTTGAAGAACCTGTCAACAG---------GTCCAGTTTAAATGTGGATAATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATTTACAACAAAAGCATTTAC---TTGTTTGTGCCTGTTTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGAATTGCCCAGGACATAAAGGGATATTCT---------Ggtaacgccaccagaaccctcttgttaaagaaggagcatacattccaacta Alignment from Exonerate_protein2genome GACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTT gatacattttggggattgcagttaaagtaaactgttcatttgtgttacagGGCACTTTACGAACTCTCTAACTATCCCAGAGTTTGAAGAACCTGTCAAC---------AGGTCCAGTTTAAATGTGGATAATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATTTACAACAAAAGCATTTAC---TTGTTTGTGCCTGTTTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGAATTGCCCAGGACATAAAGGGATATTCTGgtaacgccaccagaaccctcttgttaaagaaggagcatacattccaacta Alignment from Exonerate_coding2genome GTTACCATACATAATGACAGTTATGACGTTCTTTGTGGACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTT gatacattttgggGATTGCAGTTAAAGTAAACTGTTCATTTGTGTTACAGGGCACTTTACGAACTCTCTAACTATCCCAGAGTTTGAAGAACCTGTCAAC---------AGGTCCAGTTTAAATGTGGATAATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATTTACAACAAAAGCATTTAC---TTGTTTGTGCCTGTTTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGAATTGCCCAGGACATAAAGGGATATTCTGgtaacgccaccagaaccctcttgttaaagaaggagcatacattccaacta Alignment from GeneWise GACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTT gatacattttggggattgcagttaaagtaaactgttcatttgtgttacagGGCACTTTACGAACTCTCTAACTATCCCAGAGTTTGAAGAACCTGTCAAC---------AGGTCCAGTTTAAATGTGGATAATATAAAGTATTCTGTGTGGGTCTCATTCTTTGAAATTTACAACAAAAGCATTTAC---TTGTTTGTGCCTGTTTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGAATTGCCCAGGACATAAAGGGATATTCTGgtaacgccaccagaaccctcttgttaaagaaggagcatacattccaacta #### Kif20b_ID7005_10 --> 1 - 2 Original Alignment aTTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAaa ctttttggaacaacagtctttgcagcacgaggattcatgtttttctttagaTTGTCGCTGTGTGATCTTGCGGGTTCAGAACAAAGCATGAAGACACAGAATGAAGGTGAGAGGCCAAGAGAGGCTGGGAATATCAACACACCCCTGTTGACC------------------------------------------aagtaacagccattagtgtcataaaatctacccttgtgagtactgctagagt Alignment from CESAR aTTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAaa ctttttggaacaacagtctttgcagcacgaggattcatgtttttctttagaTTGTCGCTGTGTGATCTTGCGGGTTCAGAACAAAGCATGAAGACACAGAATGAAGGTGAGAGGCCAAGAGAGGCTGGGAATATCAACACACCCCTGTTGACC------------------------------------------aagtaacagccattagtgtcataaaatctacccttgtgagtactgctagagt Alignment from Spaln_aa2Genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCT ctttttggaacaacagtctttgcagcacgaggattcatgtttttctttagATTGTCGCTGTGTGATCTTGCGGGTTCAGAACAAAGCATGAAGACACAGAATGAAGGTGAGAGGCCAAGAGAGGCTGGGAATATCAACACACCCCTGTTGACCAAgtaacagccattagtgtcataaaatctacccttgtgagtactgctagagt Alignment from Spaln_nt2Genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAG---AACAGT ctttttggaacaacagtctttgcagcacgaggattcatgtttttctttagATTGTCGCTGTGTGATCTTGCGGGTTCAGAACAAAGCATGAAGACACAGAATGAAGGTGAGAGGCCAAGAGAGGCTGGGAATATCAACACACCCCTGTTGAC-CAAGTAACAGCCATTAGTGTCATAAAATCTACCCTTgtgagtactgctagagt Alignment from Pairagon ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA ctttttggaacaacagtctttgcagcacgaggattcatgtttttctttagATTGTCGCTGTGTGATCTTGCGGGTTCAGAACAAAGCATGAAGACACAGAATGAAGGTGAGAGGCCAAGAGAGGCTGGGAATATCAACACACCCCTGTTGACC------------------------------------------AAgtaacagccattagtgtcataaaatctacccttgtgagtactgctagagt Alignment from Exonerate_protein2genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGA ctttttggaacaacagtctttgcagcacgaggattcatgtttttctttagATTGTCGCTGTGTGATCTTGCGGGTTCAGAACAAAGCATGAAGACACAGAATGAAGGTGAGAGGCCAAGAGAGGCTGGGAATATCAACACACCCCTGTTGACCAAGTAACAGCCATTAGTGTCATAAAATCTACCCTTgtgagtactgctagagt Alignment from Exonerate_coding2genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGA ctttttggaacaacagtctttgcagcacgaggattcatgtttttctttagATTGTCGCTGTGTGATCTTGCGGGTTCAGAACAAAGCATGAAGACACAGAATGAAGGTGAGAGGCCAAGAGAGGCTGGGAATATCAACACACCCCTGTTGACCAAGTAACAGCCATTAGTGTCATAAAATCTACCCTTgtgagtactgctagagt Alignment from GeneWise ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACT-- ctttttggaacaacagtctttgcagcacgaggattcatgtttttctttagATTGTCGCTGTGTGATCTTGCGGGTTCAGAACAAAGCATGAAGACACAGAATGAAGGTGAGAGGCCAAGAGAGGCTGGGAATATCAACACACCCCTGTTGACCAAgtaacagccattagtgtcataaaatctacccttgtgagtactgctagagt #### Kif20b_ID7008_13 --> 0 - 2 Original Alignment ------GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTaa ataaaatgtaatcacagatgcaacttggtgaggttacaatgtctttccagCTTCTAGAACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTATCATTAGAACTTAAGATCCGAGAAGATGTTACACAGAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGATTTTaagtaatataattgtttgcgctatcgtggcgatgatttagacatacttgctc Alignment from CESAR ------GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTaa ataaaatgtaatcacagatgcaacttggtgaggttacaatgtctttccagCTTCTAGAACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTATCATTAGAACTTAAGATCCGAGAAGATGTTACACAGAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGATTTTaagtaatataattgtttgcgctatcgtggcgatgatttagacatacttgctc Alignment from Spaln_aa2Genome GAACTGTTGGAT------TTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA ataaaatgtaatcacagatgcaacttggtgaggttacaatgtctttccagCTTCTAGAACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTATCATTAGAACTTAAGATCCGAGAAGATGTTACACAGAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGATTTTAAgtaatataattgtttgcgctatcgtggcgatgatttagacatacttgctc Alignment from Spaln_nt2Genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA ataaaatgtaatcacagatgcaacttggtgaggttacaatgtctttccagcttctag-AACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTATCATTAGAACTTAAGATCCGAGAAGATGTTACACAGAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGATTTTAAgtaatataattgtttgcgctatcgtggcgatgatttagacatacttgctc Alignment from Pairagon ------GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA ataaaatgtaatcacagatgcaacttggtgaggttacaatgtctttccagCTTCTAGAACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTATCATTAGAACTTAAGATCCGAGAAGATGTTACACAGAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGATTTTAAgtaatataattgtttgcgctatcgtggcgatgatttagacatacttgctc Alignment from Exonerate_protein2genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA ataaaatgtaatcacagatgcaacttggtgaggttacaatgtctttccagcttctaGAACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTATCATTAGAACTTAAGATCCGAGAAGATGTTACACAGAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGATTTTAAgtaatataattgtttgcgctatcgtggcgatgatttagacatacttgctc Alignment from Exonerate_coding2genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA ataaaatgtaatcacagatgcaacttggtgaggttacaatgtctttccagcttctaGAACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTATCATTAGAACTTAAGATCCGAGAAGATGTTACACAGAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGATTTTAAgtaatataattgtttgcgctatcgtggcgatgatttagacatacttgctc Alignment from GeneWise ------GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAA ataaaatgtaatcacagatgcaacttggtgaggttacaatgtctttccagCTTCTAGAACTGTTAGATTTAATAGAAAAGTTAAATAAAAGATTGATAAATGAGAATCAAGAAAAATTATCATTAGAACTTAAGATCCGAGAAGATGTTACACAGAAATTCACTCAGTATTGGAGCCATCGGGAAGCTGATTTTAAgtaatataattgtttgcgctatcgtggcgatgatttagacatacttgctc #### Klc2_ID852_14 --> 1 - 0 Original Alignment gATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTCCAG cttttgctctcaggcaggagagggcatctttcatggtttatattttatagg---AAGAGGGCCAGCTCTCTTAACTTCCTTAATAAGAGTGTGCGGAAGCCT---CAGgtctgaatggggataaaatgtaccaaatagcctatatctgcagatgcaga Alignment from CESAR gATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTCCAG tctcttttgctctcaggcaggagagatctttcatggtttatattttatagg---AAGAGGGCCAGCTCTCTTAACTTCCTTAATAAGAGTGTGCGGAAGCCT---CAGgtctgaatggggataaaatgtaccaaatagcctatatctgcagatgcaga Alignment from Spaln_aa2Genome GATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTCCAG cttttgctctcaggcaggagagggcatctttcatggtttatattttatagG---AAGAGGGCCAGCTCTCTTAACTTCCTTAATAAGAGTGTGCGGAAGCCT---CAGgtctgaatggggataaaatgtaccaaatagcctatatctgcagatgcaga Alignment from Spaln_nt2Genome GATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTCCAG cttttgctctcaggcaggagagggcatctttcatggtttatattttatag---GAAGAGGGCCAGCTCTCTTAACTTCCTTAATAAGAGTGTGCGGAAGCC---TCAGgtctgaatggggataaaatgtaccaaatagcctatatctgcagatgcaga Alignment from Pairagon GATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGT cttttgctctcaggcaggagagggcatctttcatggtttatattttatag---GAAGAGGGCCAGCTCTCTTAACTTCCTTAATAAGAGTgtgcggaagcctcaggtctgaatggggataaaatgtaccaaatagcctatatctgcagatgcaga Alignment from Exonerate_protein2genome GATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTCCAG cttttgctctcaggcaggagagggcatctttcatggtttatattttatagG---AAGAGGGCCAGCTCTCTTAACTTCCTTAATAAGAGTGTGCGGAAGCCT---CAGgtctgaatggggataaaatgtaccaaatagcctatatctgcagatgcaga Alignment from Exonerate_coding2genome GATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTCCAG cttttgctctcaggcaggagagggcatctttcatggtttatattttatagG---AAGAGGGCCAGCTCTCTTAACTTCCTTAATAAGAGTGTGCGGAAGCCT---CAGgtctgaatggggataaaatgtaccaaatagcctatatctgcagatgcaga Alignment from GeneWise GATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTCCAG cttttgctctcaggcaggagagggcatctttcatggtttatattttatagG---AAGAGGGCCAGCTCTCTTAACTTCCTTAATAAGAGTGTGCGGAAGCCT---CAGgtctgaatggggataaaatgtaccaaatagcctatatctgcagatgcaga #### Klc2_ID855_11 --> 1 - 0 Original Alignment tCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCACACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG ggaggggaagcctggaattttcaattagattgtgttatttttcattgcagt---ACGGTCAATACCAGATTGCGAAGCTTGGGTACCCTGTACTGGCATGAAGGCAAACTGGATGCTACACACACACTGAAAGATTGTGCAAGCCACAGTTGCAAACAAgtaagtctttcatcattgaggacagatagtagggccacaatcttgtgtat Alignment from CESAR tCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCACACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG tttggaggggaagcctggaattttctagattgtgttatttttcattgcagt---ACGGTCAATACCAGATTGCGAAGCTTGGGTACCCTGTACTGGCATGAAGGCAAACTGGATGCTACACACACACTGAAAGATTGTGCAAGCCACAGTTGCAAACAAgtaagtctttcatcattgaggacagatagtagggccacaatcttgtgtat Alignment from Spaln_aa2Genome TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCACACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG ggaggggaagcctggaattttcaattagattgtgttatttttcattgcagT---ACGGTCAATACCAGATTGCGAAGCTTGGGTACCCTGTACTGGCATGAAGGCAAACTGGATGCTACACACACACTGAAAGATTGTGCAAGCCACAGTTGCAAACAAgtaagtctttcatcattgaggacagatagtagggccacaatcttgtgtat Alignment from Spaln_nt2Genome TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCACACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG ggaggggaagcctggaattttcaattagattgtgttatttttcattgcagT---ACGGTCAATACCAGATTGCGAAGCTTGGGTACCCTGTACTGGCATGAAGGCAAACTGGATGCTACACACACACTGAAAGATTGTGCAAGCCACAGTTGCAAACAAgtaagtctttcatcattgaggacagatagtagggccacaatcttgtgtat Alignment from Pairagon TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCACACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG ggaggggaagcctggaattttcaattagattgtgttatttttcattgcagT---ACGGTCAATACCAGATTGCGAAGCTTGGGTACCCTGTACTGGCATGAAGGCAAACTGGATGCTACACACACACTGAAAGATTGTGCAAGCCACAGTTGCAAACAAgtaagtctttcatcattgaggacagatagtagggccacaatcttgtgtat Alignment from Exonerate_protein2genome TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCACACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG ggaggggaagcctggaattttcaattagattgtgttatttttcattgCAGTACGGTCAATACCAGATTGCGAAGCTTGGGTACCCTGTACTGGCATGAAGGCAAACTGGATGCTACACACACACTGAAAGATTGTGCAAGCCACAGTTGCAAACAAgtaagtctttcatcattgaggacagatagtagggccacaatcttgtgtat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TCCCACAGTCAACACCACTCTGCGAAGCTTGGGCGCCCTGTACCGGCGCCAGGGCAAGCTGGAAGCCGCACACACACTGGAAGACTGTGCCAGCCGCAGCCGCAAACAG ggaggggaagcctggaattttcaattagattgtgttatttttcattgcagT---ACGGTCAATACCAGATTGCGAAGCTTGGGTACCCTGTACTGGCATGAAGGCAAACTGGATGCTACACACACACTGAAAGATTGTGCAAGCCACAGTTGCAAACAAgtaagtctttcatcattgaggacagatagtagggccacaatcttgtgtat #### Klc2_ID860_6 --> 0 - 0 Original Alignment GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG agtccttcagggcccttgaaggaagatactgacttgtctatggttggcagGTA------GCCCTCAATAATCTGGCTGTGCTTTATGGCAAACGGGGTAACTACCAGGAAGCTGAGCCACACTGCAGAAGATCACTTGAAATCCGA------gtgagccgcgaaccaggcacaacagcgtcacatgaatgccaagcagcact Alignment from CESAR GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG agtccttcagggcccttgaaggaagatactgacttgtctatggttggcagGTAGCC------CTCAATAATCTGGCTGTGCTTTATGGCAAACGGGGTAACTACCAGGAAGCTGAGCCACACTGCAGAAGATCACTTGAAATCCGA------gtgagccgcgaaccaggcacaacagcgtcacatgaatgccaagc Alignment from Spaln_aa2Genome GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGG agtccttcagggcccttgaaggaagatactgacttgtctatggttggcagGTAGCC------CTCAATAATCTGGCTGTGCTTTATGGCAAACGGGGTAACTACCAGGAAGCTGAGCCACACTGCAGAAGATCACTTGAAATCCGAgtgagccgcgaaccaggcacaacagcgtcacatgaatgccaagcagcact Alignment from Spaln_nt2Genome GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGG agtccttcagggcccttgaaggaagatactgacttgtctatggttggcagGTAG------CCCTCAATAATCTGGCTGTGCTTTATGGCAAACGGGGTAACTACCAGGAAGCTGAGCCACACTGCAGAAGATCACTTGAAATCCGAgtgagccgcgaaccaggcacaacagcgtcacatgaatgccaagcagcact Alignment from Pairagon GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGG-------------------------------------------------- agtccttcagggcccttgaaggaagatactgacttgtctatggttggcagGTAG------CCCTCAATAATCTGGCTGTGCTTTATGGCAAACGGGGTAACTACCAGGAAGCTGAGCCACACTGCAGAAGATCACTTGAAATCCGAGTGAGCCGCGAACCAGGCACAACAGCGTCACATGAATGCCAAGCAGCACT Alignment from Exonerate_protein2genome GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGG agtccttcagggcccttgaaggaagatactgacttgtctatggttggcagGTAGCC------CTCAATAATCTGGCTGTGCTTTATGGCAAACGGGGTAACTACCAGGAAGCTGAGCCACACTGCAGAAGATCACTTGAAATCCGAgtgagccgcgaaccaggcacaacagcgtcacatgaatgccaagcagcact Alignment from Exonerate_coding2genome GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGT---GCAAGAGAGCACT agtccttcagggcccttgaaggaagatactgacttgtctatggttggcaggtagccctcaataatctggctgtgctttatggcaaacggggtaactaccagGAAGCTGAGCCACACTGCAGAAGATCACTTGAAATCCGAGTGAGCCGCGAACCAGGCACAACAGCGTCACATGAATGCCAAGCAGCACT Alignment from GeneWise --CTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGG-------------------------------------------------- agtccttcagggcccttgaaggaagatactgacttgtctatggttggcaggtagCCCTCAATAATCTGGCTGTGCTTTATGGCAAACGGGGTAACTACCAGGAAGCTGAGCCACACTGCAGAAGATCACTTGAAATCCGAGTGAGCCGCGAACCAGGCACAACAGCGTCACATGAATGCCAAGCAGCACT #### Klc2_ID861_5 --> 1 - 0 Original Alignment g------GACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCT ccaccagggtcatgcattgttgagggggtacctttgctttctctgcctagaCGCCTAGACCAGAATAAATACAGGGATGCTGCTCACCTACTCAATGAGGCCCTGGCTATCCGAGAAAAGACACTGGGCAAGGATCAGCCAGCTgtaggctgtctaagtagtctccctgtcctactaccaaagcttccagtccc Alignment from CESAR g------GACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCT ccaccagggtcatgcattgttgagggggtacctttgctttctctgcctagaCGCCTAGACCAGAATAAATACAGGGATGCTGCTCACCTACTCAATGAGGCCCTGGCTATCCGAGAAAAGACACTGGGCAAGGATCAGCCAGCTgtaggctgtctaagtagtctccctgtcctactaccaaagcttccagtccc Alignment from Spaln_aa2Genome G-------GACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCT ccaccagggtcatgcattgttgagggggtacctttgctttctctgcctagACGCCTAGACCAGAATAAATACAGGGATGCTGCTCACCTACTCAATGAGGCCCTGGCTATCCGAGAAAAGACACTGGGCAAGGATCAGCCAGCTgtaggctgtctaagtagtctccctgtcctactaccaaagcttccagtccc Alignment from Spaln_nt2Genome G------GACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCTGT-GGCT ccaccagggtcatgcattgttgagggggtacctttgctttctctgcctagACGCCTAGACCAGAATAAATACAGGGATGCTGCTCACCTACTCAATGAGGCCCTGGCTATCCGAGAAAAGACACTGGGCAAGGATCAGCCAGCTGTAGGCTgtctaagtagtctccctgtcctactaccaaagcttccagtccc Alignment from Pairagon GGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCT ccaccagggtcatgcattgttgagggggtacctttgctttctctgcctagacgcctag--ACCAGAATAAATACAGGGATGCTGCTCACCTACTCAATGAGGCCCTGGCTATCCGAGAAAAGACACTGGGCAAGGATCAGCCAGCTgtaggctgtctaagtagtctccctgtcctactaccaaagcttccagtccc Alignment from Exonerate_protein2genome GGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCT ccaccagggtcatgcattgttgagggggtacctttgctttctctgcctagacgcctAGACCAGAATAAATACAGGGATGCTGCTCACCTACTCAATGAGGCCCTGGCTATCCGAGAAAAGACACTGGGCAAGGATCAGCCAGCTgtaggctgtctaagtagtctccctgtcctactaccaaagcttccagtccc Alignment from Exonerate_coding2genome GGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCTGTGGC ccaccagggtcatgcattgttgagggggtacctttgctttctctgcctagacgcctAGACCAGAATAAATACAGGGATGCTGCTCACCTACTCAATGAGGCCCTGGCTATCCGAGAAAAGACACTGGGCAAGGATCAGCCAGCTGTAGGctgtctaagtagtctccctgtcctactaccaaagcttccagtccc Alignment from GeneWise ----CGGGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCTGTGGCTGCGACC- ccaccagggtcatgcattgttgagggggtacctttgctttctctgcctagACGCCTAGACCAGAATAAATACAGGGATGCTGCTCACCTACTCAATGAGGCCCTGGCTATCCGAGAAAAGACACTGGGCAAGGATCAGCCAGCTGTAGGCTGTCTAAgtagtctccctgtcctactaccaaagcttccagtccc #### Klc2_ID863_3 --> 0 - 1 Original Alignment GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCA------g ccccccccgtgtgctatctgcatgtgcctaacactgcatctctttgacagAAGGAGAAG------GTCCCCAAAGACTCCCTTGATGACCTGTTTCCCAATGAAGATGAACAGAGATCAATCCAGggtagacagggtgaattaattatggcgagtacaggtagttaggagtttgca Alignment from CESAR GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCA------g ccccccccgtgtgctatctgcatgtgcctaacactgcatctctttgacagAAGGAGAAG------GTCCCCAAAGACTCCCTTGATGACCTGTTTCCCAATGAAGATGAACAGAGATCAATCCAGggtagacagggtgaattaattatggcgagtacaggtagttaggagtttgca Alignment from Spaln_aa2Genome GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCA------G ccccccccgtgtgctatctgcatgtgcctaacactgcatctctttgacagAAGGAGAAG------GTCCCCAAAGACTCCCTTGATGACCTGTTTCCCAATGAAGATGAACAGAGATCAATCCAGGgtagacagggtgaattaattatggcgagtacaggtagttaggagtttgca Alignment from Spaln_nt2Genome GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCA------G ccccccccgtgtgctatctgcatgtgcctaacactgcatctctttgacagAAGGAGAAG------GTCCCCAAAGACTCCCTTGATGACCTGTTTCCCAATGAAGATGAACAGAGATCAATCCAGGgtagacagggtgaattaattatggcgagtacaggtagttaggagtttgca Alignment from Pairagon GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCA---------------G ccccccccgtgtgctatctgcatgtgcctaacactgcatctctttgacagAAGGAGAAG------GTCCCCAAAGACTCCCTTGATGACCTGTTTCCCAATGAAGATGAACAGAGATCAATCCAGGGTAGACAGGgtgaattaattatggcgagtacaggtagttaggagtttgca Alignment from Exonerate_protein2genome GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG ccccccccgtgtgctatctgcatgtgcctaacactgcatctctttgacagAAGGAGAAG------GTCCCCAAAGACTCCCTTGATGACCTGTTTCCCAATGAAGATGAACAGAGATCAAtccagggtagacagggtgaattaattatggcgagtacaggtagttaggagtttgca Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCA------G ccccccccgtgtgctatctgcatgtgcctaacactgcatctctttgacagAAGGAGAAG------GTCCCCAAAGACTCCCTTGATGACCTGTTTCCCAATGAAGATGAACAGAGATCAATCCAGGgtagacagggtgaattaattatggcgagtacaggtagttaggagtttgca #### Ldb1_ID9691_9 --> 0 - 1 Original Alignment CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCg gtacaggccaacccttacactgttttagtgagtcccatctcccatcccagCTCTGTGTAATTCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCT---ggtttgaagtctctctctaatccgagtgaaatagttgtgtgacggctgagc Alignment from CESAR CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCg gtacaggccaacccttacactgttttagtgagtcccatctcccatcccagCTCTGTGTAATTCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCT---ggtttgaagtctctctctaatccgagtgaaatagttgtgtgacggctgagc Alignment from Spaln_aa2Genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG gtacaggccaacccttacactgttttagtgagtcccatctcccatcccagCTCTGTGTAATTCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCT---Ggtttgaagtctctctctaatccgagtgaaatagttgtgtgacggctgagc Alignment from Spaln_nt2Genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG gtacaggccaacccttacactgttttagtgagtcccatctcccatcccagCTCTGTGTAATTCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCT---Ggtttgaagtctctctctaatccgagtgaaatagttgtgtgacggctgagc Alignment from Pairagon CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG gtacaggccaacccttacactgttttagtgagtcccatctcccatcccagCTCTGTGTAATTCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCT---Ggtttgaagtctctctctaatccgagtgaaatagttgtgtgacggctgagc Alignment from Exonerate_protein2genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG gtacaggccaacccttacactgttttagtgagtcccatctcccatcccagCTCTGTGTAATTCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCTGGTTtgaagtctctctctaatccgagtgaaatagttgtgtgacggctgagc Alignment from Exonerate_coding2genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG gtacaggccaacccttacactgttttagtgagtcccatctcccatcccagCTCTGTGTAATTCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCTGGTTtgaagtctctctctaatccgagtgaaatagttgtgtgacggctgagc Alignment from GeneWise CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCT- gtacaggccaacccttacactgttttagtgagtcccatctcccatcccagCTCTGTGTAATTCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCTGgtttgaagtctctctctaatccgagtgaaatagttgtgtgacggctgagc #### Ldb1_ID9692_8 --> 0 - 0 Original Alignment GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA--------- attggagtccgcatcttagtcaggtgaatccatgtgttttgtcctcacagGCTCAGGACCCCCAGATGCTGGATCAACTGTCCAAAAACATTACTCGCTGTGGATTTTCAAATACAGCTATTAACTACTTTCGGATGAACTGTgtagaagccagaggaccatactacaaattaacttttctttccagtacagg Alignment from CESAR GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA--------- attggagtccgcatcttagtcaggtgaatccatgtgttttgtcctcacagGCTCAGGACCCCCAGATGCTGGATCAACTGTCCAAAAACATTACTCGCTGTGGATTTTCAAATACAGCTATTAACTACTTTCGGATGAACTGTgtagaagccagaggaccatactacaaattaacttttctttccagtacagg Alignment from Spaln_aa2Genome GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA--------- attggagtccgcatcttagtcaggtgaatccatgtgttttgtcctcacagGCTCAGGACCCCCAGATGCTGGATCAACTGTCCAAAAACATTACTCGCTGTGGATTTTCAAATACAGCTATTAACTACTTTCGGATGAACTGTgtagaagccagaggaccatactacaaattaacttttctttccagtacagg Alignment from Spaln_nt2Genome ACGCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA--------- attggagtccgcatcttagtcaggtgaatccatgtgttttgtcctcacAGGCTCAGGACCCCCAGATGCTGGATCAACTGTCCAAAAACATTACTCGCTGTGGATTTTCAAATACAGCTATTAACTACTTTCGGATGAACTGTgtagaagccagaggaccatactacaaattaacttttctttccagtacagg Alignment from Pairagon GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCG------------------------------------------------------------ attggagtccgcatcttagtcaggtgaatccatgtgttttgtcctcacagGCTCAGGACCCCCAGATGCTGGATCAACTGTCCAAAAACATTACTCGCTGTGGATTTTCAAATACAGCTATTAACTACTTTCGGATGAACTGTGTAGAAGCCAGAGGACCATACTACAAATTAACTTTTCTTTCCAGTACAGG Alignment from Exonerate_protein2genome GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA attggagtccgcatcttagtcaggtgaatccatgtgttttgtcctcacagGCTCAGGACCCCCAGATGCTGGATCAACTGTCCAAAAACATTACTCGCTGTGGATTTTCAAATACAGCTATTAACTACTTTCGGatgaactgtgtagaagccagaggaccatactacaaattaacttttctttccagtacagg Alignment from Exonerate_coding2genome GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA attggagtccgcatcttagtcaggtgaatccatgtgttttgtcctcacagGCTCAGGACCCCCAGATGCTGGATCAACTGTCCAAAAACATTACTCGCTGTGGATTTTCAAATACAGCTATTAACTACTTTCGGatgaactgtgtagaagccagaggaccatactacaaattaacttttctttccagtacagg Alignment from GeneWise GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGACTC------ attggagtccgcatcttagtcaggtgaatccatgtgttttgtcctcacagGCTCAGGACCCCCAGATGCTGGATCAACTGTCCAAAAACATTACTCGCTGTGGATTTTCAAATACAGCTATTAACTACTTTCGGATGAACTGTgtagaagccagaggaccatactacaaattaacttttctttccagtacagg #### Ldb1_ID9693_7 --> 0 - 0 Original Alignment GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC gtagtaaatcaccaaagcaaaggatgggtattctggtttatgtcttccagGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTG---------gtaagtctgtccctcgagtgccagcaccacctgaaacgaggggattggag Alignment from CESAR GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC gtagtaaatcaccaaagcaaaggatgggtattctggtttatgtcttccagGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTG---------gtaagtctgtccctcgagtgccagcaccacctgaaacgagg Alignment from Spaln_aa2Genome GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTG gtagtaaatcaccaaagcaaaggatgggtattctggtttatgtcttccagGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTGgtaagtctgtccctcgagtgccagcaccacctgaaacgaggggattggag Alignment from Spaln_nt2Genome GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTG gtagtaaatcaccaaagcaaaggatgggtattctggtttatgtcttccagGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTGgtaagtctgtccctcgagtgccagcaccacctgaaacgaggggattggag Alignment from Pairagon GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTG gtagtaaatcaccaaagcaaaggatgggtattctggtttatgtcttccagGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTGgtaagtctgtccctcgagtgccagcaccacctgaaacgaggggattggag Alignment from Exonerate_protein2genome GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC gtagtaaatcaccaaagcaaaggatgggtattctggtttatgtcttccagGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTG---------gtaagtctgtccctcgagtgccagcaccacctgaaacgagg Alignment from Exonerate_coding2genome GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC gtagtaaatcaccaaagcaaaggatgggtattctggtttatgtcttccagGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTG---------gtaagtctgtccctcgagtgccagcaccacctgaaacgagg Alignment from GeneWise GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCC----------------------------------------------- gtagtaaatcaccaaagcaaaggatgggtattctggtttatgtcttccagGTTTGTGTAGAAGGACGGCTGTACCTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCAGCAGCACAGAGAACTTATTCCAAGAAGTATCCTGGTAAGTCTGTCCCTCGAGTGCCAGCACCACCTGAAACGAGGGGATTGGAG #### Ldb1_ID9696_4 --> 1 - 0 Original Alignment g---------------------------AGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG ggctacatatgccagcacacctatttctcaaatccttcttcatttgacaggATTCCATTTCCTCGGCTCATGAAGAAGAGGCACAGTCCATATGGTAATCAAACTGACTATAGGATATTTGAGCTTAACAAGCGGCTACAGAATTGGACAGAAgtaaatcaggatgagaggttgacaggggtgtgccttcttctccgtatcac Alignment from CESAR g---------------------------AGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG ggctacatatgccagcacacctatttctcaaatccttcttcatttgacaggATTCCATTTCCTCGGCTCATGAAGAAGAGGCACAGTCCATATGGTAATCAAACTGACTATAGGATATTTGAGCTTAACAAGCGGCTACAGAATTGGACAGAAgtaaatcaggatgagaggttgacaggggtgtgcctctcacctttctccac Alignment from Spaln_aa2Genome GAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG ggctacatatgccagcacacctatttctcaaatccttcttcatttgacaggattccatttcctcggctcatgaagaagagGCACAGTCCA---TATGGTAATCAAACTGACTATAGGATATTTGAGCTTAACAAGCGGCTACAGAATTGGACAGAAgtaaatcaggatgagaggttgacaggggtgtgccttcttctccgtatcac Alignment from Spaln_nt2Genome GAGGCACACACCAT--ATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG ggctacatatgccagcacacctatttctcaaatccttcttcatttgacaggattccatttcctcggctcatgaagAAGAGGCACAGTCCATATGGTAATCAAACTGACTATAGGATATTTGAGCTTAACAAGCGGCTACAGAATTGGACAGAAgtaaatcaggatgagaggttgacaggggtgtgccttcttctccgtatcac Alignment from Pairagon ---------------------------GAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAG---------------------------------------------------- ggctacatatgccagcacacctatttctcaaatccttcttcatttgacagGATTCCATTTCCTCGGCTCATGAAGAAGAGGCACAGTCCATATGGTAATCAAACTGACTATAGGATATTTGAGCTTAACAAGCGGCTACAGAATTGGACAGAAGTAAATCAGGATGAGAGGTTGACAGGGGTGTGCCTTCTTCTCCGTATCAC Alignment from Exonerate_protein2genome GAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG ggctacatatgccagcacacctatttctcaaatccttcttcatttgacaggattccatttcctcggctcatgaagaaGAGGCACAGTCCATATGGTAATCAAACTGACTATAGGATATTTGAGCTTAACAAGCGGCTACAGAATTGGACAGAAgtaaatcaggatgagaggttgacaggggtgtgccttcttctccgtatcac Alignment from Exonerate_coding2genome GAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG ggctacatatgccagcacacctatttctcaaatccttcttcatttgacaggattccatttcctcggctcatgaagaaGAGGCACAGTCCATATGGTAATCAAACTGACTATAGGATATTTGAGCTTAACAAGCGGCTACAGAATTGGACAGAAgtaaatcaggatgagaggttgacaggggtgtgccttcttctccgtatcac Alignment from GeneWise GAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG-------------------------------------------------- ggctacatatgccagcacacctatttctcaaatccttcttcatttgacaggattccatttcctcggctcatgaagaagagG---CACAGTCCATATGGTAATCAAACTGACTATAGGATATTTGAGCTTAACAAGCGGCTACAGAATTGGACAGAAGTAAATCAGGATGAGAGGTTGACAGGGGTGTGCCTTCTTCTCCGTATCAC #### Ldb1_ID9697_3 --> 1 - 2 Original Alignment cCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCgg caacagaaacaaatgccaaacttgttctaatgaagggcatacttttgcagc------CCCATGTACCCACCTACATACCTGGAGCCTGGGATTgggtaagtggactccactgcttaatactgttaagtcttgtctctgcattatt Alignment from CESAR cCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCgg acagtacaacagaaacaaatgccaatctaatgaagggcatacttttgcagc------CCCATGTACCCACCTACATACCTGGAGCCTGGGATTgggtaagtggactccactgcttaatactgttaagtcttgtctctgcattatt Alignment from Spaln_aa2Genome CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGG caacagaaacaaatgccaaacttgttctaatgaagggcatacttttgcagC------CCCATGTACCCACCTACATACCTGGAGCCTGGGATTGGgtaagtggactccactgcttaatactgttaagtcttgtctctgcattatt Alignment from Spaln_nt2Genome CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGG caacagaaacaaatgccaaacttgttctaatgaagggcatacttttgcagC------CCCATGTACCCACCTACATACCTGGAGCCTGGGATTGGgtaagtggactccactgcttaatactgttaagtcttgtctctgcattatt Alignment from Pairagon CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGG caacagaaacaaatgccaaacttgttctaatgaagggcatacttttgcagC------CCCATGTACCCACCTACATACCTGGAGCCTGGGATTGGgtaagtggactccactgcttaatactgttaagtcttgtctctgcattatt Alignment from Exonerate_protein2genome TCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGG caacagaaacaaatgccaaacttgttctaatgaagggcatacttttgcagCCCCATGTACCCACCTACATACCTGGAGCCTGGGATTGGgtaagtggactccactgcttaatactgttaagtcttgtctctgcattatt Alignment from Exonerate_coding2genome TCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGG caacagaaacaaatgccaaacttgttctaatgaagggcatacttttgcagCCCCATGTACCCACCTACATACCTGGAGCCTGGGATTGGgtaagtggactccactgcttaatactgttaagtcttgtctctgcattatt Alignment from GeneWise CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGG caacagaaacaaatgccaaacttgttctaatgaagggcatacttttgcagC------CCCATGTACCCACCTACATACCTGGAGCCTGGGATTGGgtaagtggactccactgcttaatactgttaagtcttgtctctgcattatt #### Lipf_ID6846_2 --> 0 - 1 Original Alignment AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATCg cactccctcgtactattatttttcttctccccaccttgttgtttctccag---CAAATCGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGTGTCTGAAGATGGATACATTCTGGGGGTCTATAGAATTCCATATAGCAAGAGAAACTCTGAAAACATAggtaaggacatcatgtgcgtgggaagaaaaatcctgagcaagccaatccac Alignment from CESAR AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATCg gtccactccctcgtactattatttttctccccaccttgttgtttctccag---CAAATCGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGTGTCTGAAGATGGATACATTCTGGGGGTCTATAGAATTCCATATAGCAAGAGAAACTCTGAAAACATAggtaaggacatcatgtgcgtgggaagaaaaatcctgagcaagccaatccac Alignment from Spaln_aa2Genome AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATCG cactccctcgtactattatttttcttctccccaccttgttgtttctccag---CAAATCGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGTGTCTGAAGATGGATACATTCTGGGGGTCTATAGAATTCCATATAGCAAGAGAAACTCTGAAAACATAGgtaaggacatcatgtgcgtgggaagaaaaatcctgagcaagccaatccac Alignment from Spaln_nt2Genome AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTA--------------------------------------------TGGGAAGAAAAATTCTGA cactccctcgtactattatttttcttctccccaccttgttgtttctccag---CAAATCGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGTGTCTGAAGATGGATACATTCTGGGGGTCTATAGAATTCCATATAGCAAGAGAAACTCTGAAAACATAGGTAAGGACATCATGTGCGTGGGAAGAAAAATCCTGAgcaagccaatccac Alignment from Pairagon AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATCG cactccctcgtactattatttttcttctccccaccttgttgtttctccag---CAAATCGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGTGTCTGAAGATGGATACATTCTGGGGGTCTATAGAATTCCATATAGCAAGAGAAACTCTGAAAACATAGgtaaggacatcatgtgcgtgggaagaaaaatcctgagcaagccaatccac Alignment from Exonerate_protein2genome CAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATCG cactccctcgtactattatttttcttctccccaccttgttgtttctccagCAAATCGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGTGTCTGAAGATGGATACATTCTGGGGGTCTATAGAATTCCATATAGCAAGAGAAACTCTGAAAACATAGgtaaggacatcatgtgcgtgggaagaaaaatcctgagcaagccaatccac Alignment from Exonerate_coding2genome GTTAGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATCG cactccctcgtactattatttttcttctccccaccttgttgtttCTCCAGCAAATCGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGTGTCTGAAGATGGATACATTCTGGGGGTCTATAGAATTCCATATAGCAAGAGAAACTCTGAAAACATAGgtaaggacatcatgtgcgtgggaagaaaaatcctgagcaagccaatccac Alignment from GeneWise CAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATCG cactccctcgtactattatttttcttctccccaccttgttgtttctccagCAAATCGTAACTTATTGGGGATATCCAAGTGAAGAATATGAAGGGGTGTCTGAAGATGGATACATTCTGGGGGTCTATAGAATTCCATATAGCAAGAGAAACTCTGAAAACATAGgtaaggacatcatgtgcgtgggaagaaaaatcctgagcaagccaatccac #### Lipo1_ID6825_8 --> 0 - 0 Original Alignment GTAGGAAGAAGTGGTATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG tcctaagtatgacctgtcagcctgggtgcagggtgtgtctgtgtccacag---GGTAGAAGTGGTATTCTTCAAGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagtctctttttccacacttaatgatatgatagggttcaagttggaag Alignment from CESAR GTAGGAAGAAGTGGTATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG atatcctaagtatgacctgtcagccgtgcagggtgtgtctgtgtccacag---GGTAGAAGTGGTATTCTTCAAGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagtctctttttccacacttaatgatatgatagggttcaagttggaag Alignment from Spaln_aa2Genome GTAGGAAGAAGTGGTATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG tcctaagtatgacctgtcagcctgggtgcagggtgtgtctgtgtccacagGGTAGAAGTGGT---ATTCTTCAAGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagtctctttttccacacttaatgatatgatagggttcaagttggaag Alignment from Spaln_nt2Genome GGAAGAAGTGGTATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG tcctaagtatgacctgtcagcctgggtgcagggtgtgtctgtgtccacagGGTAGAAGTGGTATTCTTCAAGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagtctctttttccacacttaatgatatgatagggttcaagttggaag Alignment from Pairagon GTAGGAAGAAGTGGTATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG tcctaagtatgacctgtcagcctgggtgcagggtgtgtctgtgtccacag---GGTAGAAGTGGTATTCTTCAAGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagtctctttttccacacttaatgatatgatagggttcaagttggaag Alignment from Exonerate_protein2genome GGAAGAAGTGGTATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG tcctaagtatgacctgtcagcctgggtgcagggtgtgtctgtgtccacagGGTAGAAGTGGTATTCTTCAAGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagtctctttttccacacttaatgatatgatagggttcaagttggaag Alignment from Exonerate_coding2genome GGAAGAAGTGGTATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG tcctaagtatgacctgtcagcctgggtgcagggtgtgtctgtgtccacagGGTAGAAGTGGTATTCTTCAAGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagtctctttttccacacttaatgatatgatagggttcaagttggaag Alignment from GeneWise TGGTATACTTCAGGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACACTACAATCAG tcctaagtatgacctgtcagcctgggtgcagggtgtgtctgtgtccacagggtagaagTGGTATTCTTCAAGCTTATGATTGGGGAAGTCCATCTCTGAATATGCAACAGTTCAATCAAgtaagtctctttttccacacttaatgatatgatagggttcaagttggaag #### Loxl4_ID8561_12 --> 2 - 0 Original Alignment gaGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcctgggcatttctgcctctgctggctggggactctctcttgcagggGTACAACGTCGCTATGCATATGCTAATTTTGGAGAGCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAG---------------------------gtcagtatcagtccaggacatacacttagcgcgctcagggagcgaggtta Alignment from CESAR gaGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcctgggcatttctgcctctgctggctggggactctctcttgcagggGTACAACGTCGCTATGCATATGCTAATTTTGGAGAGCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAG---------------------------gtcagtatcagtccaggacatac Alignment from Spaln_aa2Genome GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGT---CCAGGGGACTATATCTTCCAG aaaatgcctgggcatttctgcctctgctggctggggactctctcttgcagGGGTACAACGTCGCTATGCATATGCTAATTTTGGAGAGCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAGGTCAGTATCAGTCCAGGACATACACTTAGCgcgctcagggagcgaggtta Alignment from Spaln_nt2Genome GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGAT aaaatgcctgggcatttctgcctctgctggctggggactctctcttgcagGGGTACAACGTCGCTATGCATATGCTAATTTTGGAGAGCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAGgtcagtatcagtccaggacatacacttagcgcgctcagggagcgaggtta Alignment from Pairagon GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG aaaatgcctgggcatttctgcctctgctggctggggactctctcttgcagGGGTACAACGTCGCTATGCATATGCTAATTTTGGAGAGCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGACAGTGATTGTCAGTGGGTGGATATCAAAG---------------------------AGgtcagtatcagtccaggacatacacttagcgcgctcagggagcgaggtta Alignment from Exonerate_protein2genome GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTG------GGTCCAGGGGACTATATCTTCCAG aaaatgcctgggcatttctgcctctgctggctggggactctctcttgcagGGGTACAACGTCGCTATGCATATGCTAATTTTGGAGAGCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAGGTCAGTATCAGTCCAGGACATACACTTAGCGCGctcagggagcgaggtta Alignment from Exonerate_coding2genome aaaatgcctgggcatttctgcctctgctggctggggactctctcttgcaggggtacaacgtcgctatgcatatgctaattttggagagcaaggggttgcagtaggttgctgggacacctatcagcatgacagtgattgtcagtgggtggatatcaaagaggtcagtatcagtccaggacatacacttagcgcgctcagggagcgaggtta Alignment from GeneWise GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCA- aaaatgcctgggcatttctgcctctgctggctggggactctctcttgcagGGGTACAACGTCGCTATGCATATGCTAATTTTGGAGAGCAAGGGGTTGCAGTAGGTTGCTGGGACACCTATCAGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAGGTCAGTATCAgtccaggacatacacttagcgcgctcagggagcgaggtta #### Ltbp3_ID1255_7 --> 2 - 1 Original Alignment cc---------GACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAg gcaccagtaaggttgccactccacactgtttcttcttttccttctcacagccAAAATAGATGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCAGTGCCAGCACCCTTTAACTACACGTTTAACCCATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGCCCAGCAGATGGCACGggtaaatttgtagagccttgggaatgacagaatgaatatgtgtgctaggcc Alignment from CESAR cc---------GACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAg gcaccagtaaggttgccactccacactgtttcttcttttccttctcacagccAAAATAGATGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCAGTGCCAGCACCCTTTAACTACACGTTTAACCCATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGCCCAGCAGATGGCACGggtaaatttgtagagccttgggaatgacagaatgaatatgtgtgctaggcc Alignment from Spaln_aa2Genome CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG gcaccagtaaggttgccactccacactgtttcttcttttccttctcacagccaaaatagATGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCAGTGCCAGCACCCTTTAACTACACGTTTAACCCATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGCCCAGCAGATGGCACGGgtaaatttgtagagccttgggaatgacagaatgaatatgtgtgctaggcc Alignment from Spaln_nt2Genome CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG gcaccagtaaggttgccactccacactgtttcttcttttccttctcacagccaaaatagATGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCAGTGCCAGCACCCTTTAACTACACGTTTAACCCATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGCCCAGCAGATGGCACGGgtaaatttgtagagccttgggaatgacagaatgaatatgtgtgctaggcc Alignment from Pairagon CC---------GACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG gcaccagtaaggttgccactccacactgtttcttcttttccttctcacagCCAAAATAGATGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCAGTGCCAGCACCCTTTAACTACACGTTTAACCCATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGCCCAGCAGATGGCACGGgtaaatttgtagagccttgggaatgacagaatgaatatgtgtgctaggcc Alignment from Exonerate_protein2genome CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG gcaccagtaaggttgccactccacactgtttcttcttttccttctcacagccaaaatagATGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCAGTGCCAGCACCCTTTAACTACACGTTTAACCCATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGCCCAGCAGATGGCACGGgtaaatttgtagagccttgggaatgacagaatgaatatgtgtgctaggcc Alignment from Exonerate_coding2genome gcaccagtaaggttgccactccacactgtttcttcttttccttctcacagccaaaatagatgacaaaccaaaggagaaaagcttgtgtttccgccttgtgagcactgaacaccagtgccagcaccctttaactacacgtttaacccatcagctttgctgttgtagtgttggtaaggcttggggggcccggtgccagcgttgcccagcagatggcacgggtaaatttgtagagccttgggaatgacagaatgaatatgtgtgctaggcc Alignment from GeneWise CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG gcaccagtaaggttgccactccacactgtttcttcttttccttctcacagccaaaatagATGACAAACCAAAGGAGAAAAGCTTGTGTTTCCGCCTTGTGAGCACTGAACACCAGTGCCAGCACCCTTTAACTACACGTTTAACCCATCAGCTTTGCTGTTGTAGTGTTGGTAAGGCTTGGGGGGCCCGGTGCCAGCGTTGCCCAGCAGATGGCACGGgtaaatttgtagagccttgggaatgacagaatgaatatgtgtgctaggcc #### Ltbp3_ID1256_8 --> 2 - 1 Original Alignment ca---------------GCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAg tgtgctaggccaagaccaccttgttgtatcttcttaatacttttttacagctACCTTCAGTTTTCAGTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCACCAGATGCTGACCATCCATGGAGAAAGTGGCTTCTCTCTATTCGTGCACCCTGATGGGCCACCCAAACCTCAGCAGCTTCCTGAAAGTCCAAGTCGGGCACCACCCCTAGAGGACACAGAGGAAGAGAGAggtaagtctacaggttataatcctctagtggagacaaggaagcaagaccct Alignment from CESAR caGCCTTC---------------AAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAg tgtgctaggccaagaccaccttgttgtatcttcttaatacttttttacagctACCTTCAGTTTTCAGTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCACCAGATGCTGACCATCCATGGAGAAAGTGGCTTCTCTCTATTCGTGCACCCTGATGGGCCACCCAAACCTCAGCAGCTTCCTGAAAGTCCAAGTCGGGCACCACCCCTAGAGGACACAGAGGAAGAGAGAggtaagtctacaggttataatcctctagtggagacaaggaagcaagaccct Alignment from Spaln_aa2Genome GCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAG tgtgctaggccaagaccaccttgttgtatcttcttaatacttttttacagctaccttcagttttcagTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCACCAGATGCTGACCATCCATGGAGAAAGTGGCTTCTCTCTATTCGTGCACCCTGATGGGCCACCCAAACCTCAGCAGCTTCCTGAAAGTCCAAGTCGGGCACCACCCCTAGAGGACACAGAGGAAGAGAGAGgtaagtctacaggttataatcctctagtggagacaaggaagcaagaccct Alignment from Spaln_nt2Genome CAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAG tgtgctaggccaagaccaccttgttgtatcttcttaatacttttttacagctaccttcagttttcag--TCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCACCAGATGCTGACCATCCATGGAGAAAGTGGCTTCTCTCTATTCGTGCACCCTGATGGGCCACCCAAACCTCAGCAGCTTCCTGAAAGTCCAAGTCGGGCACCACCCCTAGAGGACACAGAGGAAGAGAGAGgtaagtctacaggttataatcctctagtggagacaaggaagcaagaccct Alignment from Pairagon CAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAG tgtgctaggccaagaccaccttgttgtatcttcttaatacttttttacagctaccttcagttttcag--TCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCACCAGATGCTGACCATCCATGGAGAAAGTGGCTTCTCTCTATTCGTGCACCCTGATGGGCCACCCAAACCTCAGCAGCTTCCTGAAAGTCCAAGTCGGGCACCACCCCTAGAGGACACAGAGGAAGAGAGAGgtaagtctacaggttataatcctctagtggagacaaggaagcaagaccct Alignment from Exonerate_protein2genome CAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAG tgtgctaggccaagaccaccttgttgtatcttcttaatacttttttacagctaccttcagttttcAGTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCACCAGATGCTGACCATCCATGGAGAAAGTGGCTTCTCTCTATTCGTGCACCCTGATGGGCCACCCAAACCTCAGCAGCTTCCTGAAAGTCCAAGTCGGGCACCACCCCTAGAGGACACAGAGGAAGAGAGAGgtaagtctacaggttataatcctctagtggagacaaggaagcaagaccct Alignment from Exonerate_coding2genome tgtgctaggccaagaccaccttgttgtatcttcttaatacttttttacagctaccttcagttttcagtccttcaaagagatctgcccagcagggaaggtctatcatacgctcacctctcaccagatgctgaccatccatggagaaagtggcttctctctattcgtgcaccctgatgggccacccaaacctcagcagcttcctgaaagtccaagtcgggcaccacccctagaggacacagaggaagagagaggtaagtctacaggttataatcctctagtggagacaaggaagcaagaccct Alignment from GeneWise ---TTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAGGAGTGACCATG- tgtgctaggccaagaccaccttgttgtatcttcttaatacttttttacagctaccttcagttttcagTCCTTCAAAGAGATCTGCCCAGCAGGGAAGGTCTATCATACGCTCACCTCTCACCAGATGCTGACCATCCATGGAGAAAGTGGCTTCTCTCTATTCGTGCACCCTGATGGGCCACCCAAACCTCAGCAGCTTCCTGAAAGTCCAAGTCGGGCACCACCCCTAGAGGACACAGAGGAAGAGAGAGGTAAGTCTACAGgttataatcctctagtggagacaaggaagcaagaccct #### Ltbp3_ID1258_10 --> 0 - 1 Original Alignment CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAg tatgacagctcaaactaccattatgaggttctatcctcaattccctgcagCCAGTGAGTGAGGAGCGATCTGTGCAACAGAGCCATCCCACTACCATT------------------------ggtagtgtggttggaggggatgggcctattcttgtggagcccctcccataa Alignment from CESAR CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAg tatgacagctcaaactaccattatgaggttctatcctcaattccctgcagCCAGTGAGTGAGGAGCGATCTGTGCAACAGAGCCATCCCACTACCATTGGT---------------------agtgtggttggaggggatgggcctatt Alignment from Spaln_aa2Genome CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCA tatgacagctcaaactaccattatgaggttctatcctcaattccctgcagCCAGTGAGTGAGGAGCGATCTGTGCAACAGAGCCATCCCACTACCATTGGTAGTgtggttggaggggatgggcctattcttgtggagcccctcccataa Alignment from Spaln_nt2Genome CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCA CCTCACCCCCCC tatgacagctcaaactaccattatgaggttctatcctcaattccctgcagCCAGTGAGTGAGGAGCGATCTGTGCAACAGAGCCATCCCACTACCATTGgtagtgtggttggaggggatgggcctattcttgtggagCC-CCTCCCATA Alignment from Pairagon CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCA------ tatgacagctcaaactaccattatgaggttctatcctcaattccctgcagCCAGTGAGTGAGGAGCGATCTGTGCAACAGAGCCATCCCACTACCATTGGTAgtgtggttggaggggatgggcctattcttgtggagcccctcccataa Alignment from Exonerate_protein2genome CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAGAGCTCATCTCTCGCCCCTCCCC tatgacagctcaaactaccattatgaggttctatcctcaattccctgcagCCAGTGAGTGAGGAGCGATCTGTGCAACAGAGCCATCCCACTACCATTGGTAGTGTGGTTGGAGGGGATGGGCCTATTCTTGTGGAGCCCCTCCCataa Alignment from Exonerate_coding2genome tatgacagctcaaactaccattatgaggttctatcctcaattccctgcagccagtgagtgaggagcgatctgtgcaacagagccatcccactaccattggtagtgtggttggaggggatgggcctattcttgtggagcccctcccataa Alignment from GeneWise ---GTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCA tatgacagctcaaactaccattatgaggttctatcctcaattccctgcagCCAGTGAGTGAGGAGCGATCTGTGCAACAGAGCCATCCCACTACCATTGgtagtgtggttggaggggatgggcctattcttgtggagcccctcccataa #### Ltbp3_ID1261_13 --> 2 - 1 Original Alignment atGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGg cgcccatatcgtgccaacgcgaatgacttttgtttggcccaccatgccagat------------------GAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCGCCTGTGTGTGggttcggatacttgggtagcacacacctgggtccatttctgaccccagccc Alignment from CESAR atGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGg gatatgactggtcaattccgcccatacttttgtttggcccaccatgccagat------------------GAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCGCCTGTGTGTGggttcggatacttgggtagcacacacctgggtccatttctgaccccagccc Alignment from Spaln_aa2Genome ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG cgcccatatcgtgccaacgcgaatgacttttgtttggcccaccatgccagAT------------------GAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCGCCTGTGTGTGGgttcggatacttgggtagcacacacctgggtccatttctgaccccagccc Alignment from Spaln_nt2Genome ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG cgcccatatcgtgccaacgcgaatgacttttgtttggcccaccatgccagAT------------------GAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCGCCTGTGTGTGGgttcggatacttgggtagcacacacctgggtccatttctgaccccagccc Alignment from Pairagon ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG cgcccatatcgtgccaacgcgaatgacttttgtttggcccaccatgccagAT------------------GAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCGCCTGTGTGTGGgttcggatacttgggtagcacacacctgggtccatttctgaccccagccc Alignment from Exonerate_protein2genome CAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG cgcccatatcgtgccaacgcgaatgacttttgtttggcccaccatgccagATGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCGCCTGTGTGTGGgttcggatacttgggtagcacacacctgggtccatttctgaccccagccc Alignment from Exonerate_coding2genome CAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG cgcccatatcgtgccaacgcgaatgacttttgtttggcccaccatgccagATGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCGCCTGTGTGTGGgttcggatacttgggtagcacacacctgggtccatttctgaccccagccc Alignment from GeneWise ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG cgcccatatcgtgccaacgcgaatgacttttgtttggcccaccatgccagAT------------------GAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGATCGTATAATTGTCATTGCAACCGGGGCTACCGCCTTCATGTAGGTGCAGGGGGCCGCCTGTGTGTGGgttcggatacttgggtagcacacacctgggtccatttctgaccccagccc #### Ltbp3_ID1269_21 --> 2 - 1 Original Alignment ccGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTg agtgacatgggaatataagtgaacccaccctatcatcttttcccccacagcgGAATTTCATAGG---TGTCCTGACGGTAAAGGCTATACCCAAGACAATAACATTGTGAATTATGGCATTCCTACCCAC---ggtaagcggcaagccagtttagtttttagggttcctgatgagaatgctgtt Alignment from CESAR ccGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTg agtgacatgggaatataagtgaacccaccctatcatcttttcccccacagcgGAATTTCATAGG---TGTCCTGACGGTAAAGGCTATACCCAAGACAATAACATTGTGAATTATGGCATTCCTACCCAC---ggtaagcggcaagccagtttagtttttagggttcctgatgagaatgctgtt Alignment from Spaln_aa2Genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCAC- agtgacatgggaatataagtgaacccaccctatcatcttttcccccacagCGGAATTTCATAGG---TGTCCTGACGGTAAAGGCTATACCCAAGACAATAACATTGTGAATTATGGCATTCCTACCCACGgtaagcggcaagccagtttagtttttagggttcctgatgagaatgctgtt Alignment from Spaln_nt2Genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTG agtgacatgggaatataagtgaacccaccctatcatcttttcccccacagCGGAATTTCATAG---GTGTCCTGACGGTAAAGGCTATACCCAAGACAATAACATTGTGAATTATGGCATTCCTACCCAC---Ggtaagcggcaagccagtttagtttttagggttcctgatgagaatgctgtt Alignment from Pairagon CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTG agtgacatgggaatataagtgaacccaccctatcatcttttcccccacagCGGAATTTCATAG---GTGTCCTGACGGTAAAGGCTATACCCAAGACAATAACATTGTGAATTATGGCATTCCTACCCAC---Ggtaagcggcaagccagtttagtttttagggttcctgatgagaatgctgtt Alignment from Exonerate_protein2genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTG agtgacatgggaatataagtgaacccaccctatcatcttttcccccacagCGGAATTTCATAGG---TGTCCTGACGGTAAAGGCTATACCCAAGACAATAACATTGTGAATTATGGCATTCCTACCCAC---Ggtaagcggcaagccagtttagtttttagggttcctgatgagaatgctgtt Alignment from Exonerate_coding2genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTG agtgacatgggaatataagtgaacccaccctatcatcttttcccccacagCGGAATTTCATAGG---TGTCCTGACGGTAAAGGCTATACCCAAGACAATAACATTGTGAATTATGGCATTCCTACCCAC---Ggtaagcggcaagccagtttagtttttagggttcctgatgagaatgctgtt Alignment from GeneWise CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACC agtgacatgggaatataagtgaacccaccctatcatcttttcccccacagCGGAATTTCATAGG---TGTCCTGACGGTAAAGGCTATACCCAAGACAATAACATTGTGAATTATGGCATTCCTACCCACGgtaagcggcaagccagtttagtttttagggttcctgatgagaatgctgtt #### Ltbp3_ID1272_24 --> 2 - 1 Original Alignment agCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCg ggTCCCAGTGC ttagcagcatattgctctggtctctctagtgttccccccccccaccccagagCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCCTAGTGGGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGTCGTGGCTGGGGGACCCAGTGCAGACCA------------------ggtgagtatttttgaaggctaatgatactcttcccaccagggTCCCAGTGC Alignment from CESAR agCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCg ggTCCCAGTGC ttagcagcatattgctctggtctctctagtgttccccccccccaccccagagCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCCTAGTGGGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGTCGTGGCTGGGGGACCCAGTGCAGACCA------------------ggtgagtatttttgaaggcggtttctctcttaacttacagggTCCCAGTGC Alignment from Spaln_aa2Genome AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCG- TGCCCGCCACGT ttagcagcatattgctctggtctctctagtgttccccccccccaccccagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCCTAGTGGGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGTCGTGGCTGGGGGACCCAGTGCAGACCAGgtgagtatttttgaaggctaatgatactcttcccacca Alignment from Spaln_nt2Genome AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCCAGTGC ttagcagcatattgctctggtctctctagtgttccccccccccaccccagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCCTAGTGGGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGTCGTGGCTGGGGGACCCAGTGCAGAC------------------CAGgtgagtatttttgaaggctaatgatactcttcccaccagGGTCCCAGTGC Alignment from Pairagon AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTG------------------------------CCCGCCACGTGGCACCGGG ttagcagcatattgctctggtctctctagtgttccccccccccaccccagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCCTAGTGGGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGTCGTGGCTGGGGGACCCAGTGCAGACCAGGTGAGTATTTTTGAAGGCTAATGATACTCTTCCCACCA---------GGG Alignment from Exonerate_protein2genome AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCG ttagcagcatattgctctggtctctctagtgttccccccccccaccccagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCCTAGTGGGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGTCGTGGCTGGGGGACCCAGTGCAGACCAggtgagtatttttgaaggctaatgatactcttcccaccagggtcccagtgc Alignment from Exonerate_coding2genome AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCG ttagcagcatattgctctggtctctctagtgttccccccccccaccccagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCCTAGTGGGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGTCGTGGCTGGGGGACCCAGTGCAGACCAggtgagtatttttgaaggctaatgatactcttcccaccagggtcccagtgc Alignment from GeneWise AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGC-- ----------------CCGCCACGTGGCACCGGG ttagcagcatattgctctggtctctctagtgttccccccccccaccccagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGGCCCCTAGTGGGACCCGCCCTCACTTTTGATGACTGTTGTTGCCGTCAAGGTCGTGGCTGGGGGACCCAGTGCAGACCAGGTGAgtatttttgaagGCTAATGATACTCTTCCCACCA---------GGG #### Ltbp3_ID1273_25 --> 2 - 1 Original Alignment ACGTGGCACCg ggTCCCAGTGCCCGACTTCACAGAGTGAGAGC---AATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAg ACGTGGTACTggtaagttttgaaggcggtttgcttccccgtgtcttccaggg---CAGTGCTCTACTTTACAGAGTGAGATGCTCAACTCATTTTGGGATACCACCCCGCTGCTACTTGGG---------CGAggtaagtaaggctaagctgatgattgtatgcaaagtctactatgggatttt Alignment from CESAR ACGTGGCACCg ggTCCCAGTGCCCGACTTCACAGAGTGAGAGC---AATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAg ACGTGGTACTggtgagcatttttgacggtttgcttccccgtgtcttccaggg---CAGTGCTCTACTTTACAGAGTGAGATGCTCAACTCATTTTGGGATACCACCCCGCTGCTACTTGGG---------CGAggtaagtaaggctaagctgatgattgtatgcaaagtctactatgggaaaat Alignment from Spaln_aa2Genome ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGC---AATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG ACGTGGTACTGgtaagttttgaaggcggtttgcttccccgtgtcttccagGG---CAGTGCTCTACTTTACAGAGTGAGATGCTCAACTCATTTTGGGATACCACCCCGCTGCTACTTGGG---------CGAGgtaagtaaggctaagctgatgattgtatgcaaagtctactatgggatttt Alignment from Spaln_nt2Genome ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAG---CAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG ACGTGGTACTGgtaagttttgaaggcggtttgcttccccgtgtcttccagGG---CAGTGCTCTACTTTACAGAGTGAGATGCTCAACTCATTTTGGGATACCACCCCGCTGCTACTTGG---------GCGAGgtaagtaaggctaagctgatgattgtatgcaaagtctactatgggatttt Alignment from Pairagon ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGA---GCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG ACGTGGTACTGgtaagttttgaaggcggtttgcttccccgtgtcttccagGG---CAGTGCTCTACTTTACAGAGTGAGATGCTCAACTCATTTTGGGATACCACCCCGCTGCTACTTGG---------GCGAGgtaagtaaggctaagctgatgattgtatgcaaagtctactatgggatttt Alignment from Exonerate_protein2genome ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGC---AATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGT ACGTGGTACTGgtaagttttgaaggcggtttgcttccccgtgtcttccagGG---CAGTGCTCTACTTTACAGAGTGAGATGCTCAACTCATTTTGGGATACCACCCCGCTGCTACTTGGGCGAGgtaagtaaggctaagctgatgattgtatgcaaagtctactatgggatttt Alignment from Exonerate_coding2genome ACGTGGCACCGGG ACGTGGTACTGGTaagttttgaaggcggtttgcttccccgtgtcttccagggcagtgctctactttacagagtgagatgctcaactcattttgggataccaccccgctgctacttgggcgaggtaagtaaggctaagctgatgattgtatgcaaagtctactatgggatttt Alignment from GeneWise ACGTGGCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGC---AATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG ACGTGGTACTGgtaagttttgaaggcggtttgcttccccgtgtcttccagGG---CAGTGCTCTACTTTACAGAGTGAGATGCTCAACTCATTTTGGGATACCACCCCGCTGCTACTTGGG---------CGAGgtaagtaaggctaagctgatgattgtatgcaaagtctactatgggatttt #### Ltbp3_ID1274_26 --> 2 - 1 Original Alignment acGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGg atgattgtatgcaaagtctactatgggaaaattacaaatttctacttcagatGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCCGGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCAATTGGATGCCTCCCGTGCC---------ggtaaacatgatgggtgctacatcagggggtggattagggggtggaagaca Alignment from CESAR acGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGg atgattgtatgcaaagtctactatgggaaaattacaaatttctacttcagatGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCCGGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCAATTGGATGCCTCCCGTGCC---------ggtaaacatgatgggtgctacatcagggggtggattagggggtggaagaca Alignment from Spaln_aa2Genome ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCC- atgattgtatgcaaagtctactatgggaaaattacaaatttctacttcagATGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCCGGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCAATTGGATGCCTCCCGTGCCGgtaaacatgatgggtgctacatcagggggtggattagggggtggaagaca Alignment from Spaln_nt2Genome ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCG atgattgtatgcaaagtctactatgggaaaattacaaatttctacttcagATGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCCGGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCAATTGGATGCCTCCCGTG-CCGgtaaacatgatgggtgctacatcagggggtggattagggggtggaagaca Alignment from Pairagon ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG atgattgtatgcaaagtctactatgggaaaattacaaatttctacttcagATGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCCGGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCAATTGGATGCCTCCCGTGCC---------Ggtaaacatgatgggtgctacatcagggggtggattagggggtggaagaca Alignment from Exonerate_protein2genome ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG atgattgtatgcaaagtctactatgggaaaattacaaatttctacttcagATGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCCGGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCAATTGGATGCCTCCCGTGCCGGTAAACATGatgggtgctacatcagggggtggattagggggtggaagaca Alignment from Exonerate_coding2genome CAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAGACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG ATGATTGTATGCAAAGTCTACTATGGGAAAATTACAAATTTCTACTTCAGATGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCCGGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCAATTGGATGCCTCCCGTGCCGGTAAACATGatgggtgctacatcagggggtggattagggggtggaagaca Alignment from GeneWise ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCC atgattgtatgcaaagtctactatgggaaaattacaaatttctacttcagATGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCCGGTGGGGCTGTATGTGAGTGTCCTGGCGGCTTTCAATTGGATGCCTCCCGTGCCGgtaaacatgatgggtgctacatcagggggtggattagggggtggaagaca #### Macrod1_ID2051_6 --> 2 - 0 Original Alignment at------GTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGC---CTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG ggaagacatcattggcactcccctctttgtaccacctggtcccgttacagatCCCAGTGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTTCACAGCTGTTATCTGAGCAGTCCTTTAGATCTGCTGCTAGAGCACAGATTATGTCCAGTTgtgagattcaagtggttgaaacaacagcaaaagatggcatttaaatgcta Alignment from CESAR at------GTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGC---CTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG ggaagacatcattggcactcccctctttgtaccacctggtcccgttacagatCCCAGTGTCATT------GTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTTCACAGCTGTTATCTGAGCAGTCCTTTAGATCTGCTGCTAGAGCACAGATTATGTCCAGTTgtgagattcaagtggttgaaacaacagcaaaagatggcatttaaatgcta Alignment from Spaln_aa2Genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGC---CTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG ggaagacatcattggcactcccctctttgtaccacctggtcccgttacagATCCCAGTGTCATTGTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTTCACAGCTGTTATCTGAGCAGTCCTTTAGATCTGCTGCTAGAGCACAGATTATGTCCAGTTgtgagattcaagtggttgaaacaacagcaaaagatggcatttaaatgcta Alignment from Spaln_nt2Genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGCC---TGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG ggaagacatcattggcactcccctctttgtaccacctggtcccgttacagATCCCAGTGTCATTGTGGGGCTCATTGCAGTAGG------------GAGTGAGGCGGCTGAATTTCACAGCTGTTATCTGAGCAGTCCTTTAGATCTGCTGCTAGAGCACAGATTATGTCCAGTTgtgagattcaagtggttgaaacaacagcaaaagatggcatttaaatgcta Alignment from Pairagon ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGCC---TGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG ggaagacatcattggcactcccctctttgtaccacctggtcccgttacagatcccag-TGTCATT------GTGGGGCTCATTGCAGTAGG------------GAGTGAGGCGGCTGAATTTCACAGCTGTTATCTGAGCAGTCCTTTAGATCTGCTGCTAGAGCACAGATTATGTCCAGTTgtgagattcaagtggttgaaacaacagcaaaagatggcatttaaatgcta Alignment from Exonerate_protein2genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGC---CTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG ggaagacatcattggcactcccctctttgtaccacctggtcccgttacagATCCCAGTGTCATTGTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTTCACAGCTGTTATCTGAGCAGTCCTTTAGATCTGCTGCTAGAGCACAGATTATGTCCAGTTgtgagattcaagtggttgaaacaacagcaaaagatggcatttaaatgcta Alignment from Exonerate_coding2genome ggaagacatcattggcactcccctctttgtaccacctggtcccgttacagatcccagtgtcattgtggggctcattgcagtagggagtgaggcggctgaatttcacagctgttatctgagcagtcctttagatctgctgctagagcacagattatgtccagttgtgagattcaagtggttgaaacaacagcaaaagatggcatttaaatgcta Alignment from GeneWise ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGC---CTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTGGCT---TTC-- ggaagacatcattggcactcccctctttgtaccacctggtcccgttacagATCCCAGTGTCATTGTGGGGCTCATTGCAGTAGGG------------AGTGAGGCGGCTGAATTTCACAGCTGTTATCTGAGCAGTCCTTTAGATCTGCTGCTAGAGCACAGATTATGTCCAGTTGTGAGATTCAAgtggttgaaacaacagcaaaagatggcatttaaatgcta #### Macrod1_ID2053_8 --> 2 - 0 Original Alignment gcTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--- aatggggtggggtccaatatgcatttacaaatctagcttcaccttaacaggcTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCGGGAATGGTTGGAGCAACACAAGGACAAGCCAgtgaggccaaattcatattacatgatgggagcctggttgctatgaattga Alignment from CESAR gcTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--- aatggggtggggtccaatatgcatttacaaatctagcttcaccttaacaggcTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCGGGAATGGTTGGAGCAACACAAGGACAAGCCAgtgaggccaaattcatattacatgatgggagcctggttgctatgaattga Alignment from Spaln_aa2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--- aatggggtggggtccaatatgcatttacaaatctagcttcaccttaacagGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCGGGAATGGTTGGAGCAACACAAGGACAAGCCAgtgaggccaaattcatattacatgatgggagcctggttgctatgaattga Alignment from Spaln_nt2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--- aatggggtggggtccaatatgcatttacaaatctagcttcaccttaacagGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCGGGAATGGTTGGAGCAACACAAGGACAAGCCAgtgaggccaaattcatattacatgatgggagcctggttgctatgaattga Alignment from Pairagon GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--- aatggggtggggtccaatatgcatttacaaatctagcttcaccttaacagGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCGGGAATGGTTGGAGCAACACAAGGACAAGCCAgtgaggccaaattcatattacatgatgggagcctggttgctatgaattga Alignment from Exonerate_protein2genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--- aatggggtggggtccaatatgcatttacaaatctagcttcaccttaacagGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCGGGAATGGTTGGAGCAACACAAGGACAAGCCAgtgaggccaaattcatattacatgatgggagcctggttgctatgaattga Alignment from Exonerate_coding2genome aatggggtggggtccaatatgcatttacaaatctagcttcaccttaacaggctaccccaatgaggaggctgcagaggtagtgctggtttcattgcgggaatggttggagcaacacaaggacaagccagtgaggccaaattcatattacatgatgggagcctggttgctatgaattga Alignment from GeneWise CATCTCCACAGGCGTGTTTGGCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAGGTG gtggggtccaatatgcatttacaaatctagCTTCACC------TTAACAGGCTACCCCAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCATTGCGGGAATGGTTGGAGCAACACAAGGACAAGCCAgtgaggccaaattcatattacatgatgggagcctggttgctatgaattga #### Map4k2_ID1623_3 --> 2 - 2 Original Alignment ggGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCag ggaacggaacaatgcattgtcctaaaactggtgcttattttcaattgtaggg---------AGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGTAGCTACCTCaggtaacactgttcacacctacacactcaggtgcgatactcttaggtgttca Alignment from CESAR ggGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCag tatcattcaggaacggaacaatgcaaactggtgcttattttcaattgtaggg---------AGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGTAGCTACCTCaggtaacactgttcacacctacacactcaggtgcgatactcttaggtgttca Alignment from Spaln_aa2Genome GGGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG ggaacggaacaatgcattgtcctaaaactggtgcttattttcaattgtagGG---------AGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGTAGCTACCTCAGgtaacactgttcacacctacacactcaggtgcgatactcttaggtgttca Alignment from Spaln_nt2Genome GGGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG ggaacggaacaatgcattgtcctaaaactggtgcttattttcaattgtagGG---------AGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGTAGCTACCTCAGgtaacactgttcacacctacacactcaggtgcgatactcttaggtgttca Alignment from Pairagon GGGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG ggaacggaacaatgcattgtcctaaaactggtgcttattttcaattgtagGG---------AGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGTAGCTACCTCAGgtaacactgttcacacctacacactcaggtgcgatactcttaggtgttca Alignment from Exonerate_protein2genome ggaacggaacaatgcattgtcctaaaactggtgcttattttcaattgtagggagctctcttcagcaggaaatcaccatccttcgtgaatgccgccaccccaatgttgtggcctacatcagtagctacctcaggtaacactgttcacacctacacactcaggtgcgatactcttaggtgttca Alignment from Exonerate_coding2genome ggaacggaacaatgcattgtcctaaaactggtgcttattttcaattgtagggagctctcttcagcaggaaatcaccatccttcgtgaatgccgccaccccaatgttgtggcctacatcagtagctacctcaggtaacactgttcacacctacacactcaggtgcgatactcttaggtgttca Alignment from GeneWise CAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG ggaacggaacaatgcattgtcctaaaactggtgcttattttcaattgtagggagCTCT---CTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGTAGCTACCTCAGgtaacactgttcacacctacacactcaggtgcgatactcttaggtgttca #### Map4k2_ID1624_4 --> 1 - 1 Original Alignment gAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACg gcgatactcttaggtgttcattgcactatctgttttctgtcttttttcaggAATGACCGATTGTGGATCTGTATGGAGTTCTGT------------------------------ggtaagcaccaaactccatggacctgtcattgcggcaacgacgttgtcata Alignment from CESAR gAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACg gcgatactcttaggtgttcattgcactatctgttttctgtcttttttcaggAATGACCGATTGTGGATCTGTATGGAGTTCTGT------------------------------ggtaagcaccaaactccatggacctgtcattgcggcaacgacgttgtcata Alignment from Spaln_aa2Genome GAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACG gcgatactcttaggtgttcattgcactatctgttttctgtcttttttcagGAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGTAAGCACCAAACTCCATGGACCTGTCATTgcggcaacgacgttgtcata Alignment from Spaln_nt2Genome GAATGACCGATTGTGGATCTGTATGGAGTTCTGTGG-AGGAGGGTCACTGCA-GGAGATTT-ACCACG gcgatactcttaggtgttcattgcactatctgttttctgtcttttttcagGAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGTAAGCACCAAACTCCATGGACCTGTCATTGCGgcaacgacgttgtcata Alignment from Pairagon GAATGACCGATTGTGGATCTGTATGGAGTTCTGTG gcgatactcttaggtgttcattgcactatctgttttctgtcttttttcagGAATGACCGATTGTGGATCTGTATGGAGTTCTGTGgtaagcaccaaactccatggacctgtcattgcggcaacgacgttgtcata Alignment from Exonerate_protein2genome gcgatactcttaggtgttcattgcactatctgttttctgtcttttttcaggaatgaccgattgtggatctgtatggagttctgtggtaagcaccaaactccatggacctgtcattgcggcaacgacgttgtcata Alignment from Exonerate_coding2genome GAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACG gcgatactcttaggtgttcattgcactatctgttttctgtcttttttcagGAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGTAAGCACCAAACTCCATGGACCTGTCATTgcggcaacgacgttgtcata Alignment from GeneWise GAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACG gcgatactcttaggtgttcattgcactatctgttttctgtcttttttcagGAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGT------AAGCACCAAACTCCATGGACCTgtcattgcggcaacgacgtt #### Map4k2_ID1625_5 --> 2 - 0 Original Alignment cc------ACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cttaaagatatcaattccttctatctaattccccttttcttacttgctagctGATCTCACCGGACCACTTGAAGAAAGGCAAATTGCCTATGTTTGTTGGGCAGCCCTTAGGgtataggatttgctaacagtatcaatttgagcagttagattgcccattag Alignment from CESAR cc------ACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cttaaagatatcaattccttctatctaattccccttttcttacttgctagctGATCTCACCGGACCACTTGAAGAAAGGCAAATTGCCTATGTTTGTTGGGCAGCCCTTAGGgtataggatttgctaacagtatcaatttgagcagttagattgcccattag Alignment from Spaln_aa2Genome CC------ACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cttaaagatatcaattccttctatctaattccccttttcttacttgctagCTGATCTCACCGGACCACTTGAAGAAAGGCAAATTGCCTATGTTTGTTGGGCAGCCCTTAGGgtataggatttgctaacagtatcaatttgagcagttagattgcccattag Alignment from Spaln_nt2Genome C------CACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cttaaagatatcaattccttctatctaattccccttttcttacttgctagCTGATCTCACCGGACCACTTGAAGAAAGGCAAATTGCCTATGTTTGTTGGGCAGCCCTTAGGgtataggatttgctaacagtatcaatttgagcagttagattgcccattag Alignment from Pairagon C------CACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cttaaagatatcaattccttctatctaattccccttttcttacttgctagCTGATCTCACCGGACCACTTGAAGAAAGGCAAATTGCCTATGTTTGTTGGGCAGCCCTTAGGgtataggatttgctaacagtatcaatttgagcagttagattgcccattag Alignment from Exonerate_protein2genome cttaaagatatcaattccttctatctaattccccttttcttacttgctagctgatctcaccggaccacttgaagaaaggcaaattgcctatgtttgttgggcagcccttagggtataggatttgctaacagtatcaatttgagcagttagattgcccattag Alignment from Exonerate_coding2genome CC------ACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cttaaagatatcaattccttctatctaattccccttttcttacttgctagCTGATCTCACCGGACCACTTGAAGAAAGGCAAATTGCCTATGTTTGTTGGGCAGCCCTTAGGgtataggatttgctaacagtatcaatttgagcagttagattgcccattag Alignment from GeneWise -----GCCACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cttaaagatatcaattccttctatctaattccccttttcttacttgctagCTGATCTCACCGGACCACTTGAAGAAAGGCAAATTGCCTATGTTTGTTGGGCAGCCCTTAGGgtataggatttgctaacagtatcaatttgagcagttagattgcccattag #### Map4k2_ID1629_8 --> 2 - 2 Original Alignment cgGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATACtg tggtgtaggacacatatgtgcccccaggcatgtttattttcactttgcagctGATTTTGGGGTCACGGATGGAGCTACAACATCTGTTGCTAAGAGGCACTCTCTCATAGGC---------tggtagtttgtagggactactccagagcatgggtgaagagcatattgagagg Alignment from CESAR cgGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATACtg tggtgtaggacacatatgtgcccccaggcatgtttattttcactttgcagctGATTTTGGGGTCACGGATGGAGCTACAACATCTGTTGCTAAGAGGCACTCTCTCATAGGC---------tggtagtttgtagggactactccagagcatgggtgaagagcatattgagagg Alignment from Spaln_aa2Genome CGGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATACTG tggtgtaggacacatatgtgcccccaggcatgtttattttcactttgcagCTGATTTTGGGGTCACGGATGGAGCTACAACATCTGTTGCTAAGAGGCACTCTCTCATAGGC------TGGTAgtttgtagggactactccagagcatgggtgaagagcatattgagagg Alignment from Spaln_nt2Genome CGGACTTTGGGGTGTCAGGCG-AGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATACTG tggtgtaggacacatatgtgcccccaggcatgtttattttcactttgcagCTGATTTTGGGGTCACGGATGGAGCT-ACAACATCTGTTGCTAAGAGGCACTCTCTCATAGG---------CTGgtagtttgtagggactactccagagcatgggtgaagagcatattgagagg Alignment from Pairagon tggtgtaggacacatatgtgcccccaggcatgtttattttcactttgcagctgattttggggtcacggatggagctacaacatctgttgctaagaggcactctctcataggctggtagtttgtagggactactccagagcatgggtgaagagcatattgagagg Alignment from Exonerate_protein2genome CGGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATAC tggtgtaggacacatatgtgcccccaggcatgtttattttcactttgcagCTGATTTTGGGGTCACGGATGGAGCTACAACATCTGTTGCTAAGAGGCACTCTCTCATAGGCTGGTAGTTTgtagggactactccagagcatgggtgaagagcatattgagagg Alignment from Exonerate_coding2genome GGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGA tggtgtaggacacatatgtgcccccaggcatgtttattttcactttgcagctgattttggggtcacggatggagctacaacatctgttgctaagaggcactctctcataggctggtagtttgtagGGACTACTCCAGAGCATGGGTGAAGAGCATATTGAGAGG Alignment from GeneWise CGGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATACTGG-- tggtgtaggacacatatgtgcccccaggcatgtttattttcactttgcagCTGATTTTGGGGTCACGGATGGAGCTACAACATCTGTTGCTAAGAGGCACTCTCTCATAGGC---------TGGTAgtttgtagggactactccagagcatgggtgaagagcatattgagagg #### Map4k2_ID1630_9 --> 1 - 2 Original Alignment gATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATGag gagaggatcaccagatctacacctggaaatttatttattttttcttgcagg---------GAAGTTGCTGCTGTGGAGCGTAAGGGTGGCTACAATGAGCTATGTGACATATGGGCATTAGGTATTACTCCAGTGGAATCAAGTGAACTCCAACATCCGTTACTCCACCTGCACCCCATGaggtaagatcagaacttgcagtgtgctcgtccctcctgatacccttgacgtt Alignment from CESAR gATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATGag gagcatattgagaggatcaccagatgaaatttatttattttttcttgcagg---------GAAGTTGCTGCTGTGGAGCGTAAGGGTGGCTACAATGAGCTATGTGACATATGGGCATTAGGTATTACTCCAGTGGAATCAAGTGAACTCCAACATCCGTTACTCCACCTGCACCCCATGaggtaagatcagaacttgcagtgtgctcgtccctcctgatacccttgacttt Alignment from Spaln_aa2Genome GATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATGAG gagaggatcaccagatctacacctggaaatttatttattttttcttgcagG---------GAAGTTGCTGCTGTGGAGCGTAAGGGTGGCTACAATGAGCTATGTGACATATGGGCATTAGGTATTACTCCAGTGGAATCAAGTGAACTCCAACATCCGTTACTCCACCTGCACCCCATGAGgtaagatcagaacttgcagtgtgctcgtccctcctgatacccttgacgtt Alignment from Spaln_nt2Genome GATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATGAG gagaggatcaccagatctacacctggaaatttatttattttttcttgcagG---------GAAGTTGCTGCTGTGGAGCGTAAGGGTGGCTACAATGAGCTATGTGACATATGGGCATTAGGTATTACTCCAGTGGAATCAAGTGAACTCCAACATCCGTTACTCCACCTGCACCCCATGAGgtaagatcagaacttgcagtgtgctcgtccctcctgatacccttgacgtt Alignment from Pairagon GATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTG---------------------------TTCCACCTGCACCCCATGAG gagaggatcaccagatctacacctggaaatttatttattttttcttgcagG---------GAAGTTGCTGCTGTGGAGCGTAAGGGTGGCTACAATGAGCTATGTGACATATGGGCATTAGGTATTACT---------------------------CCAGTGGAATCAAGTGAACTCCAACATCCGTTACTCCACCTGCACCCCATGAGgtaagatcagaacttgcagtgtgctcgtccctcctgatacccttgacgtt Alignment from Exonerate_protein2genome gagaggatcaccagatctacacctggaaatttatttattttttcttgcagggaagttgctgctgtggagcgtaagggtggctacaatgagctatgtgacatatgggcattaggtattactccagtggaatcaagtgaactccaacatccgttactccacctgcaccccatgaggtaagatcagaacttgcagtgtgctcgtccctcctgatacccttgacgtt Alignment from Exonerate_coding2genome gagaggatcaccagatctacacctggaaatttatttattttttcttgcagggaagttgctgctgtggagcgtaagggtggctacaatgagctatgtgacatatgggcattaggtattactccagtggaatcaagtgaactccaacatccgttactccacctgcaccccatgaggtaagatcagaacttgcagtgtgctcgtccctcctgatacccttgacgtt Alignment from GeneWise GATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATGAG gagaggatcaccagatctacacctggaaatttatttattttttcttgcagG---------GAAGTTGCTGCTGTGGAGCGTAAGGGTGGCTACAATGAGCTATGTGACATATGGGCATTAGGTATTACTCCAGTGGAATCAAGTGAACTCCAACATCCGTTACTCCACCTGCACCCCATGAGgtaagatcagaacttgcagtgtgctcgtccctcctgatacccttgacgtt #### Map4k2_ID1631_10 --> 1 - 2 Original Alignment gGCCTTGATGCTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGT---tg tgtgctcgtccctcctgatacccttgacttttcccctctgcttgtaacaggGCACTGATGCTCATGTCAAAGAGCAGTTTCCAGCCACCTAAGCTAAGAGATAAGACACGTTCAtggtaagtctccaccacaactgggaaattcccagcttactgtatgagataga Alignment from CESAR gGCCTTGATGCTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGT---tg tgtgctcgtccctcctgatacccttgacttttcccctctgcttgtaacaggGCACTGATGCTCATGTCAAAGAGCAGTTTCCAGCCACCTAAGCTAAGAGATAAGACACGTTCAtggtaagtctccaccacaactgggaaattcccagcttactgtatgagataga Alignment from Spaln_aa2Genome GGCCTTGATGCTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTTGG-- tgtgctcgtccctcctgatacccttgacttttcccctctgcttgtaacagGGCACTGATGCTCATGTCAAAGAGCAGTTTCCAGCCACCTAAGCTAAGAGATAAGACACGTTCATGgtaagtctccaccacaactgggaaattcccagcttactgtatgagataga Alignment from Spaln_nt2Genome GGCCTTGATGCTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTT---G tgtgctcgtccctcctgatacccttgacttttcccctctgcttgtaacagGGCACTGATGCTCATGTCAAAGAGCAGTTTCCAGCCACCTAAGCTAAGAGATAAGACACGTTCATGgtaagtctccaccacaactgggaaattcccagcttactgtatgagataga Alignment from Pairagon GGCCTTGATGCTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGT---TG tgtgctcgtccctcctgatacccttgacttttcccctctgcttgtaacagGGCACTGATGCTCATGTCAAAGAGCAGTTTCCAGCCACCTAAGCTAAGAGATAAGACACGTTCATGgtaagtctccaccacaactgggaaattcccagcttactgtatgagataga Alignment from Exonerate_protein2genome tgtgctcgtccctcctgatacccttgacttttcccctctgcttgtaacagggcactgatgctcatgtcaaagagcagtttccagccacctaagctaagagataagacacgttcatggtaagtctccaccacaactgggaaattcccagcttactgtatgagataga Alignment from Exonerate_coding2genome tgtgctcgtccctcctgatacccttgacttttcccctctgcttgtaacagggcactgatgctcatgtcaaagagcagtttccagccacctaagctaagagataagacacgttcatggtaagtctccaccacaactgggaaattcccagcttactgtatgagataga Alignment from GeneWise GGCCTTGATGCTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTTGG-- tgtgctcgtccctcctgatacccttgacttttcccctctgcttgtaacagGGCACTGATGCTCATGTCAAAGAGCAGTTTCCAGCCACCTAAGCTAAGAGATAAGACACGTTCATGgtaagtctccaccacaactgggaaattcccagcttactgtatgagataga #### Map4k2_ID1632_11 --> 1 - 0 Original Alignment gACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG caatgcctaatctgaatctggatgggtggtgcaacactcctgtcttacaggACTCAGAATTTTCACCACTTCCGCAAGCTAGCCCTGACCAAGAATCCAAAGAAGAGGCCAACCGCAGAGAGGCTTCTA---gtgagtagtaccagagaacaggtggaagattttgaaaaagaactttaaac Alignment from CESAR gACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG caatgcctaatctgaatctggatgggtggtgcaacactcctgtcttacaggACTCAGAATTTTCACCACTTCCGCAAGCTAGCCCTGACCAAGAATCCAAAGAAGAGGCCAACCGCAGAGAGGCTTCTA---gtgagtagtaccagagaacaggtggaagattttgaaaggatgggtct Alignment from Spaln_aa2Genome GACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTG caatgcctaatctgaatctggatgggtggtgcaacactcctgtcttacagGACTCAGAATTTTCACCACTTCCGCAAGCTAGCCCTGACCAAGAATCCAAAGAAGAGGCCAACCGCAGAGAGGCTTCTAgtgagtagtaccagagaacaggtggaagattttgaaaaagaactttaaac Alignment from Spaln_nt2Genome GACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTG caatgcctaatctgaatctggatgggtggtgcaacactcctgtcttacagGACTCAGAATTTTCACCACTTCCGCAAGCTAGCCCTGACCAAGAATCCAAAGAAGAGGCCAACCGCAGAGAGGCTTCTAgtgagtagtaccagagaacaggtggaagattttgaaaaagaactttaaac Alignment from Pairagon GACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTC---------------------------------------------------- caatgcctaatctgaatctggatgggtggtgcaacactcctgtcttacagGACTCAGAATTTTCACCACTTCCGCAAGCTAGCCCTGACCAAGAATCCAAAGAAGAGGCCAACCGCAGAGAGGCTTCTAGTGAGTAGTACCAGAGAACAGGTGGAAGATTTTGAAAAAGAACTTTAAAC Alignment from Exonerate_protein2genome GACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG caatgcctaatctgaatctggatgggtggtgcaacactcctgtcttacagGACTCAGAATTTTCACCACTTCCGCAAGCTAGCCCTGACCAAGAATCCAAAGAAGAGGCCAACCGCAGAGAGGCTTCTA---gtgagtagtaccagagaacaggtggaagattttgaaaaagaacttta Alignment from Exonerate_coding2genome caatgcctaatctgaatctggatgggtggtgcaacactcctgtcttacaggactcagaattttcaccacttccgcaagctagccctgaccaagaatccaaagaagaggccaaccgcagagaggcttctagtgagtagtaccagagaacaggtggaagattttgaaaaagaactttaaac Alignment from GeneWise GACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTG------------------CAG caatgcctaatctgaatctggatgggtggtgcaacactcctgtcttacagGACTCAGAATTTTCACCACTTCCGCAAGCTAGCCCTGACCAAGAATCCAAAGAAGAGGCCAACCGCAGAGAGGCTTCTAGTGAGTAGTACCAGAGAACAGgtggaagattttgaaaaagaactttaaac #### Map4k2_ID1633_12 --> 0 - 0 Original Alignment CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG gaaaaagggatgggcgcgtgcagctacgtccgaactctgctcacccctag------------------CATCTCCCTCCAGCACTTCTTACCCAACTCCTTGACAAGACTAGTGATCCCCATTTAGGTACCCTCTCCCCCGAAGACAGTAAGCTAAAGgtgggctaggggaccaggtatagcttgggggataggtggtgtccacaaga Alignment from CESAR CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG gaacaggtggaagattttgaaaaagacgtccgaactctgctcacccctag------------------CATCTCCCTCCAGCACTTCTTACCCAACTCCTTGACAAGACTAGTGATCCCCATTTAGGTACCCTCTCCCCCGAAGACAGTAAGCTAAAGgtgggctaggggaccaggtatagcttgggggataggtggtgtccacaaga Alignment from Spaln_aa2Genome CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG gaaaaagggatgggcgcgtgcagctacgtccgaactctgctcacccctag------------------CATCTCCCTCCAGCACTTCTTACCCAACTCCTTGACAAGACTAGTGATCCCCATTTAGGTACCCTCTCCCCCGAAGACAGTAAGCTAAAGgtgggctaggggaccaggtatagcttgggggataggtggtgtccacaaga Alignment from Spaln_nt2Genome C--------ACCCATTCACGACCC-AGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG gaaaaagggatgggcgcgtgcagCTACGTCCGAACTCTGCTCACCCCTAGCATCTCCCTCCAGCACTTCTTACCCAACTCCTTGACAAGACTAGTGATCCCCATTTAGGTACCCTCTCCCCCGAAGACAGTAAGCTAAAGgtgggctaggggaccaggtatagcttgggggataggtggtgtccacaaga Alignment from Pairagon --------------------------------CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG ATGGGCGCGTGCAGCTACGTCCGAACTCTGCTCACC---------CCTAGCATCTCCCTCCAGCACTTCTTACCCAACTCCTTGACAAGACTAGTGATCCCCATTTAGGTACCCTCTCCCCCGAAGACAGTAAGCTAAAGgtgggctaggggaccaggtatagcttgggggataggtggtgtccacaaga Alignment from Exonerate_protein2genome gaaaaagggatgggcgcgtgcagctacgtccgaactctgctcacccctagcatctccctccagcacttcttacccaactccttgacaagactagtgatccccatttaggtaccctctcccccgaagacagtaagctaaaggtgggctaggggaccaggtatagcttgggggataggtggtgtccacaaga Alignment from Exonerate_coding2genome gaaaaagggatgggcgcgtgcagctacgtccgaactctgctcacccctagcatctccctccagcacttcttacccaactccttgacaagactagtgatccccatttaggtaccctctcccccgaagacagtaagctaaaggtgggctaggggaccaggtatagcttgggggataggtggtgtccacaaga Alignment from GeneWise ------------------------------CACCCATTCACGACC--CAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG GAAAAAGGGATGGGCGCGTGCAGCTACGTCCGAACTCTGCTCACCCCTAGCATCTCCCTCCAGCACTTCTTACCCAACTCCTTGACAAGACTAGTGATCCCCATTTAGGTACCCTCTCCCCCGAAGACAGTAAGCTAAAGgtgggctaggggaccaggtatagcttgggggataggtggtgtccacaaga #### Map4k2_ID1634_13 --> 0 - 1 Original Alignment ---------ACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGt taagtctactggtgcgtagcaagttaactcccctttctgcttcatttcagGAGCTTAAAACCCATGATATGTTCCCGGATACTATCCATTCCCACAGCCATCATGGTCCAGCTGAGAGGACTCCTTCAGAGATCCAAtgtaagctatcgggtggtgagaaaatcctaataagatcaggtacctgcaga Alignment from CESAR ---------ACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGt taagtctactggtgcgtagcaagttaactcccctttctgcttcatttcagGAGCTTAAAACCCATGATATGTTCCCGGATACTATCCATTCCCACAGCCATCATGGTCCAGCTGAGAGGACTCCTTCAGAGATCCAAtgtaagctatcgggtggtgagaaaatcctaataagatcaggtacctgcaga Alignment from Spaln_aa2Genome GAGCTGGAGACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGT taagtctactggtgcgtagcaagttaactcccctttctgcttcatttcagGAGCTTAAAACCCATGATATGTTCCCGGATACTATCCATTCCCACAGCCATCATGGTCCAGCTGAGAGGACTCCTTCAGAGATCCAATgtaagctatcgggtggtgagaaaatcctaataagatcaggtacctgcaga Alignment from Spaln_nt2Genome TGAGCTGGAGACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGT taagtctactggtgcgtagcaagttaactcccctttctgcttcatttcagGAGCTTAAAACCCATGATATGT-TCCCGGATACTATCCATTCCCACAGCCATCATGGTCCAGCTGAGAGGACTCCTTCAGAGATCCAATgtaagctatcgggtggtgagaaaatcctaataagatcaggtacctgcaga Alignment from Pairagon ---------ACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGT taagtctactggtgcgtagcaagttaactcccctttctgcttcatttcagGAGCTTAAAACCCATGATATGTTCCCGGATACTATCCATTCCCACAGCCATCATGGTCCAGCTGAGAGGACTCCTTCAGAGATCCAATgtaagctatcgggtggtgagaaaatcctaataagatcaggtacctgcaga Alignment from Exonerate_protein2genome taagtctactggtgcgtagcaagttaactcccctttctgcttcatttcaggagcttaaaacccatgatatgttcccggatactatccattcccacagccatcatggtccagctgagaggactccttcagagatccaatgtaagctatcgggtggtgagaaaatcctaataagatcaggtacctgcaga Alignment from Exonerate_coding2genome taagtctactggtgcgtagcaagttaactcccctttctgcttcatttcaggagcttaaaacccatgatatgttcccggatactatccattcccacagccatcatggtccagctgagaggactccttcagagatccaatgtaagctatcgggtggtgagaaaatcctaataagatcaggtacctgcaga Alignment from GeneWise ---------ACCCATGACATGTTTCCAGATACCATCCATTCCCGCAGCCATCATGGTCCTGCTGAGAGGACCCCCTCCGAGATCCAGT taagtctactggtgcgtagcaagttaactcccctttctgcttcatttcagGAGCTTAAAACCCATGATATGTTCCCGGATACTATCCATTCCCACAGCCATCATGGTCCAGCTGAGAGGACTCCTTCAGAGATCCAATgtaagctatcgggtggtgagaaaatcctaataagatcaggtacctgcaga #### Map4k2_ID1635_14 --> 2 - 0 Original Alignment ttCACCAAGTGAAATTCGGT------------------GCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG aataagatcaggtacctgcagagggactccgtcccttatacctgatgcagttCACCAAGTGGAATTCGCAGCTCCACACCAGAAGGAGACTCCCCAACAGAAAGAG---------------------gtaaggtaaaggtatagggggatgattaccgtatggcagggaagaggctg Alignment from CESAR ttCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG aataagatcaggtacctgcagagggactccgtcccttatacctgatgcagttCACCAAGTGGAATTCGCAGCTCCACACCAGAAGGAGACT---CCCCAACAGAAAGAGgtaaggtaaaggtatagggggatgattaccgtatggcagggaagaggctg Alignment from Spaln_aa2Genome TTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG aataagatcaggtacctgcagagggactccgtcccttatacctgatgcagTTCACCAAGTGGAATTCGCAGCTCCACACCAGAAGGAGACT---CCCCAACAGAAAGAGgtaaggtaaaggtatagggggatgattaccgtatggcagggaagaggctg Alignment from Spaln_nt2Genome TTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG aataagatcaggtacctgcagagggactccgtcccttatacctgatgcagTTCACCAAGTGGAATTCGCAGCTCCACACCAGAAGGAGAC---TCCCCAACAGAAAGAGgtaaggtaaaggtatagggggatgattaccgtatggcagggaagaggctg Alignment from Pairagon TTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGAC--------------AG aataagatcaggtacctgcagagggactccgtcccttatacctgatgcagTTCACCAAGTGGAATTCGCAGCTCCACACCAGAAGGAGACTCCCCAACAGAAAGAGgtaaggtaaaggtatagggggatgattaccgtatggcagggaagaggctg Alignment from Exonerate_protein2genome aataagatcaggtacctgcagagggactccgtcccttatacctgatgcagttcaccaagtggaattcgcagctccacaccagaaggagactccccaacagaaagaggtaaggtaaaggtatagggggatgattaccgtatggcagggaagaggctg Alignment from Exonerate_coding2genome aataagatcaggtacctgcagagggactccgtcccttatacctgatgcagttcaccaagtggaattcgcagctccacaccagaaggagactccccaacagaaagaggtaaggtaaaggtatagggggatgattaccgtatggcagggaagaggctg Alignment from GeneWise TTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG aataagatcaggtacctgcagagggactccgtcccttatacctgatgcagTTCACCAAGTGGAATTCGCAGCTCCACACCAGAAGGAGACT---CCCCAACAGAAAGAGgtaaggtaaaggtatagggggatgattaccgtatggcagggaagaggctg #### Map4k2_ID1637_16 --> 1 - 2 Original Alignment g---------AGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAag gcaaacggaccctgttgatgcttgggactggattttatttcccctttgaggGAATTTCGAAGCCTGTTGCAGTCAGTGCAGGAAGCTCTGGAGGATaagtaatactttatcccttgaccaaaggctgggaagtgccacaccccagaag Alignment from CESAR g---------AGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAag gcaaacggaccctgttgatgcttgggactggattttatttcccctttgaggGAATTTCGAAGCCTGTTGCAGTCAGTGCAGGAAGCTCTGGAGGATaagtaatactttatcccttgaccaaaggctgggaagtgccacaccccagaag Alignment from Spaln_aa2Genome GAGCCTGCTGCAGTCAGTC---------CAGGAGGCCCTGGAGGAAAG gcaaacggaccctgttgatgcttgggactggattttatttcccctttgagGGAATTTCGAAGCCTGTTGCAGTCAGTGCAGGAAGCTCTGGAGGATAAgtaatactttatcccttgaccaaaggctgggaagtgccacaccccagaag Alignment from Spaln_nt2Genome GTGGGAGCCTGCTGCA-----GTCAGTCCAGGAGGCCCTGGAGGAAAG gcaaacggaccctgttgatgcttgggactggattttatttcccctttgagGGAATTTCGAAGCCTGTTGCAGTCAGTGCAGGAAGCTCTGGAGGATAAgtaatactttatcccttgaccaaaggctgggaagtgccacaccccagaag Alignment from Pairagon ------------------------------------------------------------AGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAAG GCAAACGGACCCTGTTGATGCTTGGGACTGGATTTTATTTCCCCTTTGAGGGAATTTCGAAGCCTGTTGCAGTCAGTGCAGGAAGCTCTGGAGGATAAgtaatactttatcccttgaccaaaggctgggaagtgccacaccccagaag Alignment from Exonerate_protein2genome GAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAAG gcaaacggaccctgttgatgcttgggactggattttatttcccctttgagggaatttcgAAGCCTGTTGCAGTCAGTGCAGGAAGCTCTGGAGGATAAgtaatactttatcccttgaccaaaggctgggaagtgccacaccccagaag Alignment from Exonerate_coding2genome GGAGGA GCAAACggaccctgttgatgcttgggactggattttatttcccctttgagggaatttcgaagcctgttgcagtcagtgcaggaagctctggaggataagtaatactttatcccttgaccaaaggctgggaagtgccacaccccagaag Alignment from GeneWise AGAACTCCAGGAG GCAAACGGACCCTgttgatgcttgggactggattttatttcccctttgagggaatttcgaagcctgttgcagtcagtgcaggaagctctggaggataagtaatactttatcccttgaccaaaggctgggaagtgccacaccccagaag #### Map4k2_ID1639_18 --> 0 - 1 Original Alignment ---GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAg ctacagaacaacattttatggggccgggagccctgtccttaccttcccagTTTGAACTTGATTCCCCAGATGATGCCATTGGAACTATTAAGCAGGCGCCATTCCTGGGCCTCCCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGT---CCAggtgagatcagggaatggtaagccacatggtatgttgcggacatgccaggg Alignment from CESAR ---GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAg ctacagaacaacattttatggggccgggagccctgtccttaccttcccagTTTGAACTTGATTCCCCAGATGATGCCATTGGAACTATTAAGCAGGCGCCATTCCTGGGCCTCCCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGT---CCAggtgagatcagggaatggtaagccacatggtatgttgcggacatgccaggg Alignment from Spaln_aa2Genome GAGCTGGACTCC---CCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAG ctacagaacaacattttatggggccgggagccctgtccttaccttcccagTTTGAACTTGATTCCCCAGATGATGCCATTGGAACTATTAAGCAGGCGCCATTCCTGGGCCTCCCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGT---CCAGgtgagatcagggaatggtaagccacatggtatgttgcggacatgccaggg Alignment from Spaln_nt2Genome ---GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAG ctacagaacaacattttatggggccgggagccctgtccttaccttcccagTTTGAACTTGATTCCCCAGATGATGCCATTGGAACTATTAAGCAGGCGCCATTCCTGGGCCTCCCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTG---TCCAGgtgagatcagggaatggtaagccacatggtatgttgcggacatgccaggg Alignment from Pairagon ---GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGC------------------------------------------------------ ctacagaacaacattttatggggccgggagccctgtccttaccttcccagTTTGAACTTGATTCCCCAGATGATGCCATTGGAACTATTAAGCAGGCGCCATTCCTGGGCCTCCCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGTCCAGGTGAGATCAGGGAATGGTAAGCCACATGGTATGTTGCGGACATGCCAGGG Alignment from Exonerate_protein2genome ---GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAG ctacagaacaacattttatggggccgggagccctgtccttaccttcccagTTTGAACTTGATTCCCCAGATGATGCCATTGGAACTATTAAGCAGGCGCCATTCCTGGGCCTCCCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGT---CCAGgtgagatcagggaatggtaagccacatggtatgttgcggacatgccaggg Alignment from Exonerate_coding2genome ---GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCC ctacagaacaacattttatggggccgggagccctgtccttaccttcccagTTTGAACTTGATTCCCCAGATGATGCCATTGGAACTATTAAGCAGGCGCCATTCCTGGGCCTCCCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGTCCAGgtgagatcagggaatggtaagccacatggtatgttgcggacatgccaggg Alignment from GeneWise AGTCAGTCCAGGAGGCCCTGGAGGAAAGGAGCCTGACTATCCGGCCAGCCTTAGAACTCCAGGAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAG CTACAGAACAACATTTTATGGGGCCGGGAGCCCTGTCCTTACCTTCCCAGTTTGAACTT---------GATTCCCCAGATGATGCCATTGGAACTATTAAGCAGGCGCCATTCCTGGGCCTCCCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGT---CCAGgtgagatcagggaatggtaagccacatggtatgttgcggacatgccaggg #### Map4k2_ID1642_21 --> 0 - 1 Original Alignment ATGGGTGCCTGCTTCTCCAAGGTCTTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGA------g gaggtgccatgatgtcctagccaactggtctttctgtcaccctgggctagATGGGTGCTTGCTTCACCAAGGTCTCTAATGGCTGTCCTCTGCAGATTCATGCTGCCGTTACTTGGGTTCACCCTGTGACACGAGAAGAAggtatgtgtaggtagactagaagggataacttaggaacccatgaccctgag Alignment from CESAR ATGGGTGCCTGCTTCTCCAAGGTCTTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGA------g ggggtgccatgatgtcctagccaactggtctttctgtcaccctgggctagATGGGTGCTTGCTTCACCAAGGTCTCTAATGGCTGTCCTCTGCAGATTCATGCTGCCGTTACTTGGGTTCACCCTGTGACACGAGAAGAAggtatgtgtaggtagactagaagggataacttaggaacccatgaccctgag Alignment from Spaln_aa2Genome ATGGGTGCCTGCTTCTCCAAGGTCTTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGA------G gaggtgccatgatgtcctagccaactggtctttctgtcaccctgggctagATGGGTGCTTGCTTCACCAAGGTCTCTAATGGCTGTCCTCTGCAGATTCATGCTGCCGTTACTTGGGTTCACCCTGTGACACGAGAAGAAGgtatgtgtaggtagactagaagggataacttaggaacccatgaccctgag Alignment from Spaln_nt2Genome ATGGGTGCCTGCTTCTCCAAGGTCTTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG------ gaggtgccatgatgtcctagccaactggtctttctgtcaccctgggctagATGGGTGCTTGCTTCACCAAGGTCTCTAATGGCTGTCCTCTGCAGATTCATGCTGCCGTTACTTGGGTTCACCCTGTGACACGAGAAGAAGgtatgtgtaggtagactagaagggataacttaggaacccatgaccctgag Alignment from Pairagon ------------------------------------------------ACATGGGTGCCTGCTTCTCCAAGGTCTTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG------ GAGGTGCCATGATGTCCTAGCCAACTGGTCTTTCTGTCACCCTGGGCTAGATGGGTGCTTGCTTCACCAAGGTCTCTAATGGCTGTCCTCTGCAGATTCATGCTGCCGTTACTTGGGTTCACCCTGTGACACGAGAAGAAGgtatgtgtaggtagactagaagggataacttaggaacccatgaccctgag Alignment from Exonerate_protein2genome ATGGGTGCCTGCTTCTCCAAGGTCTTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG gaggtgccatgatgtcctagccaactggtctttctgtcaccctgggctagATGGGTGCTTGCTTCACCAAGGTCTCTAATGGCTGTCCTCTGCAGATTCATGCTGCCGTTACTTGGGTTCACCCTGTGACACGAGaagaaggtatgtgtaggtagactagaagggataacttaggaacccatgaccctgag Alignment from Exonerate_coding2genome ATGGGTGCCTGCTTCTCCAAGGTCTTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG gaggtgccatgatgtcctagccaactggtctttctgtcaccctgggctagATGGGTGCTTGCTTCACCAAGGTCTCTAATGGCTGTCCTCTGCAGATTCATGCTGCCGTTACTTGGGTTCACCCTGTGACACGAGaagaaggtatgtgtaggtagactagaagggataacttaggaacccatgaccctgag Alignment from GeneWise ATGGGTGCCTGCTTCTCCAAGGTCTTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAGACCAG- gaggtgccatgatgtcctagccaactggtctttctgtcaccctgggctagATGGGTGCTTGCTTCACCAAGGTCTCTAATGGCTGTCCTCTGCAGATTCATGCTGCCGTTACTTGGGTTCACCCTGTGACACGAGAAGAAGgtatgtgtaggtagactagaagggataacttaggaacccatgaccctgag #### Map4k2_ID1643_22 --> 2 - 0 Original Alignment ac---------CAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAACTGCACGAGGACACAATGGAGAAG CTCATCTCCCAGCGCTGC agttatattcagaggccagcatgatgtgttttctatctactctttttcagacTCTGGTGATCAGTTCTTGGTAGTGGGAGCTAAGGAGGGCTTCTATACCCTCAACCTGCATAAACTGCATGAGGATCGAATGGAAAAGgcagggcttgtgtggttcctttctttcaacagCTGATCTCTCAGCGCTAC Alignment from CESAR ac---------CAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAACTGCACGAGGACACAATGGAGAAG CTCATCTCCCAGCGCTGC agttatattcagaggccagcatgatgtgttttctatctactctttttcagacTCTGGTGATCAGTTCTTGGTAGTGGGAGCTAAGGAGGGCTTCTATACCCTCAACCTGCATAAACTGCATGAGGATCGAATGGAAAAGgcagggcttgggtgatgtgtttatgattaaagCTGATCTCTCAGCGCTAC Alignment from Spaln_aa2Genome ACCAGTTC---------CTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAACTGCACGAGGACACAATGGAGAAG CTCATCTCCCAGCGCTGC agttatattcagaggccagcatgatgtgttttctatctactctttttcagACTCTGGTGATCAGTTCTTGGTAGTGGGAGCTAAGGAGGGCTTCTATACCCTCAACCTGCATAAACTGCATGAGGATCGAATGGAAAAGgcagggcttgtgtggttcctttctttcaacagCTGATCTCTCAGCGCTAC Alignment from Spaln_nt2Genome AC---------CAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAACTGCACGAGGACACAATGGAGAAG CTCATCTCCCAGCGCTGC agttatattcagaggccagcatgatgtgttttctatctactctttttcagACTCTGGTGATCAGTTCTTGGTAGTGGGAGCTAAGGAGGGCTTCTATACCCTCAACCTGCATAAACTGCATGAGGATCGAATGGAAAAGgcagggcttgtgtggttcctttctttcaacagCTGATCTCTCAGCGCTAC Alignment from Pairagon AC---------CAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAACTGCACGAGGACACAATGGAGA--------------------------------AGCTCATCTCCCAGCGCTGC agttatattcagaggccagcatgatgtgttttctatctactctttttcagACTCTGGTGATCAGTTCTTGGTAGTGGGAGCTAAGGAGGGCTTCTATACCCTCAACCTGCATAAACTGCATGAGGATCGAATGGAAAAGGCAGGGCTTGTGTGGTTCCTTTCTTTCAACAGCTGATCTCTCAGCGCTAC Alignment from Exonerate_protein2genome ACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAACTGCACGAGGACACAATGGAGAAG CTCATCTCCCAGCGCTGC agttatattcagaggccagcatgatgtgttttctatctactctttttcagactctggtgATCAGTTCTTGGTAGTGGGAGCTAAGGAGGGCTTCTATACCCTCAACCTGCATAAACTGCATGAGGATCGAATGGAAAAGgcagggcttgtgtggttcctttctttcaacagCTGATCTCTCAGCGCTAC Alignment from Exonerate_coding2genome ACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAACTGCACGAGGACACAATGGAGAAG CTCATCTCCCAGCGCTGC agttatattcagaggccagcatgatgtgttttctatctactctttttcagactctggtgATCAGTTCTTGGTAGTGGGAGCTAAGGAGGGCTTCTATACCCTCAACCTGCATAAACTGCATGAGGATCGAATGGAAAAGgcagggcttgtgtggttcctttctttcaacagCTGATCTCTCAGCGCTAC Alignment from GeneWise --------GACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAACTGCACGAGGACACAATGGAGAAG---------------------------------CTCATCTCCCAGCGCTG agttatattcagaggccagcatgatgtgttttctatctactctttttcagACTCTGGTGATCAGTTCTTGGTAGTGGGAGCTAAGGAGGGCTTCTATACCCTCAACCTGCATAAACTGCATGAGGATCGAATGGAAAAGGCAGGGCTTGTGTGGTTCCTTTCTTT-CAACAGCTGATCTCTCAGCGCTA #### Map4k2_ID1644_23 --> 0 - 1 Original Alignment GAGGACACAATGGAGAAG CTCATCTCCCAGCGCTGCTCCTGGCTCTACTGTGTGAACAATGTGTTGCTGTCGCTCTCA---------g GAGGATCGAATGGAAAAGgtaagtcttgggtgatgtgtttatgattaaagCTGATCTCTCAGCGCTACTCATGGCTCTACTGTGTGAATAATGTATTGCTGGCACTCCCAGGAGCTATTggtgagtgatggcagctgtagagccagcctggataacatgttcccaagggt Alignment from CESAR GAGGACACAATGGAGAAG CTCATCTCCCAGCGCTGCTCCTGGCTCTACTGTGTGAACAATGTGTTGCTGTCGCTCTCA---------g GAGGATCGAATGGAAAAGgcagggcttgggtgatgtgtttatgattaaagCTGATCTCTCAGCGCTACTCATGGCTCTACTGTGTGAATAATGTATTGCTGGCACTCCCAGGAGCTATTggtgagtgatggcagctgtagagccagcctggataacatgttcccaagggt Alignment from Spaln_aa2Genome GAGGACACAATGGAGAAG CTCATCTCCCAGCGCTGCTCCTGGCTCTACTGTGTGAACAATGTGTTGCTGTCGCTCTCA---------G GAGGATCGAATGGAAAAGgtaagtcttgggtgatgtgtttatgattaaagCTGATCTCTCAGCGCTACTCATGGCTCTACTGTGTGAATAATGTATTGCTGGCACTCCCAGGAGCTATTGgtgagtgatggcagctgtagagccagcctggataacatgttcccaagggt Alignment from Spaln_nt2Genome GAGGACACAATGGAGAAG CTCATCTCCCAGCGCTGCTCCTGGCTCTACTGTGTGAACAATGTGTTGCTGTCGCTCTCAGG-------- GAGGATCGAATGGAAAAGgtaagtcttgggtgatgtgtttatgattaaagCTGATCTCTCAGCGCTACTCATGGCTCTACTGTGTGAATAATGTATTGCTGGCACTCCCAGGAGCTATTGgtgagtgatggcagctgtagagccagcctggataacatgttcccaagggt Alignment from Pairagon GAGGACACAATGGAGAAG CTCATCTCCCAGCGCTGCTCCTGGCTCTACTGTGTGAACAATGTGTTGCTGTCGCTCT-------------------------------------------------------------- GAGGATCGAATGGAAAAGgtaagtcttgggtgatgtgtttatgattaaagCTGATCTCTCAGCGCTACTCATGGCTCTACTGTGTGAATAATGTATTGCTGGCACTCCCAGGAGCTATTGGTGAGTGATGGCAGCTGTAGAGCCAGCCTGGATAACATGTTCCCAAGGGT Alignment from Exonerate_protein2genome GAGGACACAATGGAGAAG CTCATCTCCCAGCGCTGCTCCTGGCTCTACTGTGTGAACAATGTGTTGCTGTCGCTCTCAG GAGGATCGAATGGAAAAGgtaagtcttgggtgatgtgtttatgattaaagCTGATCTCTCAGCGCTACTCATGGCTCTACTGTGTGAATAATGTATTGCTGGCACTCCCAGgagctattggtgagtgatggcagctgtagagccagcctggataacatgttcccaagggt Alignment from Exonerate_coding2genome GAGGACACAATGGAGAAG CTCATCTCCCAGCGCTGCTCCTGGCTCTACTGTGTGAACAATGTGTTGCTGTCGCTCTCAG GAGGATCGAATGGAAAAGgtaagtcttgggtgatgtgtttatgattaaagCTGATCTCTCAGCGCTACTCATGGCTCTACTGTGTGAATAATGTATTGCTGGCACTCCCAGgagctattggtgagtgatggcagctgtagagccagcctggataacatgttcccaagggt Alignment from GeneWise GAGGACACAATGGAGAAG CTCATCTCCCAGCGCTGCTCCTGGCTCTACTGTGTGAACAATGTGTTGCTGTCGCTCTCAGGGAAATCC- GAGGATCGAATGGAAAAGgtaagtcttgggtgatgtgtttatgattaaagCTGATCTCTCAGCGCTACTCATGGCTCTACTGTGTGAATAATGTATTGCTGGCACTCCCAGGAGCTATTGgtgagtgatggcagctgtagagccagcctggataacatgttcccaagggt #### Map4k2_ID1649_28 --> 2 - 1 Original Alignment agGGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAA---------c aatgctagctcaataaccagtgagaggccatcttcttcctcctaccttagagGGGATTCCAGGGCCTGCACAACAAGTGATACAGGTAGATCGAGACAAAGTCTTGGTCAGCTTTGAAAAGAGACCTcgtgagaaactgaatgtcaaaaggaggttgtaaacagagtgggagtaaagc Alignment from CESAR agGGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAA---------c aatgctagctcaataaccagtgagaggccatcttcttcctcctaccttagagGGGATTCCAGGGCCTGCACAACAAGTGATACAGGTAGATCGAGACAAAGTCTTGGTCAGCTTTGAAAAGAGACCTcgtgagaaactgaatgtcaaaaggaggttgtaaacagagtgggagtaaagc Alignment from Spaln_aa2Genome AGGGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAA---------C aatgctagctcaataaccagtgagaggccatcttcttcctcctaccttagAGGGGATTCCAGGGCCTGCACAACAAGTGATACAGGTAGATCGAGACAAAGTCTTGGTCAGCTTTGAAAAGAGACCTCgtgagaaactgaatgtcaaaaggaggttgtaaacagagtgggagtaaagc Alignment from Spaln_nt2Genome AGGGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAA---------C aatgctagctcaataaccagtgagaggccatcttcttcctcctaccttagAGGGGATTCCAGGGCCTGCACAACAAGTGATACAGGTAGATCGAGACAAAGTCTTGGTCAGCTTTGAAAAGAGACCTCgtgagaaactgaatgtcaaaaggaggttgtaaacagagtgggagtaaagc Alignment from Pairagon AGGGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAA---------C aatgctagctcaataaccagtgagaggccatcttcttcctcctaccttagAGGGGATTCCAGGGCCTGCACAACAAGTGATACAGGTAGATCGAGACAAAGTCTTGGTCAGCTTTGAAAAGAGACCTCgtgagaaactgaatgtcaaaaggaggttgtaaacagagtgggagtaaagc Alignment from Exonerate_protein2genome AGGGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAAC aatgctagctcaataaccagtgagaggccatcttcttcctcctaccttagAGGGGATTCCAGGGCCTGCACAACAAGTGATACAGGTAGATCGAGACAAAGTCTTGGTCAGCTTTGAAAagagacctcgtgagaaactgaatgtcaaaaggaggttgtaaacagagtgggagtaaagc Alignment from Exonerate_coding2genome AGGGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAAC aatgctagctcaataaccagtgagaggccatcttcttcctcctaccttagAGGGGATTCCAGGGCCTGCACAACAAGTGATACAGGTAGATCGAGACAAAGTCTTGGTCAGCTTTGAAAagagacctcgtgagaaactgaatgtcaaaaggaggttgtaaacagagtgggagtaaagc Alignment from GeneWise AGGGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAACGC------- aatgctagctcaataaccagtgagaggccatcttcttcctcctaccttagAGGGGATTCCAGGGCCTGCACAACAAGTGATACAGGTAGATCGAGACAAAGTCTTGGTCAGCTTTGAAAAGAGACCTCgtgagaaactgaatgtcaaaaggaggttgtaaacagagtgggagtaaagc #### Map4k2_ID1652_31 --> 0 - 2 Original Alignment GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCAC---------ag gcttcctgaggacctacactgagaaggatgccaccatctcctctccacagGTGACACAGGAGATAACAGATGATGCTAGGATATTCCGAGTACTTGGAGCCCATGTTCATGAAaggtgagtacaaaacagacctccttgatttttcaggttgtggggatattatt Alignment from CESAR GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCAC---------ag gcttcctgaggacctacactgagaaggatgccaccatctcctctccacagGTGACACAGGAGATAACAGATGATGCTAGGATATTCCGAGTACTTGGAGCCCATGTTCATGAAaggtgagtacaaaacagacctccttgatttttcaggttgtggggtttttttt Alignment from Spaln_aa2Genome GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACAGG-------- gcttcctgaggacctacactgagaaggatgccaccatctcctctccacagGTGACACAGGAGATAACAGATGATGCTAGGATATTCCGAGTACTTGGAGCCCATGTTCATGAAAGgtgagtacaaaacagacctccttgatttttcaggttgtggggatattatt Alignment from Spaln_nt2Genome GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCAC---------AG gcttcctgaggacctacactgagaaggatgccaccatctcctctccacagGTGACACAGGAGATAACAGATGATGCTAGGATATTCCGAGTACTTGGAGCCCATGTTCATGAAAGgtgagtacaaaacagacctccttgatttttcaggttgtggggatattatt Alignment from Pairagon GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGC----------------------------------------------------------------- gcttcctgaggacctacactgagaaggatgccaccatctcctctccacagGTGACACAGGAGATAACAGATGATGCTAGGATATTCCGAGTACTTGGAGCCCATGTTCATGAAAGGTGAGTACAAAACAGACCTCCTTGATTTTTCAGGTTGTGGGGATATTATT Alignment from Exonerate_protein2genome GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCAC gcttcctgaggacctacactgagaaggatgccaccatctcctctccacagGTGACACAGGAGATAACAGATGATGCTAGGATATTCCGAGTACTTGGAGCCCATgttcatgaaaggtgagtacaaaacagacctccttgatttttcaggttgtggggatattatt Alignment from Exonerate_coding2genome GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCAC gcttcctgaggacctacactgagaaggatgccaccatctcctctccacagGTGACACAGGAGATAACAGATGATGCTAGGATATTCCGAGTACTTGGAGCCCATgttcatgaaaggtgagtacaaaacagacctccttgatttttcaggttgtggggatattatt Alignment from GeneWise GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCAC---------AG gcttcctgaggacctacactgagaaggatgccaccatctcctctccacagGTGACACAGGAGATAACAGATGATGCTAGGATATTCCGAGTACTTGGAGCCCATGTTCATGAAAGgtgagtacaaaacagacctccttgatttttcaggttgtggggatattatt #### Mark2_ID2107_14 --> 0 - 2 Original Alignment AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACag ggcaatacgcattgtagtacgattatctcttaattgttttgcctttccag---------------------ACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGTCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACaggtgagttaatcgagtctggttcctttcctcagaagcttgcagtgttttat Alignment from CESAR AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACag ggctaagtgcactacattagaggcatctcttaattgttttgcctttccag---------------------ACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGTCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACaggtgagttaatcgagtctggttcctttcctcagaagcttgcagtgttttat Alignment from Spaln_aa2Genome C ACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG GgcaatacgcattgtagtacgattatctcttaattgttttgcctttccagACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGTCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACAGgtgagttaatcgagtctggttcctttcctcagaagcttgcagtgttttat Alignment from Spaln_nt2Genome - ACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG GgcaatacgcattgtagtacgattatctcttaattgttttgcctttccagACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGTCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACAGgtgagttaatcgagtctggttcctttcctcagaagcttgcagtgttttat Alignment from Pairagon AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG ggcaatacgcattgtagtacgattatctcttaattgttttgcctttccag---------------------ACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGTCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACAGgtgagttaatcgagtctggttcctttcctcagaagcttgcagtgttttat Alignment from Exonerate_protein2genome ACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG ggcaatacgcattgtagtacgattatctcttaattgttttgcctttccagACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGTCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACAGgtgagttaatcgagtctggttcctttcctcagaagcttgcagtgttttat Alignment from Exonerate_coding2genome ACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG ggcaatacgcattgtagtacgattatctcttaattgttttgcctttccagACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGTCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACAGgtgagttaatcgagtctggttcctttcctcagaagcttgcagtgttttat Alignment from GeneWise ------------AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG ggcaatacgcattgtagTACGATTATCTCTTAATTGTTTTGCCTTTCCAGACAAACCGAAGCAGGAACTCCCCACTTTTGGATAGGGCCAGTCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACAGgtgagttaatcgagtctggttcctttcctcagaagcttgcagtgttttat #### Mark2_ID2112_9 --> 0 - 0 Original Alignment GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG aacttatatgtcagttaaagacaccgacttttctggtccctcatccctag------------CGGGTGCTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtagcaaacctgagatattagtcagcaaaggaaaataccaattagctctt Alignment from CESAR GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG ccttcttgcaataacttatatgtcagacttttctggtccctcatccctag------------CGGGTGCTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtagcaaacctgagatattagtcagcaaaggaaaataccaattagctctt Alignment from Spaln_aa2Genome GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAGCAA aacttatatgtcagttaaagacaccgacttttctggtccctcatccctag------------CGGGTGCTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATGTAgcaaacctgagatattagtcagcaaaggaaaataccaattagctctt Alignment from Spaln_nt2Genome CGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG aacttatatgtcagttaaagacaccgacttttctggtccctcatccctagCGGGTGCTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtagcaaacctgagatattagtcagcaaaggaaaataccaattagctctt Alignment from Pairagon GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAG---------------------------------------------------- aacttatatgtcagttaaagacaccgacttttctggtccctcatccctag------------CGGGTGCTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATGTAGCAAACCTGAGATATTAGTCAGCAAAGGAAAATACCAATTAGCTCTT Alignment from Exonerate_protein2genome CGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAG aacttatatgtcagttaaagacaccgacttttctggtccctcatccctagCGGGTGCTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGatgtagcaaacctgagatattagtcagcaaaggaaaataccaattagctctt Alignment from Exonerate_coding2genome CGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAG aacttatatgtcagttaaagacaccgacttttctggtccctcatccctagCGGGTGCTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGatgtagcaaacctgagatattagtcagcaaaggaaaataccaattagctctt Alignment from GeneWise CGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG aacttatatgtcagttaaagacaccgacttttctggtccctcatccctagCGGGTGCTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtagcaaacctgagatattagtcagcaaaggaaaataccaattagctctt #### Men1_ID1613_4 --> 0 - 0 Original Alignment AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAG--------- gtagaccaaggccagcctttctggttctgggctcgttttaaaaactttgtttttagAGCTGGTTATATCTCAAGGGGTCATATATGCGGTGTGACCGTAAAATGGAGGTGGCATTCATGGTGTGTGCAATCAATTCTTCTATTGATCTTCATCCAGACTCTCTGGAACTGCTTCTCCTACAACAGGGATACAAAgtgaggagaccaccatagcccaaacactattctcatacctctat Alignment from CESAR AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAG--------- gtagaccaaggccagcctttctggttctgggctcgttttaaaaactttgtttttagAGCTGGTTATATCTCAAGGGGTCATATATGCGGTGTGACCGTAAAATGGAGGTGGCATTCATGGTGTGTGCAATCAATTCTTCTATTGATCTTCATCCAGACTCTCTGGAACTGCTTCTCCTACAACAGGGATACAAAgtgaggagaccaccatagcccaaacactattctcatacctctat Alignment from Spaln_aa2Genome AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAG------AAG gtagaccaaggccagcctttctggttctgggctcgttttaaaaactttgtttttagAGCTGGTTATATCTCAAGGGGTCATATATGCGGTGTGACCGTAAAATGGAGGTGGCATTCATGGTGTGTGCAATCAATTCTTCTATTGATCTTCATCCAGACTCTCTGGAACTGCTTCTCCTACAACAGGGATACAAAgtgaggagaccaccatagcccaaacactattctcatacctctat Alignment from Spaln_nt2Genome AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAG--------- gtagaccaaggccagcctttctggttctgggctcgttttaaaaactttgtttttagAGCTGGTTATATCTCAAGGGGTCATATATGCGGTGTGACCGTAAAATGGAGGTGGCATTCATGGTGTGTGCAATCAATTCTTCTATTGATCTTCATCCAGACTCTCTGGAACTGCTTCTCCTACAACAGGGATACAAAgtgaggagaccaccatagcccaaacactattctcatacctctat Alignment from Pairagon AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAG--------- gtagaccaaggccagcctttctggttctgggctcgttttaaaaactttgtttttagAGCTGGTTATATCTCAAGGGGTCATATATGCGGTGTGACCGTAAAATGGAGGTGGCATTCATGGTGTGTGCAATCAATTCTTCTATTGATCTTCATCCAGACTCTCTGGAACTGCTTCTCCTACAACAGGGATACAAAgtgaggagaccaccatagcccaaacactattctcatacctctat Alignment from Exonerate_protein2genome AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAG gtagaccaaggccagcctttctggttctgggctcgttttaaaaactttgtttttagAGCTGGTTATATCTCAAGGGGTCATATATGCGGTGTGACCGTAAAATGGAGGTGGCATTCATGGTGTGTGCAATCAATTCTTCTATTGATCTTCATCCAGACTCTCTGGAACTGCTTCTCCTACAACAGggatacaaagtgaggagaccaccatagcccaaacactattctcatacctctat Alignment from Exonerate_coding2genome AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAG gtagaccaaggccagcctttctggttctgggctcgttttaaaaactttgtttttagAGCTGGTTATATCTCAAGGGGTCATATATGCGGTGTGACCGTAAAATGGAGGTGGCATTCATGGTGTGTGCAATCAATTCTTCTATTGATCTTCATCCAGACTCTCTGGAACTGCTTCTCCTACAACAGggatacaaagtgaggagaccaccatagcccaaacactattctcatacctctat Alignment from GeneWise AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAG------AAG gtagaccaaggccagcctttctggttctgggctcgttttaaaaactttgtttttagAGCTGGTTATATCTCAAGGGGTCATATATGCGGTGTGACCGTAAAATGGAGGTGGCATTCATGGTGTGTGCAATCAATTCTTCTATTGATCTTCATCCAGACTCTCTGGAACTGCTTCTCCTACAACAGGGATACAAAgtgaggagaccaccatagcccaaacactattctcatacctctat #### Mrpl16_ID3289_2 --> 2 - 1 Original Alignment atTCTTGGGCAGCCCTTCCCACCAGTGCTGGTCTGAAGACGCTCCTCCCAGTTCCAACTTTTGAAa cctcaagcagagaggggtcactcccccgtgaggatctcccttccctacagat---------------------AGTGCTGGCCTGAAAACTCTCTTCCCTGTTCCAACATATGAAagtgagttgtaccctggagattactacataactccagataggccacatata Alignment from CESAR atTCTTGGGCAGCCCTTCCCACCAGTGCTGGTCTGAAGACGCTCCTCCCAGTTCCAACTTTTGAAa agggatctgagctcctatacacctcccgtgaggatctcccttccctacagat---------------------AGTGCTGGCCTGAAAACTCTCTTCCCTGTTCCAACATATGAAagtgagttgtaccctggagattactacataactccagataggccacatata Alignment from Spaln_aa2Genome CCAGTGCTGGTCTGAAGACGCTCCTCCCAGTTCCAACTTTTGAAA cctcaagcagagaggggtcactcccccgtgaggatctcccttccctacagATAGTGCTGGCCTGAAAACTCTCTTCCCTGTTCCAACATATGAAAgtgagttgtaccctggagattactacataactccagataggccacatata Alignment from Spaln_nt2Genome GGCAGCCCTTCCCACCAG----TGCTGGTCTGAAGACGCTCCTCCCAGTTCCAACTTTTGAAA cctcaagcagagaggggtcactcccccgtgagGATCTCCCTTCCCTACAGATAGTGCTGGCCTGAAAACTCTCTTCCCTGTTCCAACATATGAAAgtgagttgtaccctggagattactacataactccagataggccacatata Alignment from Pairagon ATTCTTGGGCAGCCCTTCCCACCAGTGCTGGTCTGAAGACGCTCCTCCCAGTTCCAACTTTTGAAA cctcaagcagagaggggtcactcccccgtgaggatctcccttccctacagAT---------------------AGTGCTGGCCTGAAAACTCTCTTCCCTGTTCCAACATATGAAAgtgagttgtaccctggagattactacataactccagataggccacatata Alignment from Exonerate_protein2genome CCAGTGCTGGTCTGAAGACGCTCCTCCCAGTTCCAACTTTTGAAA cctcaagcagagaggggtcactcccccgtgaggatctcccttccctacagATAGTGCTGGCCTGAAAACTCTCTTCCCTGTTCCAACATATGAAAgtgagttgtaccctggagattactacataactccagataggccacatata Alignment from Exonerate_coding2genome cctcaagcagagaggggtcactcccccgtgaggatctcccttccctacagatagtgctggcctgaaaactctcttccctgttccaacatatgaaagtgagttgtaccctggagattactacataactccagataggccacatata Alignment from GeneWise CCAGTGCTGGTCTGAAGACGCTCCTCCCAGTTCCAACTTTTGAAA cctcaagcagagaggggtcactcccccgtgaggatctcccttccctacagATAGTGCTGGCCTGAAAACTCTCTTCCCTGTTCCAACATATGAAAgtgagttgtaccctggagattactacataactccagataggccacatata #### Mta2_ID2533_6 --> 0 - 1 Original Alignment ---GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGg ggcataatatctgcacaaaaccacattggagaccctccttctctttgcagCTTGAGTGTTTTTTCTATTCACTGGTGTTTGACCCTGTGCAGAAGACACTTCTAGCAGATCAAGGGGAGATCAGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGggtacgtaaaaatctggtttgaacataattttttctgtcggcaatatgatt Alignment from CESAR ---GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGg ggcataatatctgcacaaaaccacattggagaccctccttctctttgcagCTTGAGTGTTTTTTCTATTCACTGGTGTTTGACCCTGTGCAGAAGACACTTCTAGCAGATCAAGGGGAGATCAGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGggtacgtaaaaatctggtttgaacataattttttctgtcggcaatatgatt Alignment from Spaln_aa2Genome GACTGCTTT---TTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG ggcataatatctgcacaaaaccacattggagaccctccttctctttgcagCTTGAGTGTTTTTTCTATTCACTGGTGTTTGACCCTGTGCAGAAGACACTTCTAGCAGATCAAGGGGAGATCAGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGGgtacgtaaaaatctggtttgaacataattttttctgtcggcaatatgatt Alignment from Spaln_nt2Genome ---GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG ggcataatatctgcacaaaaccacattggagaccctccttctctttgcagCTTGAGTGTTTTTTCTATTCACTGGTGTTTGACCCTGTGCAGAAGACACTTCTAGCAGATCAAGGGGAGATCAGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGGgtacgtaaaaatctggtttgaacataattttttctgtcggcaatatgatt Alignment from Pairagon ---GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG ggcataatatctgcacaaaaccacattggagaccctccttctctttgcagCTTGAGTGTTTTTTCTATTCACTGGTGTTTGACCCTGTGCAGAAGACACTTCTAGCAGATCAAGGGGAGATCAGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGGgtacgtaaaaatctggtttgaacataattttttctgtcggcaatatgatt Alignment from Exonerate_protein2genome ---GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG ggcataatatctgcacaaaaccacattggagaccctccttctctttgcagCTTGAGTGTTTTTTCTATTCACTGGTGTTTGACCCTGTGCAGAAGACACTTCTAGCAGATCAAGGGGAGATCAGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGGgtacgtaaaaatctggtttgaacataattttttctgtcggcaatatgatt Alignment from Exonerate_coding2genome ggcataatatctgcacaaaaccacattggagaccctccttctctttgcagcttgagtgttttttctattcactggtgtttgaccctgtgcagaagacacttctagcagatcaaggggagatcagggttggttgcacattccaagctgagatcccagatcacttggcagagggtacgtaaaaatctggtttgaacataattttttctgtcggcaatatgatt Alignment from GeneWise ---GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG ggcataatatctgcacaaaaccacattggagaccctccttctctttgcagCTTGAGTGTTTTTTCTATTCACTGGTGTTTGACCCTGTGCAGAAGACACTTCTAGCAGATCAAGGGGAGATCAGGGTTGGTTGCACATTCCAAGCTGAGATCCCAGATCACTTGGCAGAGGgtacgtaaaaatctggtttgaacataattttttctgtcggcaatatgatt #### Mta2_ID2536_9 --> 0 - 0 Original Alignment TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT gtaaaaagaccatcaaaaccctcaggattcttggctggatctctttgcag---CATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGTCCAGTTCTTTGTCAAGATGAGATGGGAGAATGGTCCGCTTCCGAAGCCATGCTGGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTCAATGACATCCGCCAAGACTTTgtgagcgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga Alignment from CESAR TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT agggtaaaaagaccatcaaaaccctgattcttggctggatctctttgcag---CATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGTCCAGTTCTTTGTCAAGATGAGATGGGAGAATGGTCCGCTTCCGAAGCCATGCTGGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTCAATGACATCCGCCAAGACTTTgtgagcgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga Alignment from Spaln_aa2Genome CATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT gtaaaaagaccatcaaaaccctcaggattcttggctggatctctttgcagCATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGTCCAGTTCTTTGTCAAGATGAGATGGGAGAATGGTCCGCTTCCGAAGCCATGCTGGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTCAATGACATCCGCCAAGACTTTgtgagcgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga Alignment from Spaln_nt2Genome TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT gtaaaaagaccatcaaaaccctcaggattcttggctggatctctttgcag---CATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGTCCAGTTCTTTGTCAAGATGAGATGGGAGAATGGTCCGCTTCCGAAGCCATGCTGGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTCAATGACATCCGCCAAGACTTTgtgagcgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga Alignment from Pairagon TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT gtaaaaagaccatcaaaaccctcaggattcttggctggatctctttgcag---CATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGTCCAGTTCTTTGTCAAGATGAGATGGGAGAATGGTCCGCTTCCGAAGCCATGCTGGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTCAATGACATCCGCCAAGACTTTgtgagcgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga Alignment from Exonerate_protein2genome CATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT gtaaaaagaccatcaaaaccctcaggattcttggctggatctctttgcagCATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGTCCAGTTCTTTGTCAAGATGAGATGGGAGAATGGTCCGCTTCCGAAGCCATGCTGGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTCAATGACATCCGCCAAGACTTTgtgagcgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga Alignment from Exonerate_coding2genome ATCACTCTGTTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT gtaaaaagaccatcaaaaccctcaggattcttggctggATCTCTTTGCAGCATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGTCCAGTTCTTTGTCAAGATGAGATGGGAGAATGGTCCGCTTCCGAAGCCATGCTGGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTCAATGACATCCGCCAAGACTTTgtgagcgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga Alignment from GeneWise CATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT gtaaaaagaccatcaaaaccctcaggattcttggctggatctctttgcagCATGCTATGGATACCTTGCAAAAGAATGGATATGACCTAGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGTCCAGTTCTTTGTCAAGATGAGATGGGAGAATGGTCCGCTTCCGAAGCCATGCTGGTTGAAGAAGCTTTGGAGAAGTATGGAGAAGATTTCAATGACATCCGCCAAGACTTTgtgagcgatcaagaccaaggagtgaaagaacaatgatgatactgaaaaga #### Mta2_ID2537_10 --> 0 - 0 Original Alignment CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaagacggaccaattgaacactatgcctttatctttggctattttgctag------TGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAGgtgatgggcaggataagtgaggaccagaatcaaaggctatcatgagcctg Alignment from CESAR CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG tactgaaaagacggaccaattgaaccctttatctttggctattttgctag------TGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAGgtgatgggcaggataagtgaggaccagaatcaaaggctatcatgagcctg Alignment from Spaln_aa2Genome CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaagacggaccaattgaacactatgcctttatctttggctattttgctag------TGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAGgtgatgggcaggataagtgaggaccagaatcaaaggctatcatgagcctg Alignment from Spaln_nt2Genome CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaagacggaccaattgaacactatgcctttatctttggctattttgctag------TGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAGgtgatgggcaggataagtgaggaccagaatcaaaggctatcatgagcctg Alignment from Pairagon CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaagacggaccaattgaacactatgcctttatctttggctattttgctag------TGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAGgtgatgggcaggataagtgaggaccagaatcaaaggctatcatgagcctg Alignment from Exonerate_protein2genome CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaagacggaccaattgaacactatgcctttatctttggctatttTGCTAGTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAGgtgatgggcaggataagtgaggaccagaatcaaaggctatcatgagcctg Alignment from Exonerate_coding2genome CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAGAAAAGATTGAAAGCTGCTGAA---GCAGACAGCAAACTGAAACAGGTCTA aaagacggaccaattgaacactatgcctttatctttggctatttTGCTAGTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAGGTGATGGGCAGGATAAGTGAGGACCAGAATCAAAGGCTATCATGAGCCTG Alignment from GeneWise TGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaagacggaccaattgaacactatgcctttatctttggctattttgctagTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAGgtgatgggcaggataagtgaggaccagaatcaaaggctatcatgagcctg #### Mta2_ID2543_16 --> 2 - 0 Original Alignment tgGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT------ gacattttcaagccaggtcagatcttcttgcctcctgccttaccacacagttGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACACTGGGAgtgaggtgaccagaataaaagcatactagggtaattattttactttttta Alignment from CESAR tgGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT------ gacattttcaagccaggtcagatcttcttgcctcctgccttaccacacagttGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACACTGGGAgtgaggtgaccagaataaaagcatactagggtaattattttactttttta Alignment from Spaln_aa2Genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT------ gacattttcaagccaggtcagatcttcttgcctcctgccttaccacacagTTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACACTGGGAgtgaggtgaccagaataaaagcatactagggtaattattttactttttta Alignment from Spaln_nt2Genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT------ gacattttcaagccaggtcagatcttcttgcctcctgccttaccacacagTTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACACTGGGAgtgaggtgaccagaataaaagcatactagggtaattattttactttttta Alignment from Pairagon TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT------ gacattttcaagccaggtcagatcttcttgcctcctgccttaccacacagTTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACACTGGGAgtgaggtgaccagaataaaagcatactagggtaattattttactttttta Alignment from Exonerate_protein2genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gacattttcaagccaggtcagatcttcttgcctcctgccttaccacacagTTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACActgggagtgaggtgaccagaataaaagcatactagggtaattattttactttttta Alignment from Exonerate_coding2genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gacattttcaagccaggtcagatcttcttgcctcctgccttaccacacagTTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACActgggagtgaggtgaccagaataaaagcatactagggtaattattttactttttta Alignment from GeneWise TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACTATG--- gacattttcaagccaggtcagatcttcttgcctcctgccttaccacacagTTGCACAGGCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCAATCAACAGAAACCAACTGACCCAGAATCGAGGCCTGGGGGGAATTATGGTGAAACGTTCATATGAGACACTGGGAgtgaggtgaccagaataaaagcatactagggtaattattttactttttta #### Mus81_ID1041_15 --> 1 - 2 Original Alignment tCTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAGCACCATCAAGTGTGGGCGTCTGCAG---ag gagtctcccaagaattgcaggccacttgaaaataaatttttattttaaagcCTCCTGGCAGCTTACCATGCTTGTGCCACTGCAAAAGAGCAGAAGATTCTTTTGATCACTATCAAGTGTGGGTGTCTACAATTAaggtaagtgaggctgccattaaaggtgatgaagtactgggtaaatctagcaa Alignment from CESAR tCTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAGCACCATCAAGTGTGGGCGTCTGCAG---ag gagtctcccaagaattgcaggccacttgaaaataaatttttattttaaagcCTCCTGGCAGCTTACCATGCTTGTGCCACTGCAAAAGAGCAGAAGATTCTTTTGATCACTATCAAGTGTGGGTGTCTACAATTAaggtaagtgaggctgccattaaaggtgatgaagtactgggtaaatctagcaa Alignment from Spaln_aa2Genome TCTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAGCACCATCAAGTGTGGGCGTCTGCAGAGG-- gagtctcccaagaattgcaggccacttgaaaataaatttttattttaaagCCTCCTGGCAGCTTACCATGCTTGTGCCACTGCAAAAGAGCAGAAGATTCTTTTGATCACTATCAAGTGTGGGTGTCTACAATTAAGgtaagtgaggctgccattaaaggtgatgaagtactgggtaaatctagcaa Alignment from Spaln_nt2Genome TCTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAGCACCATCAAGTGTGGGCGTCTGCAG---AG gagtctcccaagaattgcaggccacttgaaaataaatttttattttaaagCCTCCTGGCAGCTTACCATGCTTGTGCCACTGCAAAAGAGCAGAAGATTCTTTTGATCACTATCAAGTGTGGGTGTCTACAATTAAGgtaagtgaggctgccattaaaggtgatgaagtactgggtaaatctagcaa Alignment from Pairagon TCTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAGCACCATCAAGTGTGGGCGTCTGCAG------------------------------------------------------- gagtctcccaagaattgcaggccacttgaaaataaatttttattttaaagCCTCCTGGCAGCTTACCATGCTTGTGCCACTGCAAAAGAGCAGAAGATTCTTTTGATCACTATCAAGTGTGGGTGTCTACAATTAAGGTAAGTGAGGCTGCCATTAAAGGTGATGAAGTACTGGGTAAATCTAGCAA Alignment from Exonerate_protein2genome TCTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAGCACCATCAAGTGTGGGCGTCTGCAG---AG gagtctcccaagaattgcaggccacttgaaaataaatttttattttaaagCCTCCTGGCAGCTTACCATGCTTGTGCCACTGCAAAAGAGCAGAAGATTCTTTTGATCACTATCAAGTGTGGGTGTCTACAATTAAGgtaagtgaggctgccattaaaggtgatgaagtactgggtaaatctagcaa Alignment from Exonerate_coding2genome TCTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAGCACCATCAAGTGTGGGCGTCTGCAG---AG gagtctcccaagaattgcaggccacttgaaaataaatttttattttaaagCCTCCTGGCAGCTTACCATGCTTGTGCCACTGCAAAAGAGCAGAAGATTCTTTTGATCACTATCAAGTGTGGGTGTCTACAATTAAGgtaagtgaggctgccattaaaggtgatgaagtactgggtaaatctagcaa Alignment from GeneWise TCTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAGCACCATCAAGTGTGGGCGTCTGCAGAGG-- gagtctcccaagaattgcaggccacttgaaaataaatttttattttaaagCCTCCTGGCAGCTTACCATGCTTGTGCCACTGCAAAAGAGCAGAAGATTCTTTTGATCACTATCAAGTGTGGGTGTCTACAATTAAGgtaagtgaggctgccattaaaggtgatgaagtactgggtaaatctagcaa #### Mus81_ID1044_12 --> 0 - 0 Original Alignment GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG--- agagaacaagctagtggctagtggcttagcctgctttattacttttgtagGTCATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGTCTGGAGCGTTTATATGAGCTGgtgagcaaatgctgagtctcgcctggctttggttgaagaagaagggacaa Alignment from CESAR GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG--- agagaacaagctagtggctagtggcttagcctgctttattacttttgtagGTCATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGTCTGGAGCGTTTATATGAGCTGgtgagcaaatgctgagtctcgcctggctttggttgaagaagaagggacaa Alignment from Spaln_aa2Genome GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG--- agagaacaagctagtggctagtggcttagcctgctttattacttttgtagGTCATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGTCTGGAGCGTTTATATGAGCTGgtgagcaaatgctgagtctcgcctggctttggttgaagaagaagggacaa Alignment from Spaln_nt2Genome GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG--- agagaacaagctagtggctagtggcttagcctgctttattacttttgtagGTCATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGTCTGGAGCGTTTATATGAGCTGgtgagcaaatgctgagtctcgcctggctttggttgaagaagaagggacaa Alignment from Pairagon GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGA agagaacaagctagtggctagtggcttagcctgctttattacttttgtagGTCATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGTCTGGAgcgtttatatgagctggtgagcaaatgctgagtctcgcctggctttggttgaagaagaagggacaa Alignment from Exonerate_protein2genome GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG agagaacaagctagtggctagtggcttagcctgctttattacttttgtagGTCATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGTCTGGAGCGTTTATATGAGctggtgagcaaatgctgagtctcgcctggctttggttgaagaagaagggacaa Alignment from Exonerate_coding2genome GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG agagaacaagctagtggctagtggcttagcctgctttattacttttgtagGTCATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGTCTGGAGCGTTTATATGAGctggtgagcaaatgctgagtctcgcctggctttggttgaagaagaagggacaa Alignment from GeneWise GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAGGGC agagaacaagctagtggctagtggcttagcctgctttattacttttgtagGTCATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGTCTGGAGCGTTTATATGAGCTGgtgagcaaatgctgagtctcgcctggctttggttgaagaagaagggacaa #### Mus81_ID1049_7 --> 1 - 2 Original Alignment gTATGCACTCACACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCGAGGCGGAAGGCCTGAGCACTCGGCACGCTGGCTTTAGGCCAGAGGAACATCACGGAGAGGACTCAGCAGTTCCAGAAGCCTTGTCAGAAcc tagagtgatgatacaatcccttttctatctcctccccctggtgttcccaga---------ACACCAGAGGGGCTAGAGCTGGCTCAGAAGCTGTCCAAGGCAGAAGGCCTTAGCACAAGACATGCTGGCTTTAGACCAGAGGAACATCATGGAGAGGACTCAGCAGTGCCAGAAGCCTTGACAGAAccgtgtgtatggtcatcttgctataacctccaaaaccaagaccacttggtat Alignment from CESAR gTATGCACTCACACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCGAGGCGGAAGGCCTGAGCACTCGGCACGCTGGCTTTAGGCCAGAGGAACATCACGGAGAGGACTCAGCAGTTCCAGAAGCCTTGTCAGAAcc caaaggaaatagagtgatgatacaatatctcctccccctggtgttcccaga---------ACACCAGAGGGGCTAGAGCTGGCTCAGAAGCTGTCCAAGGCAGAAGGCCTTAGCACAAGACATGCTGGCTTTAGACCAGAGGAACATCATGGAGAGGACTCAGCAGTGCCAGAAGCCTTGACAGAAccgtgtgtatggtcatcttgctataacctccaaaaccaagaccacttggtat Alignment from Spaln_aa2Genome GTATGCACTCACACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCGAGGCGGAAGGCCTGAGCACTCGGCACGCTGGCTTTAGGCCAGAGGAACATCACGGAGAGGACTCAGCAGTTCCAGAAGCCTTGTCAGAACC tagagtgatgatacaatcccttttctatctcctccccctggtgttcccagA---------ACACCAGAGGGGCTAGAGCTGGCTCAGAAGCTGTCCAAGGCAGAAGGCCTTAGCACAAGACATGCTGGCTTTAGACCAGAGGAACATCATGGAGAGGACTCAGCAGTGCCAGAAGCCTTGACAGAACCgtgtgtatggtcatcttgctataacctccaaaaccaagaccacttggtat Alignment from Spaln_nt2Genome --CACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCGAGGCGGAAGGCCTGAGCACTCGGCACGCTGGCTTTAGGCCAGAGGAACATCACGGAGAGGACTCAGCAGTTCCAGAAGCCTTGTCAGAACC tagagtgatgatacaatcccttttctatctcctccccctggtgttcccagAACACCAGAGGGGCTAGAGCTGGCTCAGAAGCTGTCCAAGGCAGAAGGCCTTAGCACAAGACATGCTGGCTTTAGACCAGAGGAACATCATGGAGAGGACTCAGCAGTGCCAGAAGCCTTGACAGAACCgtgtgtatggtcatcttgctataacctccaaaaccaagaccacttggtat Alignment from Pairagon GTATGCACTCACACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCGAGGCGGAAGGCCTGAGCACTCGGCACGCTGGCTTTAGGCCAGAGGAACATCACGGAGAGGACTCAGCAGTTCCAGAAGCCTTGTCAGAACC tagagtgatgatacaatcccttttctatctcctccccctggtgttcccag---------AACACCAGAGGGGCTAGAGCTGGCTCAGAAGCTGTCCAAGGCAGAAGGCCTTAGCACAAGACATGCTGGCTTTAGACCAGAGGAACATCATGGAGAGGACTCAGCAGTGCCAGAAGCCTTGACAGAACCgtgtgtatggtcatcttgctataacctccaaaaccaagaccacttggtat Alignment from Exonerate_protein2genome GTATGCACTCACACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCGAGGCGGAAGGCCTGAGCACTCGGCACGCTGGCTTTAGGCCAGAGGAACATCACGGAGAGGACTCAGCAGTTCCAGAAGCCTTGTCAGAACC tagagtgatgatacaatcccttttctatctcctccccctggTGTTCCCAGAACACCAGAGGGGCTAGAGCTGGCTCAGAAGCTGTCCAAGGCAGAAGGCCTTAGCACAAGACATGCTGGCTTTAGACCAGAGGAACATCATGGAGAGGACTCAGCAGTGCCAGAAGCCTTGACAGAACCgtgtgtatggtcatcttgctataacctccaaaaccaagaccacttggtat Alignment from Exonerate_coding2genome GTATGCACTCACACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCGAGGCGGAAGGCCTGAGCACTCGGCACGCTGGCTTTAGGCCAGAGGAACATCACGGAGAGGACTCAGCAGTTCCAGAAGCCTTGTCAGAACC tagagtgatgatacaatcccttttctatctcctccccctggTGTTCCCAGAACACCAGAGGGGCTAGAGCTGGCTCAGAAGCTGTCCAAGGCAGAAGGCCTTAGCACAAGACATGCTGGCTTTAGACCAGAGGAACATCATGGAGAGGACTCAGCAGTGCCAGAAGCCTTGACAGAACCgtgtgtatggtcatcttgctataacctccaaaaccaagaccacttggtat Alignment from GeneWise CACACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCGAGGCGGAAGGCCTGAGCACTCGGCACGCTGGCTTTAGGCCAGAGGAACATCACGGAGAGGACTCAGCAGTTCCAGAAGCCTTGTCAGAACC tagagtgatgatacaatcccttttctatctcctccccctggtgttcccagAACACCAGAGGGGCTAGAGCTGGCTCAGAAGCTGTCCAAGGCAGAAGGCCTTAGCACAAGACATGCTGGCTTTAGACCAGAGGAACATCATGGAGAGGACTCAGCAGTGCCAGAAGCCTTGACAGAACCgtgtgtatggtcatcttgctataacctccaaaaccaagaccacttggtat #### Mus81_ID1052_4 --> 0 - 0 Original Alignment ---GTTCCCACCCAGCCTCAAGCAGGAAGCACCAGTGTTGGCTATTGGCCAGCTCAGAACTCAGGTGCTCGAGAGATCCTGCTGCAACTCTACAGGGAGCACCTG tcatgattccacaggactttagtgcactttgccctgttcttaacgtccagAGCGTGCTCACCCAATCCCAAGCAGGAAGTACCAGTGTTGGTTACTGGCCAGCTCAAAACTCAGGTGCTCAAGAGGTCTTGCTGCAACTCTACAGGGAACACTTGgtaagtaagaaagcatcagtgcataggagtctcctgctaagcccatcaaa Alignment from CESAR ---GTTCCCACCCAGCCTCAAGCAGGAAGCACCAGTGTTGGCTATTGGCCAGCTCAGAACTCAGGTGCTCGAGAGATCCTGCTGCAACTCTACAGGGAGCACCTG tcatgattccacaggactttagtgcactttgccctgttcttaacgtccagAGCGTGCTCACCCAATCCCAAGCAGGAAGTACCAGTGTTGGTTACTGGCCAGCTCAAAACTCAGGTGCTCAAGAGGTCTTGCTGCAACTCTACAGGGAACACTTGgtaagtaagaaagcatcagtgcataggagtctcctgctaagcccatcaaa Alignment from Spaln_aa2Genome ---GTTCCCACCCAGCCTCAAGCAGGAAGCACCAGTGTTGGCTATTGGCCAGCTCAGAACTCAGGTGCTCGAGAGATCCTGCTGCAACTCTACAGGGAGCACCT tcatgattccacaggactttagtgcactttgccctgttcttaacgtccagAGCGTGCTCACCCAATCCCAAGCAGGAAGTACCAGTGTTGGTTACTGGCCAGCTCAAAACTCAGGTGCTCAAGAGGTCTTGCTGCAACTCTACAGGGAACACTTGgtaagtaagaaagcatcagtgcataggagtctcctgctaagcccatcaaa Alignment from Spaln_nt2Genome ---GTTCCCACCCAGCCTCAAGCAGGAAGCACCAGTGTTGGCTATTGGCCAGCTCAGAACTCAGGTGCTCGAGAGATCCTGCTGCAACTCTACAGGGAGCACCTG tcatgattccacaggactttagtgcactttgccctgttcttaacgtccagAGCGTGCTCACCCAATCCCAAGCAGGAAGTACCAGTGTTGGTTACTGGCCAGCTCAAAACTCAGGTGCTCAAGAGGTCTTGCTGCAACTCTACAGGGAACACTTGgtaagtaagaaagcatcagtgcataggagtctcctgctaagcccatcaaa Alignment from Pairagon ---GTTCCCACCCAGCCTCAAGCAGGAAGCACCAGTGTTGGCTATTGGCCAGCTCAGAACTCAGGTGCTCGAGAGATCCTGCTGCAACTCTACAGGGAGCACCTG tcatgattccacaggactttagtgcactttgccctgttcttaacgtccagAGCGTGCTCACCCAATCCCAAGCAGGAAGTACCAGTGTTGGTTACTGGCCAGCTCAAAACTCAGGTGCTCAAGAGGTCTTGCTGCAACTCTACAGGGAACACTTGgtaagtaagaaagcatcagtgcataggagtctcctgctaagcccatcaaa Alignment from Exonerate_protein2genome ---GTTCCCACCCAGCCTCAAGCAGGAAGCACCAGTGTTGGCTATTGGCCAGCTCAGAACTCAGGTGCTCGAGAGATCCTGCTGCAACTCTACAGGGAGCACCTG tcatgattccacaggactttagtgcactttgccctgttcttaacgtccagAGCGTGCTCACCCAATCCCAAGCAGGAAGTACCAGTGTTGGTTACTGGCCAGCTCAAAACTCAGGTGCTCAAGAGGTCTTGCTGCAACTCTACAGGGAACACTTGgtaagtaagaaagcatcagtgcataggagtctcctgctaagcccatcaaa Alignment from Exonerate_coding2genome ---GTTCCCACCCAGCCTCAAGCAGGAAGCACCAGTGTTGGCTATTGGCCAGCTCAGAACTCAGGTGCTCGAGAGATCCTGCTGCAACTCTACAGGGAGCACCTG tcatgattccacaggactttagtgcactttgccctgttcttaacgtccagAGCGTGCTCACCCAATCCCAAGCAGGAAGTACCAGTGTTGGTTACTGGCCAGCTCAAAACTCAGGTGCTCAAGAGGTCTTGCTGCAACTCTACAGGGAACACTTGgtaagtaagaaagcatcagtgcataggagtctcctgctaagcccatcaaa Alignment from GeneWise ---GTTCCCACCCAGCCTCAAGCAGGAAGCACCAGTGTTGGCTATTGGCCAGCTCAGAACTCAGGTGCTCGAGAGATCCTGCTGCAACTCTACAGGGAGCACCTG tcatgattccacaggactttagtgcactttgccctgttcttaacgtccagAGCGTGCTCACCCAATCCCAAGCAGGAAGTACCAGTGTTGGTTACTGGCCAGCTCAAAACTCAGGTGCTCAAGAGGTCTTGCTGCAACTCTACAGGGAACACTTGgtaagtaagaaagcatcagtgcataggagtctcctgctaagcccatcaaa #### Myof_ID7468_34 --> 0 - 0 Original Alignment ------GATGGCTCCAACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG tgtgtcttaatgagagggaagacttattatggggtttctgttcgttccagATGTTGGACGGATCCAATCTTCCCATCCTTCCATCTCAGAGAGCACCCAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACCACTCACTGCCATTGAAgtaaaaatttgataaccctccttaagctgtgcaaatgcagggcatatgtc Alignment from CESAR ------GATGGCTCCAACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG tgtgtcttaatgagagggaagacttattatggggtttctgttcgttccagATGTTGGACGGATCCAATCTTCCCATCCTTCCATCTCAGAGAGCACCCAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACCACTCACTGCCATTGAAgtaaaaatttgataaccctccttaagctgtgcaaatgcagggcatatgtc Alignment from Spaln_aa2Genome GATGGCTCCAACCTT------CCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG tgtgtcttaatgagagggaagacttattatggggtttctgttcgttccagATGTTGGACGGATCCAATCTTCCCATCCTTCCATCTCAGAGAGCACCCAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACCACTCACTGCCATTGAAgtaaaaatttgataaccctccttaagctgtgcaaatgcagggcatatgtc Alignment from Spaln_nt2Genome ------GATGGCTCCAACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG tgtgtcttaatgagagggaagacttattatggggtttctgttcgttccagATGTTGGACGGATCCAATCTTCCCATCCTTCCATCTCAGAGAGCACCCAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACCACTCACTGCCATTGAAgtaaaaatttgataaccctccttaagctgtgcaaatgcagggcatatgtc Alignment from Pairagon ------GATGGCTCCAACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG tgtgtcttaatgagagggaagacttattatggggtttctgttcgttccagATGTTGGACGGATCCAATCTTCCCATCCTTCCATCTCAGAGAGCACCCAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACCACTCACTGCCATTGAAgtaaaaatttgataaccctccttaagctgtgcaaatgcagggcatatgtc Alignment from Exonerate_protein2genome GATGGCTCCAACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG tgtgtcttaatgagagggaagacttattatggggtttctgttcgttccagatgttgGACGGATCCAATCTTCCCATCCTTCCATCTCAGAGAGCACCCAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACCACTCACTGCCATTGAAgtaaaaatttgataaccctccttaagctgtgcaaatgcagggcatatgtc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ------GATGGCTCCAACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG tgtgtcttaatgagagggaagacttattatggggtttctgttcgttccagATGTTGGACGGATCCAATCTTCCCATCCTTCCATCTCAGAGAGCACCCAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACCACTCACTGCCATTGAAgtaaaaatttgataaccctccttaagctgtgcaaatgcagggcatatgtc #### Myof_ID7493_9 --> 0 - 0 Original Alignment GTTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGGGAATTTAAG--- taccagtttgggaggaaagaacgttgcttggctcctctattccaccgcagATTTACAATTCACATTCTTTGAGAGCAGAGTGTTTTATGGGGGAATTTAAGATTgtgagtaacacaaccatcatgttgaatgagatgagagtcccaagaggcgt Alignment from CESAR GTTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGGGAATTTAAG--- tgagcgtttgggaggaaagaacgttgcttggctcctctattccaccgcagATTTACAATTCACATTCTTTGAGAGCAGAGTGTTTTATGGGGGAATTTAAGATTgtgagtaacacaaccatcatgttgaatgagatgagagtcccaagaggcgt Alignment from Spaln_aa2Genome GTTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGGGAATTTAAGATT taccagtttgggaggaaagaacgttgcttggctcctctattccaccgcagATTTACAATTCACATTCTTTGAGAGCAGAGTGTTTTATGGGGGAATTTAAGATTgtgagtaacacaaccatcatgttgaatgagatgagagtcccaagaggcgt Alignment from Spaln_nt2Genome GTTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGGGAATTTAAGA-- taccagtttgggaggaaagaacgttgcttggctcctctattccaccgcagATTTACAATTCACATTCTTTGAGAGCAGAGTGTTTTATGGGGGAATTTAAGATTgtgagtaacacaaccatcatgttgaatgagatgagagtcccaagaggcgt Alignment from Pairagon ---------------------------------------------------TTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGGGAATTTAAGATT TACCAGTTTGGGAGGAAAGAACGTTGCTTGGCTCCTCTATTCCACCGCAGATTTACAATTCACATTCTTTGAGAGCAGAGTGTTTTATGGGGGAATTTAAGATTgtgagtaacacaaccatcatgttgaatgagatgagagtcccaagaggcgt Alignment from Exonerate_protein2genome taccagtttgggaggaaagaacgttgcttggctcctctattccaccgcagatttacaattcacattctttgagagcagagtgttttatgggggaatttaagattgtgagtaacacaaccatcatgttgaatgagatgagagtcccaagaggcgt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise -----------------------------------------------CGGGTTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGGGAATTTAAGATT TACCAGTTTGGGAGGAAAGAACGTTGCTTGGCTCCTCTATTCCACCGCAGATTTACAATTCACATTCTTTGAGAGCAGAGTGTTTTATGGGGGAATTTAAGATTgtgagtaacacaaccatcatgttgaatgagatgagagtcccaagaggcgt #### Myrf_ID2723_14 --> 2 - 0 Original Alignment gtGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaacatgtctttatttgcttgcaggtGTCATTGCCCGGGAAGTGAAGGTGATTCTGCCTGAAGCCGTGGAGGACACAGGGGACGTTGTTTTTGCAAATGGAAAAAGCATAAAGAACTTCCTTGTA---------gtgagttatctcgaccaaaggatctgtctgatgcaacttgagcatgaaat Alignment from CESAR gtGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaacatgtctttatttgcttgcaggtGTCATTGCCCGGGAAGTGAAGGTGATTCTGCCTGAAGCCGTGGAGGACACAGGGGACGTTGTTTTTGCAAATGGAAAAAGCATAAAGAACTTCCTTGTA---------gtgagttatctcgaccaaaggatctgtctgatgcaacttga Alignment from Spaln_aa2Genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTA gcttggcaaggtagagtcctggttccaaacatgtctttatttgcttgcagGTGTCATTGCCCGGGAAGTGAAGGTGATTCTGCCTGAAGCCGTGGAGGACACAGGGGACGTTGTTTTTGCAAATGGAAAAAGCATAAAGAACTTCCTTGTAgtgagttatctcgaccaaaggatctgtctgatgcaacttgagcatgaaat Alignment from Spaln_nt2Genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGA gcttggcaaggtagagtcctggttccaaacatgtctttatttgcttgcagGTGTCATTGCCCGGGAAGTGAAGGTGATTCTGCCTGAAGCCGTGGAGGACACAGGGGACGTTGTTTTTGCAAATGGAAAAAGCATAAAGAACTTCCTTGTAGTGAgttatctcgaccaaaggatctgtctgatgcaacttgagcatgaaat Alignment from Pairagon GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGA gcttggcaaggtagagtcctggttccaaacatgtctttatttgcttgcagGTGTCATTGCCCGGGAAGTGAAGGTGATTCTGCCTGAAGCCGTGGAGGACACAGGGGACGTTGTTTTTGCAAATGGAAAAAGCATAAAGAACTTCCTTGTAGTGAgttatctcgaccaaaggatctgtctgatgcaacttgagcatgaaat Alignment from Exonerate_protein2genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaacatgtctttatttgcttgcagGTGTCATTGCCCGGGAAGTGAAGGTGATTCTGCCTGAAGCCGTGGAGGACACAGGGGACGTTGTTTTTGCAAATGGAAAAAGCATAAAGAACTTCCTTGTAGTGAGTTATctcgaccaaaggatctgtctgatgcaacttgagcatgaaat Alignment from Exonerate_coding2genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaacatgtctttatttgcttgcagGTGTCATTGCCCGGGAAGTGAAGGTGATTCTGCCTGAAGCCGTGGAGGACACAGGGGACGTTGTTTTTGCAAATGGAAAAAGCATAAAGAACTTCCTTGTAGTGAGTTATctcgaccaaaggatctgtctgatgcaacttgagcatgaaat Alignment from GeneWise GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG gcttggcaaggtagagtcctggttccaaacatgtctttatttgcttgcagGTGTCATTGCCCGGGAAGTGAAGGTGATTCTGCCTGAAGCCGTGGAGGACACAGGGGACGTTGTTTTTGCAAATGGAAAAAGCATAAAGAACTTCCTT---------GTAgtgagttatctcgaccaaaggatctgtctgatgcaacttgagcatgaaat #### Myrf_ID2724_13 --> 0 - 1 Original Alignment GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAg gtcactgtgcccacagactaatccctccgtgatcgatccatgcttttcag------ACCACTGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCGCCAGAGACAggtgagtatgcgtgtctgaagggttcctaactatgcctggcttctcctaac Alignment from CESAR GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAg cctgaggtcactgtgcccacagacttccgtgatcgatccatgcttttcag------ACCACTGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCGCCAGAGACAggtgagtatgcgtgtctgaagggttcctaactatgcctggcttctcctaac Alignment from Spaln_aa2Genome ACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG gtcactgtgcccacagactaatccctccgtgatcgatccatgcttttcagACCACTGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCGCCAGAGACAGgtgagtatgcgtgtctgaagggttcctaactatgcctggcttctcctaac Alignment from Spaln_nt2Genome ACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG gtcactgtgcccacagactaatccctccgtgatcgatccatgcttttcagACCACTGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCGCCAGAGACAGgtgagtatgcgtgtctgaagggttcctaactatgcctggcttctcctaac Alignment from Pairagon GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG gtcactgtgcccacagactaatccctccgtgatcgatccatgcttttcag------ACCACTGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCGCCAGAGACAGgtgagtatgcgtgtctgaagggttcctaactatgcctggcttctcctaac Alignment from Exonerate_protein2genome ACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG gtcactgtgcccacagactaatccctccgtgatcgatccatgcttttcagACCACTGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCGCCAGAGACAGgtgagtatgcgtgtctgaagggttcctaactatgcctggcttctcctaac Alignment from Exonerate_coding2genome ACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG gtcactgtgcccacagactaatccctccgtgatcgatccatgcttttcagACCACTGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCGCCAGAGACAGgtgagtatgcgtgtctgaagggttcctaactatgcctggcttctcctaac Alignment from GeneWise ACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG gtcactgtgcccacagactaatccctccgtgatcgatccatgcttttcagACCACTGAACACCTAAAGAGGATCTCACGGACACGTCTAGTGCACTACAGGTACAAGCCAGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCGCCAGAGACAGgtgagtatgcgtgtctgaagggttcctaactatgcctggcttctcctaac #### Myrf_ID2725_12 --> 0 - 0 Original Alignment GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG------------------------ aggtaattgactcaccaggtttcaaataactcttctctttctctcctcagGCCTCTAACCCAGGGCCATTG---AGTGATAGTGATGTGTTATGGCAACGGGCACAGCTA---GATACAGTTTTTCACCCCGGCCGTGTGGGTATTAACTCTGACCTGCCTGATGACGCATTAGTTGTACATGGAAATGTGAAGGTCATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGATTCTGTCTCAATTTGGAATGGAAgtgaggtgtgcagtaggtgcatgggcatcccctgcatacctggattgtgt Alignment from CESAR GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG------------------------ aggtaattgactcaccaggtttcaaataactcttctctttctctcctcagGCCTCTAACCCAGGGCCATTG---AGTGATAGTGATGTGTTATGGCAACGGGCACAGCTA---GATACAGTTTTTCACCCCGGCCGTGTGGGTATTAACTCTGACCTGCCTGATGACGCATTAGTTGTACATGGAAATGTGAAGGTCATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGATTCTGTCTCAATTTGGAATGGAAgtgaggtgtgcagtaggtgcatgggcatcccctgcatacctggattgtgt Alignment from Spaln_aa2Genome GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG aggtaattgactcaccaggtttcaaataactcttctctttctctcctcagGCCTCTAACCCAGGGCCATTG---AGTGATAGTGATGTGTTATGGCAACGGGCACAGCTA---GATACAGTTTTTCACCCCGGCCGTGTGGGTATTAACTCTGACCTGCCTGATGACGCATTAGTTGTACATGGAAATGTGAAGGTCATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGattctgtctcaatttggaatggaagtgaggtgtgcagtaggtgcatgggcatcccctgcatacctggattgtgt Alignment from Spaln_nt2Genome GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG----- aggtaattgactcaccaggtttcaaataactcttctctttctctcctcagGCCTCTAACCCAGGGCCATT---GAGTGATAGTGATGTGTTATGGCAACGGGCACAGCT---AGATACAGTTTTTCACCCCGGCCGTGTGGGTATTAACTCTGACCTGCCTGATGACGCATTAGTTGTACATGGAAATGTGAAGGTCATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGATTCTgtctcaatttggaatggaagtgaggtgtgcagtaggtgcatgggcatcccctgcatacctggattgtgt Alignment from Pairagon GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG------------------------ aggtaattgactcaccaggtttcaaataactcttctctttctctcctcagGCCTCTAACCCAGGGCCATT---GAGTGATAGTGATGTGTTATGGCAACGGGCACAGCT---AGATACAGTTTTTCACCCCGGCCGTGTGGGTATTAACTCTGACCTGCCTGATGACGCATTAGTTGTACATGGAAATGTGAAGGTCATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGATTCTGTCTCAATTTGGAATGGAAgtgaggtgtgcagtaggtgcatgggcatcccctgcatacctggattgtgt Alignment from Exonerate_protein2genome GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG aggtaattgactcaccaggtttcaaataactcttctctttctctcctcagGCCTCTAACCCAGGGCCATTG---AGTGATAGTGATGTGTTATGGCAACGGGCACAGCTA---GATACAGTTTTTCACCCCGGCCGTGTGGGTATTAACTCTGACCTGCCTGATGACGCATTAGTTGTACATGGAAATGTGAAGGTCATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGattctgtctcaatttggaatggaagtgaggtgtgcagtaggtgcatgggcatcccctgcatacctggattgtgt Alignment from Exonerate_coding2genome GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG aggtaattgactcaccaggtttcaaataactcttctctttctctcctcagGCCTCTAACCCAGGGCCATTG---AGTGATAGTGATGTGTTATGGCAACGGGCACAGCTA---GATACAGTTTTTCACCCCGGCCGTGTGGGTATTAACTCTGACCTGCCTGATGACGCATTAGTTGTACATGGAAATGTGAAGGTCATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGattctgtctcaatttggaatggaagtgaggtgtgcagtaggtgcatgggcatcccctgcatacctggattgtgt Alignment from GeneWise GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAGGTG--------------------- aggtaattgactcaccaggtttcaaataactcttctctttctctcctcagGCCTCTAACCCAGGGCCATTG---AGTGATAGTGATGTGTTATGGCAACGGGCACAGCTA---GATACAGTTTTTCACCCCGGCCGTGTGGGTATTAACTCTGACCTGCCTGATGACGCATTAGTTGTACATGGAAATGTGAAGGTCATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGATTCTGTCTCAATTTGGAATGGAAgtgaggtgtgcagtaggtgcatgggcatcccctgcatacctggattgtgt #### Myrf_ID2726_11 --> 1 - 0 Original Alignment g------TATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtacaggtatccctgaaaaacctattgcacacgttcaggGGTGCATATTTCATGCTGGTGGTTGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaccaactacaactacaccctagcagcccagatttcaaagcatatcatt Alignment from CESAR g------TATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtacaggtatccctgaaaaacctattgcacacgttcaggGGTGCATATTTCATGCTGGTGGTTGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaccaactacaactacaccctagcagcccagatttcaaagcatatcatt Alignment from Spaln_aa2Genome GTATTTCATG------CTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtacaggtatccctgaaaaacctattgcacacgttcagGGGTGCATATTTCATGCTGGTGGTTGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaccaactacaactacaccctagcagcccagatttcaaagcatatcatt Alignment from Spaln_nt2Genome GTATTTCATGCT------GGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtacaggtatccctgaaaaacctattgcacacgttcagGGGTGCATATTTCATGCTGGTGGTTGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaccaactacaactacaccctagcagcccagatttcaaagcatatcatt Alignment from Pairagon G------TATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtacaggtatccctgaaaaacctattgcacacgttcagGGGTGCATATTTCATGCTGGTGGTTGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaccaactacaactacaccctagcagcccagatttcaaagcatatcatt Alignment from Exonerate_protein2genome G------TATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtacaggtatccctgaaaaacctattgcacacgttcagGGGTGCATATTTCATGCTGGTGGTTGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaccaactacaactacaccctagcagcccagatttcaaagcatatcatt Alignment from Exonerate_coding2genome G------TATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtacaggtatccctgaaaaacctattgcacacgttcagGGGTGCATATTTCATGCTGGTGGTTGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaccaactacaactacaccctagcagcccagatttcaaagcatatcatt Alignment from GeneWise ----AGGTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG atgggacaatgggtacaggtatccctgaaaaacctattgcacacgttcagGGGTGCATATTTCATGCTGGTGGTTGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtaccaactacaactacaccctagcagcccagatttcaaagcatatcatt #### Naa40_ID2074_6 --> 1 - 2 Original Alignment cTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAAC---ag tgcgtctctccatggtgtccaggtgctcagtttttctttgtttgttttagcTATGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAACTATaggtaagcagcatcttgcaagaattggcttgctgggagaggttggtcctgag Alignment from CESAR cTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAAC---ag tgcgtctctccatggtgtccaggtgctcagtttttctttgtttgttttagcTATGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAACTATaggtaagcagcatcttgcaagaattggcttgctgggagaggttggtcctgag Alignment from Spaln_aa2Genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAGC-- tgcgtctctccatggtgtccaggtgctcagtttttctttgtttgttttagCTATGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAACTATAGgtaagcagcatcttgcaagaattggcttgctgggagaggttggtcctgag Alignment from Spaln_nt2Genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAAC---AG tgcgtctctccatggtgtccaggtgctcagtttttctttgtttgttttagCTATGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAACTATAGgtaagcagcatcttgcaagaattggcttgctgggagaggttggtcctgag Alignment from Pairagon CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAAC---AG tgcgtctctccatggtgtccaggtgctcagtttttctttgtttgttttagCTATGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAACTATAGgtaagcagcatcttgcaagaattggcttgctgggagaggttggtcctgag Alignment from Exonerate_protein2genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAAC---AG tgcgtctctccatggtgtccaggtgctcagtttttctttgtttgttttagCTATGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAACTATAGgtaagcagcatcttgcaagaattggcttgctgggagaggttggtcctgag Alignment from Exonerate_coding2genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAGCAC tgcgtctctccatggtgtccaggtgctcagtttttctttgtttgttttagCTATGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAACTATAGgtaagcagcatcttgcaagaattggcttgctgggagaggttggtcctgag Alignment from GeneWise CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAGC-- tgcgtctctccatggtgtccaggtgctcagtttttctttgtttgttttagCTATGAAGTACAGCTAGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTAATGGCCAACTATAGgtaagcagcatcttgcaagaattggcttgctgggagaggttggtcctgag #### Naa40_ID2075_5 --> 1 - 2 Original Alignment gTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACtg atcaggatctagggggcagtctactaatcaacgtgtgttctatttcacaggTATGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCACGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGACGAGGTC------tggtaccaatctttaacttttgcctttggtataagaggttatgcaattagtg Alignment from CESAR gTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACtg atcaggatctagggggcagtctactaatcaacgtgtgttctatttcacaggTATGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCACGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGACGAGGTC------tggtaccaatctttaacttttgcctttggtataagaggttatgcaattagtg Alignment from Spaln_aa2Genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAA atcaggatctagggggcagtctactaatcaacgtgtgttctatttcacagGTATGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCACGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGACGAGgtctggtaccaatctttaacttttgcctttggtataagaggttatgcaattagtg Alignment from Spaln_nt2Genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG atcaggatctagggggcagtctactaatcaacgtgtgttctatttcacagGTATGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCACGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGACGAGGT------CTGgtaccaatctttaacttttgcctttggtataagaggttatgcaattagtg Alignment from Pairagon GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTAC--------------------TG atcaggatctagggggcagtctactaatcaacgtgtgttctatttcacagGTATGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCACGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGACGAGGTCTGGTACCAATCTTTAACTTTTGCCTTTGgtataagaggttatgcaattagtg Alignment from Exonerate_protein2genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG atcaggatctagggggcagtctactaatcaacgtgtgttctatttcacagGTATGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCACGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGACGAGGTCTGGTACCAatctttaacttttgcctttggtataagaggttatgcaattagtg Alignment from Exonerate_coding2genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG atcaggatctagggggcagtctactaatcaacgtgtgttctatttcacagGTATGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCACGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGACGAGGTCTGGTACCAatctttaacttttgcctttggtataagaggttatgcaattagtg Alignment from GeneWise GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAA atcaggatctagggggcagtctactaatcaacgtgtgttctatttcacagGTATGAACAAAGTGAATGGGGCTGGAAGGACCGGCAAAAACGAGAGGAGATGACTGATGATCACGCCTGGTACCTCATTGCATGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGACGAGgtctggtaccaatctttaacttttgcctttggtataagaggttatgcaattagtg #### Naaladl1_ID1443_2 --> 1 - 1 Original Alignment aGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCg ttctcctccgtctcgaagactataacggctttgccctctccatcccacaga------------------CATGTTGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGGACGCTGGAAGGATACAGCACCAGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCTTTCCCTAATGCA---GAGGCTAACAGTGTGGAAGTTggtaagagtctagaagtttccaggcaggatgctgacgcccattgctctcca Alignment from CESAR aGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCg atctgctgctggattctattctcctcggctttgccctctccatcccacaga------------------CATGTTGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGGACGCTGGAAGGATACAGCACCAGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCTTTCCCTAATGCAGAG---GCTAACAGTGTGGAAGTTggtaagagtctagaagtttccaggcaggatgcattttctccgtttgattta Alignment from Spaln_aa2Genome AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG ttctcctccgtctcgaagactataacggctttgccctctccatcccacagA------------------CATGTTGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGGACGCTGGAAGGATACAGCACCAGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCTTTCCCTAATGCAGAG---GCTAACAGTGTGGAAGTTGgtaagagtctagaagtttccaggcaggatgctgacgcccattgctctcca Alignment from Spaln_nt2Genome ACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG ttctcctccgtctcgaagactataacggctttgccctctccatcccacagACATGTTGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGGACGCTGGAAGGATACAGCACCAGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCTTTCCCTAATGCAG---AGGCTAACAGTGTGGAAGTTGgtaagagtctagaagtttccaggcaggatgctgacgcccattgctctcca Alignment from Pairagon AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG ttctcctccgtctcgaagactataacggctttgccctctccatcccacag------------------ACATGTTGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGGACGCTGGAAGGATACAGCACCAGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCTTTCCCTAATGCAG---AGGCTAACAGTGTGGAAGTTGgtaagagtctagaagtttccaggcaggatgctgacgcccattgctctcca Alignment from Exonerate_protein2genome ACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG ttctcctccgtctcgaagactataacggctttgccctctccatcccacagACATGTTGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGGACGCTGGAAGGATACAGCACCAGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCTTTCCCTAATGCAGAG---GCTAACAGTGTGGAAGTTGgtaagagtctagaagtttccaggcaggatgctgacgcccattgctctcca Alignment from Exonerate_coding2genome ACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG ttctcctccgtctcgaagactataacggctttgccctctccatcccacagACATGTTGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGGACGCTGGAAGGATACAGCACCAGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCTTTCCCTAATGCAGAG---GCTAACAGTGTGGAAGTTGgtaagagtctagaagtttccaggcaggatgctgacgcccattgctctcca Alignment from GeneWise AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG ttctcctccgtctcgaagactataacggctttgccctctccatcccacagA------------------CATGTTGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGTTGGGACGCTGGAAGGATACAGCACCAGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTTGCTTTCCCTAATGCAGAGGCT---AACAGTGTGGAAGTTGgtaagagtctagaagtttccaggcaggatgctgacgcccattgctctcca #### Naaladl1_ID1448_7 --> 1 - 1 Original Alignment t---GAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTg tactcaataattactctaaatttcaattctgacaggctgctaattcacagtGATGACATAAAAGTGCGTGTTCACAACAGATTAGAACTTAGGACTTCCACTAATGTGCTTGGCATCATCCAGGGCAGTGTAGAGCCTggtgagtccattcacagtccaccctgccctctggcttgcctaccacctggt Alignment from CESAR t---GAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTg tactcaataattactctaaatttcaattctgacaggctgctaattcacagtGATGACATAAAAGTGCGTGTTCACAACAGATTAGAACTTAGGACTTCCACTAATGTGCTTGGCATCATCCAGGGCAGTGTAGAGCCTggtgagtccattcacagtccaccctgccctctggcttgcctaccacctggt Alignment from Spaln_aa2Genome T---GAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCT tactcaataattactctaaatttcaattctgacaggctgctaattcacagTGATGACATAAAAGTGCGTGTTCACAACAGATTAGAACTTAGGACTTCCACTAATGTGCTTGGCATCATCCAGGGCAGTGTAGAGCCTGgtgagtccattcacagtccaccctgccctctggcttgcctaccacctggt Alignment from Spaln_nt2Genome TGAGG---TGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG tactcaataattactctaaatttcaattctgacaggctgctaattcacagTGATGACATAAAAGTGCGTGTTCACAACAGATTAGAACTTAGGACTTCCACTAATGTGCTTGGCATCATCCAGGGCAGTGTAGAGCCTGgtgagtccattcacagtccaccctgccctctggcttgcctaccacctggt Alignment from Pairagon TGAGG---TGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG tactcaataattactctaaatttcaattctgacaggctgctaattcacagTGATGACATAAAAGTGCGTGTTCACAACAGATTAGAACTTAGGACTTCCACTAATGTGCTTGGCATCATCCAGGGCAGTGTAGAGCCTGgtgagtccattcacagtccaccctgccctctggcttgcctaccacctggt Alignment from Exonerate_protein2genome T---GAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG tactcaataattactctaaatttcaattctgacaggctgctaattcacagTGATGACATAAAAGTGCGTGTTCACAACAGATTAGAACTTAGGACTTCCACTAATGTGCTTGGCATCATCCAGGGCAGTGTAGAGCCTGgtgagtccattcacagtccaccctgccctctggcttgcctaccacctggt Alignment from Exonerate_coding2genome GGGAGTGAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG tactcaataattactctaaatttcaattctgacaggctgctaattcacAGTGATGACATAAAAGTGCGTGTTCACAACAGATTAGAACTTAGGACTTCCACTAATGTGCTTGGCATCATCCAGGGCAGTGTAGAGCCTGgtgagtccattcacagtccaccctgccctctggcttgcctaccacctggt Alignment from GeneWise -AGTGAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG tactcaataattactctaaatttcaattctgacaggctgctaattcacagTGATGACATAAAAGTGCGTGTTCACAACAGATTAGAACTTAGGACTTCCACTAATGTGCTTGGCATCATCCAGGGCAGTGTAGAGCCTGgtgagtccattcacagtccaccctgccctctggcttgcctaccacctggt #### Naaladl1_ID1452_11 --> 2 - 0 Original Alignment ccAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG gaagtgatgtgttcacagccaacaggactcttctccactgtgccctacagca---ACTACTCTGCAGGCCCAGGGCACACCACCGGTACAAGGTGTGCTCTTTTCTTCAGCCAAAGATgtaagcagatgaccttcaaaggagttaggctcaaccacaccttcctgggt Alignment from CESAR ccAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG caggaagtgatgtgttcacagccaagactcttctccactgtgccctacagca---ACTACTCTGCAGGCCCAGGGCACACCACCGGTACAAGGTGTGCTCTTTTCTTCAGCCAAAGATgtaagcagatgaccttcaaaggagttaggctcaaccacaccttcctgggt Alignment from Spaln_aa2Genome CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG gaagtgatgtgttcacagccaacaggactcttctccactgtgccctacagCA---ACTACTCTGCAGGCCCAGGGCACACCACCGGTACAAGGTGTGCTCTTTTCTTCAGCCAAAGATgtaagcagatgaccttcaaaggagttaggctcaaccacaccttcctgggt Alignment from Spaln_nt2Genome CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG gaagtgatgtgttcacagccaacaggactcttctccactgtgccctacagCAA---CTACTCTGCAGGCCCAGGGCACACCACCGGTACAAGGTGTGCTCTTTTCTTCAGCCAAAGATgtaagcagatgaccttcaaaggagttaggctcaaccacaccttcctgggt Alignment from Pairagon CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG gaagtgatgtgttcacagccaacaggactcttctccactgtgccctacagCAA---CTACTCTGCAGGCCCAGGGCACACCACCGGTACAAGGTGTGCTCTTTTCTTCAGCCAAAGATgtaagcagatgaccttcaaaggagttaggctcaaccacaccttcctgggt Alignment from Exonerate_protein2genome ATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG gaagtgatgtgttcacagccaacaggactcttctccactgtgccctacagCAACTACTCTGCAGGCCCAGGGCACACCACCGGTACAAGGTGTGCTCTTTTCTTCAGCCAAAGATgtaagcagatgaccttcaaaggagttaggctcaaccacaccttcctgggt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG gaagtgatgtgttcacagccaacaggactcttctccactgtgccctacagCA---ACTACTCTGCAGGCCCAGGGCACACCACCGGTACAAGGTGTGCTCTTTTCTTCAGCCAAAGATgtaagcagatgaccttcaaaggagttaggctcaaccacaccttcctgggt #### Naaladl1_ID1453_12 --> 0 - 2 Original Alignment ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCC------ag tggatttgctaatcactcaccggtggcattattttatgttttatttacagATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATACGATATACTAACCGTGCGAGCCCAGTATACGGGCTGGTCCCGCTGGAAaggcaagttcagattaagatccagagaggctgtttttatatctgcctgagct Alignment from CESAR ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCC------ag tggatttgctaatcactcaccggtggcattattttatgttttatttacagATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATACGATATACTAACCGTGCGAGCCCAGTATACGGGCTGGTCCCGCTGGAAaggcaagttcagattaagatccagagaggctgtttttatatctgccttgctc Alignment from Spaln_aa2Genome ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAGCCTGGGCAC tggatttgctaatcactcaccggtggcattattttatgttttatttacagATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATACGATATACTAACCGTGCGAGCCCAGTATACGGGCTGGTCCCG---CTGGAAAGgcaagttcagattaagatccagagaggctgtttttatatctgcctgagct Alignment from Spaln_nt2Genome ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAGCCTGGGCAC tggatttgctaatcactcaccggtggcattattttatgttttatttacagATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATACGATATACTAACCGTGCGAGCCCAGTATACGGGCTGGTCCC---GCTGGAAAGgcaagttcagattaagatccagagaggctgtttttatatctgcctgagct Alignment from Pairagon ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCC----------------------------------------------------------- tggatttgctaatcactcaccggtggcattattttatgttttatttacagATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATACGATATACTAACCGTGCGAGCCCAGTATACGGGCTGGTCCCGCTGGAAAGGCAAGTTCAGATTAAGATCCAGAGAGGCTGTTTTTATATCTGCCTGAGCT Alignment from Exonerate_protein2genome ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAGCCTGGGCAC tggatttgctaatcactcaccggtggcattattttatgttttatttacagATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATACGATATACTAACCGTGCGAGCCCAGTATACGGGCTGGTCCCG---CTGGAAAGgcaagttcagattaagatccagagaggctgtttttatatctgcctgagct Alignment from Exonerate_coding2genome ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAGCCTGGGCACACTGGGCGCTGGCAGTGACTATGCCGCATTCGTTCACTTCCTGGGCA tggatttgctaatcactcaccggtggcattattttatgttttatttacagATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATACGATATACTAACCGTGCGAGCCCAGTATACGGGCTGGTCCCGCTGGAAAGGCAAGTTCAGATTAAGATCCAGAGAGGCTGTTTTTATATCTGCCTGAGCT Alignment from GeneWise ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCC---------------------------------------------------------- tggatttgctaatcactcaccggtggcattattttatgttttatttacagATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATACGATATACTAACCGTGCGAGCCCAGTATACGGGCTGGTCCCGCTGGAAAGGCAAGTTCAGATTAAGATCCAGAGAGGCTGTTTTTATATCTGCCTGAGCT #### Naaladl1_ID1458_17 --> 1 - 2 Original Alignment tCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACag tgagctaggtgctggctgtcagtgatccgtgtttccctccttgtgtgcagt---CTGCAGGTTCAGATGGTTAACGACCAACTGATGCTCTTAGAGTGTGCATTTTTGAACCCTAGGGCGTTCCCAGAGGAGAGGCATTACaggtgagcccatgtcaattaagttgcttagtcccaggcttagaactagagtt Alignment from CESAR tCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACag acctgagctaggtgctggctgtcagtccgtgtttccctccttgtgtgcagt---CTGCAGGTTCAGATGGTTAACGACCAACTGATGCTCTTAGAGTGTGCATTTTTGAACCCTAGGGCGTTCCCAGAGGAGAGGCATTACaggtgagcccatgtcaattaagttgcttagtcccaggcttagaactagagtt Alignment from Spaln_aa2Genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG tgagctaggtgctggctgtcagtgatccgtgtttccctccttgtgtgcagT---CTGCAGGTTCAGATGGTTAACGACCAACTGATGCTCTTAGAGTGTGCATTTTTGAACCCTAGGGCGTTCCCAGAGGAGAGGCATTACAGgtgagcccatgtcaattaagttgcttagtcccaggcttagaactagagtt Alignment from Spaln_nt2Genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG tgagctaggtgctggctgtcagtgatccgtgtttccctccttgtgtgcag---TCTGCAGGTTCAGATGGTTAACGACCAACTGATGCTCTTAGAGTGTGCATTTTTGAACCCTAGGGCGTTCCCAGAGGAGAGGCATTACAGgtgagcccatgtcaattaagttgcttagtcccaggcttagaactagagtt Alignment from Pairagon TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG tgagctaggtgctggctgtcagtgatccgtgtttccctccttgtgtgcag---TCTGCAGGTTCAGATGGTTAACGACCAACTGATGCTCTTAGAGTGTGCATTTTTGAACCCTAGGGCGTTCCCAGAGGAGAGGCATTACAGgtgagcccatgtcaattaagttgcttagtcccaggcttagaactagagtt Alignment from Exonerate_protein2genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG tgagctaggtgctggctgtcagtgatccgtgtttccctccttgtgtgCAGTCTGCAGGTTCAGATGGTTAACGACCAACTGATGCTCTTAGAGTGTGCATTTTTGAACCCTAGGGCGTTCCCAGAGGAGAGGCATTACAGgtgagcccatgtcaattaagttgcttagtcccaggcttagaactagagtt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG tgagctaggtgctggctgtcagtgatccgtgtttccctccttgtgtgcagT---CTGCAGGTTCAGATGGTTAACGACCAACTGATGCTCTTAGAGTGTGCATTTTTGAACCCTAGGGCGTTCCCAGAGGAGAGGCATTACAGgtgagcccatgtcaattaagttgcttagtcccaggcttagaactagagtt #### Ndufs8_ID193_3 --> 2 - 1 Original Alignment ag---TATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATT---CTGATGTGGACAGAACTCATCCGAg tgtcactaatctcctttttgccattaacagccccttctttccctctgcagagGTCTATGTAAACAAAAAAGAGCAAGAGGCTGAAGTAGACATGAAGTCTGGTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGggtaagatccagtgcagggtcataagtggagaatttaagcagtagtgtggt Alignment from CESAR ag---TATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTG---ATGTGGACAGAACTCATCCGAg tgtcactaatctcctttttgccattaacagccccttctttccctctgcagagGTCTATGTAAACAAAAAAGAGCAAGAGGCTGAAGTAGACATGAAGTCTGGTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGggtaagatccagtgcagggtcataagtggagaatttaagcagtagtgtggt Alignment from Spaln_aa2Genome AG---TATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTG---ATGTGGACAGAACTCATCCGAG tgtcactaatctcctttttgccattaacagccccttctttccctctgcagAGGTCTATGTAAACAAAAAAGAGCAAGAGGCTGAAGTAGACATGAAGTCTGGTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGGgtaagatccagtgcagggtcataagtggagaatttaagcagtagtgtggt Alignment from Spaln_nt2Genome AG---TATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTGATG---TGGACAGAACTCATCCGAG tgtcactaatctcctttttgccattaacagccccttctttccctctgcagAGGTCTATGTAAACAAAAAAGAGCAAGAGGCTGAAGTAGACATGAAGTCTGGTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGGgtaagatccagtgcagggtcataagtggagaatttaagcagtagtgtggt Alignment from Pairagon AG---TATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTC---TGATGTGGACAGAACTCATCCGAG tgtcactaatctcctttttgccattaacagccccttctttccctctgcagAGGTCTATGTAAACAAAAAAGAGCAAGAGGCTGAAGTAGACATGAAGTCTGGTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGGgtaagatccagtgcagggtcataagtggagaatttaagcagtagtgtggt Alignment from Exonerate_protein2genome AG---TATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTG---ATGTGGACAGAACTCATCCGAG tgtcactaatctcctttttgccattaacagccccttctttccctctgcagAGGTCTATGTAAACAAAAAAGAGCAAGAGGCTGAAGTAGACATGAAGTCTGGTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGGgtaagatccagtgcagggtcataagtggagaatttaagcagtagtgtggt Alignment from Exonerate_coding2genome AG---TATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTG---ATGTGGACAGAACTCATCCGAG tgtcactaatctcctttttgccattaacagccccttctttccctctgcagAGGTCTATGTAAACAAAAAAGAGCAAGAGGCTGAAGTAGACATGAAGTCTGGTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGGgtaagatccagtgcagggtcataagtggagaatttaagcagtagtgtggt Alignment from GeneWise --AAGTATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTGATG---TGGACAGAACTCATCCGAG tgtcactaatctcctttttgccattaacagccccttctttccctctgcagAGGTCTATGTAAACAAAAAAGAGCAAGAGGCTGAAGTAGACATGAAGTCTGGTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGGgtaagatccagtgcagggtcataagtggagaatttaagcagtagtgtggt #### Ndufs8_ID194_2 --> 2 - 1 Original Alignment gaCATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTAC---------a ctggggcccttgaggaacaggtcttccattttcctttatttttcttctaggaCATCTGAATGGACAGAGCCTGCACAGCAGTGCTGTGGCATCAACATACACAATCCAGagtagccagctgaaattaagatccggctcatataacccttaggatgctgaa Alignment from CESAR gaCATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTAC---------a ctggggcccttgaggaacaggtcttccattttcctttatttttcttctaggaCATCTGAATGGACAGAGCCTGCACAGCAGTGCTGTGGCATCAACATACACAATCCAGagtagccagctgaaattaagatccggctcatataacccttaggatgctgaa Alignment from Spaln_aa2Genome GACATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTAC---------A ctggggcccttgaggaacaggtcttccattttcctttatttttcttctagGACATCTGAATGGACAGAGCCTGCACAGCAGTGCTGTGGCATCAACATACACAATCCAGAgtagccagctgaaattaagatccggctcatataacccttaggatgctgaa Alignment from Spaln_nt2Genome GACATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACA--------- ctggggcccttgaggaacaggtcttccattttcctttatttttcttctagGACATCTGAATGGACAGAGCCTGCACAGCAGTGCTGTGGCATCAACATACACAATCCAGAgtagccagctgaaattaagatccggctcatataacccttaggatgctgaa Alignment from Pairagon GACATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACA--------- ctggggcccttgaggaacaggtcttccattttcctttatttttcttctagGACATCTGAATGGACAGAGCCTGCACAGCAGTGCTGTGGCATCAACATACACAATCCAGAgtagccagctgaaattaagatccggctcatataacccttaggatgctgaa Alignment from Exonerate_protein2genome GACATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACA ctggggcccttgaggaacaggtcttccattttcctttatttttcttctagGACATCTGAATGGACAGAGCCTGCACAGCAGTGCTGTGGCATCAACATACAcaatccagagtagccagctgaaattaagatccggctcatataacccttaggatgctgaa Alignment from Exonerate_coding2genome GACATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACA ctggggcccttgaggaacaggtcttccattttcctttatttttcttctagGACATCTGAATGGACAGAGCCTGCACAGCAGTGCTGTGGCATCAACATACAcaatccagagtagccagctgaaattaagatccggctcatataacccttaggatgctgaa Alignment from GeneWise GACATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTAC---------A ctggggcccttgaggaacaggtcttccattttcctttatttttcttctagGACATCTGAATGGACAGAGCCTGCACAGCAGTGCTGTGGCATCAACATACACAATCCAGAgtagccagctgaaattaagatccggctcatataacccttaggatgctgaa #### Ndufv1_ID277_5 --> 0 - 1 Original Alignment GTAGCTATCCGAGAGGCCTATGAAGCAGGTCTGATTGGCAAGAATGCTTGTGGCTCCGACTATGATTTTGATGTGTTTGTGGTGCGTGGGGCTGGGGCCTACATCTGTGGAGAAGAGACGGCACTTATTGAATCCATTGAAGGCAAGCAGGGAAAGCCACGCCTGAAGCCGCCCTTTCCAGCAGATGTG---g ttgtaagtctgtgtaacgcaaggctgggccttgacaaactctgtctctagGTAGCTATCCGAGGTGCCTATGAAGCAGTTCTGATTGGCAAGAATGCTTGTGGCTCTGACTATGATTTCGATGTGTTTCTGGTACGTGGTGCTGGTGCCTACATCTGTGGAGATGAGACAGCACTTATTGAATCAATTGAAGGCAAGCAGGGAAAGCCATGCCTGAAGCCGCCCTTCCCAGCAGATGTGTCTggtactgcttctggtgtcctccttctattctggtagttcccatctacgtcc Alignment from CESAR GTAGCTATCCGAGAGGCCTATGAAGCAGGTCTGATTGGCAAGAATGCTTGTGGCTCCGACTATGATTTTGATGTGTTTGTGGTGCGTGGGGCTGGGGCCTACATCTGTGGAGAAGAGACGGCACTTATTGAATCCATTGAAGGCAAGCAGGGAAAGCCACGCCTGAAGCCGCCCTTTCCAGCAGATGTG---g ttgtaagtctgtgtaacgcaaggctgggccttgacaaactctgtctctagGTAGCTATCCGAGGTGCCTATGAAGCAGTTCTGATTGGCAAGAATGCTTGTGGCTCTGACTATGATTTCGATGTGTTTCTGGTACGTGGTGCTGGTGCCTACATCTGTGGAGATGAGACAGCACTTATTGAATCAATTGAAGGCAAGCAGGGAAAGCCATGCCTGAAGCCGCCCTTCCCAGCAGATGTGTCTggtactgcttctggtgtcctccttctattctggtagttcccatctacgtcc Alignment from Spaln_aa2Genome GTAGCTATCCGAGAGGCCTATGAAGCAGGTCTGATTGGCAAGAATGCTTGTGGCTCCGACTATGATTTTGATGTGTTTGTGGTGCGTGGGGCTGGGGCCTACATCTGTGGAGAAGAGACGGCACTTATTGAATCCATTGAAGGCAAGCAGGGAAAGCCACGCCTGAAGCCGCCCTTTCCAGCAGATGTGGGAG ttgtaagtctgtgtaacgcaaggctgggccttgacaaactctgtctctagGTAGCTATCCGAGGTGCCTATGAAGCAGTTCTGATTGGCAAGAATGCTTGTGGCTCTGACTATGATTTCGATGTGTTTCTGGTACGTGGTGCTGGTGCCTACATCTGTGGAGATGAGACAGCACTTATTGAATCAATTGAAGGCAAGCAGGGAAAGCCATGCCTGAAGCCGCCCTTCCCAGCAGATGTGTCTGgtactgcttctggtgtcctccttctattctggtagttcccatctacgtcc Alignment from Spaln_nt2Genome GTAGCTATCCGAGAGGCCTATGAAGCAGGTCTGATTGGCAAGAATGCTTGTGGCTCCGACTATGATTTTGATGTGTTTGTGGTGCGTGGGGCTGGGGCCTACATCTGTGGAGAAGAGACGGCACTTATTGAATCCATTGAAGGCAAGCAGGGAAAGCCACGCCTGAAGCCGCCCTTTCCAGCAGATGTG---G ttgtaagtctgtgtaacgcaaggctgggccttgacaaactctgtctctagGTAGCTATCCGAGGTGCCTATGAAGCAGTTCTGATTGGCAAGAATGCTTGTGGCTCTGACTATGATTTCGATGTGTTTCTGGTACGTGGTGCTGGTGCCTACATCTGTGGAGATGAGACAGCACTTATTGAATCAATTGAAGGCAAGCAGGGAAAGCCATGCCTGAAGCCGCCCTTCCCAGCAGATGTGTCTGgtactgcttctggtgtcctccttctattctggtagttcccatctacgtcc Alignment from Pairagon GTAGCTATCCGAGAGGCCTATGAAGCAGGTCTGATTGGCAAGAATGCTTGTGGCTCCGACTATGATTTTGATGTGTTTGTGGTGCGTGGGGCTGGGGCCTACATCTGTGGAGAAGAGACGGCACTTATTGAATCCATTGAAGGCAAGCAGGGAAAGCCACGCCTGAAGCCGCCCTTTCCAGCAGATGT ttgtaagtctgtgtaacgcaaggctgggccttgacaaactctgtctctagGTAGCTATCCGAGGTGCCTATGAAGCAGTTCTGATTGGCAAGAATGCTTGTGGCTCTGACTATGATTTCGATGTGTTTCTGGTACGTGGTGCTGGTGCCTACATCTGTGGAGATGAGACAGCACTTATTGAATCAATTGAAGGCAAGCAGGGAAAGCCATGCCTGAAGCCGCCCTTCCCAGCAGATGTgtctggtactgcttctggtgtcctccttctattctggtagttcccatctacgtcc Alignment from Exonerate_protein2genome GTAGCTATCCGAGAGGCCTATGAAGCAGGTCTGATTGGCAAGAATGCTTGTGGCTCCGACTATGATTTTGATGTGTTTGTGGTGCGTGGGGCTGGGGCCTACATCTGTGGAGAAGAGACGGCACTTATTGAATCCATTGAAGGCAAGCAGGGAAAGCCACGCCTGAAGCCGCCCTTTCCAGCAGATGTGGGAG ttgtaagtctgtgtaacgcaaggctgggccttgacaaactctgtctctagGTAGCTATCCGAGGTGCCTATGAAGCAGTTCTGATTGGCAAGAATGCTTGTGGCTCTGACTATGATTTCGATGTGTTTCTGGTACGTGGTGCTGGTGCCTACATCTGTGGAGATGAGACAGCACTTATTGAATCAATTGAAGGCAAGCAGGGAAAGCCATGCCTGAAGCCGCCCTTCCCAGCAGATGTGTCTGgtactgcttctggtgtcctccttctattctggtagttcccatctacgtcc Alignment from Exonerate_coding2genome GTAGCTATCCGAGAGGCCTATGAAGCAGGTCTGATTGGCAAGAATGCTTGTGGCTCCGACTATGATTTTGATGTGTTTGTGGTGCGTGGGGCTGGGGCCTACATCTGTGGAGAAGAGACGGCACTTATTGAATCCATTGAAGGCAAGCAGGGAAAGCCACGCCTGAAGCCGCCCTTTCCAGCAGATGTGGGAG ttgtaagtctgtgtaacgcaaggctgggccttgacaaactctgtctctagGTAGCTATCCGAGGTGCCTATGAAGCAGTTCTGATTGGCAAGAATGCTTGTGGCTCTGACTATGATTTCGATGTGTTTCTGGTACGTGGTGCTGGTGCCTACATCTGTGGAGATGAGACAGCACTTATTGAATCAATTGAAGGCAAGCAGGGAAAGCCATGCCTGAAGCCGCCCTTCCCAGCAGATGTGTCTGgtactgcttctggtgtcctccttctattctggtagttcccatctacgtcc Alignment from GeneWise GTAGCTATCCGAGAGGCCTATGAAGCAGGTCTGATTGGCAAGAATGCTTGTGGCTCCGACTATGATTTTGATGTGTTTGTGGTGCGTGGGGCTGGGGCCTACATCTGTGGAGAAGAGACGGCACTTATTGAATCCATTGAAGGCAAGCAGGGAAAGCCACGCCTGAAGCCGCCCTTTCCAGCAGATGTGGGA- ttgtaagtctgtgtaacgcaaggctgggccttgacaaactctgtctctagGTAGCTATCCGAGGTGCCTATGAAGCAGTTCTGATTGGCAAGAATGCTTGTGGCTCTGACTATGATTTCGATGTGTTTCTGGTACGTGGTGCTGGTGCCTACATCTGTGGAGATGAGACAGCACTTATTGAATCAATTGAAGGCAAGCAGGGAAAGCCATGCCTGAAGCCGCCCTTCCCAGCAGATGTGTCTGgtactgcttctggtgtcctccttctattctggtagttcccatctacgtcc #### Nfkb2_ID9831_9 --> 2 - 0 Original Alignment acGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG------ agacatcacttgcccctgccatatgactgagaatggcctctctttcccagatGACATCGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTCGGGGACTTCTCTCCCACAGATGTTTATAAACAGATGTTGgtctggcaacctaattcatattccccctcctcagtgaaaacatggtggcc Alignment from CESAR acGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG------ agacatcacttgcccctgccatatgactgagaatggcctctctttcccagatGACATCGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTCGGGGACTTCTCTCCCACAGATGTTTATAAACAGATGTTGgtctggcaacctaattcatattccccctcctcagtgaaaacatggtggcc Alignment from Spaln_aa2Genome ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG------ agacatcacttgcccctgccatatgactgagaatggcctctctttcccagATGACATCGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTCGGGGACTTCTCTCCCACAGATGTTTATAAACAGATGTTGgtctggcaacctaattcatattccccctcctcagtgaaaacatggtggcc Alignment from Spaln_nt2Genome ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG-- agacatcacttgcccctgccatatgactgagaatggcctctctttcccagATGACATCGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTCGGGGACTTCTCTCCCACAGATGTTTATAAACAGATgttggtctggcaacctaattcatattccccctcctcagtgaaaacatggtggcc Alignment from Pairagon ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG-- agacatcacttgcccctgccatatgactgagaatggcctctctttcccagATGACATCGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTCGGGGACTTCTCTCCCACAGATGTTTATAAACAGATgttggtctggcaacctaattcatattccccctcctcagtgaaaacatggtggcc Alignment from Exonerate_protein2genome ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG agacatcacttgcccctgccatatgactgagaatggcctctctttcccagATGACATCGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTCGGGGACTTCTCTCCCACAGATGTTTATAAACAGatgttggtctggcaacctaattcatattccccctcctcagtgaaaacatggtggcc Alignment from Exonerate_coding2genome ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG agacatcacttgcccctgccatatgactgagaatggcctctctttcccagATGACATCGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTCGGGGACTTCTCTCCCACAGATGTTTATAAACAGatgttggtctggcaacctaattcatattccccctcctcagtgaaaacatggtggcc Alignment from GeneWise ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG------ agacatcacttgcccctgccatatgactgagaatggcctctctttcccagATGACATCGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTCGGGGACTTCTCTCCCACAGATGTTTATAAACAGATGTTGgtctggcaacctaattcatattccccctcctcagtgaaaacatggtggcc #### Nfkb2_ID9833_11 --> 2 - 1 Original Alignment ac------------------AAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAg gcatgtgtctgtatttattaagtctcaagatggctttgtctttttcacagacTCAGACGATACAATCCTCAAGGAGGAA------AGTAAAAGGAGGAAGGCCTTGCCCACCTTCTCCCAGCCCTTTGGGGGTGGAACCCATATGGGTGGACGTTCTGGTGGGTCTGCGGGGGGTTATGGAGATGCTGGGGGAggtaagtaagcacaaatgaaaggagaaaggaaggagaatggttaacgatat Alignment from CESAR ac------------------AAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAg gcatgtgtctgtatttattaagtctcaagatggctttgtctttttcacagacTCAGACGATACAATCCTCAAGGAGGAA------AGTAAAAGGAGGAAGGCCTTGCCCACCTTCTCCCAGCCCTTTGGGGGTGGAACCCATATGGGTGGACGTTCTGGTGGGTCTGCGGGGGGTTATGGAGATGCTGGGGGAggtaagtaagcacaaatgaaaggagaaaggaaggagaatggttaacgatat Alignment from Spaln_aa2Genome ACAAGGAGGAAGTG------------CAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG gcatgtgtctgtatttattaagtctcaagatggctttgtctttttcacagACTCAGACGATACAATCCTCAAGGAGGAAAGTAAAAGGAGGAAGGCCTTGCCCACCTTCTCCCAGCCCTTTGGGGGTGGAACCCATATGGGTGGACGTTCTGGTGGGTCTGCGGGGGGTTATGGAGATGCTGGGGGAGgtaagtaagcacaaatgaaaggagaaaggaaggagaatggttaacgatat Alignment from Spaln_nt2Genome ACAAGGAGGAA------------GTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG gcatgtgtctgtatttattaagtctcaagatggctttgtctttttcacagACTCAGACGATACAATCCTCAAGGAGGAAAGTAAAAGGAGGAAGGCCTTGCCCACCTTCTCCCAGCCCTTTGGGGGTGGAACCCATATGGGTGGACGTTCTGGTGGGTCTGCGGGGGGTTATGGAGATGCTGGGGGAGgtaagtaagcacaaatgaaaggagaaaggaaggagaatggttaacgatat Alignment from Pairagon A------------------CAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG gcatgtgtctgtatttattaagtctcaagatggctttgtctttttcacagACTCAGACGATACAATCCTCAAGGAGGAA------AGTAAAAGGAGGAAGGCCTTGCCCACCTTCTCCCAGCCCTTTGGGGGTGGAACCCATATGGGTGGACGTTCTGGTGGGTCTGCGGGGGGTTATGGAGATGCTGGGGGAGgtaagtaagcacaaatgaaaggagaaaggaaggagaatggttaacgatat Alignment from Exonerate_protein2genome AGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG gcatgtgtctgtatttattaagtctcaagatggctttgtctttttcacagactcagacgatacaaTCCTCAAGGAGGAAAGTAAAAGGAGGAAGGCCTTGCCCACCTTCTCCCAGCCCTTTGGGGGTGGAACCCATATGGGTGGACGTTCTGGTGGGTCTGCGGGGGGTTATGGAGATGCTGGGGGAGgtaagtaagcacaaatgaaaggagaaaggaaggagaatggttaacgatat Alignment from Exonerate_coding2genome AGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG gcatgtgtctgtatttattaagtctcaagatggctttgtctttttcacagactcagacgatacaaTCCTCAAGGAGGAAAGTAAAAGGAGGAAGGCCTTGCCCACCTTCTCCCAGCCCTTTGGGGGTGGAACCCATATGGGTGGACGTTCTGGTGGGTCTGCGGGGGGTTATGGAGATGCTGGGGGAGgtaagtaagcacaaatgaaaggagaaaggaaggagaatggttaacgatat Alignment from GeneWise GAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG gcatgtgtctgtatttattaagtctcaagatggctttgtctttttcacagactcagacgatacaatcctcaaggaggaaagTAAAAGGAGGAAGGCCTTGCCCACCTTCTCCCAGCCCTTTGGGGGTGGAACCCATATGGGTGGACGTTCTGGTGGGTCTGCGGGGGGTTATGGAGATGCTGGGGGAGgtaagtaagcacaaatgaaaggagaaaggaaggagaatggttaacgatat #### Nfkb2_ID9834_12 --> 2 - 1 Original Alignment gt---GGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAg tattgcctctataaggaaccttataaggctcctttgtatctcccttaaaggtAACGGGAGCCTTGGTTTTTTATCCCCCCCATTGGCCTATAATCCCTACCAATCTGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGTGGAACACAGATGGCTGGCTCTAGACGGGACACTGATGCTGGTGAGGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACATTGCACCGAggtgagcgctggcatcaaggttcacatgtgctattaaaagtgcaaggcagg Alignment from CESAR gt---GGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAg tattgcctctataaggaaccttataaggctcctttgtatctcccttaaaggtAACGGGAGCCTTGGTTTTTTATCCCCCCCATTGGCCTATAATCCCTACCAATCTGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGTGGAACACAGATGGCTGGCTCTAGACGGGACACTGATGCTGGTGAGGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACATTGCACCGAggtgagcgctggcatcaaggttcacatgtgctattaaaagtgcaaggcagg Alignment from Spaln_aa2Genome GTGGCAGCCTCGGC---TTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctctataaggaaccttataaggctcctttgtatctcccttaaagGTAACGGGAGCCTTGGTTTTTTATCCCCCCCATTGGCCTATAATCCCTACCAATCTGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGTGGAACACAGATGGCTGGCTCTAGACGGGACACTGATGCTGGTGAGGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACATTGCACCGAGgtgagcgctggcatcaaggttcacatgtgctattaaaagtgcaaggcagg Alignment from Spaln_nt2Genome GT---GGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctctataaggaaccttataaggctcctttgtatctcccttaaagGTAACGGGAGCCTTGGTTTTTTATCCCCCCCATTGGCCTATAATCCCTACCAATCTGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGTGGAACACAGATGGCTGGCTCTAGACGGGACACTGATGCTGGTGAGGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACATTGCACCGAGgtgagcgctggcatcaaggttcacatgtgctattaaaagtgcaaggcagg Alignment from Pairagon -------------------------------------------------------GGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG TATTGCCTCTATAAGGAACCTTATAAGGCTCCTTTGTATCTCCCTTAAAGGTAACGGGAGCCTTGGTTTTTTATCCCCCCCATTGGCCTATAATCCCTACCAATCTGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGTGGAACACAGATGGCTGGCTCTAGACGGGACACTGATGCTGGTGAGGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACATTGCACCGAGgtgagcgctggcatcaaggttcacatgtgctattaaaagtgcaaggcagg Alignment from Exonerate_protein2genome GT---GGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctctataaggaaccttataaggctcctttgtatctcccttaaagGTAACGGGAGCCTTGGTTTTTTATCCCCCCCATTGGCCTATAATCCCTACCAATCTGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGTGGAACACAGATGGCTGGCTCTAGACGGGACACTGATGCTGGTGAGGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACATTGCACCGAGgtgagcgctggcatcaaggttcacatgtgctattaaaagtgcaaggcagg Alignment from Exonerate_coding2genome GT---GGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctctataaggaaccttataaggctcctttgtatctcccttaaagGTAACGGGAGCCTTGGTTTTTTATCCCCCCCATTGGCCTATAATCCCTACCAATCTGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGTGGAACACAGATGGCTGGCTCTAGACGGGACACTGATGCTGGTGAGGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACATTGCACCGAGgtgagcgctggcatcaaggttcacatgtgctattaaaagtgcaaggcagg Alignment from GeneWise --GGTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG tattgcctctataaggaaccttataaggctcctttgtatctcccttaaagGTAACGGGAGCCTTGGTTTTTTATCCCCCCCATTGGCCTATAATCCCTACCAATCTGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGTGGAACACAGATGGCTGGCTCTAGACGGGACACTGATGCTGGTGAGGGTGCTGAGGAGCCCAGGACACCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTTGACACATTGCACCGAGgtgagcgctggcatcaaggttcacatgtgctattaaaagtgcaaggcagg #### Nfkb2_ID9838_16 --> 2 - 0 Original Alignment gaCTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG agccacttaggatgattaccacctctcttaccgtcttccccttggtttagga------CCTGTGCACCTAGCAGTACATGCGCAGAGCCCTGAATGTCTGGACCTCTTAGTTGATTGTGGAGCAGTAGTGGAGGCTCCAGGGAGGCAAGGGGGCCGAAATGCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGCTGGTAGCCCATTTAGTCACCAAGgtaagaattcaactgtttggactaagaatggggtaagataatatatgctg Alignment from CESAR gaCTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG cagagaagccacttaggatgattactcttaccgtcttccccttggtttagga------CCTGTGCACCTAGCAGTACATGCGCAGAGCCCTGAATGTCTGGACCTCTTAGTTGATTGTGGAGCAGTAGTGGAGGCTCCAGGGAGGCAAGGGGGCCGAAATGCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGCTGGTAGCCCATTTAGTCACCAAGgtaagaattcaactgtttggactaagaatggggtaagataatatatgctg Alignment from Spaln_aa2Genome GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG agccacttaggatgattaccacctctcttaccgtcttccccttggtttagGA------CCTGTGCACCTAGCAGTACATGCGCAGAGCCCTGAATGTCTGGACCTCTTAGTTGATTGTGGAGCAGTAGTGGAGGCTCCAGGGAGGCAAGGGGGCCGAAATGCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGCTGGTAGCCCATTTAGTCACCAAGgtaagaattcaactgtttggactaagaatggggtaagataatatatgctg Alignment from Spaln_nt2Genome GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG agccacttaggatgattaccacctctcttaccgtcttccccttggtttagGA------CCTGTGCACCTAGCAGTACATGCGCAGAGCCCTGAATGTCTGGACCTCTTAGTTGATTGTGGAGCAGTAGTGGAGGCTCCAGGGAGGCAAGGGGGCCGAAATGCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGCTGGTAGCCCATTTAGTCACCAAGgtaagaattcaactgtttggactaagaatggggtaagataatatatgctg Alignment from Pairagon GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG agccacttaggatgattaccacctctcttaccgtcttccccttggtttagGA------CCTGTGCACCTAGCAGTACATGCGCAGAGCCCTGAATGTCTGGACCTCTTAGTTGATTGTGGAGCAGTAGTGGAGGCTCCAGGGAGGCAAGGGGGCCGAAATGCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGCTGGTAGCCCATTTAGTCACCAAGgtaagaattcaactgtttggactaagaatggggtaagataatatatgctg Alignment from Exonerate_protein2genome GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG agccacttaggatgattaccacctctcttaccgtcttccccttgGTTTAGGACCTGTGCACCTAGCAGTACATGCGCAGAGCCCTGAATGTCTGGACCTCTTAGTTGATTGTGGAGCAGTAGTGGAGGCTCCAGGGAGGCAAGGGGGCCGAAATGCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGCTGGTAGCCCATTTAGTCACCAAGgtaagaattcaactgtttggactaagaatggggtaagataatatatgctg Alignment from Exonerate_coding2genome GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG agccacttaggatgattaccacctctcttaccgtcttccccttgGTTTAGGACCTGTGCACCTAGCAGTACATGCGCAGAGCCCTGAATGTCTGGACCTCTTAGTTGATTGTGGAGCAGTAGTGGAGGCTCCAGGGAGGCAAGGGGGCCGAAATGCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGCTGGTAGCCCATTTAGTCACCAAGgtaagaattcaactgtttggactaagaatggggtaagataatatatgctg Alignment from GeneWise GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG agccacttaggatgattaccacctctcttaccgtcttccccttggtttagGA------CCTGTGCACCTAGCAGTACATGCGCAGAGCCCTGAATGTCTGGACCTCTTAGTTGATTGTGGAGCAGTAGTGGAGGCTCCAGGGAGGCAAGGGGGCCGAAATGCCCTGCACCTGGCAACAGAGATGGAAGAATTGGGGCTGGTAGCCCATTTAGTCACCAAGgtaagaattcaactgtttggactaagaatggggtaagataatatatgctg #### Nfkb2_ID9839_17 --> 0 - 1 Original Alignment CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCT------g gatttggttgattgtggccagactttgttctctgtcccttctctgttcagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACGCCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTTCACGGggtaagacttgcattaacttgcatttacaaaattgaaagccaggggaggaa Alignment from CESAR CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCT------g gatttggttgattgtggccagactttgttctctgtcccttctctgttcagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACGCCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTTCACGGggtaagacttgcattaacttgcatttacaaaattgaaagccaggggaggaa Alignment from Spaln_aa2Genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCT------G gatttggttgattgtggccagactttgttctctgtcccttctctgttcagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACGCCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTTCACGGGgtaagacttgcattaacttgcatttacaaaattgaaagccaggggaggaa Alignment from Spaln_nt2Genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCT------G gatttggttgattgtggccagactttgttctctgtcccttctctgttcagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACGCCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTTCACGGGgtaagacttgcattaacttgcatttacaaaattgaaagccaggggaggaa Alignment from Pairagon CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCT------G gatttggttgattgtggccagactttgttctctgtcccttctctgttcagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACGCCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTTCACGGGgtaagacttgcattaacttgcatttacaaaattgaaagccaggggaggaa Alignment from Exonerate_protein2genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCT------G gatttggttgattgtggccagactttgttctctgtcccttctctgttcagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACGCCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTTCACGGGgtaagacttgcattaacttgcatttacaaaattgaaagccaggggaggaa Alignment from Exonerate_coding2genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCT------G gatttggttgattgtggccagactttgttctctgtcccttctctgttcagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACGCCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTTCACGGGgtaagacttgcattaacttgcatttacaaaattgaaagccaggggaggaa Alignment from GeneWise CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTGGTGCT- gatttggttgattgtggccagactttgttctctgtcccttctctgttcagCTACATGCCAATGTCAATACTTGGACCTTTGCTGCAAATACGCCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTTCACGGGgtaagacttgcattaacttgcatttacaaaattgaaagccaggggaggaa #### Nfkb2_ID9840_18 --> 2 - 0 Original Alignment gtGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG--- cagttagagactataagtagtctttcaatgtttccttgtctcctgagtaggcGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGATCTCACTCGCAGTACAAAGTGTgtgagatacgcagagtctgctactgttcagaaagtatccaagtgggtgta Alignment from CESAR gtGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG--- cagttagagactataagtagtctttcaatgtttccttgtctcctgagtaggcGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGATCTCACTCGCAGTACAAAGTGTgtgagatacgcagagtctgctactgttcagaaagtatccaagtgggtgta Alignment from Spaln_aa2Genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAGGTG cagttagagactataagtagtctttcaatgtttccttgtctcctgagtagGCGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGATCTCACTCGCAGTACAAAGTGTgtgagatacgcagagtctgctactgttcagaaagtatccaagtgggtgta Alignment from Spaln_nt2Genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAA cagttagagactataagtagtctttcaatgtttccttgtctcctgagtagGCGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGATCTCACTCGCAGTACAAAgtgtgtgagatacgcagagtctgctactgttcagaaagtatccaagtgggtgta Alignment from Pairagon GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAA cagttagagactataagtagtctttcaatgtttccttgtctcctgagtagGCGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGATCTCACTCGCAGTACAAAgtgtgtgagatacgcagagtctgctactgttcagaaagtatccaagtgggtgta Alignment from Exonerate_protein2genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAA cagttagagactataagtagtctttcaatgtttccttgtctcctgagtagGCGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGATCTCACTCGCAGTACAAAgtgtgtgagatacgcagagtctgctactgttcagaaagtatccaagtgggtgta Alignment from Exonerate_coding2genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAGGTGAAGACTCTGCTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGC cagttagagactataagtagtctttcaatgtttccttgtctcctgagtagGCGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGATCTCACTCGCAGTACAAAGTGTGTGAGATACGCAGAGTCTGCTACTGTTCAGAAAGTATCCAAGTGGGTGTA Alignment from GeneWise --GGTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAGGTG cagttagagactataagtagtctttcaatgtttccttgtctcctgagTAGGCGCTGATACCCATACAGAGAATGAAGAGCCACTGTGTCCTCTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGCGGTCATACCCCTCTTGATCTCACTCGCAGTACAAAGTGTgtgagatacgcagagtctgctactgttcagaaagtatccaagtgggtgta #### Nfkb2_ID9841_19 --> 0 - 1 Original Alignment GTG---AAGACTCTGCTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAg ctttaggcgaaattgcaggaactcgagagctggactctgcctgtccccag---------------------AACGCTGCTCAGAATTCCACAGAGCCACCCTTGGCCCCACCGACCCCAGTAggtacccctgcagtgacttctggcacaaggcgcaatatccttagagattaa Alignment from CESAR GTGAAGACTCTGCTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAg tgatagtgacacatacttcccctttagagctggactctgcctgtccccag------------------AACGCTGCTCAGAATTCCACAGAGCCACCCTTGGCCCCACCGACCCCAGTAggtacccctgcagtgacttctggcacaaggcgcaatatccttagagattaa Alignment from Spaln_aa2Genome CTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG ctttaggcgaaattgcaggaactcgagagctggactctgcctgtccccag------AACGCTGCTCAGAATTCCACAGAGCCACCCTTGGCCCCACCGACCCCAGTAGgtacccctgcagtgacttctggcacaaggcgcaatatccttagagattaa Alignment from Spaln_nt2Genome AATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG ctttaggcgaaattgcaggaactcgagagctggactctgcctgtccccagAACGCTGCTCAGAATTCCACAGAGCCACCCTTGGCCCCACCGACCCCAGTAGgtacccctgcagtgacttctggcacaaggcgcaatatccttagagattaa Alignment from Pairagon GTGAAGACTCTGCTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG ctttaggcgaaattgcaggaactcgagagctggactctgcctgtccccag------------------AACGCTGCTCAGAATTCCACAGAGCCACCCTTGGCCCCACCGACCCCAGTAGgtacccctgcagtgacttctggcacaaggcgcaatatccttagagattaa Alignment from Exonerate_protein2genome TGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG ctttaggcgaaattgcaggaactcgagagctggactctgcctgtccccagaaCGCTGCTCAGAATTCCACAGAGCCACCCTTGGCCCCACCGACCCCAGTAGgtacccctgcagtgacttctggcacaaggcgcaatatccttagagattaa Alignment from Exonerate_coding2genome ctttaggcgaaattgcaggaactcgagagctggactctgcctgtccccagaacgctgctcagaattccacagagccacccttggccccaccgaccccagtaggtacccctgcagtgacttctggcacaaggcgcaatatccttagagattaa Alignment from GeneWise ---------------CTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG ctttaggcgaaattgcaggaactcgagagCTGGACTCTGCCTGTCCCCAGAACGCTGCTCAGAATTCCACAGAGCCACCCTTGGCCCCACCGACCCCAGTAGgtacccctgcagtgacttctggcacaaggcgcaatatccttagagattaa #### Noc3l_ID7658_17 --> 2 - 0 Original Alignment gtGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT--- gcacccctgaatacaagaggtgatgaatcctcttcttcctgtttccacaggcACCACTAATGATGGCATAGAGATTGTGCTCCACTGCCTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTCT---CAGAGGGCTATTGCCTTCATCAAGCGCCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTTTACCAACTACAAGGGTACTGATGCATGAAgtaacccaaagtctgaagagagttaagttgtgcaggtcaaacaggctgca Alignment from CESAR gtGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT--- gcacccctgaatacaagaggtgatgaatcctcttcttcctgtttccacaggcACCACTAATGATGGCATAGAGATTGTGCTCCACTGCCTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTCT---CAGAGGGCTATTGCCTTCATCAAGCGCCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTTTACCAACTACAAGGGTACTGATGCATGAAgtaacccaaagtctgaagagagttaagttgtgcaggtcaaacaggctgca Alignment from Spaln_aa2Genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT--- gcacccctgaatacaagaggtgatgaatcctcttcttcctgtttccacagGCACCACTAATGATGGCATAGAGATTGTGCTCCACTGCCTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTCT---CAGAGGGCTATTGCCTTCATCAAGCGCCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTTTACCAACTACAAGGGTACTGATGCATGAAgtaacccaaagtctgaagagagttaagttgtgcaggtcaaacaggctgca Alignment from Spaln_nt2Genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT--- gcacccctgaatacaagaggtgatgaatcctcttcttcctgtttccacagGCACCACTAATGATGGCATAGAGATTGTGCTCCACTGCCTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTC---TCAGAGGGCTATTGCCTTCATCAAGCGCCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTTTACCAACTACAAGGGTACTGATGCATGAAgtaacccaaagtctgaagagagttaagttgtgcaggtcaaacaggctgca Alignment from Pairagon GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT--- gcacccctgaatacaagaggtgatgaatcctcttcttcctgtttccacagGCACCACTAATGATGGCATAGAGATTGTGCTCCACTGCCTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTC---TCAGAGGGCTATTGCCTTCATCAAGCGCCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTTTACCAACTACAAGGGTACTGATGCATGAAgtaacccaaagtctgaagagagttaagttgtgcaggtcaaacaggctgca Alignment from Exonerate_protein2genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT gcacccctgaatacaagaggtgatgaatcctcttcttcctgtttccacagGCACCACTAATGATGGCATAGAGATTGTGCTCCACTGCCTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTCT---CAGAGGGCTATTGCCTTCATCAAGCGCCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTTTACCAACTACAAGGGTACTGATGCATgaagtaacccaaagtctgaagagagttaagttgtgcaggtcaaacaggctgca Alignment from Exonerate_coding2genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT gcacccctgaatacaagaggtgatgaatcctcttcttcctgtttccacagGCACCACTAATGATGGCATAGAGATTGTGCTCCACTGCCTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTCT---CAGAGGGCTATTGCCTTCATCAAGCGCCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTTTACCAACTACAAGGGTACTGATGCATgaagtaacccaaagtctgaagagagttaagttgtgcaggtcaaacaggctgca Alignment from GeneWise GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCATACT gcacccctgaatacaagaggtgatgaatcctcttcttcctgtttccacagGCACCACTAATGATGGCATAGAGATTGTGCTCCACTGCCTGGATGTCATGGTTAGCAAATGCAGAAAGCAAGTTTCT---CAGAGGGCTATTGCCTTCATCAAGCGCCTTTGTACCCTAGCGTTGCAAGTTCTCCCAAATTCAAGCATTGGGCTTTTACCAACTACAAGGGTACTGATGCATGAAgtaacccaaagtctgaagagagttaagttgtgcaggtcaaacaggctgca #### Noc3l_ID7660_15 --> 0 - 1 Original Alignment GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAA------g gggatagaacgcatgcagtttagttccttggtggccttctctgtctttagGAACTTAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATGTTCTTTCTGGACCATTTAACggtgagaagtccatttggtctccctttcatttcactaaacacagcctccct Alignment from CESAR GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAA------g gggatagaacgcatgcagtttagttccttggtggccttctctgtctttagGAACTTAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATGTTCTTTCTGGACCATTTAACggtgagaagtccatttggtctccctttcatttcactaaatcgtgtgttctc Alignment from Spaln_aa2Genome GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAA------G gggatagaacgcatgcagtttagttccttggtggccttctctgtctttagGAACTTAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATGTTCTTTCTGGACCATTTAACGgtgagaagtccatttggtctccctttcatttcactaaacacagcctccct Alignment from Spaln_nt2Genome GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAA------G gggatagaacgcatgcagtttagttccttggtggccttctctgtctttagGAACTTAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATGTTCTTTCTGGACCATTTAACGgtgagaagtccatttggtctccctttcatttcactaaacacagcctccct Alignment from Pairagon GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGAC----------------------------------------------------------- gggatagaacgcatgcagtttagttccttggtggccttctctgtctttagGAACTTAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATGTTCTTTCTGGACCATTTAACGGTGAGAAGTCCATTTGGTCTCCCTTTCATTTCACTAAACACAGCCTCCCT Alignment from Exonerate_protein2genome GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG gggatagaacgcatgcagtttagttccttggtggccttctctgtctttagGAACTTAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATGTTCTTTCTGGACCATttaacggtgagaagtccatttggtctccctttcatttcactaaacacagcctccct Alignment from Exonerate_coding2genome GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG gggatagaacgcatgcagtttagttccttggtggccttctctgtctttagGAACTTAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATGTTCTTTCTGGACCATttaacggtgagaagtccatttggtctccctttcatttcactaaacacagcctccct Alignment from GeneWise GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGA------------------------------------------------------------ gggatagaacgcatgcagtttagttccttggtggccttctctgtctttagGAACTTAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATGTTCTTTCTGGACCATTTAACGGTGAGAAGTCCATTTGGTCTCCCTTTCATTTCACTAAACACAGCCTCCCT #### Npas4_ID775_6 --> 2 - 2 Original Alignment tgGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCag gtggatggcctgatagcacttgaggtgtgttgctcttgttttcattgcagttGCTGAAAGTGGAGATATCCAGGCTGAGATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCAATAAT---------aggtgcaatggcaatgggcagggccaccagatgatgacaacagctgtatttg Alignment from CESAR tgGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCag gtggatggcctgatagcacttgaggtgtgttgctcttgttttcattgcagttGCTGAAAGTGGAGATATCCAGGCTGAGATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCAATAAT---------aggtgcaatggcaatgggcagggccaccagatgatgacaacagctgtatttg Alignment from Spaln_aa2Genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAGT----- gtggatggcctgatagcacttgaggtgtgttgctcttgttttcattgcagTTGCTGAAAGTGGAGATATCCAGGCTGAGATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCAATAATAGGTGCAATGGCAATGGgcagggccaccagatgatgacaacagctgtatttg Alignment from Spaln_nt2Genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTA CCCTATCAG gtggatggcctgatagcacttgaggtgtgttgctcttgttttcattgcagTTGCTGAAAGTGGAGATATCCAGGCTGAGATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCAATAATAGgtgcaatggcaatgggcagggccaccagatgatgacaacagCTGTATTTG Alignment from Pairagon TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTA--------------------------------------------------- gtggatggcctgatagcacttgaggtgtgttgctcttgttttcattgcagTTGCTGAAAGTGGAGATATCCAGGCTGAGATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCAATAA-TAGGTGCAATGGCAATGGGCAGGGCCACCAGATGATGACAACAGCTGTATTTG Alignment from Exonerate_protein2genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTA gtggatggcctgatagcacttgaggtgtgttgctcttgttttcattgcagTTGCTGAAAGTGGAGATATCCAGGCTGAGATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCAATAATAGgtgcaatggcaatgggcagggccaccagatgatgacaacagctgtatttg Alignment from Exonerate_coding2genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTA gtggatggcctgatagcacttgaggtgtgttgctcttgttttcattgcagTTGCTGAAAGTGGAGATATCCAGGCTGAGATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCAATAATAGgtgcaatggcaatgggcagggccaccagatgatgacaacagctgtatttg Alignment from GeneWise TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAAC-- gtggatggcctgatagcacttgaggtgtgttgctcttgttttcattgcagTTGCTGAAAGTGGAGATATCCAGGCTGAGATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGGTGGACATGGATTTATTGCATGTTATGCTCAGAGGGACCAGAAGGACCTTTTGCTGCCAATAATAGgtgcaatggcaatgggcagggccaccagatgatgacaacagctgtatttg #### Npm3_ID9577_3 --> 0 - 0 Original Alignment CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG--------------------- ctttcttcagccaatatcattgaaggcaattttcctttctgcttccacagCTCTGCCTTACTGAGGCTGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGACTATGACAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGTCAACCAATGGATCCTTCATCTCTCGATTTAgtatgtttgaaacattcatttctgtggggccctaacatttaataactttt Alignment from CESAR CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG--------------------- ctttcttcagccaatatcattgaaggcaattttcctttctgcttccacagCTCTGCCTTACTGAGGCTGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGACTATGACAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGTCAACCAATGGATCCTTCATCTCTCGATTTAgtatgtttgaaacattcatttctgtggggccctaacatttaataactttt Alignment from Spaln_aa2Genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG--------------------- ctttcttcagccaatatcattgaaggcaattttcctttctgcttccacagCTCTGCCTTACTGAGGCTGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGACTATGACAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGTCAACCAATGGATCCTTCATCTCTCGATTTAgtatgtttgaaacattcatttctgtggggccctaacatttaataactttt Alignment from Spaln_nt2Genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTT ctttcttcagccaatatcattgaaggcaattttcctttctgcttccacagCTCTGCCTTACTGAGGCTGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGACTATGACAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTgtcaaccaatggatccttcatctctcgatttagtatgtttgaaacattcatttctgtggggccctaacatttaataactttt Alignment from Pairagon CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG--------------------- ctttcttcagccaatatcattgaaggcaattttcctttctgcttccacagCTCTGCCTTACTGAGGCTGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGACTATGACAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGTCAACCAATGGATCCTTCATCTCTCGATTTAgtatgtttgaaacattcatttctgtggggccctaacatttaataactttt Alignment from Exonerate_protein2genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG ctttcttcagccaatatcattgaaggcaattttcctttctgcttccacagCTCTGCCTTACTGAGGCTGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGACTATGACAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGTCAACCAATGgatccttcatctctcgatttagtatgtttgaaacattcatttctgtggggccctaacatttaataactttt Alignment from Exonerate_coding2genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG ctttcttcagccaatatcattgaaggcaattttcctttctgcttccacagCTCTGCCTTACTGAGGCTGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGACTATGACAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGTCAACCAATGgatccttcatctctcgatttagtatgtttgaaacattcatttctgtggggccctaacatttaataactttt Alignment from GeneWise CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG------------------CTC ctttcttcagccaatatcattgaaggcaattttcctttctgcttccacagCTCTGCCTTACTGAGGCTGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGACTATGACAACCAGGAAATTGCAGTTTCTGTTGCAAACCTCAGGCTGTCTTGTCAACCAATGGATCCTTCATCTCTCGATTTAgtatgtttgaaacattcatttctgtggggccctaacatttaataactttt #### Npm3_ID9578_2 --> 2 - 0 Original Alignment gtTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggtccagggtgtacctaggaggtatagacgtccgtgtctccctaggtTGTGAGCTCTCTGATCACACACGCTCGTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAAC---gtgagtagtgctacataaggagtgaggtcaggcacacccctggtcttatc Alignment from CESAR gtTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ggtttggtccagggtgtacctaggaggtatagacgtccgtgtctccctaggtTGTGAGCTCTCTGATCACACACGCTCGTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAAC---gtgagtagtgctacataaggagtgaggtcaggcacacccctggtctt Alignment from Spaln_aa2Genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAAC ggtttggtccagggtgtacctaggaggtatagacgtccgtgtctccctagGTTGTGAGCTCTCTGATCACACACGCTCGTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAACgtgagtagtgctacataaggagtgaggtcaggcacacccctggtcttatc Alignment from Spaln_nt2Genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAAC ggtttggtccagggtgtacctaggaggtatagacgtccgtgtctccctagGTTGTGAGCTCTCTGATCACACACGCTCGTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAACgtgagtagtgctacataaggagtgaggtcaggcacacccctggtcttatc Alignment from Pairagon GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAAC ggtttggtccagggtgtacctaggaggtatagacgtccgtgtctccctagGTTGTGAGCTCTCTGATCACACACGCTCGTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAACgtgagtagtgctacataaggagtgaggtcaggcacacccctggtcttatc Alignment from Exonerate_protein2genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAAC ggtttggtccagggtgtacctaggaggtatagacgtccgtgtctccctagGTTGTGAGCTCTCTGATCACACACGCTCGTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAACgtgagtagtgctacataaggagtgaggtcaggcacacccctggtcttatc Alignment from Exonerate_coding2genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAAC ggtttggtccagggtgtacctaggaggtatagacgtccgtgtctccctagGTTGTGAGCTCTCTGATCACACACGCTCGTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAACgtgagtagtgctacataaggagtgaggtcaggcacacccctggtcttatc Alignment from GeneWise GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAAC ggtttggtccagggtgtacctaggaggtatagacgtccgtgtctccctagGTTGTGAGCTCTCTGATCACACACGCTCGTTCACTTTCAATGTTGCAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAACgtgagtagtgctacataaggagtgaggtcaggcacacccctggtcttatc #### Nt5c2_ID10036_17 --> 0 - 0 Original Alignment AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gtattgccaaaggattagatatagttgcgtctgctgttgtcctctttcagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTA---------------------------------------------gtaagtactgatccttacaactgacagttgatgcaacaccacagttcctt Alignment from CESAR AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gtattgccaaaggattagatatagttgcgtctgctgttgtcctctttcagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAAC---------------------------------------------CTAgtaagtactgatccttacaactgacagttgatgcaacaccacagttcctt Alignment from Spaln_aa2Genome AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTG gtattgccaaaggattagatatagttgcgtctgctgttgtcctctttcagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTAgtaagtactgatccttacaactgacagttgatgcaacaccacagttcctt Alignment from Spaln_nt2Genome AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTG gtattgccaaaggattagatatagttgcgtctgctgttgtcctctttcagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTAgtaagtactgatccttacaactgacagttgatgcaacaccacagttcctt Alignment from Pairagon AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTG gtattgccaaaggattagatatagttgcgtctgctgttgtcctctttcagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTAgtaagtactgatccttacaactgacagttgatgcaacaccacagttcctt Alignment from Exonerate_protein2genome AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTG gtattgccaaaggattagatatagttgcgtctgctgttgtcctctttcagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTAGTAagtactgatccttacaactgacagttgatgcaacaccacagttcctt Alignment from Exonerate_coding2genome GTAGCAATGAGCGCCCGGACATT---AGTTCCATCCAGAGACGGATTAAGAAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTT--TGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCT---GTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGT GTATTGCCAAAGGATTAGATATAGTTGCGTCTGCTGTTGTCCTCTTTCAGGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAG--ACACTCTTTGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTAGTAAGTACTGATCCTTACAACTGACAGTTGATGCAACACCACAGttcctt Alignment from GeneWise AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTG- gtattgccaaaggattagatatagttgcgtctgctgttgtcctctttcagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTAGTTATGCGTTATGCAGACCTCTACACATCCTCATTCATTAACCTAGTAAgtactgatccttacaactgacagttgatgcaacaccacagttcctt #### Nt5c2_ID10037_16 --> 1 - 0 Original Alignment gCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG--------- tccaaccaggggcgctttctcttagacccatgcaatgtttcttttggaaggCATTTGGACAGCAGTAGC------------AATATTAGTCCTATCCAAAGGCAGATTAAGGACCTGCTCgttagtagattgcatctgggagacaacattaggtgttagtattgccaaag Alignment from CESAR gCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG--------- tccaaccaggggcgctttctcttagacccatgcaatgtttcttttggaaggCATTTGGACAGCAGTAGCAAT------------ATTAGTCCTATCCAAAGGCAGATTAAGGACCTGCTCgttagtagattgcatctgggagacaacattaggtgttagtattgccaaag Alignment from Spaln_aa2Genome GCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG--------- tccaaccaggggcgctttctcttagacccatgcaatgtttcttttggaagGCATTTGGACAGCAGTAGCAAT------------ATTAGTCCTATCCAAAGGCAGATTAAGGACCTGCTCgttagtagattgcatctgggagacaacattaggtgttagtattgccaaag Alignment from Spaln_nt2Genome GCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAGAA------- tccaaccaggggcgctttctcttagacccatgcaatgtttcttttggaagGCATTTGGACAGCAGTAGCAAT------------ATTAGTCCTATCCAAAGGCAGATTAAGGACCTGCTCgttagtagattgcatctgggagacaacattaggtgttagtattgccaaag Alignment from Pairagon GCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG--------- tccaaccaggggcgctttctcttagacccatgcaatgtttcttttggaagGCATTTGGACAGCAGTAGCAAT------------ATTAGTCCTATCCAAAGGCAGATTAAGGACCTGCTCgttagtagattgcatctgggagacaacattaggtgttagtattgccaaag Alignment from Exonerate_protein2genome GCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG tccaaccaggggcgctttctcttagacccatgcaatgtttcttttggaagGCATTTGGACAGCAGTAGCAATATTAGTCCT---ATCCAAAGGCAGATTAAGGACCTGCTCgttagtagattgcatctgggagacaacattaggtgttagtattgccaaag Alignment from Exonerate_coding2genome GCACCTGGACAGCAGTAGCAATGAGC tccaaccaggggcgctttctcttagacccatgcaatgtttcttttggaaggcatttggacagcagtagcaatattagtcctatccaaaggcagattaaggacctgctcgttagtagattgcatctgggagacAACATTAGGTGTTAGTATTGCCAAAG Alignment from GeneWise GCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG--------- tccaaccaggggcgctttctcttagacccatgcaatgtttcttttggaagGCATTTGGACAGCAGTAGCAAT------------ATTAGTCCTATCCAAAGGCAGATTAAGGACCTGCTCgttagtagattgcatctgggagacaacattaggtgttagtattgccaaag #### Nt5c2_ID10040_13 --> 0 - 1 Original Alignment AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGG---g tgagtaccagactaatgagaaagctgaaaattttattttccatttggcagAAAACTGGAAAACTGAAGAATGGCTCCTACACAGGCCCTTTGCAGCAT---GTTGTATATTCTGGGCACggtgaggatgccatcagcctatgagggttattttcatgagaagtactcttt Alignment from CESAR AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGG---g tgagtaccagactaatgagaaagctgaaaattttattttccatttggcagAAAACTGGAAAACTGAAGAATGGCTCCTACACAGGCCCTTTGCAGCAT---GTTGTATATTCTGGGCACggtgaggatgccatcagcctatgagggttattttcatgagaagtactcttt Alignment from Spaln_aa2Genome AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGG---G tgagtaccagactaatgagaaagctgaaaattttattttccatttggcagAAAACTGGAAAACTGAAGAATGGCTCCTACACAGGCCCTTTGCAGCAT---GTTGTATATTCTGGGCACGgtgaggatgccatcagcctatgagggttattttcatgagaagtactcttt Alignment from Spaln_nt2Genome AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGG---G tgagtaccagactaatgagaaagctgaaaattttattttccatttggcagAAAACTGGAAAACTGAAGAATGGCTCCTACACAGGCCCTTTGCAGCATG---TTGTATATTCTGGGCACGgtgaggatgccatcagcctatgagggttattttcatgagaagtactcttt Alignment from Pairagon AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGG---G tgagtaccagactaatgagaaagctgaaaattttattttccatttggcagAAAACTGGAAAACTGAAGAATGGCTCCTACACAGGCCCTTTGCAGCATG---TTGTATATTCTGGGCACGgtgaggatgccatcagcctatgagggttattttcatgagaagtactcttt Alignment from Exonerate_protein2genome AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgagtaccagactaatgagaaagctgaaaattttattttccatttggcagAAAACTGGAAAACTGAAGAATGGCTCCTACACAGGCCCTTTGCAGCATGTTGTATATTCTGGGCACGgtgaggatgccatcagcctatgagggttattttcatgagaagtactcttt Alignment from Exonerate_coding2genome AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgagtaccagactaatgagaaagctgaaaattttattttccatttggcagAAAACTGGAAAACTGAAGAATGGCTCCTACACAGGCCCTTTGCAGCATGTTGTATATTCTGGGCACGgtgaggatgccatcagcctatgagggttattttcatgagaagtactcttt Alignment from GeneWise AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGGGT- tgagtaccagactaatgagaaagctgaaaattttattttccatttggcagAAAACTGGAAAACTGAAGAATGGCTCCTACACAGGCCCTTTGCAGCAT---GTTGTATATTCTGGGCACGgtgaggatgccatcagcctatgagggttattttcatgagaagtactcttt #### Nudt22_ID1971_4 --> 1 - 0 Original Alignment gTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG------ gactacgaggattcagcactatcctgggactccctatgcataccccacaggTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGAGCTTTgtaagtgaatttagctccagttggctgctagcacattcagggttattaac Alignment from CESAR gTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG------ gactacgaggattcagcactatcctgggactccctatgcataccccacaggTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGAGCTTTgtaagtgaatttagctccagttggctgctagcacattcagggttattaac Alignment from Spaln_aa2Genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG------ gactacgaggattcagcactatcctgggactccctatgcataccccacagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGAGCTTTgtaagtgaatttagctccagttggctgctagcacattcagggttattaac Alignment from Spaln_nt2Genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG------ gactacgaggattcagcactatcctgggactccctatgcataccccacagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGAGCTTTgtaagtgaatttagctccagttggctgctagcacattcagggttattaac Alignment from Pairagon GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG------ gactacgaggattcagcactatcctgggactccctatgcataccccacagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGAGCTTTgtaagtgaatttagctccagttggctgctagcacattcagggttattaac Alignment from Exonerate_protein2genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAGAG gactacgaggattcagcactatcctgggactccctatgcataccccacagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGAGctttgtaagtgaatttagctccagttggctgctagcacattcagggttattaac Alignment from Exonerate_coding2genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAGAG gactacgaggattcagcactatcctgggactccctatgcataccccacagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGAGctttgtaagtgaatttagctccagttggctgctagcacattcagggttattaac Alignment from GeneWise GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG------ gactacgaggattcagcactatcctgggactccctatgcataccccacagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACGCAGAGCTTTgtaagtgaatttagctccagttggctgctagcacattcagggttattaac #### Nudt8_ID268_3 --> 0 - 0 Original Alignment GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG gcaaaggacatctggacctgattgccaccctctgctggtggcccctacag---AAGGCAATCTTAGTCCCTGTTCTTGCTAATGTGGGCCCATTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAgtaggtggtgcacttttaggacaggggaacttaagagtggatgcatggcc Alignment from CESAR GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG ttggcaaaggacatctggacctgatcaccctctgctggtggcccctacag---AAGGCAATCTTAGTCCCTGTTCTTGCTAATGTGGGCCCATTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAgtaggtggtgcacttttaggacaggggaacttaagagtggatgcatggcc Alignment from Spaln_aa2Genome GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG gcaaaggacatctggacctgattgccaccctctgctggtggcccctacag---AAGGCAATCTTAGTCCCTGTTCTTGCTAATGTGGGCCCATTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAgtaggtggtgcacttttaggacaggggaacttaagagtggatgcatggcc Alignment from Spaln_nt2Genome AAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG gcaaaggacatctggacctgattgccaccctctgctggtggcccctacagAAGGCAATCTTAGTCCCTGTTCTTGCTAATGTGGGCCCATTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAgtaggtggtgcacttttaggacaggggaacttaagagtggatgcatggcc Alignment from Pairagon GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG gcaaaggacatctggacctgattgccaccctctgctggtggcccctacag---AAGGCAATCTTAGTCCCTGTTCTTGCTAATGTGGGCCCATTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAgtaggtggtgcacttttaggacaggggaacttaagagtggatgcatggcc Alignment from Exonerate_protein2genome AAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG gcaaaggacatctggacctgattgccaccctctgctggtggcccctacagAAGGCAATCTTAGTCCCTGTTCTTGCTAATGTGGGCCCATTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAgtaggtggtgcacttttaggacaggggaacttaagagtggatgcatggcc Alignment from Exonerate_coding2genome AAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG gcaaaggacatctggacctgattgccaccctctgctggtggcccctacagAAGGCAATCTTAGTCCCTGTTCTTGCTAATGTGGGCCCATTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAgtaggtggtgcacttttaggacaggggaacttaagagtggatgcatggcc Alignment from GeneWise GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG gcaaaggacatctggacctgattgccaccctctgctggtggcccctacagAAG---GCAATCTTAGTCCCTGTTCTTGCTAATGTGGGCCCATTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAgtaggtggtgcacttttaggacaggggaacttaagagtggatgcatggcc #### Nxf1_ID2348_8 --> 2 - 0 Original Alignment atTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG--------- tgggcaccaattttgagtcagtcgttccttgtcctgtccttgcttttcagatTTGGTAGCTCAGAACATTGTTGTCATTCTAAACCGCAGGAGCTGCATGGCAGCAACTGTCCGCACCATCAAGGAGAATATTCCTGAGTCTGACCTCgtgagtgttctttctctccgttatcatctaatcatgcttacttaattaga Alignment from CESAR atTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG--------- tgggcaccaattttgagtcagtcgttccttgtcctgtccttgcttttcagatTTGGTAGCTCAGAACATTGTTGTCATTCTAAACCGCAGGAGCTGCATGGCAGCAACTGTCCGCACCATCAAGGAGAATATTCCTGAGTCTGACCTCgtgagtgttctttctctccgttatcatctaatcatgcttacttaattaga Alignment from Spaln_aa2Genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG------CTA tgggcaccaattttgagtcagtcgttccttgtcctgtccttgcttttcagATTTGGTAGCTCAGAACATTGTTGTCATTCTAAACCGCAGGAGCTGCATGGCAGCAACTGTCCGCACCATCAAGGAGAATATTCCTGAGTCTGACCTCgtgagtgttctttctctccgttatcatctaatcatgcttacttaattaga Alignment from Spaln_nt2Genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG------CTA tgggcaccaattttgagtcagtcgttccttgtcctgtccttgcttttcagATTTGGTAGCTCAGAACATTGTTGTCATTCTAAACCGCAGGAGCTGCATGGCAGCAACTGTCCGCACCATCAAGGAGAATATTCCTGAGTCTGACCTCgtgagtgttctttctctccgttatcatctaatcatgcttacttaattaga Alignment from Pairagon ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG------CTA tgggcaccaattttgagtcagtcgttccttgtcctgtccttgcttttcagATTTGGTAGCTCAGAACATTGTTGTCATTCTAAACCGCAGGAGCTGCATGGCAGCAACTGTCCGCACCATCAAGGAGAATATTCCTGAGTCTGACCTCgtgagtgttctttctctccgttatcatctaatcatgcttacttaattaga Alignment from Exonerate_protein2genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG------CTA tgggcaccaattttgagtcagtcgttccttgtcctgtccttgcttttcagATTTGGTAGCTCAGAACATTGTTGTCATTCTAAACCGCAGGAGCTGCATGGCAGCAACTGTCCGCACCATCAAGGAGAATATTCCTGAGTCTGACCTCgtgagtgttctttctctccgttatcatctaatcatgcttacttaattaga Alignment from Exonerate_coding2genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG------CTA tgggcaccaattttgagtcagtcgttccttgtcctgtccttgcttttcagATTTGGTAGCTCAGAACATTGTTGTCATTCTAAACCGCAGGAGCTGCATGGCAGCAACTGTCCGCACCATCAAGGAGAATATTCCTGAGTCTGACCTCgtgagtgttctttctctccgttatcatctaatcatgcttacttaattaga Alignment from GeneWise ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG------CTA tgggcaccaattttgagtcagtcgttccttgtcctgtccttgcttttcagATTTGGTAGCTCAGAACATTGTTGTCATTCTAAACCGCAGGAGCTGCATGGCAGCAACTGTCCGCACCATCAAGGAGAATATTCCTGAGTCTGACCTCgtgagtgttctttctctccgttatcatctaatcatgcttacttaattaga #### Nxf1_ID2349_9 --> 0 - 0 Original Alignment ---------CTATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA tgtgtaatgaataggttaatattagatatcatctgggttctctttgacagCCTTCGTTG---TTGTCTTTGAATTTGAGCAGCAACCGGCTATTCAAGCTGGATGACATGTCAGGCATTGTGCAAACAGCTCCAAATGTAAAAACTTTAAATCTTTCTGGAAAGGAGgtaagtctggcatttaggacaatctttaattagtagtagttgaatggctg Alignment from CESAR ------CTATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA tgtgtaatgaataggttaatattagatatcatctgggttctctttgacagCCTTCGTTGTTGTCTTTGAATTTGAGCAGCAACCGGCTATTCAAGCTGGATGACATGTCAGGCATTGTGCAAACAGCTCCAAATGTAAAAACTTTAAATCTTTCTGGAAAGGAGgtaagtctggcatttaggacaatctttaattagtagtagttgaatggctg Alignment from Spaln_aa2Genome ------CTATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA tgtgtaatgaataggttaatattagatatcatctgggttctctttgacagCCTTCGTTGTTGTCTTTGAATTTGAGCAGCAACCGGCTATTCAAGCTGGATGACATGTCAGGCATTGTGCAAACAGCTCCAAATGTAAAAACTTTAAATCTTTCTGGAAAGGAGgtaagtctggcatttaggacaatctttaattagtagtagttgaatggctg Alignment from Spaln_nt2Genome C------TATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA tgtgtaatgaataggttaatattagatatcatctgggttctctttgacagCCTTCGTTGTTGTCTTTGAATTTGAGCAGCAACCGGCTATTCAAGCTGGATGACATGTCAGGCATTGTGCAAACAGCTCCAAATGTAAAAACTTTAAATCTTTCTGGAAAGGAGgtaagtctggcatttaggacaatctttaattagtagtagttgaatggctg Alignment from Pairagon -----------------------------------------------------------TTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA TGTGTAATGAATAGGTTAATATTAGATATCATCTGGGTTCTCTTTGACAGCCTTCGTTGTTGTCTTTGAATTTGAGCAGCAACCGGCTATTCAAGCTGGATGACATGTCAGGCATTGTGCAAACAGCTCCAAATGTAAAAACTTTAAATCTTTCTGGAAAGGAGgtaagtctggcatttaggacaatctttaattagtagtagttgaatggctg Alignment from Exonerate_protein2genome CTATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA tgtgtaatgaataggttaatattagatatcatctgggttctctttgacagccttcgTTGTTGTCTTTGAATTTGAGCAGCAACCGGCTATTCAAGCTGGATGACATGTCAGGCATTGTGCAAACAGCTCCAAATGTAAAAACTTTAAATCTTTCTGGAAAGGAGgtaagtctggcatttaggacaatctttaattagtagtagttgaatggctg Alignment from Exonerate_coding2genome CTATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA tgtgtaatgaataggttaatattagatatcatctgggttctctttgacagccttcgTTGTTGTCTTTGAATTTGAGCAGCAACCGGCTATTCAAGCTGGATGACATGTCAGGCATTGTGCAAACAGCTCCAAATGTAAAAACTTTAAATCTTTCTGGAAAGGAGgtaagtctggcatttaggacaatctttaattagtagtagttgaatggctg Alignment from GeneWise ------CTATTGTCTTTGAACTTGAGCAGCAACAGGCTATACAAGCTGGATGATATGTCTAGCATTGTGCAGAAGGCGCCAAACCTAAAGACCCTAAATCTCTCCGGAAACGAA tgtgtaatgaataggttaatattagatatcatctgggttctctttgacagCCTTCGTTGTTGTCTTTGAATTTGAGCAGCAACCGGCTATTCAAGCTGGATGACATGTCAGGCATTGTGCAAACAGCTCCAAATGTAAAAACTTTAAATCTTTCTGGAAAGGAGgtaagtctggcatttaggacaatctttaattagtagtagttgaatggctg #### Nxf1_ID2354_14 --> 1 - 2 Original Alignment gTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTC---------cg taacaatttgtttatacatatctaagggtttgttttgttttttcctctaggTACTTTGTCATTTGTGACTTGGGAGACCGTCAGGGTCTTCAGTATGCCTACCATGATGGTGCTTGTTGCTCTCTGGGCATCCCTTACAACCCTCAGAACCCTGTCGCCCAGGACaggtaagggtatatgtcttactctatctggaattgtaaaactccctgccaac Alignment from CESAR gTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTC---------cg taacaatttgtttatacatatctaagggtttgttttgttttttcctctaggTACTTTGTCATTTGTGACTTGGGAGACCGTCAGGGTCTTCAGTATGCCTACCATGATGGTGCTTGTTGCTCTCTGGGCATCCCTTACAACCCTCAGAACCCTGTCGCCCAGGACaggtaagggtatatgtcttactctatctggaattgtaaaactccctgccaac Alignment from Spaln_aa2Genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCGA-------- taacaatttgtttatacatatctaagggtttgttttgttttttcctctagGTACTTTGTCATTTGTGACTTGGGAGACCGTCAGGGTCTTCAGTATGCCTACCATGATGGTGCTTGTTGCTCTCTGGGCATCCCTTACAACCCTCAGAACCCTGTCGCCCAGGACAGgtaagggtatatgtcttactctatctggaattgtaaaactccctgccaac Alignment from Spaln_nt2Genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCC---------G taacaatttgtttatacatatctaagggtttgttttgttttttcctctagGTACTTTGTCATTTGTGACTTGGGAGACCGTCAGGGTCTTCAGTATGCCTACCATGATGGTGCTTGTTGCTCTCTGGGCATCCCTTACAACCCTCAGAACCCTGTCGCCCAGGACAGgtaagggtatatgtcttactctatctggaattgtaaaactccctgccaac Alignment from Pairagon GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCC---------G taacaatttgtttatacatatctaagggtttgttttgttttttcctctagGTACTTTGTCATTTGTGACTTGGGAGACCGTCAGGGTCTTCAGTATGCCTACCATGATGGTGCTTGTTGCTCTCTGGGCATCCCTTACAACCCTCAGAACCCTGTCGCCCAGGACAGgtaagggtatatgtcttactctatctggaattgtaaaactccctgccaac Alignment from Exonerate_protein2genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG taacaatttgtttatacatatctaagggtttgttttgttttttcctctagGTACTTTGTCATTTGTGACTTGGGAGACCGTCAGGGTCTTCAGTATGCCTACCATGATGGTGCTTGTTGCTCTCTGGGCATCCCTTACAACCCTCAGAACCCTGTCGCccaggacaggtaagggtatatgtcttactctatctggaattgtaaaactccctgccaac Alignment from Exonerate_coding2genome ---TTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAGCAGTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG TAACAATTTGTTTATACATATCTAAGGGTTTGTTTTGTTTTTTCCTCTAGGTACTTTGTCATTTGTGACTTGGGAGACCGTCAGGGTCTTCAGTATGCCTACCATGATGGTGCTTGTTGCTCTCTGGGCATCCCTTACAACCCTCAGAACCCTGTCGCccaggacaggtaagggtatatgtcttactctatctggaattgtaaaactccctgccaac Alignment from GeneWise GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTC---------CG taacaatttgtttatacatatctaagggtttgttttgttttttcctctagGTACTTTGTCATTTGTGACTTGGGAGACCGTCAGGGTCTTCAGTATGCCTACCATGATGGTGCTTGTTGCTCTCTGGGCATCCCTTACAACCCTCAGAACCCTGTCGCCCAGGACAGgtaagggtatatgtcttactctatctggaattgtaaaactccctgccaac #### Nxf1_ID2355_15 --> 1 - 1 Original Alignment a------AAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCa accaccctgtaccataaaattctctgagggacccacatgttttatttcagaAAGCCAAAAAACCTAGCGGAATATGTTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCagtgagagggctctatgagactccctgggtagagaaatttggagaagaaag Alignment from CESAR a------AAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCa accaccctgtaccataaaattctctgagggacccacatgttttatttcagaAAGCCAAAAAACCTAGCGGAATATGTTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCagtgagagggctctatgagactccctgggtagagaaatttggagaagaaag Alignment from Spaln_aa2Genome AAAAAACTTAGCT------GAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCA accaccctgtaccataaaattctctgagggacccacatgttttatttcagAAAGCCAAAAAACCTAGCGGAATATGTTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCAgtgagagggctctatgagactccctgggtagagaaatttggagaagaaag Alignment from Spaln_nt2Genome AAA------AAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCA accaccctgtaccataaaattctctgagggacccacatgttttatttcagAAAGCCAAAAAACCTAGCGGAATATGTTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCAgtgagagggctctatgagactccctgggtagagaaatttggagaagaaag Alignment from Pairagon ------AAAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCA accaccctgtaccataaaattctctgagggacccacatgttttatttcagAAAGCCAAAAAACCTAGCGGAATATGTTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCAgtgagagggctctatgagactccctgggtagagaaatttggagaagaaag Alignment from Exonerate_protein2genome A------AAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCA accaccctgtaccataaaattctctgagggacccacatgttttatttcagAAAGCCAAAAAACCTAGCGGAATATGTTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCAgtgagagggctctatgagactccctgggtagagaaatttggagaagaaag Alignment from Exonerate_coding2genome A------AAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCA accaccctgtaccataaaattctctgagggacccacatgttttatttcagAAAGCCAAAAAACCTAGCGGAATATGTTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCAgtgagagggctctatgagactccctgggtagagaaatttggagaagaaag Alignment from GeneWise ----CGAAAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCA accaccctgtaccataaaattctctgagggacccacatgttttatttcagAAAGCCAAAAAACCTAGCGGAATATGTTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCAgtgagagggctctatgagactccctgggtagagaaatttggagaagaaag #### Nxf1_ID2356_16 --> 2 - 0 Original Alignment cc---CAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gagacctaattctaaagcctacaattggccactgaccctctctgctgcagccCTCCAGCGGTTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACCCAACATGATGTCAATGCGTTTGTAGTAGACATAAGTGCTCAAACAgtgagtatctgttttatgaaacctaaaagtggggtgatcattatgctcat Alignment from CESAR cc---CAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gagacctaattctaaagcctacaattggccactgaccctctctgctgcagccCTCCAGCGGTTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACCCAACATGATGTCAATGCGTTTGTAGTAGACATAAGTGCTCAAACAgtgagtatctgttttatgaaacctaaaagtggggtgatcattatgctcat Alignment from Spaln_aa2Genome CCCAGCGGTTC---CGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gagacctaattctaaagcctacaattggccactgaccctctctgctgcagCCCTCCAGCGGTTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACCCAACATGATGTCAATGCGTTTGTAGTAGACATAAGTGCTCAAACAgtgagtatctgttttatgaaacctaaaagtggggtgatcattatgctcat Alignment from Spaln_nt2Genome CCC---AGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gagacctaattctaaagcctacaattggccactgaccctctctgctgcagCCCTCCAGCGGTTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACCCAACATGATGTCAATGCGTTTGTAGTAGACATAAGTGCTCAAACAgtgagtatctgttttatgaaacctaaaagtggggtgatcattatgctcat Alignment from Pairagon C---CCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gagacctaattctaaagcctacaattggccactgaccctctctgctgcagCCCTCCAGCGGTTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACCCAACATGATGTCAATGCGTTTGTAGTAGACATAAGTGCTCAAACAgtgagtatctgttttatgaaacctaaaagtggggtgatcattatgctcat Alignment from Exonerate_protein2genome CC---CAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACAAGCACATTACT gagacctaattctaaagcctacaattggccactgaccctctctgctgcagCCCTCCAGCGGTTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACCCAACATGATGTCAATGCGTTTGTAGTAGACATAAGTGCTCAAACAGTGAGTATCTGttttatgaaacctaaaagtggggtgatcattatgctcat Alignment from Exonerate_coding2genome CC---CAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gagacctaattctaaagcctacaattggccactgaccctctctgctgcagCCCTCCAGCGGTTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACCCAACATGATGTCAATGCGTTTGTAGTAGACATAAGTGCTCAAACAgtgagtatctgttttatgaaacctaaaagtggggtgatcattatgctcat Alignment from GeneWise --ACCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gagacctaattctaaagcctacaattggccactgaccctctctgctgcagCCCTCCAGCGGTTCCGACTCCTAAAGCATACACGTTTGAATGTTGTTGCCTTTCTTAATGCATTACCCAAAACCCAACATGATGTCAATGCGTTTGTAGTAGACATAAGTGCTCAAACAgtgagtatctgttttatgaaacctaaaagtggggtgatcattatgctcat #### Nxf1_ID2358_18 --> 2 - 2 Original Alignment tgGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCA---------gg ttaaactctttagcacctcagggcattttgtttttgattttgccttgtagtaGATGGGAAGTCTCGAGACTCTCTACATGCCTTTGCAAGGACATTCATTGCAGTTCCTGCAAGTAATACAGTGCAGGCAgggtaagcagatctgattgattaacaatgataggagtgggtgtaaaaggaca Alignment from CESAR tgGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAAT---------TCAgg ttaaactctttagcacctcagggcattttgtttttgattttgccttgtagtaGATGGGAAGTCTCGAGACTCTCTACATGCCTTTGCAAGGACATTCATTGCAGTTCCTGCAAGTAATACAGTGCAGGCAgggtaagcagatctgattgattaacaatgataggagtgggtgtaaaaggaca Alignment from Spaln_aa2Genome TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG ttaaactctttagcacctcagggcattttgtttttgattttgccttgtagTAGATGGGAAGTCTCGAGACTCTCTACATGCCTTTGCAAGGACATTCATTGCAGTTCCTGCAAGTAATACAGTgcaggcagggtaagcagatctgattgattaacaatgataggagtgggtgtaaaaggaca Alignment from Spaln_nt2Genome TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG ttaaactctttagcacctcagggcattttgtttttgattttgccttgtagTAGATGGGAAGTCTCGAGACTCTCTACATGCCTTTGCAAGGACATTCATTGCAGTTCCTGCAAGTAATACAGTgcaggcagggtaagcagatctgattgattaacaatgataggagtgggtgtaaaaggaca Alignment from Pairagon TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAAT---------TCAGG ttaaactctttagcacctcagggcattttgtttttgattttgccttgtagTAGATGGGAAGTCTCGAGACTCTCTACATGCCTTTGCAAGGACATTCATTGCAGTTCCTGCAAGTAATACAGTGCAGGCAGGgtaagcagatctgattgattaacaatgataggagtgggtgtaaaaggaca Alignment from Exonerate_protein2genome TCTTCAAGGAAGTGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAG ttaaactctttagcacctcagggcattttgtttttgatTTTGCCTTGTAGTAGATGGGAAGTCTCGAGACTCTCTACATGCCTTTGCAAGGACATTCATTGCAGTTCCTGCAAGTAATACAGtgcaggcagggtaagcagatctgattgattaacaatgataggagtgggtgtaaaaggaca Alignment from Exonerate_coding2genome TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAG ttaaactctttagcacctcagggcattttgtttttgattttgccttgtagTAGATGGGAAGTCTCGAGACTCTCTACATGCCTTTGCAAGGACATTCATTGCAGTTCCTGCAAGTAATACAGtgcaggcagggtaagcagatctgattgattaacaatgataggagtgggtgtaaaaggaca Alignment from GeneWise TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCA---------GG ttaaactctttagcacctcagggcattttgtttttgattttgccttgtagTAGATGGGAAGTCTCGAGACTCTCTACATGCCTTTGCAAGGACATTCATTGCAGTTCCTGCAAGTAATACAGTGCAGGCAGGgtaagcagatctgattgattaacaatgataggagtgggtgtaaaaggaca #### Osbp_ID3346_5 --> 2 - 2 Original Alignment atCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCAC------aa tgttgtgagttaagaaccaaaagaaacatttccttttcttttcaccccagatCAATGCTGTTCTGGAAAGGGGGACATGAGTAAGGAAGATGATGAAAATGAATTTTTTGATGCACCAGAGATAATCACCATGCCTGAAAACCTGAGCCACACGGGGaagtgagccctttggtgacaaactgagctatacagggtgtatcttttctgag Alignment from CESAR atCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCAC------aa tgttgtgagttaagaaccaaaagaaacatttccttttcttttcaccccagatCAATGCTGTTCTGGAAAGGGGGACATGAGTAAGGAAGATGATGAAAATGAATTTTTTGATGCACCAGAGATAATCACCATGCCTGAAAACCTGAGCCACACGGGGaagtgagccctttggtgacaaactgagctatacagggtgtatcttttctgag Alignment from Spaln_aa2Genome ATCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCACAAA----- tgttgtgagttaagaaccaaaagaaacatttccttttcttttcaccccagATCAATGCTGTTCTGGAAAGGGGGACATGAGTAAGGAAGATGATGAAAATGAATTTTTTGATGCACCAGAGATAATCACCATGCCTGAAAACCTGAGCCACACGGGGAAgtgagccctttggtgacaaactgagctatacagggtgtatcttttctgag Alignment from Spaln_nt2Genome ATCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCACA------A tgttgtgagttaagaaccaaaagaaacatttccttttcttttcaccccagATCAATGCTGTTCTGGAAAGGGGGACATGAGTAAGGAAGATGATGAAAATGAATTTTTTGATGCACCAGAGATAATCACCATGCCTGAAAACCTGAGCCACACGGGGAAgtgagccctttggtgacaaactgagctatacagggtgtatcttttctgag Alignment from Pairagon ATCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCAC------AA tgttgtgagttaagaaccaaaagaaacatttccttttcttttcaccccagATCAATGCTGTTCTGGAAAGGGGGACATGAGTAAGGAAGATGATGAAAATGAATTTTTTGATGCACCAGAGATAATCACCATGCCTGAAAACCTGAGCCACACGGGGAAgtgagccctttggtgacaaactgagctatacagggtgtatcttttctgag Alignment from Exonerate_protein2genome ATCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCACAA tgttgtgagttaagaaccaaaagaaacatttccttttcttttcaccccagATCAATGCTGTTCTGGAAAGGGGGACATGAGTAAGGAAGATGATGAAAATGAATTTTTTGATGCACCAGAGATAATCACCATGCCTGAAAACCTGAGCCACACggggaagtgagccctttggtgacaaactgagctatacagggtgtatcttttctgag Alignment from Exonerate_coding2genome ATCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCACAA tgttgtgagttaagaaccaaaagaaacatttccttttcttttcaccccagATCAATGCTGTTCTGGAAAGGGGGACATGAGTAAGGAAGATGATGAAAATGAATTTTTTGATGCACCAGAGATAATCACCATGCCTGAAAACCTGAGCCACACggggaagtgagccctttggtgacaaactgagctatacagggtgtatcttttctgag Alignment from GeneWise ATCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCAC------AA tgttgtgagttaagaaccaaaagaaacatttccttttcttttcaccccagATCAATGCTGTTCTGGAAAGGGGGACATGAGTAAGGAAGATGATGAAAATGAATTTTTTGATGCACCAGAGATAATCACCATGCCTGAAAACCTGAGCCACACGGGGAAgtgagccctttggtgacaaactgagctatacagggtgtatcttttctgag #### Otub1_ID2061_5 --> 1 - 0 Original Alignment g---TTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG gctggcatccagtaagattctgctggcagcccccattctctctgctccaggACTTTTAGAGCGGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCAGGGCATCACTGAGTTCACAATTGAAGACTTCCCCAACACAgtgagtaagctcaccaatacttaacctaagttcactaatacttaaccagc Alignment from CESAR g---TTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG gctggcatccagtaagattctgctggcagcccccattctctctgctccaggACTTTTAGAGCGGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCAGGGCATCACTGAGTTCACAATTGAAGACTTCCCCAACACAgtgagtaagctcaccaatacttaacctaagttcactaatacttaaccagc Alignment from Spaln_aa2Genome G---TTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACAC gctggcatccagtaagattctgctggcagcccccattctctctgctccagGACTTTTAGAGCGGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCAGGGCATCACTGAGTTCACAATTGAAGACTTCCCCAACACAgtgagtaagctcaccaatacttaacctaagttcactaatacttaaccagc Alignment from Spaln_nt2Genome G---TTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG gctggcatccagtaagattctgctggcagcccccattctctctgctccagGACTTTTAGAGCGGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCAGGGCATCACTGAGTTCACAATTGAAGACTTCCCCAACACAgtgagtaagctcaccaatacttaacctaagttcactaatacttaaccagc Alignment from Pairagon GTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG gctggcatccagtaagattctgctggcagcccccattctctctgctccaggacttttag------AGCGGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCAGGGCATCACTGAGTTCACAATTGAAGACTTCCCCAACACAgtgagtaagctcaccaatacttaacctaagttcactaatacttaaccagc Alignment from Exonerate_protein2genome G---TTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG gctggcatccagtaagattctgctggcagcccccattctctctgctccagGACTTTTAGAGCGGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCAGGGCATCACTGAGTTCACAATTGAAGACTTCCCCAACACAgtgagtaagctcaccaatacttaacctaagttcactaatacttaaccagc Alignment from Exonerate_coding2genome G---TTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG gctggcatccagtaagattctgctggcagcccccattctctctgctccagGACTTTTAGAGCGGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCAGGGCATCACTGAGTTCACAATTGAAGACTTCCCCAACACAgtgagtaagctcaccaatacttaacctaagttcactaatacttaaccagc Alignment from GeneWise -CGGTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG gctggcatccagtaagattctgctggcagcccccattctctctgctccagGACTTTTAGAGCGGTGTCAGCTAAGAGTAAAGAACACTTGGTGTCCCAGGGCATCACTGAGTTCACAATTGAAGACTTCCCCAACACAgtgagtaagctcaccaatacttaacctaagttcactaatacttaaccagc #### Pacs1_ID876_18 --> 2 - 2 Original Alignment agCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGtt ttaagggtctagtggaatataattcttatgtgatcttcgtgtttccccagaaCCACTAGATGTGGTGGGTCGTGTGATGCTGTATATCAATGGTGCTATAACAACACACCAGCTTCCCATTGCTGAAGCTATG------------------ttgtaaacccaatatcaggactcattacgaacatggtcccttcaggaaatca Alignment from CESAR agCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGtt ttaagggtctagtggaatataattcttatgtgatcttcgtgtttccccagaaCCACTAGATGTGGTGGGTCGTGTGATGCTGTATATCAATGGTGCTATAACAACACACCAGCTTCCCATTGCTGAAGCTATG------------------ttgtaaacccaatatcaggactcattacgaacatggtcccttcaggaaatca Alignment from Spaln_aa2Genome AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTT ttaagggtctagtggaatataattcttatgtgatcttcgtgtttccccagAACCACTAGATGTGGTGGGTCGTGTGATGCTGTATATCAATGGTGCTATAACAACACACCAGCTTCCCATTGCTGAAGCTATGTTgtaaacccaatatcaggactcattacgaacatggtcccttcaggaaatca Alignment from Spaln_nt2Genome AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTT ttaagggtctagtggaatataattcttatgtgatcttcgtgtttccccagAACCACTAGATGTGGTGGGTCGTGTGATGCTGTATATCAATGGTGCTATAACAACACACCAGCTTCCCATTGCTGAAGCTATGTTgtaaacccaatatcaggactcattacgaacatggtcccttcaggaaatca Alignment from Pairagon AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTT ttaagggtctagtggaatataattcttatgtgatcttcgtgtttccccagAACCACTAGATGTGGTGGGTCGTGTGATGCTGTATATCAATGGTGCTATAACAACACACCAGCTTCCCATTGCTGAAGCTATGTTgtaaacccaatatcaggactcattacgaacatggtcccttcaggaaatca Alignment from Exonerate_protein2genome AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGTT ttaagggtctagtggaatataattcttatgtgatcttcgtgtttccccagAACCACTAGATGTGGTGGGTCGTGTGATGCTGTATATCAATGGTGCTATAACAACACACCAGCTTCCCATTGCTGAAGCTATGTTGTAAACCCAATATCAGGActcattacgaacatggtcccttcaggaaatca Alignment from Exonerate_coding2genome ttaagggtctagtggaatataattcttatgtgatcttcgtgtttccccagaaccactagatgtggtgggtcgtgtgatgctgtatatcaatggtgctataacaacacaccagcttcccattgctgaagctatgttgtaaacccaatatcaggactcattacgaacatggtcccttcaggaaatca Alignment from GeneWise AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTT ttaagggtctagtggaatataattcttatgtgatcttcgtgtttccccagAACCACTAGATGTGGTGGGTCGTGTGATGCTGTATATCAATGGTGCTATAACAACACACCAGCTTCCCATTGCTGAAGCTATGTTgtaaacccaatatcaggactcattacgaacatggtcccttcaggaaatca #### Pacs1_ID877_17 --> 2 - 1 Original Alignment gtTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAg gaacaagtacttcatccttagccgggacatattttatacttctttaaaaggc---------GTAGCCAAGTACTTAGGTTCTGTAGACAGCAGGTATAGCAGTACATTTCTAGATCCTGCATGGAGAGATCTATTCAGCCAGTCAGAGCCCTTAGTGTCAggtgagaaccctcagtaggagtttgctacctttggtactatctcccatcac Alignment from CESAR gtTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAg gtgtgtttggaacaagtacttcatcgacatattttatacttctttaaaaggc---------GTAGCCAAGTACTTAGGTTCTGTAGACAGCAGGTATAGCAGTACATTTCTAGATCCTGCATGGAGAGATCTATTCAGCCAGTCAGAGCCCTTAGTGTCAggtgagaaccctcagtaggagtttgctacctttggtactatctcccatcac Alignment from Spaln_aa2Genome GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG gaacaagtacttcatccttagccgggacatattttatacttctttaaaagGC---------GTAGCCAAGTACTTAGGTTCTGTAGACAGCAGGTATAGCAGTACATTTCTAGATCCTGCATGGAGAGATCTATTCAGCCAGTCAGAGCCCTTAGTGTCAGgtgagaaccctcagtaggagtttgctacctttggtactatctcccatcac Alignment from Spaln_nt2Genome CAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG gaacaagtacttcatccttagccgggacatattttatacttctttaaaagGCGTAGCCAAGTACTTAGGTTCTGTAGACAGCAGGTATAGCAGTACATTTCTAGATCCTGCATGGAGAGATCTATTCAGCCAGTCAGAGCCCTTAGTGTCAGgtgagaaccctcagtaggagtttgctacctttggtactatctcccatcac Alignment from Pairagon GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG gaacaagtacttcatccttagccgggacatattttatacttctttaaaaggcgtag---------------CCAAGTACTTAGGTTCTGTAGACAGCAGGTATAGCAGTACATTTCTAGATCCTGCATGGAGAGATCTATTCAGCCAGTCAGAGCCCTTAGTGTCAGgtgagaaccctcagtaggagtttgctacctttggtactatctcccatcac Alignment from Exonerate_protein2genome CAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG gaacaagtacttcatccttagccgggacatattttatacttctttaaaagGCGTAGCCAAGTACTTAGGTTCTGTAGACAGCAGGTATAGCAGTACATTTCTAGATCCTGCATGGAGAGATCTATTCAGCCAGTCAGAGCCCTTAGTGTCAGgtgagaaccctcagtaggagtttgctacctttggtactatctcccatcac Alignment from Exonerate_coding2genome gaacaagtacttcatccttagccgggacatattttatacttctttaaaaggcgtagccaagtacttaggttctgtagacagcaggtatagcagtacatttctagatcctgcatggagagatctattcagccagtcagagcccttagtgtcaggtgagaaccctcagtaggagtttgctacctttggtactatctcccatcac Alignment from GeneWise GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG gaacaagtacttcatccttagccgggacatattttatacttctttaaaagGC---------GTAGCCAAGTACTTAGGTTCTGTAGACAGCAGGTATAGCAGTACATTTCTAGATCCTGCATGGAGAGATCTATTCAGCCAGTCAGAGCCCTTAGTGTCAGgtgagaaccctcagtaggagtttgctacctttggtactatctcccatcac #### Pacs1_ID878_16 --> 1 - 1 Original Alignment cTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAg aaaatatcaccctttcccacccactcctgccatcatccctgatcccacagt------TGCAACTCATCTATGCCAAGGCCGGTTAAAGTAGCAGCTGTGGGTAGCCAAAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACCCCAGACTGGCTTGGTTATATGCATTTCCTCATTATTCTCTTAggtattgtcttaccaggagttgttgagtaacatcttttaggatgaagctca Alignment from CESAR cTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAg tcacccaaaatatcaccctttcccacctgccatcatccctgatcccacagt------TGCAACTCATCTATGCCAAGGCCGGTTAAAGTAGCAGCTGTGGGTAGCCAAAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACCCCAGACTGGCTTGGTTATATGCATTTCCTCATTATTCTCTTAggtattgtcttaccaggagttgttgagtaacatcttttaggatgaagctca Alignment from Spaln_aa2Genome CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAG aaaatatcaccctttcccacccactcctgccatcatccctgatcccacagT------TGCAACTCATCTATGCCAAGGCCGGTTAAAGTAGCAGCTGTGGGTAGCCAAAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACCCCAGACTGGCTTGGTTATATGCATTTCCTCATTATTCTCTTAGgtattgtcttaccaggagttgttgagtaacatcttttaggatgaagctca Alignment from Spaln_nt2Genome CTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAG aaaatatcaccctttcccacccactcctgccatcatccctgatcccacagTTGCAACTCATCTATGCCAAGGCCGGTTAAAGTAGCAGCTGTGGGTAGCCAAAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACCCCAGACTGGCTTGGTTATATGCATTTCCTCATTATTCTCTTAGgtattgtcttaccaggagttgttgagtaacatcttttaggatgaagctca Alignment from Pairagon CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAG aaaatatcaccctttcccacccactcctgccatcatccctgatcccacag------TTGCAACTCATCTATGCCAAGGCCGGTTAAAGTAGCAGCTGTGGGTAGCCAAAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACCCCAGACTGGCTTGGTTATATGCATTTCCTCATTATTCTCTTAGgtattgtcttaccaggagttgttgagtaacatcttttaggatgaagctca Alignment from Exonerate_protein2genome CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAG aaaatatcaccctttcccacccactcctgccatcatccctgatcCCACAGTTGCAACTCATCTATGCCAAGGCCGGTTAAAGTAGCAGCTGTGGGTAGCCAAAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACCCCAGACTGGCTTGGTTATATGCATTTCCTCATTATTCTCTTAGgtattgtcttaccaggagttgttgagtaacatcttttaggatgaagctca Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAG aaaatatcaccctttcccacccactcctgccatcatccctgatcccacagTTGCAAC------TCATCTATGCCAAGGCCGGTTAAAGTAGCAGCTGTGGGTAGCCAAAGTTACCTTAGTTCCATCCTTCGTTTTTTTGTCAAGTCCCTTGCTAGCAAGACCCCAGACTGGCTTGGTTATATGCATTTCCTCATTATTCTCTTAGgtattgtcttaccaggagttgttgagtaacatcttttaggatgaagctca #### Pacs1_ID888_6 --> 2 - 0 Original Alignment atCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG ctggatattgtgaaactctcattgcagtgaccctgtctttccttgcatagacCGCTCCCCAGACATTGACAATTATTCAGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCAGGATGACACTGATGATCCGCTGCATGGA---gtagttaggatctgacagtgtacaagttgaaacagggtgaggcaccacct Alignment from CESAR atCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG ctggatattgtgaaactctcattgcagtgaccctgtctttccttgcatagacCGCTCCCCAGACATTGACAATTATTCAGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCAGGATGACACTGATGATCCGCTGCATGGAGTAgttaggatctgacagtgtacaagttgaaacagggtgaggcaccacct Alignment from Spaln_aa2Genome ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG ctggatattgtgaaactctcattgcagtgaccctgtctttccttgcatagACCGCTCCCCAGACATTGACAATTATTCAGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCAGGATGACACTGATGATCCGCTGCATGGAGTAgttaggatctgacagtgtacaagttgaaacagggtgaggcaccacct Alignment from Spaln_nt2Genome ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG ctggatattgtgaaactctcattgcagtgaccctgtctttccttgcatagACCGCTCCCCAGACATTGACAATTATTCAGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCAGGATGACACTGATGATCCGCTGCATGGAGTAgttaggatctgacagtgtacaagttgaaacagggtgaggcaccacct Alignment from Pairagon ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGG ctggatattgtgaaactctcattgcagtgaccctgtctttccttgcatagACCGCTCCCCAGACATTGACAATTATTCAGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCAGGATGACACTGATGATCCGCTGCATGGAgtagttaggatctgacagtgtacaagttgaaacagggtgaggcaccacct Alignment from Exonerate_protein2genome ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG ctggatattgtgaaactctcattgcagtgaccctgtctttccttgcatagACCGCTCCCCAGACATTGACAATTATTCAGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCAGGATGACACTGATGATCCGCTGCATGGAGTAgttaggatctgacagtgtacaagttgaaacagggtgaggcaccacct Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG ctggatattgtgaaactctcattgcagtgaccctgtctttccttgcatagACCGCTCCCCAGACATTGACAATTATTCAGAAGAGGAGGAAGAAAGCTTCTCCTCAGCGCAGGATGACACTGATGATCCGCTGCATGGAGTAgttaggatctgacagtgtacaagttgaaacagggtgaggcaccacct #### Patl1_ID3332_17 --> 0 - 2 Original Alignment TTTGGCTTGTCACTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGtg tgaccaccctgactgttagctgtgggtcaaaattaaaatttttattgcag------TTGTCACTGCTCCTAATCCTATTGAGCCGAGGAGAAGACCTGCAGAGCTCAGATCCAGCTATAGAACTTATGCAAAATAACCAGtggtgagtatagtagcaggctatgtgaatcaactctgtcgccttccatgtca Alignment from CESAR TTTGGCTTGTCACTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGtg cacccctgaccaccctgactgttaggtcaaaattaaaatttttattgcag------TTGTCACTGCTCCTAATCCTATTGAGCCGAGGAGAAGACCTGCAGAGCTCAGATCCAGCTATAGAACTTATGCAAAATAACCAGtggtgagtatagtagcaggctatgtgaatcaactctgtcgccttccatgtca Alignment from Spaln_aa2Genome TTTGGCTTGTCACTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG tgaccaccctgactgttagctgtgggtcaaaattaaaatttttattgcag------TTGTCACTGCTCCTAATCCTATTGAGCCGAGGAGAAGACCTGCAGAGCTCAGATCCAGCTATAGAACTTATGCAAAATAACCAGTGgtgagtatagtagcaggctatgtgaatcaactctgtcgccttccatgtca Alignment from Spaln_nt2Genome TTGTCACTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG tgaccaccctgactgttagctgtgggtcaaaattaaaatttttattgcagTTGTCACTGCTCCTAATCCTATTGAGCCGAGGAGAAGACCTGCAGAGCTCAGATCCAGCTATAGAACTTATGCAAAATAACCAGTGgtgagtatagtagcaggctatgtgaatcaactctgtcgccttccatgtca Alignment from Pairagon TTTGGCTTGTCACTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG tgaccaccctgactgttagctgtgggtcaaaattaaaatttttattgcag------TTGTCACTGCTCCTAATCCTATTGAGCCGAGGAGAAGACCTGCAGAGCTCAGATCCAGCTATAGAACTTATGCAAAATAACCAGTGgtgagtatagtagcaggctatgtgaatcaactctgtcgccttccatgtca Alignment from Exonerate_protein2genome TTGTCACTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG tgaccaccctgactgttagctgtgggtcaaaattaaaatttttattgcagTTGTCACTGCTCCTAATCCTATTGAGCCGAGGAGAAGACCTGCAGAGCTCAGATCCAGCTATAGAACTTATGCAAAATAACCAGTGgtgagtatagtagcaggctatgtgaatcaactctgtcgccttccatgtca Alignment from Exonerate_coding2genome TTGTCACTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG tgaccaccctgactgttagctgtgggtcaaaattaaaatttttattgcagTTGTCACTGCTCCTAATCCTATTGAGCCGAGGAGAAGACCTGCAGAGCTCAGATCCAGCTATAGAACTTATGCAAAATAACCAGTGgtgagtatagtagcaggctatgtgaatcaactctgtcgccttccatgtca Alignment from GeneWise TTGTCACTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG tgaccaccctgactgttagctgtgggtcaaaattaaaatttttattgcagTTGTCACTGCTCCTAATCCTATTGAGCCGAGGAGAAGACCTGCAGAGCTCAGATCCAGCTATAGAACTTATGCAAAATAACCAGTGgtgagtatagtagcaggctatgtgaatcaactctgtcgccttccatgtca #### Pcgf6_ID10084_3 --> 2 - 2 Original Alignment ttTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAag tataatattaactaacaaccataaagtaacgcaggcctctgctttcccagttTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAATAGATGCCCAAAATGCAACATAGTTGTCCACCAAACTCAGCCT------------aggtaagtaagtatggcagcggtccaggacttgatttaatttttcttttatc Alignment from CESAR ttTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAag tataatattaactaacaaccataaagtaacgcaggcctctgctttcccagttTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAATAGATGCCCAAAATGCAACATAGTTGTCCACCAAACTCAGCCT------------aggtaagtaagtatggcagcggtccaggacttgatttaatttttcttttatc Alignment from Spaln_aa2Genome TTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCT tataatattaactaacaaccataaagtaacgcaggcctctgctttcccagTTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAATAGATGCCCAAAATGCAACATAGTTGTCCACCAAACTCAGCCTAGgtaagtaagtatggcagcggtccaggacttgatttaatttttcttttatc Alignment from Spaln_nt2Genome TTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTAT tataatattaactaacaaccataaagtaacgcaggcctctgctttcccagTTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAATAGATGCCCAAAATGCAACATAGTTGTCCACCAAACTCAGCCTAGGTAAgtaagtatggcagcggtccaggacttgatttaatttttcttttatc Alignment from Pairagon TTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAG tataatattaactaacaaccataaagtaacgcaggcctctgctttcccagTTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAATAGATGCCCAAAATGCAACATAGTTGTCCACCAAACTCAGCCT------------AGgtaagtaagtatggcagcggtccaggacttgatttaatttttcttttatc Alignment from Exonerate_protein2genome TTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAG tataatattaactaacaaccataaagtaacgcaggcctctgctttcccagTTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAATAGATGCCCAAAATGCAACATAGTTGTCCACCAAACTCAGCCTAGGTAAGTAAGTATggcagcggtccaggacttgatttaatttttcttttatc Alignment from Exonerate_coding2genome TTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAG tataatattaactaacaaccataaagtaacgcaggcctctgctttcccagTTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAATAGATGCCCAAAATGCAACATAGTTGTCCACCAAACTCAGCCTAGGTAAGTAAGTATggcagcggtccaggacttgatttaatttttcttttatc Alignment from GeneWise TTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCT tataatattaactaacaaccataaagtaacgcaggcctctgctttcccagTTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAATAGATGCCCAAAATGCAACATAGTTGTCCACCAAACTCAGCCTAGgtaagtaagtatggcagcggtccaggacttgatttaatttttcttttatc #### Pcnxl3_ID1161_32 --> 0 - 2 Original Alignment GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGag taagttgtattgttgccccccctcattactgtcccttaattctctgccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGATATCCAATCTTTGTCTCACCATTGACTACATCTTTGCCTGGGACACATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACAT---------cggtaagttctacctgtccggatagtcatgggttctgatagtccccaaaatt Alignment from CESAR GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGag taagttgtattgttgccccccctcattactgtcccttaattctctgccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGATATCCAATCTTTGTCTCACCATTGACTACATCTTTGCCTGGGACACATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACAT---------cggtaagttctacctgtccggatagtcatgggttctgatagtccccaaaatt Alignment from Spaln_aa2Genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAG taagttgtattgttgccccccctcattactgtcccttaattctctgccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGATATCCAATCTTTGTCTCACCATTGACTACATCTTTGCCTGGGACACATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGgtaagttctacctgtccggatagtcatgggttctgatagtccccaaaatt Alignment from Spaln_nt2Genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAG taagttgtattgttgccccccctcattactgtcccttaattctctgccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGATATCCAATCTTTGTCTCACCATTGACTACATCTTTGCCTGGGACACATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGgtaagttctacctgtccggatagtcatgggttctgatagtccccaaaatt Alignment from Pairagon GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAG taagttgtattgttgccccccctcattactgtcccttaattctctgccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGATATCCAATCTTTGTCTCACCATTGACTACATCTTTGCCTGGGACACATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGgtaagttctacctgtccggatagtcatgggttctgatagtccccaaaatt Alignment from Exonerate_protein2genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAG taagttgtattgttgccccccctcattactgtcccttaattctctgccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGATATCCAATCTTTGTCTCACCATTGACTACATCTTTGCCTGGGACACATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGgtaagttctacctgtccggatagtcatgggttctgatagtccccaaaatt Alignment from Exonerate_coding2genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAG taagttgtattgttgccccccctcattactgtcccttaattctctgccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGATATCCAATCTTTGTCTCACCATTGACTACATCTTTGCCTGGGACACATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGgtaagttctacctgtccggatagtcatgggttctgatagtccccaaaatt Alignment from GeneWise GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGC-- taagttgtattgttgccccccctcattactgtcccttaattctctgccagGTAAACTGGGAATGTGTACGAGGGTTGTGGGCTGGGCAGCAACAAGAGCTAGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGTAGTGTCCAGAATGCCCAGCAGGCAATCTGCAACAAGATTAATTCTTCCTGTGATCGGCCACTAGGATATCCAATCTTTGTCTCACCATTGACTACATCTTTGCCTGGGACACATCCCCAATTACAGGCACTGTGGGGTGGTCCTGTTAGCTTGGGTGCCATTGCACGATGGCTTTTACATCGgtaagttctacctgtccggatagtcatgggttctgatagtccccaaaatt #### Pcnxl3_ID1162_31 --> 0 - 0 Original Alignment GACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG gggtgccttccctttaccttagaccatatgtctgcatttcccatttcaagGGCCATTTCACATCACCTGATGAGTATGAGGAACTAGCGGCCCTATATGACACAATTGCT---AATGAAGAGCGACTAGTAATCTCACATGAGGGAGACCCCGCCTGGAGGAGTGCCATCCTTGGCAACACCCCCTCTCTACTTGTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTC------gtacgttgtgtgcaaatttgattaatttagcagcctaagttgtattgttg Alignment from CESAR GACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG gggtgccttccctttaccttagaccatatgtctgcatttcccatttcaagGGCCATTTCACATCACCTGATGAGTATGAGGAACTAGCGGCCCTATATGACACAATT---GCTAATGAAGAGCGACTAGTAATCTCACATGAGGGAGACCCCGCCTGGAGGAGTGCCATCCTTGGCAACACCCCCTCTCTACTTGTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTC------gtacgttgtgtgcaaatttgattaatttagcagcctaagttgta Alignment from Spaln_aa2Genome GACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG--- gggtgccttccctttaccttagaccatatgtctgcatttcccatttcaagGGCCATTTCACATCACCTGATGAGTATGAGGAACTAGCGGCCCTATATGACACAATT---GCTAATGAAGAGCGACTAGTAATCTCACATGAGGGAGACCCCGCCTGGAGGAGTGCCATCCTTGGCAACACCCCCTCTCTACTTGTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCGTACGTTGTgtgcaaatttgattaatttagcagcctaagttgtattgttg Alignment from Spaln_nt2Genome GACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTC gggtgccttccctttaccttagaccatatgtctgcatttcccatttcaagGGCCATTTCACATCACCTGATGAGTATGAGGAACTAGCGGCCCTATATGACACAAT---TGCTAATGAAGAGCGACTAGTAATCTCACATGAGGGAGACCCCGCCTGGAGGAGTGCCATCCTTGGCAACACCCCCTCTCTACTTGTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCgtacgttgtgtgcaaatttgattaatttagcagcctaagttgtattgttg Alignment from Pairagon ------------------------------------------------AGGACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTC GGGTGCCTTCCCTTTACCTTAGACCATATGTCTGCATTTCCCATTTCAAGGGCCATTTCACATCACCTGATGAGTATGAGGAACTAGCGGCCCTATATGACACAATT---GCTAATGAAGAGCGACTAGTAATCTCACATGAGGGAGACCCCGCCTGGAGGAGTGCCATCCTTGGCAACACCCCCTCTCTACTTGTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCgtacgttgtgtgcaaatttgattaatttagcagcctaagttgtattgttg Alignment from Exonerate_protein2genome GACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAGG gggtgccttccctttaccttagaccatatgtctgcatttcccatttcaagGGCCATTTCACATCACCTGATGAGTATGAGGAACTAGCGGCCCTATATGACACAATT---GCTAATGAAGAGCGACTAGTAATCTCACATGAGGGAGACCCCGCCTGGAGGAGTGCCATCCTTGGCAACACCCCCTCTCTACTTGTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCGTACGTTgtgtgcaaatttgattaatttagcagcctaagttgtattgttg Alignment from Exonerate_coding2genome GACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAGG gggtgccttccctttaccttagaccatatgtctgcatttcccatttcaagGGCCATTTCACATCACCTGATGAGTATGAGGAACTAGCGGCCCTATATGACACAATT---GCTAATGAAGAGCGACTAGTAATCTCACATGAGGGAGACCCCGCCTGGAGGAGTGCCATCCTTGGCAACACCCCCTCTCTACTTGTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCGTACGTTgtgtgcaaatttgattaatttagcagcctaagttgtattgttg Alignment from GeneWise GACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAGGTA gggtgccttccctttaccttagaccatatgtctgcatttcccatttcaagGGCCATTTCACATCACCTGATGAGTATGAGGAACTAGCGGCCCTATATGACACAATTGCT---AATGAAGAGCGACTAGTAATCTCACATGAGGGAGACCCCGCCTGGAGGAGTGCCATCCTTGGCAACACCCCCTCTCTACTTGTACTCCGCCATGACATGGATGATGCCTCTGGTGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGTTTCCGAGTCGTACGTTGTgtgcaaatttgattaatttagcagcctaagttgtattgttg #### Pcnxl3_ID1168_25 --> 1 - 1 Original Alignment cACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAg caccttcagactatgggagcagagtggagtttacctggtgtttacattagtACTAAACCTGTAGACCACTCTAACACTCGT---------------------------ggtatgttacagcttgcccaggtcttcagcaataacacatgtagactcgag Alignment from CESAR cACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGG------------AACCCAg caccttcagactatgggagcagagtggagtttacctggtgtttacattagtACTAAACCTGTAGACCACTCTAACACTCGTGGTATGTTACAGCTTGCCCAGGTCTTCAGCAATAACACAtgtagactcgag Alignment from Spaln_aa2Genome CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAG caccttcagactatgggagcagagtggagtttacctggtgtttacattagTACTAAACCTGTAGACCACTCTAACACTCGTGGTATGTTACAGCTTGCCCAGGTCTTCAgcaataacacatgtagactcgag Alignment from Spaln_nt2Genome CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAG caccttcagactatgggagcagagtggagtttacctggtgtttacattagTACTAAACCTGTAGACCACTCTAACACTCGTGGTATGTTACAGCTTG-------CCCAGgtcttcagcaataacacatgtag Alignment from Pairagon CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAG caccttcagactatgggagcagagtggagtttacctggtgtttacattagTACTAAACCTGTAGACCACTCTAACACTCGT---------------------------Ggtatgttacagcttgcccaggtcttcagcaataacacatgtagactcgag Alignment from Exonerate_protein2genome CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGG caccttcagactatgggagcagagtggagtttacctggtgtttacattagTACTAAACCTGTAGACCACTCTAACACTCGTGGTATGTTACAGCTTGCCCAGgtcttcagcaataacacatgtagactcgag Alignment from Exonerate_coding2genome CACTAAACGTGTGGACCATTCTAACACTCG caccttcagactatgggagcagagtggagtttacctggtgtttacattagtactaaacctgtagaccactctaacactcgtggtatgttacagcttgcccagGTCTTCAGCAATAACACATGTAGACTCGAG Alignment from GeneWise CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGG caccttcagactatgggagcagagtggagtttacctggtgtttacattagTACTAAACCTGTAGACCACTCTAACACTCGTGGTATGTTACAGCTTGCCCAGgtcttcagcaataacacatgtagactcgag #### Pcnxl3_ID1174_19 --> 0 - 0 Original Alignment CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG--- gtgaagcaatctgggcagtcactgtcacccttttctgtaatttttatcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCCGTCAGCGCTAGCATTGTGTTCATTGCCTTGAAAGGAgttgatgcagcatggagcagcctagatagatctgctgctatcttggttat Alignment from CESAR CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG--- gtgaagcaatctgggcagtcactgtcacccttttctgtaatttttatcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCCGTCAGCGCTAGCATTGTGTTCATTGCCTTGAAAGGAgttgatgcagcatggagcagcctagatagatctgctgctatcttggttat Alignment from Spaln_aa2Genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG--- gtgaagcaatctgggcagtcactgtcacccttttctgtaatttttatcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCCGTCAGCGCTAGCATTGTGTTCATTGCCTTGAAAGGAgttgatgcagcatggagcagcctagatagatctgctgctatcttggttat Alignment from Spaln_nt2Genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG--- gtgaagcaatctgggcagtcactgtcacccttttctgtaatttttatcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCCGTCAGCGCTAGCATTGTGTTCATTGCCTTGAAAGGAgttgatgcagcatggagcagcctagatagatctgctgctatcttggttat Alignment from Pairagon CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGA------------------------------------------------------- gtgaagcaatctgggcagtcactgtcacccttttctgtaatttttatcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCCGTCAGCGCTAGCATTGTGTTCATTGCCTTGAAAGGAGTTGATGCAGCATGGAGCAGCCTAGATAGATCTGCTGCTATCTTGGTTAT Alignment from Exonerate_protein2genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG gtgaagcaatctgggcagtcactgtcacccttttctgtaatttttatcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCCGTCAGCGCTAGCATTGTGTTCATTGCCTTGAAAggagttgatgcagcatggagcagcctagatagatctgctgctatcttggttat Alignment from Exonerate_coding2genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG gtgaagcaatctgggcagtcactgtcacccttttctgtaatttttatcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCCGTCAGCGCTAGCATTGTGTTCATTGCCTTGAAAggagttgatgcagcatggagcagcctagatagatctgctgctatcttggttat Alignment from GeneWise CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAGTCA gtgaagcaatctgggcagtcactgtcacccttttctgtaatttttatcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCCGTCAGCGCTAGCATTGTGTTCATTGCCTTGAAAGGAgttgatgcagcatggagcagcctagatagatctgctgctatcttggttat #### Pcnxl3_ID1178_15 --> 2 - 1 Original Alignment GTGGCCACTg tgTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACA---------g GTGGCAACTggtgagacagttcaagatacacttatgttttctttgtttagtaTTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGGTCAACACCTGCCTCACGTACCTCTTGGAACAAATAGATATGCATGGTTTTGGAGGCACAGACCCTCACggtagagtgtgctcagggtggtcttttccaggaagatcgcatctaccaaat Alignment from CESAR GTGGCCACTg tgTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACA---------g GTGGCAACTggtagaccagttcaagatacacttatgttttctttgtttagtaTTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGGTCAACACCTGCCTCACGTACCTCTTGGAACAAATAGATATGCATGGTTTTGGAGGCACAGACCCTCACggtagagtgtgctcagggtggtcttttccaggaagatcgcatctaccaaat Alignment from Spaln_aa2Genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACA---------G GTGGCAACTGgtgagacagttcaagatacacttatgttttctttgtttagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGGTCAACACCTGCCTCACGTACCTCTTGGAACAAATAGATATGCATGGTTTTGGAGGCACAGACCCTCACGgtagagtgtgctcagggtggtcttttccaggaagatcgcatctaccaaat Alignment from Spaln_nt2Genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG--------- GTGGCAACTGgtgagacagttcaagatacacttatgttttctttgtttagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGGTCAACACCTGCCTCACGTACCTCTTGGAACAAATAGATATGCATGGTTTTGGAGGCACAGACCCTCACGgtagagtgtgctcagggtggtcttttccaggaagatcgcatctaccaaat Alignment from Pairagon GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG-------------- GTGGCAACTGgtgagacagttcaagatacacttatgttttctttgtttagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGGTCAACACCTGCCTCACGTACCTCTTGGAACAAATAGATATGCATGGTTTTGGAGGCACAGACCCTCACGGTAGAgtgtgctcagggtggtcttttccaggaagatcgcatctaccaaat Alignment from Exonerate_protein2genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtgagacagttcaagatacacttatgttttctttgtttagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGGTCAACACCTGCCTCACGTACCTCTTGGAACAAATAGATATGCATGGTTTTGGAGGCACAGaccctcacggtagagtgtgctcagggtggtcttttccaggaagatcgcatctaccaaat Alignment from Exonerate_coding2genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtgagacagttcaagatacacttatgttttctttgtttagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGGTCAACACCTGCCTCACGTACCTCTTGGAACAAATAGATATGCATGGTTTTGGAGGCACAGaccctcacggtagagtgtgctcagggtggtcttttccaggaagatcgcatctaccaaat Alignment from GeneWise GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACA---------G GTGGCAACTGgtgagacagttcaagatacacttatgttttctttgtttagTATTCACCTTATGCTTTCCATTTGTCTTCCTGCTGGGACTCCTGCCCCAGGTCAACACCTGCCTCACGTACCTCTTGGAACAAATAGATATGCATGGTTTTGGAGGCACAGACCCTCACGgtagagtgtgctcagggtggtcttttccaggaagatcgcatctaccaaat #### Pcnxl3_ID1180_13 --> 0 - 0 Original Alignment AGCGTGCAGCCTGATGCAGCATCCCCAATGCAC atgggccttaatactataccccgccaacttaggtgtgtggttccttgcagAGCATCCAACCTGATGCAGCATCACCC------gtaagtgcacggatgtgaaggaattgctgggcaatgagcactggttctaa Alignment from CESAR AGCGTGCAGCCTGATGCAGCATCCCCAATGCAC atgggccttaatactataccccgccaacttaggtgtgtggttccttgcagAGCATCCAACCTGATGCAGCATCACCC------gtaagtgcacggatgtgaaggaattgctgggcaatgagcactgg Alignment from Spaln_aa2Genome AGCGTGCAGCCTGATGCAGCATCCCCAATGCAC atgggccttaatactataccccgccaacttaggtgtgtggttccttgcagAGCATCCAACCTGATGCAGCATCACCCGTAAGTgcacggatgtgaaggaattgctgggcaatgagcactggttctaa Alignment from Spaln_nt2Genome AGCGTGCAGCCTGATGCAGCATCCCCAATGCAC atgggccttaatactataccccgccaacttaggtgtgtggttccttgcagAGCATCCAACCTGATGCAGCATCACC------Cgtaagtgcacggatgtgaaggaattgctgggcaatgagcactggttctaa Alignment from Pairagon AGCGTGCAGCCTGATGCAGCATCCCCAATGCAC atgggccttaatactataccccgccaacttaggtgtgtggttccttgcagAGCATCCAACCTGATGCAGCATCACC------Cgtaagtgcacggatgtgaaggaattgctgggcaatgagcactggttctaa Alignment from Exonerate_protein2genome AGCGTGCAGCCTGATGCAGCATCCCCAATGCAC atgggccttaatactataccccgccaacttaggtgtgtggttccttgcagAGCATCCAACCTGATGCAGCATCACCCGTAAGTgcacggatgtgaaggaattgctgggcaatgagcactggttctaa Alignment from Exonerate_coding2genome AGCGTGCAGCCTGATGCAGCATCCCCAATGCAC atgggccttaatactataccccgccaacttaggtgtgtggttccttgcagAGCATCCAACCTGATGCAGCATCACCCGTAAGTgcacggatgtgaaggaattgctgggcaatgagcactggttctaa Alignment from GeneWise atgggccttaatactataccccgccaacttaggtgtgtggttccttgcagagcatccaacctgatgcagcatcacccgtaagtgcacggatgtgaaggaattgctgggcaatgagcactggttctaa #### Pcsk5_ID4264_19 --> 2 - 2 Original Alignment ggGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGag tatgacatgtaccagctgattgcctttattttttcctttgcacgttttaggg---GGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTGTGAGTTACTACTTGGACCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAaggtaaggttaccaattgtagtccagccccgacactcagtatgagttggctc Alignment from CESAR ggGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGag gggtatgacatgtaccagctgattgttattttttcctttgcacgttttaggg---GGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTGTGAGTTACTACTTGGACCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAaggtaaggttaccaattgtagtccagccccgacactcagtatgagttggctc Alignment from Spaln_aa2Genome CCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG tatgacatgtaccagctgattgcctttattttttcctttgcacgttttagGGGGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTGTGAGTTACTACTTGGACCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtaaggttaccaattgtagtccagccccgacactcagtatgagttggctc Alignment from Spaln_nt2Genome CCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG tatgacatgtaccagctgattgcctttattttttcctttgcacgttttagGGGGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTGTGAGTTACTACTTGGACCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtaaggttaccaattgtagtccagccccgacactcagtatgagttggctc Alignment from Pairagon GGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG tatgacatgtaccagctgattgcctttattttttcctttgcacgttttagGG---GGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTGTGAGTTACTACTTGGACCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtaaggttaccaattgtagtccagccccgacactcagtatgagttggctc Alignment from Exonerate_protein2genome CTTGCTCTGGGGCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG tatgacatgtaccagctgattgcctttattttttccttTGCACGTTTTAGGGGGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTGTGAGTTACTACTTGGACCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtaaggttaccaattgtagtccagccccgacactcagtatgagttggctc Alignment from Exonerate_coding2genome GCCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG tatgacatgtaccagctgattgcctttattttttcctttgcacgttttaGGGGGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTGTGAGTTACTACTTGGACCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtaaggttaccaattgtagtccagccccgacactcagtatgagttggctc Alignment from GeneWise CCGGAGCAGATGGATGTATTAACTGCACCGAGGGGTATGTCATGGAAGAGGGAAGGTGTGTACAAAGTTGTAGTGTGAGCTACTACTTGGACCACTCTTCAGAGGGTGGCTACAAATCCTGCAAGAG tatgacatgtaccagctgattgcctttattttttcctttgcacgttttagGGGGAGCAGATGGATTCATAAATTGCACTGAGGGGTATGTCATGGAAGAGGGAAAATGTGTTCAGAGTTGTAGTGTGAGTTACTACTTGGACCACTCCTCAGAGGGTGGCTACAAATCCTGCAAAAGgtaaggttaccaattgtagtccagccccgacactcagtatgagttggctc #### Pcx_ID555_5 --> 2 - 0 Original Alignment gcGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG acctggaagtacaggcattttgaccctgatgatttcatttgtcatttcaggt------GTGGTTCCTGGAACAGAGTCCCCCATCAGCTCCTTACATGAAGCGCATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGGGGTCATGATATGAGGGTTGTGCAGAGCTATGAGgtaagtggagcagcatagggtaaggtagtggtggcagggccagtccttgt Alignment from CESAR gcGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG cattgaacctggaagtacaggcattctgatgatttcatttgtcatttcaggt------GTGGTTCCTGGAACAGAGTCCCCCATCAGCTCCTTACATGAAGCGCATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGGGGTCATGATATGAGGGTTGTGCAGAGCTATGAGgtaagtggagcagcatagggtaaggtagtggtggcagggccagtccttgt Alignment from Spaln_aa2Genome GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG acctggaagtacaggcattttgaccctgatgatttcatttgtcatttcagGT------GTGGTTCCTGGAACAGAGTCCCCCATCAGCTCCTTACATGAAGCGCATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGGGGTCATGATATGAGGGTTGTGCAGAGCTATGAGgtaagtggagcagcatagggtaaggtagtggtggcagggccagtccttgt Alignment from Spaln_nt2Genome acctggaagtacaggcattttgaccctgatgatttcatttgtcatttcaggtgtggttcctggaacagagtcccccatcagctccttacatgaagcgcatgagttctccaacacctatgatcctccctttattttcaatgcagcttatggagatgggggtcatgatatgagggttgtgcagagctatgaggtaagtggagcagcatagggtaaggtagtggtggcagggccagtccttgt Alignment from Pairagon GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG acctggaagtacaggcattttgaccctgatgatttcatttgtcatttcagGT------GTGGTTCCTGGAACAGAGTCCCCCATCAGCTCCTTACATGAAGCGCATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGGGGTCATGATATGAGGGTTGTGCAGAGCTATGAGgtaagtggagcagcatagggtaaggtagtggtggcagggccagtccttgt Alignment from Exonerate_protein2genome GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG acctggaagtacaggcattttgaccctgatgatttcatttgtcatttcagGT------GTGGTTCCTGGAACAGAGTCCCCCATCAGCTCCTTACATGAAGCGCATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGGGGTCATGATATGAGGGTTGTGCAGAGCTATGAGgtaagtggagcagcatagggtaaggtagtggtggcagggccagtccttgt Alignment from Exonerate_coding2genome GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG acctggaagtacaggcattttgaccctgatgatttcatttgtcatttcagGT------GTGGTTCCTGGAACAGAGTCCCCCATCAGCTCCTTACATGAAGCGCATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGGGGTCATGATATGAGGGTTGTGCAGAGCTATGAGgtaagtggagcagcatagggtaaggtagtggtggcagggccagtccttgt Alignment from GeneWise GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG acctggaagtacaggcattttgaccctgatgatttcatttgtcatttcagGTGTG------GTTCCTGGAACAGAGTCCCCCATCAGCTCCTTACATGAAGCGCATGAGTTCTCCAACACCTATGATCCTCCCTTTATTTTCAATGCAGCTTATGGAGATGGGGGTCATGATATGAGGGTTGTGCAGAGCTATGAGgtaagtggagcagcatagggtaaggtagtggtggcagggccagtccttgt #### Pcx_ID556_6 --> 0 - 1 Original Alignment GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTA---g tgtattgaaaatgcagacccatggctgcagaggactctttctctgcacagGAGCTAGAGAAGAATTATACCCGAGCCTACTCTGAAGCCTTGGCGGCTTTTGGGAACAGAGCCCTGTTTGTCGAGAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAGAAggtaataaaatagatggctgcaactgcccaatacatctgagagactgccat Alignment from CESAR GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTA---g tgtattgaaaatgcagacccatggctgcagaggactctttctctgcacagGAGCTAGAGAAGAATTATACCCGAGCCTACTCTGAAGCCTTGGCGGCTTTTGGGAACAGAGCCCTGTTTGTCGAGAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAGAAggtaataaaatagatggctgcaactgcccaatacatctgagagactgccat Alignment from Spaln_aa2Genome GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTA---G tgtattgaaaatgcagacccatggctgcagaggactctttctctgcacagGAGCTAGAGAAGAATTATACCCGAGCCTACTCTGAAGCCTTGGCGGCTTTTGGGAACAGAGCCCTGTTTGTCGAGAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAGAAGgtaataaaatagatggctgcaactgcccaatacatctgagagactgccat Alignment from Spaln_nt2Genome tgtattgaaaatgcagacccatggctgcagaggactctttctctgcacaggagctagagaagaattatacccgagcctactctgaagccttggcggcttttgggaacagagccctgtttgtcgagaagtttattggacagccaagccattttgaggtgcagatcctagaaggtaataaaatagatggctgcaactgcccaatacatctgagagactgccat Alignment from Pairagon GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG--- tgtattgaaaatgcagacccatggctgcagaggactctttctctgcacagGAGCTAGAGAAGAATTATACCCGAGCCTACTCTGAAGCCTTGGCGGCTTTTGGGAACAGAGCCCTGTTTGTCGAGAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAGAAGgtaataaaatagatggctgcaactgcccaatacatctgagagactgccat Alignment from Exonerate_protein2genome GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTA---G tgtattgaaaatgcagacccatggctgcagaggactctttctctgcacagGAGCTAGAGAAGAATTATACCCGAGCCTACTCTGAAGCCTTGGCGGCTTTTGGGAACAGAGCCCTGTTTGTCGAGAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAGAAGgtaataaaatagatggctgcaactgcccaatacatctgagagactgccat Alignment from Exonerate_coding2genome GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTA---G tgtattgaaaatgcagacccatggctgcagaggactctttctctgcacagGAGCTAGAGAAGAATTATACCCGAGCCTACTCTGAAGCCTTGGCGGCTTTTGGGAACAGAGCCCTGTTTGTCGAGAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAGAAGgtaataaaatagatggctgcaactgcccaatacatctgagagactgccat Alignment from GeneWise GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAGGG- tgtattgaaaatgcagacccatggctgcagaggactctttctctgcacagGAGCTAGAGAAGAATTATACCCGAGCCTACTCTGAAGCCTTGGCGGCTTTTGGGAACAGAGCCCTGTTTGTCGAGAAGTTTATTGGACAGCCAAGCCATTTTGAGGTGCAGATCCTAGAAGgtaataaaatagatggctgcaactgcccaatacatctgagagactgccat #### Pcx_ID565_14 --> 1 - 0 Original Alignment gTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG aatgaatcataagagtcagaaatgtgtcctttttaaaaatatttttgcaggTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATTTCCTACACTGGGGAAGTGGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATATTGTGT------gtaagtcacgcagggctattcagtgtgtctcaatcttttgatcttgatgc Alignment from CESAR gTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG aatgaatcataagagtcagaaatgtgtcctttttaaaaatatttttgcaggTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATTTCCTACACTGGGGAAGTGGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATATTGTGT------gtaagtcacgcagggctattcagtgtgtctcaatcttttggctc Alignment from Spaln_aa2Genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATT---AAG aatgaatcataagagtcagaaatgtgtcctttttaaaaatatttttgcagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATTTCCTACACTGGGGAAGTGGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATATTGTGTGTAAGTCACgcagggctattcagtgtgtctcaatcttttgatcttgatgc Alignment from Spaln_nt2Genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAA aatgaatcataagagtcagaaatgtgtcctttttaaaaatatttttgcagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATTTCCTACACTGGGGAAGTGGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATATTGTG-TGTAAgtcacgcagggctattcagtgtgtctcaatcttttgatcttgatgc Alignment from Pairagon GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTG--------------------------------------------------- aatgaatcataagagtcagaaatgtgtcctttttaaaaatatttttgcagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATTTCCTACACTGGGGAAGTGGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATATTGTGTGTAAGTCACGCAGGGCTATTCAGTGTGTCTCAATCTTTTGATCTTGATGC Alignment from Exonerate_protein2genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTA aatgaatcataagagtcagaaatgtgtcctttttaaaaatatttttgcagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATTTCCTACACTGGGGAAGTGGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATATTGTGTGTAAgtcacgcagggctattcagtgtgtctcaatcttttgatcttgatgc Alignment from Exonerate_coding2genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTA aatgaatcataagagtcagaaatgtgtcctttttaaaaatatttttgcagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATTTCCTACACTGGGGAAGTGGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATATTGTGTGTAAgtcacgcagggctattcagtgtgtctcaatcttttgatcttgatgc Alignment from GeneWise GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTA aatgaatcataagagtcagaaatgtgtcctttttaaaaatatttttgcagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGTGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAATCTGCAGGCAGTGCTGGGGCTGTAGTTGAGGCTGCCATTTCCTACACTGGGGAAGTGGCTGACCCTGGTCGCACCAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAGCTGGATCTCACATATTGTGTGTAAgtcacgcagggctattcagtgtgtctcaatcttttgatcttgatgc #### Pdcd11_ID10119_13 --> 0 - 0 Original Alignment GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG tcttgaggacctgccactgcagagaggtcttctgtttcttctttgtccagGTGGTAAAGGTGGCCGTGTTGAGCTGTGAGCCTTCCAAGGAAAAAATGCTCCTCTCCTTCAGGTTGCTGAGTGACTCACAGCCAAAAGATCCTGGTGTTGAAACCAGTCAGAAAAAGACAGAAGGCGTGCGCATTGGC---gtgagtagtaccctatgattttgactgatggtaacagcatcacagcatct Alignment from CESAR GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG tcttgaggacctgccactgcagagaggtcttctgtttcttctttgtccagGTGGTAAAGGTGGCCGTGTTGAGCTGTGAGCCTTCCAAGGAAAAAATGCTCCTCTCCTTCAGGTTGCTGAGTGACTCACAGCCAAAAGATCCTGGTGTTGAAACCAGTCAGAAAAAGACAGAAGGCGTGCGCATTGGC---gtgagtagtaccctatgattttgactgatggtaacagcatcacagca Alignment from Spaln_aa2Genome AGAGACGGTC---TTTTACACTGGCCAGGTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGG tcttgaggacctgccactgcagAGAGGTCTTCTGTTTCTTCTTTGTCCAGGTGGTAAAGGTGGCCGTGTTGAGCTGTGAGCCTTCCAAGGAAAAAATGCTCCTCTCCTTCAGGTTGCTGAGTGACTCACAGCCAAAAGATCCTGGTGTTGAAACCAGTCAGAAAAAGACAGAAGGCGTGCGCATTGGCgtgagtagtaccctatgattttgactgatggtaacagcatcacagcatct Alignment from Spaln_nt2Genome AGAGACGGTCTTTTACAC---TGGCCAGGTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGG tcttgaggacctgccactgcagAGAGGTCTTCTGTTTCTTCTTTGTCCAGGTGGTAAAGGTGGCCGTGTTGAGCTGTGAGCCTTCCAAGGAAAAAATGCTCCTCTCCTTCAGGTTGCTGAGTGACTCACAGCCAAAAGATCCTGGTGTTGAAACCAGTCAGAAAAAGACAGAAGGCGTGCGCATTGGCgtgagtagtaccctatgattttgactgatggtaacagcatcacagcatct Alignment from Pairagon GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGG--------------------------------------------------- tcttgaggacctgccactgcagagaggtcttctgtttcttctttgtccagGTGGTAAAGGTGGCCGTGTTGAGCTGTGAGCCTTCCAAGGAAAAAATGCTCCTCTCCTTCAGGTTGCTGAGTGACTCACAGCCAAAAGATCCTGGTGTTGAAACCAGTCAGAAAAAGACAGAAGGCGTGCGCATTGGCGTGAGTAGTACCCTATGATTTTGACTGATGGTAACAGCATCACAGCATCT Alignment from Exonerate_protein2genome GCACCCAGCACATCCCGGACCCAGAGACG---GTCTTTTACACTGGCCAGGTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGG TCTTGAGGACCTGCCACTGCAGAGAGGTCTTCTGTTTCTTCTTTGTCCAGGTGGTAAAGGTGGCCGTGTTGAGCTGTGAGCCTTCCAAGGAAAAAATGCTCCTCTCCTTCAGGTTGCTGAGTGACTCACAGCCAAAAGATCCTGGTGTTGAAACCAGTCAGAAAAAGACAGAAGGCGTGCGCATTGGCgtgagtagtaccctatgattttgactgatggtaacagcatcacagcatct Alignment from Exonerate_coding2genome tcttgaggacctgccactgcagagaggtcttctgtttcttctttgtccaggtggtaaaggtggccgtgttgagctgtgagccttccaaggaaaaaatgctcctctccttcaggttgctgagtgactcacagccaaaagatcctggtgttgaaaccagtcagaaaaagacagaaggcgtgcgcattggcgtgagtagtaccctatgattttgactgatggtaacagcatcacagcatct Alignment from GeneWise GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGG tcttgaggacctgccactgcagagaggtcttctgtttcttctttgtccagGTGGTAAAGGTGGCCGTGTTGAGCTGTGAGCCTTCCAAGGAAAAAATGCTCCTCTCCTTCAGGTTGCTGAGTGACTCACAGCCAAAAGATCCTGGTGTTGAAACCAGTCAGAAAAAGACAGAAGGCGTGCGCATTGGCgtgagtagtaccctatgattttgactgatggtaacagcatcacagcatct #### Pdcd11_ID10120_14 --> 0 - 0 Original Alignment TTGGTGGATGTGAAGGTCCTGGAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT ggaggatggccttttctttgatatgtaaataatcttttgatattttacagGTTGTGGATGTGAAGGTCCTACACAAAACCAAAACCGGGCTAGAGGTAGCCATTCTGCCCCATAAT------GCATTTCTTCCCACACCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTACACCACTGGCTTCAAGCAGGTGATACTCTTCACCAA---CTC---------------------------gtactgtcacatactctgttattggatcgatctgtacaacagtggaaaac Alignment from CESAR TTGGTGGATGTGAAGGTCCTGGAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATT ggaggatggccttttctttgatatgtaaataatcttttgatattttacagGTTGTGGATGTGAAGGTCCTACACAAAACCAAAACCGGGCTAGAGGTAGCCATTCTGCCCCATAAT------GCATTTCTTCCCACACCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTACACCACTGGCTTCAAGCAGGTGATACTCTTCACCAA------------------------------CTCgtactgtcacatactctgttattggatcgatctgtacaacagtggaaaac Alignment from Spaln_aa2Genome TTGGTGGATGTGAAGGTCCTGGAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGA---GTTCTGTGTTTGAGCCAGAGTGAGAGACACATT ggaggatggccttttctttgatatgtaaataatcttttgatattttacagGTTGTGGATGTGAAGGTCCTACACAAAACCAAAACCGGGCTAGAGGTAGCCATTCTGCCCCATAAT------GCATTTCTTCCCACACCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTACACCACTGGCTTCAAGCAGGTGATACTCTTCACCAACTCGTACTGTCACATACTCTGTTATTGGATCGATCTgtacaacagtggaaaac Alignment from Spaln_nt2Genome TTGGTGGATGTGAAGGTCCTGGAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTT ggaggatggccttttctttgatatgtaaataatcttttgatattttacagGTTGTGGATGTGAAGGTCCTACACAAAACCAAAACCGGGCTAGAGGTAGCCATTCTGCCCCATAA------TGCATTTCTTCCCACACCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTACACCACTGGCTTCAAGCAGGTGATACTCTTCACCAACTCgtactgtcacatactctgttattggatcgatctgtacaacagtggaaaac Alignment from Pairagon TTGGTGGATGTGAAGGTCCTGGAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTT ggaggatggccttttctttgatatgtaaataatcttttgatattttacagGTTGTGGATGTGAAGGTCCTACACAAAACCAAAACCGGGCTAGAGGTAGCCATTCTGCCCCATAA------TGCATTTCTTCCCACACCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTACACCACTGGCTTCAAGCAGGTGATACTCTTCACCAACTCgtactgtcacatactctgttattggatcgatctgtacaacagtggaaaac Alignment from Exonerate_protein2genome ggaggatggccttttctttgatatgtaaataatcttttgatattttacaggttgtggatgtgaaggtcctacacaaaaccaaaaccgggctagaggtagccattctgccccataatgcatttcttcccacaccccacttgtctgaccatgctactaatggtccactgctacaccactggcttcaagcaggtgatactcttcaccaactcgtactgtcacatactctgttattggatcgatctgtacaacagtggaaaac Alignment from Exonerate_coding2genome TTGGTGGATGTGAAGGTCCTGGAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGAGTTCTGTGTTTGAGCCAGAGTGAGAGACACATTCTTCTTTGCAGGAAACCAGC ggaggatggccttttctttgatatgtaaataatcttttgatattttacagGTTGTGGATGTGAAGGTCCTACACAAAACCAAAACCGGGCTAGAGGTAGCCATTCTGCCCCATAAT------GCATTTCTTCCCACACCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTACACCACTGGCTTCAAGCAGGTGATACTCTTCACCAACTC--GTACTGTCACATACTCTGTTATTGGATCGATCTGTACAACAGTGGAAA Alignment from GeneWise TTGGTGGATGTGAAGGTCCTGGAGAAGACCAAAACCGGGCTGGAGGTGGCCATCCTGCCCCATAACACCCCTGCTTTCCTCCCCACGCCACACCTGTCCGACCACGCTGCCAATGGCCCACTGTTGCACCACTGGCTCCAGACAGGTGACACCCTTCACCGA---GTTCTGTGTTTGAGCCAGAGTGAGAGACACATT ggaggatggccttttctttgatatgtaaataatcttttgatattttacagGTTGTGGATGTGAAGGTCCTACACAAAACCAAAACCGGGCTAGAGGTAGCCATTCTGCCCCATAAT------GCATTTCTTCCCACACCCCACTTGTCTGACCATGCTACTAATGGTCCACTGCTACACCACTGGCTTCAAGCAGGTGATACTCTTCACCAACTCGTACTGTCACATACTCTGTTATTGGATCGATCTgtacaacagtggaaaac #### Pdcd11_ID10134_28 --> 1 - 0 Original Alignment cGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG------ ggggtgtcaagacaccctattcgccccttaacaagtcccactgcccgcagcATCAACCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCAAGATGTTTCCCCTCCTGCCCCAGAACCAGAACAAGAGGAAGGTAGCGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGTTTAACgtaagacaggcagtatgtattgcctcttcttatgggacacatttgctgct Alignment from CESAR cGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG------ ggggtgtcaagacaccctattcgccccttaacaagtcccactgcccgcagcATCAACCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCAAGATGTTTCCCCTCCTGCCCCAGAACCAGAACAAGAGGAAGGTAGCGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGTTTAACgtaagacaggcagtatgtattgcctcttcttatgggacacatttgctgct Alignment from Spaln_aa2Genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG------ ggggtgtcaagacaccctattcgccccttaacaagtcccactgcccgcagCATCAACCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCAAGATGTTTCCCCTCCTGCCCCAGAACCAGAACAAGAGGAAGGTAGCGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGTTTAACgtaagacaggcagtatgtattgcctcttcttatgggacacatttgctgct Alignment from Spaln_nt2Genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG------ ggggtgtcaagacaccctattcgccccttaacaagtcccactgcccgcagCATCAACCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCAAGATGTTTCCCCTCCTGCCCCAGAACCAGAACAAGAGGAAGGTAGCGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGTTTAACgtaagacaggcagtatgtattgcctcttcttatgggacacatttgctgct Alignment from Pairagon CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG------ ggggtgtcaagacaccctattcgccccttaacaagtcccactgcccgcagCATCAACCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCAAGATGTTTCCCCTCCTGCCCCAGAACCAGAACAAGAGGAAGGTAGCGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGTTTAACgtaagacaggcagtatgtattgcctcttcttatgggacacatttgctgct Alignment from Exonerate_protein2genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG ggggtgtcaagacaccctattcgccccttaacaagtcccactgcccgcagCATCAACCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCAAGATGTTTCCCCTCCTGCCCCAGAACCAGAACAAGAGGAAGGTAGCGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGtttaacgtaagacaggcagtatgtattgcctcttcttatgggacacatttgctgct Alignment from Exonerate_coding2genome ggggtgtcaagacaccctattcgccccttaacaagtcccactgcccgcagcatcaaccccatgaagaacctgatagagttgtccctccttccaagtgacactgggaggcaagatgtttcccctcctgccccagaaccagaacaagaggaaggtagcggaggggctgaagggggccaaaaacagaaggaaaagaatcagaagagacgggatgagaaggaagagccacagaagtcacagaggggtgggcgaggaaagcgtgagcatcatgaatctgagagtgagcagtttaacgtaagacaggcagtatgtattgcctcttcttatgggacacatttgctgct Alignment from GeneWise CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG------ ggggtgtcaagacaccctattcgccccttaacaagtcccactgcccgcagCATCAACCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCAAGATGTTTCCCCTCCTGCCCCAGAACCAGAACAAGAGGAAGGTAGCGGAGGGGCTGAAGGGGGCCAAAAACAGAAGGAAAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGTTTAACgtaagacaggcagtatgtattgcctcttcttatgggacacatttgctgct #### Pdcd11_ID10137_31 --> 0 - 2 Original Alignment ---------AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCag ctcatcttactcaaaggagttggagctcctttaaatatttctttcctcagCAAGCTTGGAAGAAGAAAGGTAAAAAAGAAAGGGAGCTGGAGAAGCAAAAGGCGAAGAAAGAGCTGTCACGCATCGAAAAGGCACTGATGGACCCTGGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTTCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACTACAGAAATTGAAAGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCTCATTCcggtgaggactctgggtcttctgcagttcagatggataatcagttttaaact Alignment from CESAR ---------AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCag ctcatcttactcaaaggagttggagctcctttaaatatttctttcctcagCAAGCTTGGAAGAAGAAAGGTAAAAAAGAAAGGGAGCTGGAGAAGCAAAAGGCGAAGAAAGAGCTGTCACGCATCGAAAAGGCACTGATGGACCCTGGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTTCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACTACAGAAATTGAAAGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCTCATTCcggtgaggactctgggtcttctgcagttcagatggataatcagttttaaact Alignment from Spaln_aa2Genome AAGAAGAAGGGC---------AAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCAG ctcatcttactcaaaggagttggagctcctttaaatatttctttcctcagCAAGCTTGGAAGAAGAAAGGTAAAAAAGAAAGGGAGCTGGAGAAGCAAAAGGCGAAGAAAGAGCTGTCACGCATCGAAAAGGCACTGATGGACCCTGGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTTCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACTACAGAAATTGAAAGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCTCATTCCGgtgaggactctgggtcttctgcagttcagatggataatcagttttaaact Alignment from Spaln_nt2Genome GAAGAAGAAGGG--------CAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCAG ctcatcttactcaaaggagttggagctcctttaaatatttctttcctcagCAAGCTTGGAAGAAGAAAGGTAAAAAAGAAAGGGAGCTGGAGAAGCAAAAGGCGAAGAAAGAGCTGTCACGCATCGAAAAGGCACTGATGGACCCTGGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTTCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACTACAGAAATTGAAAGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCTCATTCCGgtgaggactctgggtcttctgcagttcagatggataatcagttttaaact Alignment from Pairagon ---------AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCAG ctcatcttactcaaaggagttggagctcctttaaatatttctttcctcagCAAGCTTGGAAGAAGAAAGGTAAAAAAGAAAGGGAGCTGGAGAAGCAAAAGGCGAAGAAAGAGCTGTCACGCATCGAAAAGGCACTGATGGACCCTGGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTTCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACTACAGAAATTGAAAGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCTCATTCCGgtgaggactctgggtcttctgcagttcagatggataatcagttttaaact Alignment from Exonerate_protein2genome CTAAGAAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCAG ctcatcttactcaaaggagttggagctcctttaaatatttctttcctcagcaagCTTGGAAGAAGAAAGGTAAAAAAGAAAGGGAGCTGGAGAAGCAAAAGGCGAAGAAAGAGCTGTCACGCATCGAAAAGGCACTGATGGACCCTGGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTTCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACTACAGAAATTGAAAGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCTCATTCCGgtgaggactctgggtcttctgcagttcagatggataatcagttttaaact Alignment from Exonerate_coding2genome ctcatcttactcaaaggagttggagctcctttaaatatttctttcctcagcaagcttggaagaagaaaggtaaaaaagaaagggagctggagaagcaaaaggcgaagaaagagctgtcacgcatcgaaaaggcactgatggaccctgggcgacaaccagagtctgctgatgaatctgaccagctggtgctaagttttcctaacagctccatcctttggctgcagtacatggcattccatctgcaaactacagaaattgaaagggcccgggctgtagctgagagggctttgaagaccatctcattccggtgaggactctgggtcttctgcagttcagatggataatcagttttaaact Alignment from GeneWise ---------AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCAG ctcatcttactcaaaggagttggagctcctttaaatatttctttcctcagCAAGCTTGGAAGAAGAAAGGTAAAAAAGAAAGGGAGCTGGAGAAGCAAAAGGCGAAGAAAGAGCTGTCACGCATCGAAAAGGCACTGATGGACCCTGGGCGACAACCAGAGTCTGCTGATGAATCTGACCAGCTGGTGCTAAGTTTTCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCATTCCATCTGCAAACTACAGAAATTGAAAGGGCCCGGGCTGTAGCTGAGAGGGCTTTGAAGACCATCTCATTCCGgtgaggactctgggtcttctgcagttcagatggataatcagttttaaact #### Pdcd11_ID10139_33 --> 0 - 1 Original Alignment GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGG------GCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAc atgcaagtaatgttctaagaaagggcctaagctctgccctgctccttcag---GCCGGAGAGCTGTATAACCGCATGATCAAACGGTTCCAGGAAAAGGACGCGGTCTGTATCAAATATGGTTCCTTTGGTTTGGGAAGGAGCCAGGCTGGGGCTGGAGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCAGCCAAAGAAcgtatgatctcttgtaacgaccgaactttatggttctggcacctgatccca Alignment from CESAR GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAG---GCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAc gcaatgcaagtaatgttctaagaaacctaagctctgccctgctccttcag---GCCGGAGAGCTGTATAACCGCATGATCAAACGGTTC---CAGGAAAAGGACGCGGTCTGTATCAAATATGGTTCCTTTGGTTTGGGAAGGAGCCAGGCTGGGGCTGGAGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCAGCCAAAGAAcgtatgatctcttgtaacgaccgaactttatggttctggcacctgatccca Alignment from Spaln_aa2Genome GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC atgcaagtaatgttctaagaaagggcctaagctctgccctgctccttcag---GCCGGAGAGCTGTATAACCGCATGATCAAACGGTTCCAGGAAAAGGACGCGGTCTGTATCAAATATGGTTCCTTTGGTTTGGGAAGGAGCCAGGCTGGGGCTGGAGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCAGCCAAAGAACgtatgatctcttgtaacgaccgaactttatggttctggcacctgatccca Alignment from Spaln_nt2Genome GCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC atgcaagtaatgttctaagaaagggcctaagctctgccctgctccttcagGCCGGAGAGCTGTATAACCGCATGATCAAACGGTTCCAGGAAAAGGACGCGGTCTGTATCAAATATGGTTCCTTTGGTTTGGGAAGGAGCCAGGCTGGGGCTGGAGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCAGCCAAAGAACgtatgatctcttgtaacgaccgaactttatggttctggcacctgatccca Alignment from Pairagon GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC atgcaagtaatgttctaagaaagggcctaagctctgccctgctccttcag---GCCGGAGAGCTGTATAACCGCATGATCAAACGGTTCCAGGAAAAGGACGCGGTCTGTATCAAATATGGTTCCTTTGGTTTGGGAAGGAGCCAGGCTGGGGCTGGAGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCAGCCAAAGAACgtatgatctcttgtaacgaccgaactttatggttctggcacctgatccca Alignment from Exonerate_protein2genome GCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC atgcaagtaatgttctaagaaagggcctaagctctgccctgctccttcagGCCGGAGAGCTGTATAACCGCATGATCAAACGGTTCCAGGAAAAGGACGCGGTCTGTATCAAATATGGTTCCTTTGGTTTGGGAAGGAGCCAGGCTGGGGCTGGAGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCAGCCAAAGAACgtatgatctcttgtaacgaccgaactttatggttctggcacctgatccca Alignment from Exonerate_coding2genome atgcaagtaatgttctaagaaagggcctaagctctgccctgctccttcaggccggagagctgtataaccgcatgatcaaacggttccaggaaaaggacgcggtctgtatcaaatatggttcctttggtttgggaaggagccaggctggggctggagtgagtcactatgtcctacagcgagcaccagagtgcttgccagccaaagaacgtatgatctcttgtaacgaccgaactttatggttctggcacctgatccca Alignment from GeneWise GCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC atgcaagtaatgttctaagaaagggcctaagctctgccctgctccttcagGCCGGAGAGCTGTATAACCGCATGATCAAACGGTTCCAGGAAAAGGACGCGGTCTGTATCAAATATGGTTCCTTTGGTTTGGGAAGGAGCCAGGCTGGGGCTGGAGTGAGTCACTATGTCCTACAGCGAGCACCAGAGTGCTTGCCAGCCAAAGAACgtatgatctcttgtaacgaccgaactttatggttctggcacctgatccca #### Pdcd11_ID10140_34 --> 2 - 2 Original Alignment at---GTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCag ctgctctgatcagcctcttttggggtcttcccattggattggtctcccagatGCCGTGGATGTGATTGTTAAGTTTGCCCAGTTGGAGTTCCAACTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGCCATACAGCAGTCaggtgtgtgtaaccgacagggataattgcaatggaacaagtggtaggaggtg Alignment from CESAR at---GTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCag ctgctctgatcagcctcttttggggtcttcccattggattggtctcccagatGCCGTGGATGTGATTGTTAAGTTTGCCCAGTTGGAGTTCCAACTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGCCATACAGCAGTCaggtgtgtgtaaccgacagggataattgcaatggaacaagtggtaggaggtg Alignment from Spaln_aa2Genome AT---GTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG ctgctctgatcagcctcttttggggtcttcccattggattggtctcccagATGCCGTGGATGTGATTGTTAAGTTTGCCCAGTTGGAGTTCCAACTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGCCATACAGCAGTCAGgtgtgtgtaaccgacagggataattgcaatggaacaagtggtaggaggtg Alignment from Spaln_nt2Genome ATG---TGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG ctgctctgatcagcctcttttggggtcttcccattggattggtctcccagATGCCGTGGATGTGATTGTTAAGTTTGCCCAGTTGGAGTTCCAACTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGCCATACAGCAGTCAGgtgtgtgtaaccgacagggataattgcaatggaacaagtggtaggaggtg Alignment from Pairagon AT---GTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG ctgctctgatcagcctcttttggggtcttcccattggattggtctcccagATGCCGTGGATGTGATTGTTAAGTTTGCCCAGTTGGAGTTCCAACTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGCCATACAGCAGTCAGgtgtgtgtaaccgacagggataattgcaatggaacaagtggtaggaggtg Alignment from Exonerate_protein2genome AT---GTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG ctgctctgatcagcctcttttggggtcttcccattggattggtctcccagATGCCGTGGATGTGATTGTTAAGTTTGCCCAGTTGGAGTTCCAACTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGCCATACAGCAGTCAGgtgtgtgtaaccgacagggataattgcaatggaacaagtggtaggaggtg Alignment from Exonerate_coding2genome ctgctctgatcagcctcttttggggtcttcccattggattggtctcccagatgccgtggatgtgattgttaagtttgcccagttggagttccaacttggggatgtgaagcgagctaaagccatttttgaaaacacactgagtgcctaccccaaacgcacggatgtctggtcagtctacattcacatgaccatcaagcatggcagccatacagcagtcaggtgtgtgtaaccgacagggataattgcaatggaacaagtggtaggaggtg Alignment from GeneWise --CATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG ctgctctgatcagcctcttttggggtcttcccattggattggtctcccagATGCCGTGGATGTGATTGTTAAGTTTGCCCAGTTGGAGTTCCAACTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTCACATGACCATCAAGCATGGCAGCCATACAGCAGTCAGgtgtgtgtaaccgacagggataattgcaatggaacaagtggtaggaggtg #### Pdcd4_ID11402_9 --> 0 - 0 Original Alignment GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA tgtgagttgttcaccatgggttgattcaccttctggatgctcgtttaaagGCCATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCGTTCAAGATGATCTTAGATTTATTTAAGTCTCTGTGGAAGTCTTCTACAATTACTATAGACCAA---------gtatgtacgatattcacggagagataaagatcttgcacgagatcctgcat Alignment from CESAR GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA tgtgagttgttcaccatgggttgattcaccttctggatgctcgtttaaagGCCATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCGTTCAAGATGATCTTAGATTTATTTAAGTCTCTGTGGAAGTCTTCTACAATTACTATAGACCAA---------gtatgtacgatattcacggagagataaagatcttgcacgag Alignment from Spaln_aa2Genome GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAA tgtgagttgttcaccatgggttgattcaccttctggatgctcgtttaaagGCCATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCGTTCAAGATGATCTTAGATTTATTTAAGTCTCTGTGGAAGTCTTCTACAATTACTATAGACCAAgtatgtacgatattcacggagagataaagatcttgcacgagatcctgcat Alignment from Spaln_nt2Genome GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAA tgtgagttgttcaccatgggttgattcaccttctggatgctcgtttaaagGCCATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCGTTCAAGATGATCTTAGATTTATTTAAGTCTCTGTGGAAGTCTTCTACAATTACTATAGACCAAgtatgtacgatattcacggagagataaagatcttgcacgagatcctgcat Alignment from Pairagon GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAA tgtgagttgttcaccatgggttgattcaccttctggatgctcgtttaaagGCCATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCGTTCAAGATGATCTTAGATTTATTTAAGTCTCTGTGGAAGTCTTCTACAATTACTATAGACCAAgtatgtacgatattcacggagagataaagatcttgcacgagatcctgcat Alignment from Exonerate_protein2genome GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA tgtgagttgttcaccatgggttgattcaccttctggatgctcgtttaaagGCCATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCGTTCAAGATGATCTTAGATTTATTTAAGTCTCTGTGGAAGTCTTCTACAATTACTATAGACCAAGTATGTACGatattcacggagagataaagatcttgcacgagatcctgcat Alignment from Exonerate_coding2genome GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA tgtgagttgttcaccatgggttgattcaccttctggatgctcgtttaaagGCCATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCGTTCAAGATGATCTTAGATTTATTTAAGTCTCTGTGGAAGTCTTCTACAATTACTATAGACCAAGTATGTACGatattcacggagagataaagatcttgcacgagatcctgcat Alignment from GeneWise GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA tgtgagttgttcaccatgggttgattcaccttctggatgctcgtttaaagGCCATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCGTTCAAGATGATCTTAGATTTATTTAAGTCTCTGTGGAAGTCTTCTACAATTACTATAGAC---------CAAgtatgtacgatattcacggagagataaagatcttgcacgagatcctgcat #### Pde6c_ID7533_3 --> 0 - 0 Original Alignment ------GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccactataaatatttctcacttcaccggcagGATCCTGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGTCCCGGCGGAGTCAAgtaagctaatactacaagaagtctgccctttccacacctacacattgtca Alignment from CESAR ------GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccactataaatatttctcacttcaccggcagGATCCTGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGTCCCGGCGGAGTCAAgtaagctaatactacaagaagtctgccctttccacacctacacattgtca Alignment from Spaln_aa2Genome ------GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCA caaacaagccatgggttcaccactataaatatttctcacttcaccggcagGATCCTGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGTCCCGGCGGAGTCAAgtaagctaatactacaagaagtctgccctttccacacctacacattgtca Alignment from Spaln_nt2Genome G------TCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccactataaatatttctcacttcaccggcagGATCCTGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGTCCCGGCGGAGTCAAgtaagctaatactacaagaagtctgccctttccacacctacacattgtca Alignment from Pairagon --------------------------------------------------------GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG CAAACAAGCCATGGGTTCACCACTATAAATATTTCTCACTTCACCGGCAGGATCCTGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGTCCCGGCGGAGTCAAgtaagctaatactacaagaagtctgccctttccacacctacacattgtca Alignment from Exonerate_protein2genome ------GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccactataaatatttctcacttcaccggcagGATCCTGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGTCCCGGCGGAGTCAAgtaagctaatactacaagaagtctgccctttccacacctacacattgtca Alignment from Exonerate_coding2genome ------GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccactataaatatttctcacttcaccggcagGATCCTGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGTCCCGGCGGAGTCAAgtaagctaatactacaagaagtctgccctttccacacctacacattgtca Alignment from GeneWise ------GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG caaacaagccatgggttcaccactataaatatttctcacttcaccggcagGATCCTGTCATCTCAAAATACCTCAGCTTTGTTGCTGTTGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGTCCCGGCGGAGTCAAgtaagctaatactacaagaagtctgccctttccacacctacacattgtca #### Pde6c_ID7543_13 --> 0 - 0 Original Alignment GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG--- tagtgttgcgtgtccccccaagtaatgagggtctgcctgtctttcctcagATTCTTACAAAGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCTACGTACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTTTGTTAATGTCTgtaagtttagctgttgataggctgaacgttatcctcctactaagcgccag Alignment from CESAR GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG--- tagtgttgcgtgtccccccaagtaatgagggtctgcctgtctttcctcagATTCTTACAAAGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCTACGTACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTTTGTTAATGTCTgtaagtttagctgttgataggctgaacgttatcctcctactaagcgccag Alignment from Spaln_aa2Genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG--- tagtgttgcgtgtccccccaagtaatgagggtctgcctgtctttcctcagATTCTTACAAAGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCTACGTACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTTTGTTAATGTCTgtaagtttagctgttgataggctgaacgttatcctcctactaagcgccag Alignment from Spaln_nt2Genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG--- tagtgttgcgtgtccccccaagtaatgagggtctgcctgtctttcctcagATTCTTACAAAGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCTACGTACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTTTGTTAATGTCTgtaagtttagctgttgataggctgaacgttatcctcctactaagcgccag Alignment from Pairagon GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG--- tagtgttgcgtgtccccccaagtaatgagggtctgcctgtctttcctcagATTCTTACAAAGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCTACGTACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTTTGTTAATGTCTgtaagtttagctgttgataggctgaacgttatcctcctactaagcgccag Alignment from Exonerate_protein2genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG--- tagtgttgcgtgtccccccaagtaatgagggtctgcctgtctttcctcagATTCTTACAAAGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCTACGTACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTTTGTTAATGTCTgtaagtttagctgttgataggctgaacgttatcctcctactaagcgccag Alignment from Exonerate_coding2genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG--- tagtgttgcgtgtccccccaagtaatgagggtctgcctgtctttcctcagATTCTTACAAAGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCTACGTACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTTTGTTAATGTCTgtaagtttagctgttgataggctgaacgttatcctcctactaagcgccag Alignment from GeneWise GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATGACA tagtgttgcgtgtccccccaagtaatgagggtctgcctgtctttcctcagATTCTTACAAAGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCTACGTACCACAATTGGCGGCATGGGTCAAATGTGGGGTATACGATATCTCCTTTGTTAATGTCTgtaagtttagctgttgataggctgaacgttatcctcctactaagcgccag #### Peo1_ID9266_3 --> 1 - 2 Original Alignment gTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACag tccagattaaagactttcttcatttgaggttcttttttgttcttccttaggTCTGTCATAGACACAATGCAACATGCAGTATATGTCTATGATATCTGTCATGTGGTCATTGACAACTTGCCATTCATGATGGGTCATGAGCAGCTT---------aggtacagtaatccactccgtgaattcaagggtctgactgacacatgttgct Alignment from CESAR gTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACag tccagattaaagactttcttcatttgaggttcttttttgttcttccttaggTCTGTCATAGACACAATGCAACATGCAGTATATGTCTATGATATCTGTCATGTGGTCATTGACAACTTGCCATTCATGATGGGTCATGAGCAGCTT---------aggtacagtaatccactccgtgaattcaagggtctgactgacacatgttgct Alignment from Spaln_aa2Genome GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTC tccagattaaagactttcttcatttgaggttcttttttgttcttccttagGTCTGTCATAGACACAATGCAACATGCAGTATATGTCTATGATATCTGTCATGTGGTCATTGACAACTTGCCATTCATGATGGGTCATGAGCAGCTTAGgtacagtaatccactccgtgaattcaagggtctgactgacacatgttgct Alignment from Spaln_nt2Genome GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCT tccagattaaagactttcttcatttgaggttcttttttgttcttccttagGTCTGTCATAGACACAATGCAACATGCAGTATATGTCTATGATATCTGTCATGTGGTCATTGACAACTTGCCATTCATGATGGGTCATGAGCAGCT----TAGgtacagtaatccactccgtgaattcaagggtctgactgacacatgttgct Alignment from Pairagon GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCT----------------CTCC tccagattaaagactttcttcatttgaggttcttttttgttcttccttagGTCTGTCATAGACACAATGCAACATGCAGTATATGTCTATGATATCTGTCATGTGGTCATTGACAACTTGCCATTCATGATGGGTCATGAGCAGCTTAGGTACAGTAATCCACTCCgtgaattcaagggtctgactgacacatgttgct Alignment from Exonerate_protein2genome GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTC tccagattaaagactttcttcatttgaggttcttttttgttcttccttagGTCTGTCATAGACACAATGCAACATGCAGTATATGTCTATGATATCTGTCATGTGGTCATTGACAACTTGCCATTCATGATGGGTCATGAGCAGCTTAGgtacagtaatccactccgtgaattcaagggtctgactgacacatgttgct Alignment from Exonerate_coding2genome GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTC tccagattaaagactttcttcatttgaggttcttttttgttcttccttagGTCTGTCATAGACACAATGCAACATGCAGTATATGTCTATGATATCTGTCATGTGGTCATTGACAACTTGCCATTCATGATGGGTCATGAGCAGCTTAGgtacagtaatccactccgtgaattcaagggtctgactgacacatgttgct Alignment from GeneWise GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTC tccagattaaagactttcttcatttgaggttcttttttgttcttccttagGTCTGTCATAGACACAATGCAACATGCAGTATATGTCTATGATATCTGTCATGTGGTCATTGACAACTTGCCATTCATGATGGGTCATGAGCAGCTTAGgtacagtaatccactccgtgaattcaagggtctgactgacacatgttgct #### Pga5_ID2972_6 --> 1 - 2 Original Alignment c---AAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATag tcatacactttgaagtcctccagagatttttcatatttccatttctttagtTATAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGATCCCTCCTACTACCATGGAGAACTTCACTGGGTACCTGTCTCAAAGCCCAGTTACTGGCAGTTAGCTGTGGATaggtaacccataggtgcttctcgcccacaggccctatctcagcagcatgcat Alignment from CESAR c---AAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATag tcatacactttgaagtcctccagagatttttcatatttccatttctttagtTATAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGATCCCTCCTACTACCATGGAGAACTTCACTGGGTACCTGTCTCAAAGCCCAGTTACTGGCAGTTAGCTGTGGATaggtaacccataggtgcttctcgcccacaggccctatctcagcagcatgcat Alignment from Spaln_aa2Genome C----AAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacactttgaagtcctccagagatttttcatatttccatttctttagTTATAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGATCCCTCCTACTACCATGGAGAACTTCACTGGGTACCTGTCTCAAAGCCCAGTTACTGGCAGTTAGCTGTGGATAGgtaacccataggtgcttctcgcccacaggccctatctcagcagcatgcat Alignment from Spaln_nt2Genome CAAGGATGAA---AAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacactttgaagtcctccagagatttttcatatttccatttctttagTTATAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGATCCCTCCTACTACCATGGAGAACTTCACTGGGTACCTGTCTCAAAGCCCAGTTACTGGCAGTTAGCTGTGGATAGgtaacccataggtgcttctcgcccacaggccctatctcagcagcatgcat Alignment from Pairagon ---CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacactttgaagtcctccagagatttttcatatttccatttctttagTTATAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGATCCCTCCTACTACCATGGAGAACTTCACTGGGTACCTGTCTCAAAGCCCAGTTACTGGCAGTTAGCTGTGGATAGgtaacccataggtgcttctcgcccacaggccctatctcagcagcatgcat Alignment from Exonerate_protein2genome C---AAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacactttgaagtcctccagagatttttcatatttccatttctttagTTATAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGATCCCTCCTACTACCATGGAGAACTTCACTGGGTACCTGTCTCAAAGCCCAGTTACTGGCAGTTAGCTGTGGATAGgtaacccataggtgcttctcgcccacaggccctatctcagcagcatgcat Alignment from Exonerate_coding2genome C---AAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacactttgaagtcctccagagatttttcatatttccatttctttagTTATAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGATCCCTCCTACTACCATGGAGAACTTCACTGGGTACCTGTCTCAAAGCCCAGTTACTGGCAGTTAGCTGTGGATAGgtaacccataggtgcttctcgcccacaggccctatctcagcagcatgcat Alignment from GeneWise -AGCAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacactttgaagtcctccagagatttttcatatttccatttctttagTTATAAGGATGAAAAGGGCAGCATGTTAATGTTAGGAGGAGTAGATCCCTCCTACTACCATGGAGAACTTCACTGGGTACCTGTCTCAAAGCCCAGTTACTGGCAGTTAGCTGTGGATAGgtaacccataggtgcttctcgcccacaggccctatctcagcagcatgcat #### Pitpnm1_ID306_3 --> 1 - 1 Original Alignment gTACACCTGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTGg ttgcatgaccttcagacctgaatgttactcctcatgttctcttgtcacagg------TGCCCCTTCATTGAGAAGTTCTCAATTGAAATAGAGACCTACTACTTGCCTGATGGGGGTCAGCAACTTAATGTCCTCAAC---AGTGGGGCTGAGAGAAGACAGCGAATTGTTggtaagtccttccaggttactatgtcttgatatgatgtgaactgaggtctt Alignment from CESAR gTACACCTGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTGg tttacattgcatgaccttcagaccttactcctcatgttctcttgtcacagg------TGCCCCTTCATTGAGAAGTTCTCAATTGAAATAGAGACCTACTACTTGCCTGATGGGGGTCAGCAACTTAATGTCCTCAAC---AGTGGGGCTGAGAGAAGACAGCGAATTGTTggtaagtccttccaggttactatgtcttgatatgatgtgaactgaggtctt Alignment from Spaln_aa2Genome GTACACCTGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTGG ttgcatgaccttcagacctgaatgttactcctcatgttctcttgtcacagG------TGCCCCTTCATTGAGAAGTTCTCAATTGAAATAGAGACCTACTACTTGCCTGATGGGGGTCAGCAACTTAATGTCCTCAAC---AGTGGGGCTGAGAGAAGACAGCGAATTGTTGgtaagtccttccaggttactatgtcttgatatgatgtgaactgaggtctt Alignment from Spaln_nt2Genome -- TGCCCCTTTGTGGAG-AAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTGG TTgcatgaccttcagacctgaatgttactcctcatgttctcttgtcacagGTGCCCCTTCATTGAGAAGTTCTCAATTGAAATAGAGACCTACTACTTGCCTGATGGGGGTCAGCAACTTAATGTCCTCAAC---AGTGGGGCTGAGAGAAGACAGCGAATTGTTGgtaagtccttccaggttactatgtcttgatatgatgtgaactgaggtctt Alignment from Pairagon ---------------------------------------------------TGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTGG TTGCATGACCTTCAGACCTGAATGTTACTCCTCATGTTCTCTTGTCACAGGTGCCCCTTCATTGAGAAGTTCTCAATTGAAATAGAGACCTACTACTTGCCTGATGGGGGTCAGCAACTTAATGTCCTCAAC---AGTGGGGCTGAGAGAAGACAGCGAATTGTTGgtaagtccttccaggttactatgtcttgatatgatgtgaactgaggtctt Alignment from Exonerate_protein2genome GTACACCTGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTGG ttgcatgaccttcagacctgaatgttactcctcatgttctcttgTCACAGGTGCCCCTTCATTGAGAAGTTCTCAATTGAAATAGAGACCTACTACTTGCCTGATGGGGGTCAGCAACTTAATGTCCTCAAC---AGTGGGGCTGAGAGAAGACAGCGAATTGTTGgtaagtccttccaggttactatgtcttgatatgatgtgaactgaggtctt Alignment from Exonerate_coding2genome GTACACCTGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTGG ttgcatgaccttcagacctgaatgttactcctcatgttctcttgTCACAGGTGCCCCTTCATTGAGAAGTTCTCAATTGAAATAGAGACCTACTACTTGCCTGATGGGGGTCAGCAACTTAATGTCCTCAAC---AGTGGGGCTGAGAGAAGACAGCGAATTGTTGgtaagtccttccaggttactatgtcttgatatgatgtgaactgaggtctt Alignment from GeneWise GTACACCTGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTGG ttgcatgaccttcagacctgaatgttactcctcatgttctcttgtcacagG------TGCCCCTTCATTGAGAAGTTCTCAATTGAAATAGAGACCTACTACTTGCCTGATGGGGGTCAGCAACTTAATGTCCTCAAC---AGTGGGGCTGAGAGAAGACAGCGAATTGTTGgtaagtccttccaggttactatgtcttgatatgatgtgaactgaggtctt #### Pitpnm1_ID313_10 --> 1 - 0 Original Alignment cCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG cagatcagatatgtttgtgtcacctttcagtatcaaaatctctgcaccagt---AGTCCTTACAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTACCCTGCCTCTTTTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTTACCACCGTTATTGCTCACACCAACCAGGCCTTTGCAGCTTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtttgtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct Alignment from CESAR cCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG aagcagatcagatatgtttgtgtcattcagtatcaaaatctctgcaccagt---AGTCCTTACAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTACCCTGCCTCTTTTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTTACCACCGTTATTGCTCACACCAACCAGGCCTTTGCAGCTTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtttgtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct Alignment from Spaln_aa2Genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG cagatcagatatgtttgtgtcacctttcagtatcaaaatctctgcaccagT---AGTCCTTACAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTACCCTGCCTCTTTTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTTACCACCGTTATTGCTCACACCAACCAGGCCTTTGCAGCTTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtttgtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct Alignment from Spaln_nt2Genome GAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG cagatcagatatgtttgtgtcacctttcagtatcaaaatctctgcaccagTAGTCCTTACAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTACCCTGCCTCTTTTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTTACCACCGTTATTGCTCACACCAACCAGGCCTTTGCAGCTTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtttgtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct Alignment from Pairagon CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG cagatcagatatgtttgtgtcacctttcagtatcaaaatctctgcaccag---TAGTCCTTACAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTACCCTGCCTCTTTTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTTACCACCGTTATTGCTCACACCAACCAGGCCTTTGCAGCTTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtttgtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct Alignment from Exonerate_protein2genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG cagatcagatatgtttgtgtcacctttcagtatcaaaatctctgcacCAGTAGTCCTTACAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTACCCTGCCTCTTTTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTTACCACCGTTATTGCTCACACCAACCAGGCCTTTGCAGCTTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtttgtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct Alignment from Exonerate_coding2genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG cagatcagatatgtttgtgtcacctttcagtatcaaaatctctgcacCAGTAGTCCTTACAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTACCCTGCCTCTTTTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTTACCACCGTTATTGCTCACACCAACCAGGCCTTTGCAGCTTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtttgtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct Alignment from GeneWise CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG cagatcagatatgtttgtgtcacctttcagtatcaaaatctctgcaccagT---AGTCCTTACAGCCATGATGGAGATTGTCTATCCCGATCCCCAGACCACATTCCATTGGCTACCCTGCCTCTTTTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTTACCACCGTTATTGCTCACACCAACCAGGCCTTTGCAGCTTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtttgtgtgactgtgtttgcataagttagtcaaaacttatgctgctgcct #### Pitpnm1_ID314_11 --> 0 - 0 Original Alignment GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG gtagaaaaaccagcatattcactgagtcgctgcttttactgtctctgcag---------ATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCTCTGCCGCAGTGCCAGTGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCGTGGGAGCATGgtaggcttccaacccagggagccagcagccgagggagccagggcagcaat Alignment from CESAR GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG tccatacaggtagaaaaaccagcatgtcgctgcttttactgtctctgcag---------ATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCTCTGCCGCAGTGCCAGTGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCGTGGGAGCATGgtaggcttccaacccagggagccagcagccgagggagccagggcagcaat Alignment from Spaln_aa2Genome ATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG gtagaaaaaccagcatattcactgagtcgctgcttttactgtctctgcagATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCTCTGCCGCAGTGCCAGTGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCGTGGGAGCATGgtaggcttccaacccagggagccagcagccgagggagccagggcagcaat Alignment from Spaln_nt2Genome GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG gtagaaaaaccagcatattcactgagtcgctgcttttactgtctctgcag---------ATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCTCTGCCGCAGTGCCAGTGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCGTGGGAGCATGgtaggcttccaacccagggagccagcagccgagggagccagggcagcaat Alignment from Pairagon GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG gtagaaaaaccagcatattcactgagtcgctgcttttactgtctctgcag---------ATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCTCTGCCGCAGTGCCAGTGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCGTGGGAGCATGgtaggcttccaacccagggagccagcagccgagggagccagggcagcaat Alignment from Exonerate_protein2genome GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG gtagaaaaaccagcatattcactgagtcgctgcttttactgTCTCTGCAGATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCTCTGCCGCAGTGCCAGTGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCGTGGGAGCATGgtaggcttccaacccagggagccagcagccgagggagccagggcagcaat Alignment from Exonerate_coding2genome GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG gtagaaaaaccagcatattcactgagtcgctgcttttactgTCTCTGCAGATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCTCTGCCGCAGTGCCAGTGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCGTGGGAGCATGgtaggcttccaacccagggagccagcagccgagggagccagggcagcaat Alignment from GeneWise ---------------GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG gtagaaaaaccagcatattcactgagTCGCTGCTTTTACTGTCTCTGCAGATTGGAGATGGGGTTGGTGGCATTCTTGGTTTTGATGCTCTCTGCCGCAGTGCCAGTGCAGGCCCAGGGAGCCAGGGCAGCAGCCACCGTGGGAGCATGgtaggcttccaacccagggagccagcagccgagggagccagggcagcaat #### Pitpnm1_ID319_16 --> 2 - 0 Original Alignment tcCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG--------- agtatacagttgaagctgctttgtactcgaacacttctcatccactgcagtcCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCGGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGCGCTGCCTGgtgagtacaccccgggattggcccaacactgagccgagacaacaggaact Alignment from CESAR tcCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG--------- agtatacagttgaagctgctttgtactcgaacacttctcatccactgcagtcCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCGGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGCGCTGCCTGgtgagtacaccccgggattggcccaacactgagccgagacaacaggaact Alignment from Spaln_aa2Genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG--------- agtatacagttgaagctgctttgtactcgaacacttctcatccactgcagTCCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCGGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGCGCTGCCTGgtgagtacaccccgggattggcccaacactgagccgagacaacaggaact Alignment from Spaln_nt2Genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG--------- agtatacagttgaagctgctttgtactcgaacacttctcatccactgcagTCCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCGGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGCGCTGCCTGgtgagtacaccccgggattggcccaacactgagccgagacaacaggaact Alignment from Pairagon TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG--------- agtatacagttgaagctgctttgtactcgaacacttctcatccactgcagTCCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCGGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGCGCTGCCTGgtgagtacaccccgggattggcccaacactgagccgagacaacaggaact Alignment from Exonerate_protein2genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agtatacagttgaagctgctttgtactcgaacacttctcatccactgcagTCCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCGGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGcgctgcctggtgagtacaccccgggattggcccaacactgagccgagacaacaggaact Alignment from Exonerate_coding2genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agtatacagttgaagctgctttgtactcgaacacttctcatccactgcagTCCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCGGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGcgctgcctggtgagtacaccccgggattggcccaacactgagccgagacaacaggaact Alignment from GeneWise TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG--------- agtatacagttgaagctgctttgtactcgaacacttctcatccactgcagTCCTGGACCGCTGGTGGGGAAACAAGCGCATTGATTATTCACTCTACTGCCCGGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCATGCAAGCTACTGGGAGTCAGCAGATGTAGTTGCCTTCATTCTGCGCCAGCGCTGCCTGgtgagtacaccccgggattggcccaacactgagccgagacaacaggaact #### Pitpnm1_ID321_18 --> 0 - 0 Original Alignment AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAG--- GTGGATGTCTACGTCATGACACAGC taacttacttcgcttccatccttcttgttatatgctgtttgttttaccagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGATATGTGAGGGCCATCCCCAGGTACTCAATGGCCATTTCATGTATGGACCATTGGATGTAGTTACACTCACCGGAGAAGAGATGgtgttcacacttctcttctcctcagGTTGATGTCTATGTCATGACACAGC Alignment from CESAR AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAG--- GTGGATGTCTACGTCATGACACAGC taacttacttcgcttccatccttcttgttatatgctgtttgttttaccagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGATATGTGAGGGCCATCCCCAGGTACTCAATGGCCATTTCATGTATGGACCATTGGATGTAGTTACACTCACCGGAGAAGAGATGgtcgcagcgtgcttttctttgacagGTTGATGTCTATGTCATGACACAGC Alignment from Spaln_aa2Genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAG----------------------------AAGGTGGATGTCTACGTCATGACACAGC taacttacttcgcttccatccttcttgttatatgctgtttgttttaccagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGATATGTGAGGGCCATCCCCAGGTACTCAATGGCCATTTCATGTATGGACCATTGGATGTAGTTACACTCACCGGAGAAGAGATGGTGTTCACACTTCTCTTCTCCtCAGGTTGATGTCTATGTCATGACACAGC Alignment from Spaln_nt2Genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGA---GAAGGTG-------------------------GATGTCTACGTCATGACACAGC taacttacttcgcttccatccttcttgttatatgctgtttgttttaccagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGATATGTGAGGGCCATCCCCAGGTACTCAATGGCCATTTCATGTATGGACCATTGGATGTAGTTACACTCACCGGAGAAGAGATGGTGTTCACACTTCTCTTCTCCTCAGGTTGATGTCTATGTCATGACACAGC Alignment from Pairagon AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAGGTG----------------------------GATGTCTACGTCATGACACAGC taacttacttcgcttccatccttcttgttatatgctgtttgttttaccagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGATATGTGAGGGCCATCCCCAGGTACTCAATGGCCATTTCATGTATGGACCATTGGATGTAGTTACACTCACCGGAGAAGAGATGGTGTTCACACTTCTCTTCTCCTCAGGTTGATGTCTATGTCATGACACAGC Alignment from Exonerate_protein2genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAG AAGGTGGATGTCTACGTCATGACAC taacttacttcgcttccatccttcttgttatatgctgtttgttttaccagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGATATGTGAGGGCCATCCCCAGGTACTCAATGGCCATTTCATGTATGGACCATTGGATGTAGTTACACTCACCGGAGAAgagatggtgttcacacttctcttctcctcag---GTTGATGTCTATGTCATGACAC Alignment from Exonerate_coding2genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAG AAGGTGGATGTCTACGTCATGACAC taacttacttcgcttccatccttcttgttatatgctgtttgttttaccagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGATATGTGAGGGCCATCCCCAGGTACTCAATGGCCATTTCATGTATGGACCATTGGATGTAGTTACACTCACCGGAGAAgagatggtgttcacacttctcttctcctcag---GTTGATGTCTATGTCATGACAC Alignment from GeneWise AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAGGTG ---GATGTCTACGTCATGACACAGC taacttacttcgcttccatccttcttgttatatgctgtttgttttaccagAATGTCACTTCTAACCACAGAGCAAGTGACACTGTGATATGTGAGGGCCATCCCCAGGTACTCAATGGCCATTTCATGTATGGACCATTGGATGTAGTTACACTCACCGGAGAAGAGATGgtgttcacacttctcttctcctcagGTTGATGTCTATGTCATGACACAGC #### Pitpnm1_ID323_20 --> 1 - 2 Original Alignment gGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCag gtgaaacactgacttactctgtatgaatccttcctcacaccgtttctcagg------CACACATATGCTGAATGCTGCTTAACCATTGTCTCCAGAGGTGCTGAAGCGGTGGTTTTCAGCATTGATGGTTCTTTTACTGCAAGTGTCTCAATCATGGGCAGTGACCCCAAGGTGCGAGCTGGAGCAGTAGATGTGGTGaggtaaccccagactgccgggccatatattgatcttctgtctgtgatgtggt Alignment from CESAR gGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCag gctcctgtgaaacactgacttactcaatccttcctcacaccgtttctcagg------CACACATATGCTGAATGCTGCTTAACCATTGTCTCCAGAGGTGCTGAAGCGGTGGTTTTCAGCATTGATGGTTCTTTTACTGCAAGTGTCTCAATCATGGGCAGTGACCCCAAGGTGCGAGCTGGAGCAGTAGATGTGGTGaggtaaccccagactgccgggccatatattgatcttctgtctgtgatgtggt Alignment from Spaln_aa2Genome CCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG gtgaaacactgacttactctgtatgaatccttcctcacaccgtttctcagGCACACATATGCTGAATGCTGCTTAACCATTGTCTCCAGAGGTGCTGAAGCGGTGGTTTTCAGCATTGATGGTTCTTTTACTGCAAGTGTCTCAATCATGGGCAGTGACCCCAAGGTGCGAGCTGGAGCAGTAGATGTGGTGAGgtaaccccagactgccgggccatatattgatcttctgtctgtgatgtggt Alignment from Spaln_nt2Genome CCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG gtgaaacactgacttactctgtatgaatccttcctcacaccgtttctcagGCACACATATGCTGAATGCTGCTTAACCATTGTCTCCAGAGGTGCTGAAGCGGTGGTTTTCAGCATTGATGGTTCTTTTACTGCAAGTGTCTCAATCATGGGCAGTGACCCCAAGGTGCGAGCTGGAGCAGTAGATGTGGTGAGgtaaccccagactgccgggccatatattgatcttctgtctgtgatgtggt Alignment from Pairagon GGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG gtgaaacactgacttactctgtatgaatccttcctcacaccgtttctcagG------CACACATATGCTGAATGCTGCTTAACCATTGTCTCCAGAGGTGCTGAAGCGGTGGTTTTCAGCATTGATGGTTCTTTTACTGCAAGTGTCTCAATCATGGGCAGTGACCCCAAGGTGCGAGCTGGAGCAGTAGATGTGGTGAGgtaaccccagactgccgggccatatattgatcttctgtctgtgatgtggt Alignment from Exonerate_protein2genome gtgaaacactgacttactctgtatgaatccttcctcacaccgtttctcaggcacacatatgctgaatgctgcttaaccattgtctccagaggtgctgaagcggtggttttcagcattgatggttcttttactgcaagtgtctcaatcatgggcagtgaccccaaggtgcgagctggagcagtagatgtggtgaggtaaccccagactgccgggccatatattgatcttctgtctgtgatgtggt Alignment from Exonerate_coding2genome gtgaaacactgacttactctgtatgaatccttcctcacaccgtttctcaggcacacatatgctgaatgctgcttaaccattgtctccagaggtgctgaagcggtggttttcagcattgatggttcttttactgcaagtgtctcaatcatgggcagtgaccccaaggtgcgagctggagcagtagatgtggtgaggtaaccccagactgccgggccatatattgatcttctgtctgtgatgtggt Alignment from GeneWise CCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG gtgaaacactgacttactctgtatgaatccttcctcacaccgtttctcagGCACACATATGCTGAATGCTGCTTAACCATTGTCTCCAGAGGTGCTGAAGCGGTGGTTTTCAGCATTGATGGTTCTTTTACTGCAAGTGTCTCAATCATGGGCAGTGACCCCAAGGTGCGAGCTGGAGCAGTAGATGTGGTGAGgtaaccccagactgccgggccatatattgatcttctgtctgtgatgtggt #### Pkd2l1_ID8958_10 --> 0 - 0 Original Alignment AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG tgaagagcttcagagactactggctgcctgtttttgtttttcttttaaag------TTCCTGGCCATTATCAATGATACATACTCTGAAGTCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGCAGCTTTCTGACTTCCTAAAACAGgtttgtgccctgagctctgtataggtacaccctgagctctgtataggtac Alignment from CESAR AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG gatgaatgaagagcttcagagactagcctgtttttgtttttcttttaaag------TTCCTGGCCATTATCAATGATACATACTCTGAAGTCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGCAGCTTTCTGACTTCCTAAAACAGgtttgtgccctgagctctgtataggtacaccctgagctctgtataggtac Alignment from Spaln_aa2Genome AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG tgaagagcttcagagactactggctgcctgtttttgtttttcttttaaag------TTCCTGGCCATTATCAATGATACATACTCTGAAGTCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGCAGCTTTCTGACTTCCTAAAACAGgtttgtgccctgagctctgtataggtacaccctgagctctgtataggtac Alignment from Spaln_nt2Genome TTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG tgaagagcttcagagactactggctgcctgtttttgtttttcttttaaagTTCCTGGCCATTATCAATGATACATACTCTGAAGTCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGCAGCTTTCTGACTTCCTAAAACAGgtttgtgccctgagctctgtataggtacaccctgagctctgtataggtac Alignment from Pairagon AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG tgaagagcttcagagactactggctgcctgtttttgtttttcttttaaag------TTCCTGGCCATTATCAATGATACATACTCTGAAGTCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGCAGCTTTCTGACTTCCTAAAACAGgtttgtgccctgagctctgtataggtacaccctgagctctgtataggtac Alignment from Exonerate_protein2genome AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG tgaagagcttcagagactactggctgcctgtttttgtttttcttTTAAAGTTCCTGGCCATTATCAATGATACATACTCTGAAGTCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGCAGCTTTCTGACTTCCTAAAACAGgtttgtgccctgagctctgtataggtacaccctgagctctgtataggtac Alignment from Exonerate_coding2genome AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG tgaagagcttcagagactactggctgcctgtttttgtttttcttTTAAAGTTCCTGGCCATTATCAATGATACATACTCTGAAGTCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGCAGCTTTCTGACTTCCTAAAACAGgtttgtgccctgagctctgtataggtacaccctgagctctgtataggtac Alignment from GeneWise TTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG tgaagagcttcagagactactggctgcctgtttttgtttttcttttaaagTTCCTGGCCATTATCAATGATACATACTCTGAAGTCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGCAGCTTTCTGACTTCCTAAAACAGgtttgtgccctgagctctgtataggtacaccctgagctctgtataggtac #### Plcb3_ID1901_30 --> 0 - 0 Original Alignment ------CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tttcctcatcattgctctgcctacaaccctctcttccctgattcctccagCTAACTTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGGAAGAGAAACCCAAGgtgagaccttgtggggttgcatatacacaccaataggggaactggtcagc Alignment from CESAR CTG------GAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tttcctcatcattgctctgcctacaaccctctcttccctgattcctccagCTAACTTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGGAAGAGAAACCCAAGgtgagaccttgtggggttgcatatacacaccaataggggaactggtcagc Alignment from Spaln_aa2Genome ----CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tttcctcatcattgctctgcctacaaccctctcttccctgattcctccagCTAACTTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGGAAGAGAAACCCAAGgtgagaccttgtggggttgcatatacacaccaataggggaactggtcagc Alignment from Spaln_nt2Genome CT------GGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tttcctcatcattgctctgcctacaaccctctcttccctgattcctccagCTAACTTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGGAAGAGAAACCCAAGgtgagaccttgtggggttgcatatacacaccaataggggaactggtcagc Alignment from Pairagon C------TGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tttcctcatcattgctctgcctacaaccctctcttccctgattcctccagCTAACTTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGGAAGAGAAACCCAAGgtgagaccttgtggggttgcatatacacaccaataggggaactggtcagc Alignment from Exonerate_protein2genome CTGGAA------GAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tttcctcatcattgctctgcctacaaccctctcttccctgattcctccagCTAACTTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGGAAGAGAAACCCAAGgtgagaccttgtggggttgcatatacacaccaataggggaactggtcagc Alignment from Exonerate_coding2genome CTGGAA------GAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tttcctcatcattgctctgcctacaaccctctcttccctgattcctccagCTAACTTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGGAAGAGAAACCCAAGgtgagaccttgtggggttgcatatacacaccaataggggaactggtcagc Alignment from GeneWise ------CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tttcctcatcattgctctgcctacaaccctctcttccctgattcctccagCTAACTTTGGGGGAGGCCCAAAAACAGCAGCATGAACGGCTAGTGGCAGGACAACAGCAAGTCCTCCAGCAATTAGAGGAAGAGAAACCCAAGgtgagaccttgtggggttgcatatacacaccaataggggaactggtcagc #### Plcb3_ID1902_29 --> 1 - 0 Original Alignment gGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG--- gctctgagatgcagggcaatacttaagctcagtgccctcttgttttgcaggGAGTTGACAGAGATTAACCGGCAACACATCACTGAGTCCATAAATTCCAACAGACGGAAGgtacgtgggacttatctctttgtcaccaacggaggccatcctctactatt Alignment from CESAR gGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG--- gctctgagatgcagggcaatacttaagctcagtgccctcttgttttgcaggGAGTTGACAGAGATTAACCGGCAACACATCACTGAGTCCATAAATTCCAACAGACGGAAGgtacgtgggacttatctctttgtcaccaacggaggccatcctctactatt Alignment from Spaln_aa2Genome GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG--- gctctgagatgcagggcaatacttaagctcagtgccctcttgttttgcagGGAGTTGACAGAGATTAACCGGCAACACATCACTGAGTCCATAAATTCCAACAGACGGAAGgtacgtgggacttatctctttgtcaccaacggaggccatcctctactatt Alignment from Spaln_nt2Genome GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGGC-- gctctgagatgcagggcaatacttaagctcagtgccctcttgttttgcagGGAGTTGACAGAGATTAACCGGCAACACATCACTGAGTCCATAAATTCCAACAGACGGAAGgtacgtgggacttatctctttgtcaccaacggaggccatcctctactatt Alignment from Pairagon GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG--- gctctgagatgcagggcaatacttaagctcagtgccctcttgttttgcagGGAGTTGACAGAGATTAACCGGCAACACATCACTGAGTCCATAAATTCCAACAGACGGAAGgtacgtgggacttatctctttgtcaccaacggaggccatcctctactatt Alignment from Exonerate_protein2genome GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG--- gctctgagatgcagggcaatacttaagctcagtgccctcttgttttgcagGGAGTTGACAGAGATTAACCGGCAACACATCACTGAGTCCATAAATTCCAACAGACGGAAGgtacgtgggacttatctctttgtcaccaacggaggccatcctctactatt Alignment from Exonerate_coding2genome GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG--- gctctgagatgcagggcaatacttaagctcagtgccctcttgttttgcagGGAGTTGACAGAGATTAACCGGCAACACATCACTGAGTCCATAAATTCCAACAGACGGAAGgtacgtgggacttatctctttgtcaccaacggaggccatcctctactatt Alignment from GeneWise GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGGCTG gctctgagatgcagggcaatacttaagctcagtgccctcttgttttgcagGGAGTTGACAGAGATTAACCGGCAACACATCACTGAGTCCATAAATTCCAACAGACGGAAGgtacgtgggacttatctctttgtcaccaacggaggccatcctctactatt #### Plcb3_ID1903_28 --> 1 - 2 Original Alignment gGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAG---------------gt gtatgactctttttacccaatctgagctctgtgtcccatttcctccacagg---AAAAAGGAGCCTCAAAAGATCCTGGATAGGGAGCGCAACAATAGCATTTCAGAGGCCAAGACAAGGGAGAAACATAAAAAGGAAGTGTATGGGCACTGGgtgtaagtgctctgagatgcagggcaatacttaagccaatggcccattgttg Alignment from CESAR gGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGgt tcagtatgactctttttacccaatcgctctgtgtcccatttcctccacagg---AAAAAGGAGCCTCAAAAGATCCTGGATAGGGAGCGCAACAATAGCATTTCAGAGGCCAAGACAAGGGAGAAACATAAAAAGGAAgtgtatgggcactgggtgtaagtgctctgagatgcagggcaatacttaagctcagtgccctcttgtt Alignment from Spaln_aa2Genome GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT gtatgactctttttacccaatctgagctctgtgtcccatttcctccacagG---AAAAAGGAGCCTCAAAAGATCCTGGATAGGGAGCGCAACAATAGCATTTCAGAGGCCAAGACAAGGGAGAAACATAAAAAGGAAGTgtatgggcactgggtgtaagtgctctgagatgcagggcaatacttaagccaatggcccattgttg Alignment from Spaln_nt2Genome GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT gtatgactctttttacccaatctgagctctgtgtcccatttcctccacag---GAAAAAGGAGCCTCAAAAGATCCTGGATAGGGAGCGCAACAATAGCATTTCAGAGGCCAAGACAAGGGAGAAACATAAAAAGGAAGTgtatgggcactgggtgtaagtgctctgagatgcagggcaatacttaagccaatggcccattgttg Alignment from Pairagon GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT gtatgactctttttacccaatctgagctctgtgtcccatttcctccacag---GAAAAAGGAGCCTCAAAAGATCCTGGATAGGGAGCGCAACAATAGCATTTCAGAGGCCAAGACAAGGGAGAAACATAAAAAGGAAGTgtatgggcactgggtgtaagtgctctgagatgcagggcaatacttaagccaatggcccattgttg Alignment from Exonerate_protein2genome GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT gtatgactctttttacccaatctgagctctgtgtcccatttcctccacagG---AAAAAGGAGCCTCAAAAGATCCTGGATAGGGAGCGCAACAATAGCATTTCAGAGGCCAAGACAAGGGAGAAACATAAAAAGGAAGTgtatgggcactgggtgtaagtgctctgagatgcagggcaatacttaagccaatggcccattgttg Alignment from Exonerate_coding2genome GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT gtatgactctttttacccaatctgagctctgtgtcccatttcctccacagG---AAAAAGGAGCCTCAAAAGATCCTGGATAGGGAGCGCAACAATAGCATTTCAGAGGCCAAGACAAGGGAGAAACATAAAAAGGAAGTgtatgggcactgggtgtaagtgctctgagatgcagggcaatacttaagccaatggcccattgttg Alignment from GeneWise GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT gtatgactctttttacccaatctgagctctgtgtcccatttcctccacagG---AAAAAGGAGCCTCAAAAGATCCTGGATAGGGAGCGCAACAATAGCATTTCAGAGGCCAAGACAAGGGAGAAACATAAAAAGGAAGTgtatgggcactgggtgtaagtgctctgagatgcagggcaatacttaagccaatggcccattgttg #### Plcb3_ID1905_26 --> 1 - 0 Original Alignment gGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG------ GCTCA agaggtccagttatgtcagtcagagagtatcctagctttttttcccacaggGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAACTGAGAGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGGATGAGgtaatggatcagtggggggtggtgtgtgtgtgtctgtgctttaagGCGCA Alignment from CESAR gGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG------ GCTCA agaggtccagttatgtcagtcagagagtatcctagctttttttcccacaggGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAACTGAGAGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGGATGAGgtaatggatcagtggggggtggtcctgccacatcggctctcctagGCGCA Alignment from Spaln_aa2Genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG------ GCTCA agaggtccagttatgtcagtcagagagtatcctagctttttttcccacagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAACTGAGAGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGGATGAGgtaatggatcagtggggggtggtgtgtgtgtgtctgtgctttaagGCGCA Alignment from Spaln_nt2Genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAGGCT--- ---CA agaggtccagttatgtcagtcagagagtatcctagctttttttcccacagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAACTGAGAGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGGATGAGgtaatggatcagtggggggtggtgtgtgtgtgtctgtgctttaagGCGCA Alignment from Pairagon GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGAC---------------------------------------------------AGGCTCA agaggtccagttatgtcagtcagagagtatcctagctttttttcccacagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAACTGAGAGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGGATGAGGTAATGGATCAGTGGGGGGTGGTGTGTGTGTGTCTGTGCTTTAAGGCGCA Alignment from Exonerate_protein2genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAGG CTCA agaggtccagttatgtcagtcagagagtatcctagctttttttcccacagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAACTGAGAGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGGatgaggtaatggatcagtggggggtggtgtgtgtgtgtctgtgctttaaggCGCA Alignment from Exonerate_coding2genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAGG CTCA agaggtccagttatgtcagtcagagagtatcctagctttttttcccacagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAACTGAGAGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGGatgaggtaatggatcagtggggggtggtgtgtgtgtgtctgtgctttaaggCGCA Alignment from GeneWise GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG---------------------------------------------------GCTCA agaggtccagttatgtcagtcagagagtatcctagctttttttcccacagGGGCAAGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGACTTGCAGAACCAAAAAGCACAGAGCTTGTTGGAACTGAGAGAAGCCCAGGGTGATGTGGAGACCAACCGCAAGCTGGAACATCTACGACAGGATGAGGTAATGGATCAGTGGGGGGTGGTGTGTGTGTGTCTGTGCTTTAAGGCGCA #### Plcb3_ID1907_24 --> 2 - 1 Original Alignment gg---------CAGCGAGATGATTTGATTGCCAGCATCCTCTCTg gagccagacgtattggattgcttcactctttttccttccttttcacaaagggCAACCTCAACAGCCAGATGATTTGATTGCAAGCACCCTTTCAggtatgaggtgttcatgagaccagggcaaggtgtcctaggcagtcaatcct Alignment from CESAR gg---------CAGCGAGATGATTTGATTGCCAGCATCCTCTCTg gagccagacgtattggattgcttcactctttttccttccttttcacaaagggCAACCTCAACAGCCAGATGATTTGATTGCAAGCACCCTTTCAggtatgaggtgttcatgagaccagggcaaggtgtcctaggcagtcaatcct Alignment from Spaln_aa2Genome GG---------CAGCGAGATGATTTGATTGCCAGCATCCTCTCTG gagccagacgtattggattgcttcactctttttccttccttttcacaaagGGCAACCTCAACAGCCAGATGATTTGATTGCAAGCACCCTTTCAGgtatgaggtgttcatgagaccagggcaaggtgtcctaggcagtcaatcct Alignment from Spaln_nt2Genome GGCAGCGAGATGA---------TTTGATTGCCAGCATCCTCTCTG gagccagacgtattggattgcttcactctttttccttccttttcacaaagGGCAACCTCAACAGCCAGATGATTTGATTGCAAGCACCCTTTCAGgtatgaggtgttcatgagaccagggcaaggtgtcctaggcagtcaatcct Alignment from Pairagon ------------------------------------------------------------GCAGCGAGATGATTTGATTGCCAGCATCCTCTCTG GAGCCAGACGTATTGGATTGCTTCACTCTTTTTCCTTCCTTTTCACAAAGGGCAACCTCAACAGCCAGATGATTTGATTGCAAGCACCCTTTCAGgtatgaggtgttcatgagaccagggcaaggtgtcctaggcagtcaatcct Alignment from Exonerate_protein2genome CTCAGTAGCCCAGGGCAGCGAGATGATTTGATTGCCAGCATCCTCTCTG gagccagacgtattggattgcttcactctttttccttccttttcacAAAGGGCAACCTCAACAGCCAGATGATTTGATTGCAAGCACCCTTTCAGgtatgaggtgttcatgagaccagggcaaggtgtcctaggcagtcaatcct Alignment from Exonerate_coding2genome gagccagacgtattggattgcttcactctttttccttccttttcacaaagggcaacctcaacagccagatgatttgattgcaagcaccctttcaggtatgaggtgttcatgagaccagggcaaggtgtcctaggcagtcaatcct Alignment from GeneWise gagccagacgtattggattgcttcactctttttccttccttttcacaaagggcaacctcaacagccagatgatttgattgcaagcaccctttcaggtatgaggtgttcatgagaccagggcaaggtgtcctaggcagtcaatcct #### Plcb3_ID1911_20 --> 0 - 1 Original Alignment GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAg ttttgccatatgctagctgtgagagagccatttatttctttcccttttag---GTACTACCCACAGTGGCTTCACTCCGCATTGCAGTTTTTGAGAAGGGTGGCAAGTTTGTTGGGCACCGAACTCTACCTGTATCTGCAATCCACTCAggtcagattgggggctgagctctaacacagttacaaaatcgtgtgatgcac Alignment from CESAR GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAg ctgttttgccatatgctagctgtgaagccatttatttctttcccttttag---GTACTACCCACAGTGGCTTCACTCCGCATTGCAGTTTTTGAGAAGGGTGGCAAGTTTGTTGGGCACCGAACTCTACCTGTATCTGCAATCCACTCAggtcagattgggggctgagctctaacacagttacaaaatcgtgtatgctga Alignment from Spaln_aa2Genome GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAG ttttgccatatgctagctgtgagagagccatttatttctttcccttttag---GTACTACCCACAGTGGCTTCACTCCGCATTGCAGTTTTTGAGAAGGGTGGCAAGTTTGTTGGGCACCGAACTCTACCTGTATCTGCAATCCACTCAGgtcagattgggggctgagctctaacacagttacaaaatcgtgtgatgcac Alignment from Spaln_nt2Genome GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAG ttttgccatatgctagctgtgagagagccatttatttctttcccttttag---GTACTACCCACAGTGGCTTCACTCCGCATTGCAGTTTTTGAGAAGGGTGGCAAGTTTGTTGGGCACCGAACTCTACCTGTATCTGCAATCCACTCAGgtcagattgggggctgagctctaacacagttacaaaatcgtgtgatgcac Alignment from Pairagon GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAG ttttgccatatgctagctgtgagagagccatttatttctttcccttttag---GTACTACCCACAGTGGCTTCACTCCGCATTGCAGTTTTTGAGAAGGGTGGCAAGTTTGTTGGGCACCGAACTCTACCTGTATCTGCAATCCACTCAGgtcagattgggggctgagctctaacacagttacaaaatcgtgtgatgcac Alignment from Exonerate_protein2genome GTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAG ttttgccatatgctagctgtgagagagccatttatttctttcccttttagGTACTACCCACAGTGGCTTCACTCCGCATTGCAGTTTTTGAGAAGGGTGGCAAGTTTGTTGGGCACCGAACTCTACCTGTATCTGCAATCCACTCAGgtcagattgggggctgagctctaacacagttacaaaatcgtgtgatgcac Alignment from Exonerate_coding2genome GTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAG ttttgccatatgctagctgtgagagagccatttatttctttcccttttagGTACTACCCACAGTGGCTTCACTCCGCATTGCAGTTTTTGAGAAGGGTGGCAAGTTTGTTGGGCACCGAACTCTACCTGTATCTGCAATCCACTCAGgtcagattgggggctgagctctaacacagttacaaaatcgtgtgatgcac Alignment from GeneWise GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAG ttttgccatatgctagctgtgagagagccatttatttctttcccttttagGTA---CTACCCACAGTGGCTTCACTCCGCATTGCAGTTTTTGAGAAGGGTGGCAAGTTTGTTGGGCACCGAACTCTACCTGTATCTGCAATCCACTCAGgtcagattgggggctgagctctaacacagttacaaaatcgtgtgatgcac #### Plcb3_ID1912_19 --> 0 - 0 Original Alignment GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG cacaggaaaaccctctcattaacttccacctgaaaacttctactccccagGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTCGGTATCTACGTTGAGGTGGACATGTTTGGCCTTCCATTAGATACCAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCT---------------------------------gtgagccctagcacctgtccctcccagttcatgcgaagatgaataccgct Alignment from CESAR GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG cacaggaaaaccctctcattaacttccacctgaaaacttctactccccagGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTCGGTATCTACGTTGAGGTGGACATGTTTGGCCTTCCATTAGATACCAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCT---------------------------------gtgagccctagcacctg Alignment from Spaln_aa2Genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCT cacaggaaaaccctctcattaacttccacctgaaaacttctactccccagGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTCGGTATCTACGTTGAGGTGGACATGTTTGGCCTTCCATTAGATACCAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTgtgagccctagcacctgtccctcccagttcatgcgaagatgaataccgct Alignment from Spaln_nt2Genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCT cacaggaaaaccctctcattaacttccacctgaaaacttctactccccagGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTCGGTATCTACGTTGAGGTGGACATGTTTGGCCTTCCATTAGATACCAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTgtgagccctagcacctgtccctcccagttcatgcgaagatgaataccgct Alignment from Pairagon GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCT cacaggaaaaccctctcattaacttccacctgaaaacttctactccccagGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTCGGTATCTACGTTGAGGTGGACATGTTTGGCCTTCCATTAGATACCAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTgtgagccctagcacctgtccctcccagttcatgcgaagatgaataccgct Alignment from Exonerate_protein2genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCT cacaggaaaaccctctcattaacttccacctgaaaacttctactccccagGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTCGGTATCTACGTTGAGGTGGACATGTTTGGCCTTCCATTAGATACCAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTgtgagccctagcacctgtccctcccagttcatgcgaagatgaataccgct Alignment from Exonerate_coding2genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCT cacaggaaaaccctctcattaacttccacctgaaaacttctactccccagGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTCGGTATCTACGTTGAGGTGGACATGTTTGGCCTTCCATTAGATACCAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTgtgagccctagcacctgtccctcccagttcatgcgaagatgaataccgct Alignment from GeneWise GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAA---CCCTTT-- cacaggaaaaccctctcattaacttccacctgaaaacttctactccccagGTGATTCCAGGGCAATTCCTATCTCACAAGAAAGTCGGTATCTACGTTGAGGTGGACATGTTTGGCCTTCCATTAGATACCAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTGAGCCCTAGCACCTGTCCCTCCCAgttcatgcgaagatgaataccgct #### Plcb3_ID1913_18 --> 2 - 0 Original Alignment atTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG------ ggtacaatgtatgctgatctctcactgcccatctccctttgttttcccagatTTGCCAATGCAGCTCAATGCAGGTGTTGTTGAGTACAATGGGCGCAGTGGGTATTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCACTGAGGTCATCGTAGATGCCCTAGTGGCCAATGCATTGAGGGTCAAGATGCTAgtaagagcataatgattatggcaacgggtttcttgaactgcctcccacta Alignment from CESAR atTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG------ ggtacaatgtatgctgatctctcactgcccatctccctttgttttcccagatTTGCCAATGCAGCTCAATGCAGGTGTTGTTGAGTACAATGGGCGCAGTGGGTATTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCACTGAGGTCATCGTAGATGCCCTAGTGGCCAATGCATTGAGGGTCAAGATGCTAgtaagagcataatgattatggcaacgggtttcttgaactgcctcccacta Alignment from Spaln_aa2Genome ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG------ ggtacaatgtatgctgatctctcactgcccatctccctttgttttcccagATTTGCCAATGCAGCTCAATGCAGGTGTTGTTGAGTACAATGGGCGCAGTGGGTATTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCACTGAGGTCATCGTAGATGCCCTAGTGGCCAATGCATTGAGGGTCAAGATGCTAgtaagagcataatgattatggcaacgggtttcttgaactgcctcccacta Alignment from Spaln_nt2Genome ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG------ ggtacaatgtatgctgatctctcactgcccatctccctttgttttcccagATTTGCCAATGCAGCTCAATGCAGGTGTTGTTGAGTACAATGGGCGCAGTGGGTATTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCACTGAGGTCATCGTAGATGCCCTAGTGGCCAATGCATTGAGGGTCAAGATGCTAgtaagagcataatgattatggcaacgggtttcttgaactgcctcccacta Alignment from Pairagon ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG------ ggtacaatgtatgctgatctctcactgcccatctccctttgttttcccagATTTGCCAATGCAGCTCAATGCAGGTGTTGTTGAGTACAATGGGCGCAGTGGGTATTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCACTGAGGTCATCGTAGATGCCCTAGTGGCCAATGCATTGAGGGTCAAGATGCTAgtaagagcataatgattatggcaacgggtttcttgaactgcctcccacta Alignment from Exonerate_protein2genome ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG ggtacaatgtatgctgatctctcactgcccatctccctttgttttcccagATTTGCCAATGCAGCTCAATGCAGGTGTTGTTGAGTACAATGGGCGCAGTGGGTATTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCACTGAGGTCATCGTAGATGCCCTAGTGGCCAATGCATTGAGGGTCAAGatgctagtaagagcataatgattatggcaacgggtttcttgaactgcctcccacta Alignment from Exonerate_coding2genome ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG ggtacaatgtatgctgatctctcactgcccatctccctttgttttcccagATTTGCCAATGCAGCTCAATGCAGGTGTTGTTGAGTACAATGGGCGCAGTGGGTATTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCACTGAGGTCATCGTAGATGCCCTAGTGGCCAATGCATTGAGGGTCAAGatgctagtaagagcataatgattatggcaacgggtttcttgaactgcctcccacta Alignment from GeneWise ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAGGTGATT ggtacaatgtatgctgatctctcactgcccatctccctttgttttcccagATTTGCCAATGCAGCTCAATGCAGGTGTTGTTGAGTACAATGGGCGCAGTGGGTATTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCACTGAGGTCATCGTAGATGCCCTAGTGGCCAATGCATTGAGGGTCAAGATGCTAgtaagagcataatgattatggcaacgggtttcttgaactgcctcccacta #### Plcb3_ID1915_16 --> 2 - 2 Original Alignment aaAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTG---------ga caacaggttggtctgtcaggtgattgctctatgtttctttgcttcgctagaaAGGAACAAGTGTTTTAGAATGTCATCCTTCGTGGAAACCAAAGCA------------ACCAAGAGCCCTATGGAGCTAGTGGATGCCCTCgagtaagctcaccaatggcatggctggtgtagtgtagtgccaggagggttac Alignment from CESAR aaAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTG---------ga caacaggttggtctgtcaggtgattgctctatgtttctttgcttcgctagaaAGGAACAAGTGTTTTAGAATGTCATCCTTCGTGGAAACCAAAGCA------------ACCAAGAGCCCTATGGAGCTAGTGGATGCCCTCgagtaagctcaccaatggcatggctggtgtagtgtagtgccaggagggttac Alignment from Spaln_aa2Genome AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGAA-------- caacaggttggtctgtcaggtgattgctctatgtttctttgcttcgctagAAAGGAACAAGTGTTTTAGAATGTCATCCTTCGTGGAAACCAAAGCA------------ACCAAGAGCCCTATGGAGCTAGTGGATGCCCTCGAgtaagctcaccaatggcatggctggtgtagtgtagtgccaggagggttac Alignment from Spaln_nt2Genome AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA--------- caacaggttggtctgtcaggtgattgctctatgtttctttgcttcgctagAAAGGAACAAGTGTTTTAGAATGTCATCCTTCGTGGAAACCAAAGCA------------ACCAAGAGCCCTATGGAGCTAGTGGATGCCCTCGAgtaagctcaccaatggcatggctggtgtagtgtagtgccaggagggttac Alignment from Pairagon AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA--------- caacaggttggtctgtcaggtgattgctctatgtttctttgcttcgctagAAAGGAACAAGTGTTTTAGAATGTCATCCTTCGTGGAAACCAAAGCA------------ACCAAGAGCCCTATGGAGCTAGTGGATGCCCTCGAgtaagctcaccaatggcatggctggtgtagtgtagtgccaggagggttac Alignment from Exonerate_protein2genome AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA caacaggttggtctgtcaggtgattgctctatgtttctttgcttcgctagAAAGGAACAAGTGTTTTAGAATGTCATCCTTCGTGGAAACCAAAGCAACCAAGAGC---CCTATGGAGCTAGTGGATGCCCTCGAgtaagctcaccaatggcatggctggtgtagtgtagtgccaggagggttac Alignment from Exonerate_coding2genome AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA caacaggttggtctgtcaggtgattgctctatgtttctttgcttcgctagAAAGGAACAAGTGTTTTAGAATGTCATCCTTCGTGGAAACCAAAGCAACCAAGAGC---CCTATGGAGCTAGTGGATGCCCTCGAgtaagctcaccaatggcatggctggtgtagtgtagtgccaggagggttac Alignment from GeneWise AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGAA-------- caacaggttggtctgtcaggtgattgctctatgtttctttgcttcgctagAAAGGAACAAGTGTTTTAGAATGTCATCCTTCGTGGAAACCAAAGCA------------ACCAAGAGCCCTATGGAGCTAGTGGATGCCCTCGAgtaagctcaccaatggcatggctggtgtagtgtagtgccaggagggttac #### Plcb3_ID1919_12 --> 1 - 0 Original Alignment gGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG cacaggtcatattcacgggtcatatagctcttctcactctcctctggcaga---AAGCAGCAC---GAGATGGCTGAGTACTGCCGGTCTATCTTTGGGGATGCGCTACTTATTGACCCTCTTGACAAGTATCCAgtaagtgacaggcctggacctccaggtgcatgtgggggaggggagcctga Alignment from CESAR gGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG ttgcacaggtcatattcacgggtcaagctcttctcactctcctctggcaga---AAGCAGCAC---GAGATGGCTGAGTACTGCCGGTCTATCTTTGGGGATGCGCTACTTATTGACCCTCTTGACAAGTATCCAgtaagtgacaggcctggacctccaggtgcatgtgggggaggggagcctga Alignment from Spaln_aa2Genome GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG cacaggtcatattcacgggtcatatagctcttctcactctcctctggcagA------AAGCAGCACGAGATGGCTGAGTACTGCCGGTCTATCTTTGGGGATGCGCTACTTATTGACCCTCTTGACAAGTATCCAgtaagtgacaggcctggacctccaggtgcatgtgggggaggggagcctga Alignment from Spaln_nt2Genome GCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG cacaggtcatattcacgggtcatatagctcttctcactctcctctggcagAAAGCAGCACGAGATGGCTGAGTACTGCCGGTCTATCTTTGGGGATGCGCTACTTATTGACCCTCTTGACAAGTATCCAgtaagtgacaggcctggacctccaggtgcatgtgggggaggggagcctga Alignment from Pairagon GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG cacaggtcatattcacgggtcatatagctcttctcactctcctctggcag---AAAGCAGCA---CGAGATGGCTGAGTACTGCCGGTCTATCTTTGGGGATGCGCTACTTATTGACCCTCTTGACAAGTATCCAgtaagtgacaggcctggacctccaggtgcatgtgggggaggggagcctga Alignment from Exonerate_protein2genome GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG cacaggtcatattcacgggtcatatagctcttctcactctcctcTGGCAGAAAGCAGCACGAGATGGCTGAGTACTGCCGGTCTATCTTTGGGGATGCGCTACTTATTGACCCTCTTGACAAGTATCCAgtaagtgacaggcctggacctccaggtgcatgtgggggaggggagcctga Alignment from Exonerate_coding2genome GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG cacaggtcatattcacgggtcatatagctcttctcactctcctcTGGCAGAAAGCAGCACGAGATGGCTGAGTACTGCCGGTCTATCTTTGGGGATGCGCTACTTATTGACCCTCTTGACAAGTATCCAgtaagtgacaggcctggacctccaggtgcatgtgggggaggggagcctga Alignment from GeneWise AAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG cacaggtcatattcacgggtcatatagctcttctcactctcctctggcagaaagCAGCACGAG------ATGGCTGAGTACTGCCGGTCTATCTTTGGGGATGCGCTACTTATTGACCCTCTTGACAAGTATCCAgtaagtgacaggcctggacctccaggtgcatgtgggggaggggagcctga #### Plcb3_ID1923_8 --> 1 - 2 Original Alignment tGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAG---------at tgtttagccaatattctcatcttctcatatattactttcaaatgttttagtGAATCCATTCGCCCTGATGAATTTCCTTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGACCAGATATTGACAAGATTGTGCTGGAGAACCTGCCTatgtgagtaagttgtcccagggcatggaccctgactctggtgttgctgagta Alignment from CESAR tGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAG---------at tgtttagccaatattctcatcttctcatatattactttcaaatgttttagtGAATCCATTCGCCCTGATGAATTTCCTTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGACCAGATATTGACAAGATTGTGCTGGAGAACCTGCCTatgtgagtaagttgtcccagggcatggaccctgactctggtgttgctgagta Alignment from Spaln_aa2Genome TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGATA-- tgtttagccaatattctcatcttctcatatattactttcaaatgttttagTGAATCCATTCGCCCTGATGAATTTCCTTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGACCAGATATTGACAAGATTGTGCTGGAGAACCTgcctatgtgagtaagttgtcccagggcatggaccctgactctggtgttgctgagta Alignment from Spaln_nt2Genome TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGA---------T tgtttagccaatattctcatcttctcatatattactttcaaatgttttagTGAATCCATTCGCCCTGATGAATTTCCTTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGACCAGATATTGACAAGATTGTGCTGGAGAACCTGCCTATgtgagtaagttgtcccagggcatggaccctgactctggtgttgctgagta Alignment from Pairagon TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAG---------AT tgtttagccaatattctcatcttctcatatattactttcaaatgttttagTGAATCCATTCGCCCTGATGAATTTCCTTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGACCAGATATTGACAAGATTGTGCTGGAGAACCTGCCTATgtgagtaagttgtcccagggcatggaccctgactctggtgttgctgagta Alignment from Exonerate_protein2genome TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAG---ATAGGTGC tgtttagccaatattctcatcttctcatatattactttcaaatgttttagTGAATCCATTCGCCCTGATGAATTTCCTTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGACCAGATATTGACAAGATTGTGCTGGAGAACCTGCCTATgtgagtaagttgtcccagggcatggaccctgactctggtgttgctgagta Alignment from Exonerate_coding2genome tgtttagccaatattctcatcttctcatatattactttcaaatgttttagtgaatccattcgccctgatgaatttcctttggaagtttttgagcggttcttgaataaactgtgtctgcgaccagatattgacaagattgtgctggagaacctgcctatgtgagtaagttgtcccagggcatggaccctgactctggtgttgctgagta Alignment from GeneWise TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAG---------AT tgtttagccaatattctcatcttctcatatattactttcaaatgttttagTGAATCCATTCGCCCTGATGAATTTCCTTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGACCAGATATTGACAAGATTGTGCTGGAGAACCTGCCTATgtgagtaagttgtcccagggcatggaccctgactctggtgttgctgagta #### Plcb3_ID1924_7 --> 1 - 2 Original Alignment cATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAgt ctgtctaaccatttgaactttggtggtcggattcctactcccatctacagc---------ATGTTCTCAGCAGATAAGAAGCGCGTAGAGAATGCGCTGGAATCCTGTGGTCTCAACTTGAACCGGgtgtgtgggtcaggaccagggtgccagttgggtcagattggcttttgcaatc Alignment from CESAR cATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAgt ttctgctgcctgtctaaccatttgagtcggattcctactcccatctacagc---------ATGTTCTCAGCAGATAAGAAGCGCGTAGAGAATGCGCTGGAATCCTGTGGTCTCAACTTGAACCGGgtgtgtgggtcaggaccagggtgccagttgggtcagattggcttttgcaatc Alignment from Spaln_aa2Genome CATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAGT ctgtctaaccatttgaactttggtggtcggattcctactcccatctacagC---------ATGTTCTCAGCAGATAAGAAGCGCGTAGAGAATGCGCTGGAATCCTGTGGTCTCAACTTGAACCGGGTgtgtgggtcaggaccagggtgccagttgggtcagattggcttttgcaatc Alignment from Spaln_nt2Genome GATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAGT ctgtctaaccatttgaactttggtggtcggattcctactcccatctacagCATGTTCTCAGCAGATAAGAAGCGCGTAGAGAATGCGCTGGAATCCTGTGGTCTCAACTTGAACCGGGTgtgtgggtcaggaccagggtgccagttgggtcagattggcttttgcaatc Alignment from Pairagon CATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAGT ctgtctaaccatttgaactttggtggtcggattcctactcccatctacagC---------ATGTTCTCAGCAGATAAGAAGCGCGTAGAGAATGCGCTGGAATCCTGTGGTCTCAACTTGAACCGGGTgtgtgggtcaggaccagggtgccagttgggtcagattggcttttgcaatc Alignment from Exonerate_protein2genome CATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAGT ctgtctaaccatttgaactttggtggtcggattcctactccCATCTACAGCATGTTCTCAGCAGATAAGAAGCGCGTAGAGAATGCGCTGGAATCCTGTGGTCTCAACTTGAACCGGGTgtgtgggtcaggaccagggtgccagttgggtcagattggcttttgcaatc Alignment from Exonerate_coding2genome GGCCTCAACTTCAACCGAGTTG CTGTCTAACCATTTGAACTTTGgtggtcggattcctactcccatctacagcatgttctcagcagataagaagcgcgtagagaatgcgctggaatcctgtggtctcaacttgaaccgggtgtgtgggtcaggaccagggtgccagttgggtcagattggcttttgcaatc Alignment from GeneWise CATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAGT ctgtctaaccatttgaactttggtggtcggattcctactcccatctacagC---------ATGTTCTCAGCAGATAAGAAGCGCGTAGAGAATGCGCTGGAATCCTGTGGTCTCAACTTGAACCGGGTgtgtgggtcaggaccagggtgccagttgggtcagattggcttttgcaatc #### Plcb3_ID1927_4 --> 0 - 0 Original Alignment ---GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG aggatcaaaatttatgcacattttgagcggccctttcctctcctccacagCCCGATCCTAAGATTCGAGAAGTT------TTTGGTGGCCCTGATACACGACTGGAGGAGAGATTGATGACAGTGGTTGCTGGGCCGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGACGGCACAGTCAAGgtgagtccaggctgatctccatattgaaggcattagtacattcaaacctt Alignment from CESAR ---GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG aggatcaaaatttatgcacattttgagcggccctttcctctcctccacagCCCGATCCTAAGATTCGAGAAGTT------TTTGGTGGCCCTGATACACGACTGGAGGAGAGATTGATGACAGTGGTTGCTGGGCCGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGACGGCACAGTCAAGgtgagtccaggctgatctccatattgaaggcattagtacattcaaacctt Alignment from Spaln_aa2Genome ---GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAA aggatcaaaatttatgcacattttgagcggccctttcctctcctccacagCCCGATCCTAAGATTCGAGAAGTT------TTTGGTGGCCCTGATACACGACTGGAGGAGAGATTGATGACAGTGGTTGCTGGGCCGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGACGGCACAGTCAAGgtgagtccaggctgatctccatattgaaggcattagtacattcaaacctt Alignment from Spaln_nt2Genome ---GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG aggatcaaaatttatgcacattttgagcggccctttcctctcctccacagCCCGATCCTAAGATTCGAGAAGT------TTTTGGTGGCCCTGATACACGACTGGAGGAGAGATTGATGACAGTGGTTGCTGGGCCGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGACGGCACAGTCAAGgtgagtccaggctgatctccatattgaaggcattagtacattcaaacctt Alignment from Pairagon ---GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG aggatcaaaatttatgcacattttgagcggccctttcctctcctccacagCCCGATCCTAAGATTCGAGAAGT------TTTTGGTGGCCCTGATACACGACTGGAGGAGAGATTGATGACAGTGGTTGCTGGGCCGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGACGGCACAGTCAAGgtgagtccaggctgatctccatattgaaggcattagtacattcaaacctt Alignment from Exonerate_protein2genome aggatcaaaatttatgcacattttgagcggccctttcctctcctccacagcccgatcctaagattcgagaagtttttggtggccctgatacacgactggaggagagattgatgacagtggttgctgggccggatttagtaactaccacattcttgaatttcatggctgtgcaggacggcacagtcaaggtgagtccaggctgatctccatattgaaggcattagtacattcaaacctt Alignment from Exonerate_coding2genome aggatcaaaatttatgcacattttgagcggccctttcctctcctccacagcccgatcctaagattcgagaagtttttggtggccctgatacacgactggaggagagattgatgacagtggttgctgggccggatttagtaactaccacattcttgaatttcatggctgtgcaggacggcacagtcaaggtgagtccaggctgatctccatattgaaggcattagtacattcaaacctt Alignment from GeneWise ---GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG aggatcaaaatttatgcacattttgagcggccctttcctctcctccacagCCCGATCCTAAGATTCGAGAAGTT------TTTGGTGGCCCTGATACACGACTGGAGGAGAGATTGATGACAGTGGTTGCTGGGCCGGATTTAGTAACTACCACATTCTTGAATTTCATGGCTGTGCAGGACGGCACAGTCAAGgtgagtccaggctgatctccatattgaaggcattagtacattcaaacctt #### Pnlip_ID12752_11 --> 1 - 2 Original Alignment g------------------------------GGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAgt ctctagggactaaacaaatggctcaaggctctcacctctgtctttcccaggTATTATGAACGGTCTTATTTCCTGAACATA------------------------GATGGCAATGAATTTGACTCTGAA------GTTGGAGATTTGCAGAAGGTTAAATTTATCGGC---AACAATGTAATTAACCCGACACTGCCAAAAGTGGGGGCATCAGGGATTACAGTAGAAAGAAATGATGGCAGAgtgtttgttactcatgtaccaaaagccagcagggcgtggcttgaattcacgt Alignment from CESAR gGGCTCTCTGCAGCCAGGTACTTCTCACGTC------AATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAgt ctctagggactaaacaaatggctcaaggctctcacctctgtctttcccaggTATTATGAACGGTCTTATTTCCTGAACATAGATGGCAATGAATTTGACTCT------GAAGTTGGAGATTTGCAGAAGGTTAAATTTATC---GGCAACAATGTAATTAACCCGACACTGCCAAAAGTGGGGGCATCAGGGATTACAGTAGAAAGAAATGATGGCAGAgtgtttgttactcatgtaccaaaagccagcagggcgtggcttgaattcacgt Alignment from Spaln_aa2Genome GGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT ctctagggactaaacaaatggctcaaggctctcacctctgtctttcccagGTATTATGAACGGTCTTATTTCCTGAACATAGATGGCAATGAATTTGACTCTGAAGTTGGAGATTTGCAGAAGGTTAAATTTATCGGC---AACAATGTAATTAACCCGACACTGCCAAAAGTGGGGGCATCAGGGATTACAGTAGAAAGAAATGATGGCAGAGTgtttgttactcatgtaccaaaagccagcagggcgtggcttgaattcacgt Alignment from Spaln_nt2Genome TCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT ctctagggactaaacaaatggctcaaggctctcacctctgtctttcccaggtattatgaacggtcttatttcctgaacatag--ATGGCAATGAATTTGACTCT------GAAGTTGGAGATTTGCAGAAGGTTAAATTTATCGG---CAACAATGTAATTAACCCGACACTGCCAAAAGTGGGGGCATCAGGGATTACAGTAGAAAGAAATGATGGCAGAGTgtttgttactcatgtaccaaaagccagcagggcgtggcttgaattcacgt Alignment from Pairagon GGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT ctctagggactaaacaaatggctcaaggctctcacctctgtctttcccaggtattatgaacggtcttatttcctgaacatag--------------------------ATGGCAATGAATTTGACTCT------GAAGTTGGAGATTTGCAGAAGGTTAAATTTATCGG---CAACAATGTAATTAACCCGACACTGCCAAAAGTGGGGGCATCAGGGATTACAGTAGAAAGAAATGATGGCAGAGTgtttgttactcatgtaccaaaagccagcagggcgtggcttgaattcacgt Alignment from Exonerate_protein2genome GGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT ctctagggactaaacaaatggctcaaggctctcacctctgtctttcccagGTATTATGAACGGTCTTATTTCCTGAACATAGATGGCAATGAATTTGACTCTGAAGTTGGAGATTTGCAGAAGGTTAAATTTATCGGC---AACAATGTAATTAACCCGACACTGCCAAAAGTGGGGGCATCAGGGATTACAGTAGAAAGAAATGATGGCAGAGTgtttgttactcatgtaccaaaagccagcagggcgtggcttgaattcacgt Alignment from Exonerate_coding2genome GGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT ctctagggactaaacaaatggctcaaggctctcacctctgtctttcccagGTATTATGAACGGTCTTATTTCCTGAACATAGATGGCAATGAATTTGACTCTGAAGTTGGAGATTTGCAGAAGGTTAAATTTATCGGC---AACAATGTAATTAACCCGACACTGCCAAAAGTGGGGGCATCAGGGATTACAGTAGAAAGAAATGATGGCAGAGTgtttgttactcatgtaccaaaagccagcagggcgtggcttgaattcacgt Alignment from GeneWise GGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGTGTTC ctctagggactaaacaaatggctcaaggctctcacctctgtctttcccagGTATTATGAACGGTCTTATTTCCTGAACATAGATGGCAATGAATTTGACTCTGAAGTTGGAGATTTGCAGAAGGTTAAATTTATCGGC---AACAATGTAATTAACCCGACACTGCCAAAAGTGGGGGCATCAGGGATTACAGTAGAAAGAAATGATGGCAGAGTGTTTgttactcatgtaccaaaagccagcagggcgtggcttgaattcacgt #### Pnliprp1_ID12765_2 --> 2 - 0 Original Alignment ggAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG aagcccagtgactatggacctgcaggctaataagaaaatttgatttacaggg---GAATTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTTCTCCCTTGGAGTCCAGAGAAGATCAACACCTGCTTCTTGCTCTACACGAATGAGAACCCCATTGCTTTCCAGgtatgaactgtgggtcctagccaagaaccaggtgatcctaccactttaac Alignment from CESAR ggAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG ggaaagcccagtgactatggacctggctaataagaaaatttgatttacaggg---GAATTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTTCTCCCTTGGAGTCCAGAGAAGATCAACACCTGCTTCTTGCTCTACACGAATGAGAACCCCATTGCTTTCCAGgtatgaactgtgggtcctagccaagaaccaggtgatcctaccactttaac Alignment from Spaln_aa2Genome GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG aagcccagtgactatggacctgcaggctaataagaaaatttgatttacagGG---GAATTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTTCTCCCTTGGAGTCCAGAGAAGATCAACACCTGCTTCTTGCTCTACACGAATGAGAACCCCATTGCTTTCCAGgtatgaactgtgggtcctagccaagaaccaggtgatcctaccactttaac Alignment from Spaln_nt2Genome GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG aagcccagtgactatggacctgcaggctaataagaaaatttgatttacagGG---GAATTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTTCTCCCTTGGAGTCCAGAGAAGATCAACACCTGCTTCTTGCTCTACACGAATGAGAACCCCATTGCTTTCCAGgtatgaactgtgggtcctagccaagaaccaggtgatcctaccactttaac Alignment from Pairagon GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG aagcccagtgactatggacctgcaggctaataagaaaatttgatttacagGG---GAATTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTTCTCCCTTGGAGTCCAGAGAAGATCAACACCTGCTTCTTGCTCTACACGAATGAGAACCCCATTGCTTTCCAGgtatgaactgtgggtcctagccaagaaccaggtgatcctaccactttaac Alignment from Exonerate_protein2genome GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG aagcccagtgactatggacctgcaggctaataagaaaatttgatttacagGG---GAATTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTTCTCCCTTGGAGTCCAGAGAAGATCAACACCTGCTTCTTGCTCTACACGAATGAGAACCCCATTGCTTTCCAGgtatgaactgtgggtcctagccaagaaccaggtgatcctaccactttaac Alignment from Exonerate_coding2genome GAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG aagcccagtgactatggacctgcaggctaataagaaaatttgatttacagggGAATTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTTCTCCCTTGGAGTCCAGAGAAGATCAACACCTGCTTCTTGCTCTACACGAATGAGAACCCCATTGCTTTCCAGgtatgaactgtgggtcctagccaagaaccaggtgatcctaccactttaac Alignment from GeneWise AAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG aagcccagtgactatggacctgcaggctaataagaaaatttgatttacagGGGAATTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTTCTCCCTTGGAGTCCAGAGAAGATCAACACCTGCTTCTTGCTCTACACGAATGAGAACCCCATTGCTTTCCAGgtatgaactgtgggtcctagccaagaaccaggtgatcctaccactttaac #### Pola2_ID1323_17 --> 1 - 0 Original Alignment tTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG--- ggtgactgtatggtcaggagatccctcatgcatcctcttccctctcgcagtTACTATCCACTTTATCCACCCCACGTGGACATGGCCATAGACTATAAGAATTTTTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGCGTgtatgctttggattgctttttcttgcgaacaccctgggacttctgacatg Alignment from CESAR tTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG--- ggtgactgtatggtcaggagatccctcatgcatcctcttccctctcgcagtTACTATCCACTTTATCCACCCCACGTGGACATGGCCATAGACTATAAGAATTTTTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGCGTgtatgctttggattgctttttcttgcgaacaccctgggacttctgacatg Alignment from Spaln_aa2Genome TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG--- ggtgactgtatggtcaggagatccctcatgcatcctcttccctctcgcagTTACTATCCACTTTATCCACCCCACGTGGACATGGCCATAGACTATAAGAATTTTTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGCGTgtatgctttggattgctttttcttgcgaacaccctgggacttctgacatg Alignment from Spaln_nt2Genome TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG--- ggtgactgtatggtcaggagatccctcatgcatcctcttccctctcgcagTTACTATCCACTTTATCCACCCCACGTGGACATGGCCATAGACTATAAGAATTTTTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGCGTgtatgctttggattgctttttcttgcgaacaccctgggacttctgacatg Alignment from Pairagon TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG--- ggtgactgtatggtcaggagatccctcatgcatcctcttccctctcgcagTTACTATCCACTTTATCCACCCCACGTGGACATGGCCATAGACTATAAGAATTTTTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGCGTgtatgctttggattgctttttcttgcgaacaccctgggacttctgacatg Alignment from Exonerate_protein2genome TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG--- ggtgactgtatggtcaggagatccctcatgcatcctcttccctctcgcagTTACTATCCACTTTATCCACCCCACGTGGACATGGCCATAGACTATAAGAATTTTTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGCGTgtatgctttggattgctttttcttgcgaacaccctgggacttctgacatg Alignment from Exonerate_coding2genome ggtgactgtatggtcaggagatccctcatgcatcctcttccctctcgcagttactatccactttatccaccccacgtggacatggccatagactataagaatttttacacctatgctcagctgccagtgacacctggtgtattcatagtgccatctgagctgaaatactttgtaaagcgtgtatgctttggattgctttttcttgcgaacaccctgggacttctgacatg Alignment from GeneWise TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAGGAC ggtgactgtatggtcaggagatccctcatgcatcctcttccctctcgcagTTACTATCCACTTTATCCACCCCACGTGGACATGGCCATAGACTATAAGAATTTTTACACCTATGCTCAGCTGCCAGTGACACCTGGTGTATTCATAGTGCCATCTGAGCTGAAATACTTTGTAAAGCGTgtatgctttggattgctttttcttgcgaacaccctgggacttctgacatg #### Pola2_ID1325_15 --> 0 - 2 Original Alignment ---CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTag agctcactgtaggttttattgcaaggagttccctctcggctccctaacagTCACGAGTGCAGTTTGTATCAGAGCCCTGCAGCCTACCGATAAATGGAGTAATG---TATTCAACTACTGCAGACTTACTGTATCACCTTGGGGCTGAGGAACTGTTCaggtgaggccattcaacccaataagggcagtgacataacatggtccttaaag Alignment from CESAR ---CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTag agctcactgtaggttttattgcaaggagttccctctcggctccctaacagTCACGAGTGCAGTTTGTATCAGAGCCCTGCAGCCTACCGATAAATGGAGTAATGTAT---TCAACTACTGCAGACTTACTGTATCACCTTGGGGCTGAGGAACTGTTCaggtgaggccattcaacccaataagggcagtgacataacatggtccttaaag Alignment from Spaln_aa2Genome CGAGTGCAGTTT---GTGTCAGAGCCCTGCAGCCTCTCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagttccctctcggctccctaacagTCACGAGTGCAGTTTGTATCAGAGCCCTGCAGCCTACCGATAAATGGAGTAATGTATTCA---ACTACTGCAGACTTACTGTATCACCTTGGGGCTGAGGAACTGTTCAGgtgaggccattcaacccaataagggcagtgacataacatggtccttaaag Alignment from Spaln_nt2Genome CGAGTGCAG---TTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagttccctctcggctccctaacagTCACGAGTGCAGTTTGTATCAGAGCCCTGCAGCCTACCGATAAATGGAGTAATGT---ATTCAACTACTGCAGACTTACTGTATCACCTTGGGGCTGAGGAACTGTTCAGgtgaggccattcaacccaataagggcagtgacataacatggtccttaaag Alignment from Pairagon ---CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGAGTGATGTTTGGTTTGACATCCA-------CGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagttccctctcggctccctaacagTCACGAGTGCAGTTTGTATCAGAGCCCTGCAGCCTACCGATAAATGGAGTAATGT----------ATTCAACTACTGCAGACTTACTGTATCACCTTGGGGCTGAGGAACTGTTCAGgtgaggccattcaacccaataagggcagtgacataacatggtccttaaag Alignment from Exonerate_protein2genome ---CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagttccctctcggctccctaacagTCACGAGTGCAGTTTGTATCAGAGCCCTGCAGCCTACCGATAAATGGAGTAATGTATTCA---ACTACTGCAGACTTACTGTATCACCTTGGGGCTGAGGAACTGTTCAGgtgaggccattcaacccaataagggcagtgacataacatggtccttaaag Alignment from Exonerate_coding2genome agctcactgtaggttttattgcaaggagttccctctcggctccctaacagtcacgagtgcagtttgtatcagagccctgcagcctaccgataaatggagtaatgtattcaactactgcagacttactgtatcaccttggggctgaggaactgttcaggtgaggccattcaacccaataagggcagtgacataacatggtccttaaag Alignment from GeneWise ---CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagttccctctcggctccctaacagTCACGAGTGCAGTTTGTATCAGAGCCCTGCAGCCTACCGATAAATGGAGTAATGTATTCA---ACTACTGCAGACTTACTGTATCACCTTGGGGCTGAGGAACTGTTCAGgtgaggccattcaacccaataagggcagtgacataacatggtccttaaag #### Pold4_ID437_2 --> 2 - 1 Original Alignment gg------------------GAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAg gcaagaaggtttaggcggagcagggggatgtcttttgctttctacatcagggGTATTCCACGCACACTTCGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGTACAggtggagaacccctgtaaccgtccttcattcaatcttacatgaaggacctt Alignment from CESAR gg------------------GAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAg gcaagaaggtttaggcggagcagggggatgtcttttgctttctacatcagggGTATTCCACGCACACTTCGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGTACAggtggagaacccctgtaaccgtccttcattcaatcttacatgaaggacctt Alignment from Spaln_aa2Genome CCTGTGGCATCTCTACCCACTC tacatttcttcctactctgagtctaaaagctctgtcctctttctctcttag Alignment from Spaln_nt2Genome GACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG gcaagaaggtttaggcggagcagggggatgtcttttgctttctacatcaggggtattccacgcacacttcgaagACACACA-GTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGTACAGgtggagaacccctgtaaccgtccttcattcaatcttacatgaaggacctt Alignment from Pairagon GG------------------GAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG gcaagaaggtttaggcggagcagggggatgtcttttgctttctacatcagGGGTATTCCACGCACACTTCGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGTACAGgtggagaacccctgtaaccgtccttcattcaatcttacatgaaggacctt Alignment from Exonerate_protein2genome GG---GAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG gcaagaaggtttaggcggagcagggggatgtcttttgctttctacatcaggggtattccacgcacACTTCGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGTACAGgtggagaacccctgtaaccgtccttcattcaatcttacatgaaggacctt Alignment from Exonerate_coding2genome GG---GAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG gcaagaaggtttaggcggagcagggggatgtcttttgctttctacatcaggggtattccacgcacACTTCGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGTACAGgtggagaacccctgtaaccgtccttcattcaatcttacatgaaggacctt Alignment from GeneWise -----------------GGGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG gcaagaaggtttaggcggagcagggggatgtcttttgctttctacatcagGGGTATTCCACGCACACTTCGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAATATGGGCCTTGTACAGgtggagaacccctgtaaccgtccttcattcaatcttacatgaaggacctt #### Pold4_ID438_3 --> 2 - 2 Original Alignment gtATCACAAGG---CTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGC---------ag cactccactaccaccccctgcttgtctccccattcttttacttcctacaggtATCTCAAGGTTGTTGCAGCGC---AGCCGCGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAGCCCACCCTGAAGACCCTCACTACTGGTGTATCCCCCAGacgtacttacagccccagagagctttctactgtctatctgggagctcatctg Alignment from CESAR gtATCACAAGGCTG---CAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGC---------ag cactccactaccaccccctgcttgtctccccattcttttacttcctacaggtATCTCAAGGTTGTTGCAGCGC---AGCCGCGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAGCCCACCCTGAAGACCCTCACTACTGGTGTATCCCCCAGacgtacttacagccccagagagctttctactgtctatctgggagctcatctg Alignment from Spaln_aa2Genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAGC-------- cactccactaccaccccctgcttgtctccccattcttttacttcctacagGTATCTCAAGGTTGTTGCAGCGCAGCCGCGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAGCCCACCCTGAAGACCCTCACTACTGGTGTATCCCCCAGACgtacttacagccccagagagctttctactgtctatctgggagctcatctg Alignment from Spaln_nt2Genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAGCC------- cactccactaccaccccctgcttgtctccccattcttttacttcctacagGTATCTCAAGGTTGTTGCAGCGCAGCCGCGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAGCCCACCCTGAAGACCCTCACTACTGGTGTATCCCCCAGACgtacttacagccccagagagctttctactgtctatctgggagctcatctg Alignment from Pairagon GTATCACAAG---GCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAGCCTG cactccactaccaccccctgcttgtctccccattcttttacttcctacagGTATCTCAAGGTTGTTGCAGCGC---AGCCGCGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAGCCCACCCTGAAGACCCTCACT----------ACTGgtgtatcccccagacgtacttacagccccagagagctttctactgtctatctgggagctcatctg Alignment from Exonerate_protein2genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGC cactccactaccaccccctgcttgtctccccattcttttacttcctacagGTATCTCAAGGTTGTTGCAGCGCAGCCGCGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAGCCCACCCTGAAGACCCTCACTACTGGTGTatcccccagacgtacttacagccccagagagctttctactgtctatctgggagctcatctg Alignment from Exonerate_coding2genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGC cactccactaccaccccctgcttgtctccccattcttttacttcctacagGTATCTCAAGGTTGTTGCAGCGCAGCCGCGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAGCCCACCCTGAAGACCCTCACTACTGGTGTatcccccagacgtacttacagccccagagagctttctactgtctatctgggagctcatctg Alignment from GeneWise GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGC---AGCCTGTGGCATCTCTACCCACTC cactccactaccaccccctgcttgtctccccattcttttacttcctacagGTATCTCAAGGTTGTTGCAGCGCAGCCGCGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCTGTGTTGAAAGCCCACCCTGAAGACCCTCACTACTGGTGTATCCCCCAGACGTACTTACAGCCCCAGagagctttctactgtctatctgggagctcatctg #### Poll_ID9484_3 --> 1 - 0 Original Alignment g---TCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttaaatagctccctaaccaattttcttctttgtaggCTATCCTTGGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACCCAGTGGGACTTGCCCAGAACCACACTCTCTCTTTCCCCTCCCCACCCTCGAGCAGTATCACCTCCTCCAACAGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaaaatggcaagccactcgagaccgttaatgatagaaaatgcaagaatc Alignment from CESAR g---TCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttaaatagctccctaaccaattttcttctttgtaggCTATCCTTGGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACCCAGTGGGACTTGCCCAGAACCACACTCTCTCTTTCCCCTCCCCACCCTCGAGCAGTATCACCTCCTCCAACAGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaaaatggcaagccactcgagaccgttaatgatagaaaatgcaagaatc Alignment from Spaln_aa2Genome GTCCTTGGATGAA---CCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttaaatagctccctaaccaattttcttctttgtagGCTATCCTTGGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACCCAGTGGGACTTGCCCAGAACCACACTCTCTCTTTCCCCTCCCCACCCTCGAGCAGTATCACCTCCTCCAACAGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaaaatggcaagccactcgagaccgttaatgatagaaaatgcaagaatc Alignment from Spaln_nt2Genome GTCCTTGGATG---AACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttaaatagctccctaaccaattttcttctttgtagGCTATCCTTGGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACCCAGTGGGACTTGCCCAGAACCACACTCTCTCTTTCCCCTCCCCACCCTCGAGCAGTATCACCTCCTCCAACAGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaaaatggcaagccactcgagaccgttaatgatagaaaatgcaagaatc Alignment from Pairagon G---TCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttaaatagctccctaaccaattttcttctttgtagGCTATCCTTGGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACCCAGTGGGACTTGCCCAGAACCACACTCTCTCTTTCCCCTCCCCACCCTCGAGCAGTATCACCTCCTCCAACAGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaaaatggcaagccactcgagaccgttaatgatagaaaatgcaagaatc Alignment from Exonerate_protein2genome G---TCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttaaatagctccctaaccaattttcttctttgtagGCTATCCTTGGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACCCAGTGGGACTTGCCCAGAACCACACTCTCTCTTTCCCCTCCCCACCCTCGAGCAGTATCACCTCCTCCAACAGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaaaatggcaagccactcgagaccgttaatgatagaaaatgcaagaatc Alignment from Exonerate_coding2genome G---TCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttaaatagctccctaaccaattttcttctttgtagGCTATCCTTGGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACCCAGTGGGACTTGCCCAGAACCACACTCTCTCTTTCCCCTCCCCACCCTCGAGCAGTATCACCTCCTCCAACAGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaaaatggcaagccactcgagaccgttaatgatagaaaatgcaagaatc Alignment from GeneWise -AGGTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG aaccattcatactctttaaatagctccctaaccaattttcttctttgtagGCTATCCTTGGATGAGCCACAGCCCAGCAAGTCTGGCCAGGATGCTTCTGCTCCTGGTACCCAGTGGGACTTGCCCAGAACCACACTCTCTCTTTCCCCTCCCCACCCTCGAGCAGTATCACCTCCTCCAACAGCAGAAAAACCATCCAGAACTCGAGCCCAAgtaaaatggcaagccactcgagaccgttaatgatagaaaatgcaagaatc #### Polr2g_ID2377_6 --> 0 - 0 Original Alignment GACATTGTGATTCAGCAG---GACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT--------- cagcaaatctggtaagaagcccaggaccttccccttgatttttttattagGGCATATTGATTCAGCTGGATGAG------ATACGGCTAAAGATAATAGGGACACATGTAGATAAAAATGATGTTACCTTTTCAgtaagtcaagctaggcttttgttctttgtttatatcacatcatggattca Alignment from CESAR GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT--------- cagcaaatctggtaagaagcccaggaccttccccttgatttttttattagGGCATATTGATTCAGCTG---GATGAGATACGGCTAAAGATAATAGGGACACATGTAGATAAAAATGATGTTACCTTTTCAgtaagtcaagctaggcttttgttctttgtttatatcacatcatggattca Alignment from Spaln_aa2Genome GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGAC cagcaaatctggtaagaagcccaggaccttccccttgatttttttattagGGCATATTGATTCAGCTG---GATGAGATACGGCTAAAGATAATAGGGACACATGTAGATAAAAATGATgttaccttttcagtaagtcaagctaggcttttgttctttgtttatatcacatcatggattca Alignment from Spaln_nt2Genome GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT cagcaaatctggtaagaagcccaggaccttccccttgatttttttattagGGCATATTGATTCAGCTG---GATGAGATACGGCTAAAGATAATAGGGACACATGTAGATAAAAATGA---Tgttaccttttcagtaagtcaagctaggcttttgttctttgtttatatcacatcatggattca Alignment from Pairagon GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT--------- cagcaaatctggtaagaagcccaggaccttccccttgatttttttattagGGCATATTGATTCAGCTG---GATGAGATACGGCTAAAGATAATAGGGACACATGTAGATAAAAATGATGTTACCTTTTCAgtaagtcaagctaggcttttgttctttgtttatatcacatcatggattca Alignment from Exonerate_protein2genome GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT---TTTGCC cagcaaatctggtaagaagcccaggaccttccccttgatttttttattagGGCATATTGATTCAGCTG---GATGAGATACGGCTAAAGATAATAGGGACACATGTAGATAAAAATGATGTTACCTTTTCAgtaagtcaagctaggcttttgttctttgtttatatcacatcatggattca Alignment from Exonerate_coding2genome cagcaaatctggtaagaagcccaggaccttccccttgatttttttattagggcatattgattcagctggatgagatacggctaaagataatagggacacatgtagataaaaatgatgttaccttttcagtaagtcaagctaggcttttgttctttgtttatatcacatcatggattca Alignment from GeneWise GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT---TTTGCCATTGGCTCTCTGATGGACGACTACTTGGGGCTCGTGAGC cagcaaatctggtaagaagcccaggaccttccccttgatttttttattagGGCATATTGATTCAGCTGGAT---GAGATACGGCTAAAGATAATAGGGACACATGTAGATAAAAATGATGTTACCTTTTCAGTAAGTCAAGCTAGGCTTTTGTTCTTTGTTTATATCACAtcatggattca #### Polr2g_ID2378_5 --> 0 - 0 Original Alignment TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG ttctgttcctggaagtaggtcacagttcgatttcatttcacttgtcgtag------CCCTCAGAAATGGAGTTTGACTCAAATTCAAACCCCCCCTGTTATAAGACCATGGACGAAgtatttgagcatggattggagggtgagacgaagggagagggcagcaaatc Alignment from CESAR TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG ttaagtttctgttcctggaagtaggttcgatttcatttcacttgtcgtag------CCCTCAGAAATGGAGTTTGACTCAAATTCAAACCCCCCCTGTTATAAGACCATGGACGAAgtatttgagcatggattggagggtgagacgaagggagagggcagcaaatc Alignment from Spaln_aa2Genome TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG ttctgttcctggaagtaggtcacagttcgatttcatttcacttgtcgtag------CCCTCAGAAATGGAGTTTGACTCAAATTCAAACCCCCCCTGTTATAAGACCATGGACGAAgtatttgagcatggattggagggtgagacgaagggagagggcagcaaatc Alignment from Spaln_nt2Genome TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG ttctgttcctggaagtaggtcacagttcgatttcatttcacttgtcgtag------CCCTCAGAAATGGAGTTTGACTCAAATTCAAACCCCCCCTGTTATAAGACCATGGACGAAgtatttgagcatggattggagggtgagacgaagggagagggcagcaaatc Alignment from Pairagon TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG ttctgttcctggaagtaggtcacagttcgatttcatttcacttgtcgtag------CCCTCAGAAATGGAGTTTGACTCAAATTCAAACCCCCCCTGTTATAAGACCATGGACGAAgtatttgagcatggattggagggtgagacgaagggagagggcagcaaatc Alignment from Exonerate_protein2genome TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG ttctgttcctggaagtaggtcacagttcgatttcatttcacttgTCGTAGCCCTCAGAAATGGAGTTTGACTCAAATTCAAACCCCCCCTGTTATAAGACCATGGACGAAgtatttgagcatggattggagggtgagacgaagggagagggcagcaaatc Alignment from Exonerate_coding2genome TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG ttctgttcctggaagtaggtcacagttcgatttcatttcacttgTCGTAGCCCTCAGAAATGGAGTTTGACTCAAATTCAAACCCCCCCTGTTATAAGACCATGGACGAAgtatttgagcatggattggagggtgagacgaagggagagggcagcaaatc Alignment from GeneWise TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG ttctgttcctggaagtaggtcacagttcgatttcatttcacttgtcgtagCCC------TCAGAAATGGAGTTTGACTCAAATTCAAACCCCCCCTGTTATAAGACCATGGACGAAgtatttgagcatggattggagggtgagacgaagggagagggcagcaaatc #### Ppp1ca_ID409_3 --> 2 - 1 Original Alignment gtGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATC---AACCGCATTTATGGCTTCTATGATGAAt taaggcacatagctttactgaatattctgatgttttaacttgtgtttcaggtGACATCCAGGGACAGCACTATGACCTTCTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACCTATAAGATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAAT------------------------------------------------tgtaagggattggtgtcgtgatgtcttactgggtcattcaatattaactat Alignment from CESAR gtGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATCAACCGCATTTATGGCTTCTATGATGAAt taaggcacatagctttactgaatattctgatgttttaacttgtgtttcaggtGACATCCAGGGACAGCACTATGACCTTCTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACCTATAAGATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAAT---------------------------------------------tgtaagggattggtgtcgtgatgtcttactgggtcattcaatattaactat Alignment from Spaln_aa2Genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCAT taaggcacatagctttactgaatattctgatgttttaacttgtgtttcagGTGACATCCAGGGACAGCACTATGACCTTCTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACCTATAAGATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATTGTAAGGGATTGGTGTCgtgatgtcttactgggtcattcaatattaactat Alignment from Spaln_nt2Genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACC taaggcacatagctttactgaatattctgatgttttaacttgtgtttcagGTGACATCCAGGGACAGCACTATGACCTTCTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACCTATAAGATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATTgtaagggattggtgtcgtgatgtcttactgggtcattcaatattaactat Alignment from Pairagon GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATCAACCGCATTTATGGCTTCTATGATGAAT taaggcacatagctttactgaatattctgatgttttaacttgtgtttcagGTGACATCCAGGGACAGCACTATGACCTTCTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACCTATAAGATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAAT---------------------------------------------Tgtaagggattggtgtcgtgatgtcttactgggtcattcaatattaactat Alignment from Exonerate_protein2genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGA taaggcacatagctttactgaatattctgatgttttaacttgtgtttcagGTGACATCCAGGGACAGCACTATGACCTTCTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACCTATAAGATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATTGTAAgggattggtgtcgtgatgtcttactgggtcattcaatattaactat Alignment from Exonerate_coding2genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGA taaggcacatagctttactgaatattctgatgttttaacttgtgtttcagGTGACATCCAGGGACAGCACTATGACCTTCTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACCTATAAGATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAATTGTAAgggattggtgtcgtgatgtcttactgggtcattcaatattaactat Alignment from GeneWise GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATCAA taaggcacatagctttactgaatattctgatgttttaacttgtgtttcagGTGACATCCAGGGACAGCACTATGACCTTCTGCACCTGTTTGATTATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGAGCGATTATTCAGACCGTGGCAAACAATCCTTGGAGACTATCTGCCTATTGCTTACCTATAAGATCAGATATTTAGAAAATTTCTATGTATTTCATGGAAAT------TGTAAGGGATTGGTgtcgtgatgtcttactgggtcattcaatattaactat #### Ppp1r32_ID2844_7 --> 0 - 0 Original Alignment GTCCTCCATCCAGGACGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAG--- gctgcaacacatgtccactgttaaatgttaactttgttgtatactttcagGTTCTTCATCCAGGTCGAAGTATCAGCAAGTCATACTACCTCCCTCTAACTCACCCTCAGGGGgtgaatattgctatgtgaacgggacagtgcagcctatcaggacaatatgt Alignment from CESAR GTCCTCCATCCAGGACGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAG--- gctgcaacacatgtccactgttaaatgttaactttgttgtatactttcagGTTCTTCATCCAGGTCGAAGTATCAGCAAGTCATACTACCTCCCTCTAACTCACCCTCAGGGGgtgaatattgctatgtgaacgggacagtgcagcctatcaggacaatatgt Alignment from Spaln_aa2Genome GTCCTCCATCCAGGACGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAG--- gctgcaacacatgtccactgttaaatgttaactttgttgtatactttcagGTTCTTCATCCAGGTCGAAGTATCAGCAAGTCATACTACCTCCCTCTAACTCACCCTCAGGGGgtgaatattgctatgtgaacgggacagtgcagcctatcaggacaatatgt Alignment from Spaln_nt2Genome GTCCTCCATCCAGGACGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAG--- gctgcaacacatgtccactgttaaatgttaactttgttgtatactttcagGTTCTTCATCCAGGTCGAAGTATCAGCAAGTCATACTACCTCCCTCTAACTCACCCTCAGGGGgtgaatattgctatgtgaacgggacagtgcagcctatcaggacaatatgt Alignment from Pairagon GTCCTCCATCCAGGACGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAG--- gctgcaacacatgtccactgttaaatgttaactttgttgtatactttcagGTTCTTCATCCAGGTCGAAGTATCAGCAAGTCATACTACCTCCCTCTAACTCACCCTCAGGGGgtgaatattgctatgtgaacgggacagtgcagcctatcaggacaatatgt Alignment from Exonerate_protein2genome GTCCTCCATCCAGGACGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAG gctgcaacacatgtccactgttaaatgttaactttgttgtatactttcagGTTCTTCATCCAGGTCGAAGTATCAGCAAGTCATACTACCTCCCTCTAACTCACCCTCAGggggtgaatattgctatgtgaacgggacagtgcagcctatcaggacaatatgt Alignment from Exonerate_coding2genome GTCCTCCATCCAGGACGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAG gctgcaacacatgtccactgttaaatgttaactttgttgtatactttcagGTTCTTCATCCAGGTCGAAGTATCAGCAAGTCATACTACCTCCCTCTAACTCACCCTCAGggggtgaatattgctatgtgaacgggacagtgcagcctatcaggacaatatgt Alignment from GeneWise GTCCTCCATCCAGGACGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAGGGA gctgcaacacatgtccactgttaaatgttaactttgttgtatactttcagGTTCTTCATCCAGGTCGAAGTATCAGCAAGTCATACTACCTCCCTCTAACTCACCCTCAGGGGgtgaatattgctatgtgaacgggacagtgcagcctatcaggacaatatgt #### Pprc1_ID9724_12 --> 0 - 2 Original Alignment ---GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAgg gctgtatgacaggtccaatcgtcaacagctgtcaatgcagtgtagagtcaaactttgaattttctttacagCCCGAAGAGAGAAGGGTGGTCTTCATTGGTAAAACACCTGGACGGATGACTCGGTCAGAGCTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAgggtgaggcataataattgttcttgttctca Alignment from CESAR ---GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAgg gctgtatgacaggtccaatcgtcaacagctgtcaatgcagtgtagagtcaaactttgaattttctttacagCCCGAAGAGAGAAGGGTGGTCTTCATTGGTAAAACACCTGGACGGATGACTCGGTCAGAGCTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAgggtgaggcataataattgttcttgttctca Alignment from Spaln_aa2Genome GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG gctgtatgacaggtccaatcgtcaacagctgtcaatgcagtgtagagtcaaactttgaattttctttacagCCCGAAGAGAGAAGGGTGGTCTTCATTGGTAAAACACCTGGACGGATGACTCGGTCAGAGCTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAGGgtgaggcataataattgttcttgttctca Alignment from Spaln_nt2Genome ---GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG gctgtatgacaggtccaatcgtcaacagctgtcaatgcagtgtagagtcaaactttgaattttctttacagCCCGAAGAGAGAAGGGTGGTCTTCATTGGTAAAACACCTGGACGGATGACTCGGTCAGAGCTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAGGgtgaggcataataattgttcttgttctca Alignment from Pairagon ---GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG gctgtatgacaggtccaatcgtcaacagctgtcaatgcagtgtagagtcaaactttgaattttctttacagCCCGAAGAGAGAAGGGTGGTCTTCATTGGTAAAACACCTGGACGGATGACTCGGTCAGAGCTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAGGgtgaggcataataattgttcttgttctca Alignment from Exonerate_protein2genome GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG gctgtatgacaggtccaatcgtcaacagctgtcaatgcagtgtagagtcaaactttgaattttctttacagcccGAAGAGAGAAGGGTGGTCTTCATTGGTAAAACACCTGGACGGATGACTCGGTCAGAGCTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAGGgtgaggcataataattgttcttgttctca Alignment from Exonerate_coding2genome GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG gctgtatgacaggtccaatcgtcaacagctgtcaatgcagtgtagagtcaaactttgaattttctttacagcccGAAGAGAGAAGGGTGGTCTTCATTGGTAAAACACCTGGACGGATGACTCGGTCAGAGCTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAGGgtgaggcataataattgttcttgttctca Alignment from GeneWise ---GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG gctgtatgacaggtccaatcgtcaacagctgtcaatgcagtgtagagtcaaactttgaattttctttacagCCCGAAGAGAGAAGGGTGGTCTTCATTGGTAAAACACCTGGACGGATGACTCGGTCAGAGCTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCACTTTAGGGTGCAAGGgtgaggcataataattgttcttgttctca #### Prdx5_ID1853_4 --> 0 - 0 Original Alignment GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG------ agtgctgtccctgagagttaatacaaagacacaccgcttgctactgacagGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGAGAGGGgtgtgtgtttgtagttgaatattgtctgccgttttagcctggcctcagaa Alignment from CESAR GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG------ agtgctgtccctgagagttaatacaaagacacaccgcttgctactgacagGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGAGAGGGgtgtgtgtttgtagttgaatattgtctgccgttttagcctggcctcagaa Alignment from Spaln_aa2Genome GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG------ agtgctgtccctgagagttaatacaaagacacaccgcttgctactgacagGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGAGAGGGgtgtgtgtttgtagttgaatattgtctgccgttttagcctggcctcagaa Alignment from Spaln_nt2Genome GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG------ agtgctgtccctgagagttaatacaaagacacaccgcttgctactgacagGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGAGAGGGgtgtgtgtttgtagttgaatattgtctgccgttttagcctggcctcagaa Alignment from Pairagon GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG------ agtgctgtccctgagagttaatacaaagacacaccgcttgctactgacagGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGAGAGGGgtgtgtgtttgtagttgaatattgtctgccgttttagcctggcctcagaa Alignment from Exonerate_protein2genome GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG agtgctgtccctgagagttaatacaaagacacaccgcttgctactgacagGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGagaggggtgtgtgtttgtagttgaatattgtctgccgttttagcctggcctcagaa Alignment from Exonerate_coding2genome GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGGCGA agtgctgtccctgagagttaatacaaagacacaccgcttgctactgacagGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGAGAGgggtgtgtgtttgtagttgaatattgtctgccgttttagcctggcctcagaa Alignment from GeneWise agtgctgtccctgagagttaatacaaagacacaccgcttgctactgacaggttcggctcctggctgaccccactggagcctttgggaagagaggggtgtgtgtttgtagttgaatattgtctgccgttttagcctggcctcagaa #### Prdx5_ID1854_3 --> 0 - 0 Original Alignment ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG ggtggcaccggggcatgcgctgatagtgtacgattttatgtttttcctagGCCCACCTGCCTGGCTTGGTGGAACAGGCTGGAGCTCGGAAAGCCAAGGGAGCACAGGTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCC------------------gtgagtgatcctgcagctctcgtggggggaggatggagttgtgatagcct Alignment from CESAR ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG ggtggcaccggggcatgcgctgatagtgtacgattttatgtttttcctagGCCCACCTGCCTGGCTTGGTGGAACAGGCTGGAGCTCGGAAAGCCAAGGGAGCACAGGTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCC------------------gtgagtgatcctgcagctctcgtggggggagg Alignment from Spaln_aa2Genome ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCC---CACCAGGCAGAAGGCAAG ggtggcaccggggcatgcgctgatagtgtacgattttatgtttttcctagGCCCACCTGCCTGGCTTGGTGGAACAGGCTGGAGCTCGGAAAGCCAAGGGAGCACAGGTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCCGTGAGTGATCCTGCAGCTCTCgtggggggaggatggagttgtgatagcct Alignment from Spaln_nt2Genome ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCC ggtggcaccggggcatgcgctgatagtgtacgattttatgtttttcctagGCCCACCTGCCTGGCTTGGTGGAACAGGCTGGAGCTCGGAAAGCCAAGGGAGCACAGGTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCCgtgagtgatcctgcagctctcgtggggggaggatggagttgtgatagcct Alignment from Pairagon ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCC ggtggcaccggggcatgcgctgatagtgtacgattttatgtttttcctagGCCCACCTGCCTGGCTTGGTGGAACAGGCTGGAGCTCGGAAAGCCAAGGGAGCACAGGTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCCgtgagtgatcctgcagctctcgtggggggaggatggagttgtgatagcct Alignment from Exonerate_protein2genome ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACC ggtggcaccggggcatgcgctgatagtgtacgattttatgtttttcctagGCCCACCTGCCTGGCTTGGTGGAACAGGCTGGAGCTCGGAAAGCCAAGGGAGCACAGGTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCCGTGAgtgatcctgcagctctcgtggggggaggatggagttgtgatagcct Alignment from Exonerate_coding2genome ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACC ggtggcaccggggcatgcgctgatagtgtacgattttatgtttttcctagGCCCACCTGCCTGGCTTGGTGGAACAGGCTGGAGCTCGGAAAGCCAAGGGAGCACAGGTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCCGTGAgtgatcctgcagctctcgtggggggaggatggagttgtgatagcct Alignment from GeneWise ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCC ggtggcaccggggcatgcgctgatagtgtacgattttatgtttttcctagGCCCACCTGCCTGGCTTGGTGGAACAGGCTGGAGCTCGGAAAGCCAAGGGAGCACAGGTAGTGGCATGTTTAAGTGTAAATGATGTCTTTGTGGTTGAGGAGTGGGGCCGAGCCgtgagtgatcctgcagctctcgtggggggaggatggagttgtgatagcct #### Prpf19_ID3044_3 --> 2 - 0 Original Alignment ttGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA aaagttatatgtgagcaatattgtggaaggttgggtcttttccttcccagtt------CCAATTCGACCCAAGCCTCCCTCTGCTACCAGTATTCCAGCCATCCTAAAGGCCTTGCAAGATGAGTGGgtgagactactggccactccatttgttttgtagGATGCAGTCATGCTGCA Alignment from CESAR ttGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA ctgtgaaaagttatatgtgagcaatgaaggttgggtcttttccttcccagtt------CCAATTCGACCCAAGCCTCCCTCTGCTACCAGTATTCCAGCCATCCTAAAGGCCTTGCAAGATGAGTGGgtgagactacttttgcccattcaccctccctagGATGCAGTCATGCTGCA Alignment from Spaln_aa2Genome TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA aaagttatatgtgagcaatattgtggaaggttgggtcttttccttcccagTT------CCAATTCGACCCAAGCCTCCCTCTGCTACCAGTATTCCAGCCATCCTAAAGGCCTTGCAAGATGAGTGGgtgagactactggccactccatttgttttgtagGATGCAGTCATGCTGCA Alignment from Spaln_nt2Genome TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA aaagttatatgtgagcaatattgtggaaggttgggtcttttccttcccagTT------CCAATTCGACCCAAGCCTCCCTCTGCTACCAGTATTCCAGCCATCCTAAAGGCCTTGCAAGATGAGTGGgtgagactactggccactccatttgttttgtagGATGCAGTCATGCTGCA Alignment from Pairagon TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA aaagttatatgtgagcaatattgtggaaggttgggtcttttccttcccagTT------CCAATTCGACCCAAGCCTCCCTCTGCTACCAGTATTCCAGCCATCCTAAAGGCCTTGCAAGATGAGTGGgtgagactactggccactccatttgttttgtagGATGCAGTCATGCTGCA Alignment from Exonerate_protein2genome TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA aaagttatatgtgagcaatattgtggaaggttgggtcttttccttcccagTT------CCAATTCGACCCAAGCCTCCCTCTGCTACCAGTATTCCAGCCATCCTAAAGGCCTTGCAAGATGAGTGGgtgagactactggccactccatttgttttgtagGATGCAGTCATGCTGCA Alignment from Exonerate_coding2genome TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA aaagttatatgtgagcaatattgtggaaggttgggtcttttccttcccagTT------CCAATTCGACCCAAGCCTCCCTCTGCTACCAGTATTCCAGCCATCCTAAAGGCCTTGCAAGATGAGTGGgtgagactactggccactccatttgttttgtagGATGCAGTCATGCTGCA Alignment from GeneWise TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA aaagttatatgtgagcaatattgtggaaggttgggtcttttccttcccagTT------CCAATTCGACCCAAGCCTCCCTCTGCTACCAGTATTCCAGCCATCCTAAAGGCCTTGCAAGATGAGTGGgtgagactactggccactccatttgttttgtagGATGCAGTCATGCTGCA #### Prpf19_ID3048_7 --> 0 - 0 Original Alignment ------CTTCAAGACAAGGCTACTGTGCTAACCACGGAG------CGTAAGAAG ttatgtgcttcaaatacagcccacttcataacagtcaaatgtgctcctagCTGCGCCTTCAAGACAAGGCCACTGTGTTAACCACAGACACAGGACAAAAGAAAgtgaggctggcctatgtggatatctgcatctttagcgagaagtgtgtgca Alignment from CESAR ------CTTCAAGACAAGGCTACTGTGCTAACCACGGAG------CGTAAGAAG ttatgtgcttcaaatacagcccacttcataacagtcaaatgtgctcctagCTGCGCCTTCAAGACAAGGCCACTGTGTTAACCACAGACACAGGACAAAAGAAAgtgaggctggcctatgtggatatctgcatctttagcgagaagtgtgtgca Alignment from Spaln_aa2Genome CTTCAAGACAAGGCT------ACTGTGCTAACCACGGAG------CGTAAGAAG ttatgtgcttcaaatacagcccacttcataacagtcaaatgtgctcctagCTGCGCCTTCAAGACAAGGCCACTGTGTTAACCACAGACACAGGACAAAAGAAAgtgaggctggcctatgtggatatctgcatctttagcgagaagtgtgtgca Alignment from Spaln_nt2Genome GCTTCAAGAC-----AAGGCTACTGTGCTAACCACGGAG------CGTAAGAAG ttatgtgcttcaaatacagcccacttcataacagtcaaatgtgctcctagCTGCGCCTTCAAGACAAGGCCACTGTGTTAACCACAGACACAGGACAAAAGAAAgtgaggctggcctatgtggatatctgcatctttagcgagaagtgtgtgca Alignment from Pairagon ------CTTCAAGACAAGGCTACTGTGCTAACCACGGA------GCGTAAGAAG ttatgtgcttcaaatacagcccacttcataacagtcaaatgtgctcctagCTGCGCCTTCAAGACAAGGCCACTGTGTTAACCACAGACACAGGACAAAAGAAAgtgaggctggcctatgtggatatctgcatctttagcgagaagtgtgtgca Alignment from Exonerate_protein2genome CTTCAAGACAAGGCTACTGTGCTAACCACGGAG------CGTAAGAAG ttatgtgcttcaaatacagcccacttcataacagtcaaatgtgctcctagctgcgcCTTCAAGACAAGGCCACTGTGTTAACCACAGACACAGGACAAAAGAAAgtgaggctggcctatgtggatatctgcatctttagcgagaagtgtgtgca Alignment from Exonerate_coding2genome CTTCAAGACAAGGCTACTGTGCTAACCACGGAG------CGTAAGAAG ttatgtgcttcaaatacagcccacttcataacagtcaaatgtgctcctagctgcgcCTTCAAGACAAGGCCACTGTGTTAACCACAGACACAGGACAAAAGAAAgtgaggctggcctatgtggatatctgcatctttagcgagaagtgtgtgca Alignment from GeneWise ------CTTCAAGACAAGGCTACTGTGCTAACCACGGAG------CGTAAGAAG ttatgtgcttcaaatacagcccacttcataacagtcaaatgtgctcctagCTGCGCCTTCAAGACAAGGCCACTGTGTTAACCACAGACACAGGACAAAAGAAAgtgaggctggcctatgtggatatctgcatctttagcgagaagtgtgtgca #### Prpf19_ID3050_9 --> 0 - 1 Original Alignment GGTCTACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTg cttgggcactgggaggcaattacctttaataattcccttccttcccctag------CACAGTGCTAGTATTCCCAGGATCCTTGCTCTTGACCTCTGTCCCTCAGACACTAACAAGATTCTCACTggttagcgtgggtgtgacttaatattgaatgacagcccctgcatcctcgga Alignment from CESAR GGTCTACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTg tggggccttgggcactgggaggcaattaataattcccttccttcccctag------CACAGTGCTAGTATTCCCAGGATCCTTGCTCTTGACCTCTGTCCCTCAGACACTAACAAGATTCTCACTggttagcgtgggtgtgacttaatattgaatgacagcccctgcatcctcgga Alignment from Spaln_aa2Genome GGTCTACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTG cttgggcactgggaggcaattacctttaataattcccttccttcccctag------CACAGTGCTAGTATTCCCAGGATCCTTGCTCTTGACCTCTGTCCCTCAGACACTAACAAGATTCTCACTGgttagcgtgggtgtgacttaatattgaatgacagcccctgcatcctcgga Alignment from Spaln_nt2Genome GGTCTACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTG cttgggcactgggaggcaattacctttaataattcccttccttcccctag------CACAGTGCTAGTATTCCCAGGATCCTTGCTCTTGACCTCTGTCCCTCAGACACTAACAAGATTCTCACTGgttagcgtgggtgtgacttaatattgaatgacagcccctgcatcctcgga Alignment from Pairagon GGTCTACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTG cttgggcactgggaggcaattacctttaataattcccttccttcccctag------CACAGTGCTAGTATTCCCAGGATCCTTGCTCTTGACCTCTGTCCCTCAGACACTAACAAGATTCTCACTGgttagcgtgggtgtgacttaatattgaatgacagcccctgcatcctcgga Alignment from Exonerate_protein2genome CACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTG cttgggcactgggaggcaattacctttaataattcccttccttcccctagCACAGTGCTAGTATTCCCAGGATCCTTGCTCTTGACCTCTGTCCCTCAGACACTAACAAGATTCTCACTGgttagcgtgggtgtgacttaatattgaatgacagcccctgcatcctcgga Alignment from Exonerate_coding2genome CACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTG cttgggcactgggaggcaattacctttaataattcccttccttcccctagCACAGTGCTAGTATTCCCAGGATCCTTGCTCTTGACCTCTGTCCCTCAGACACTAACAAGATTCTCACTGgttagcgtgggtgtgacttaatattgaatgacagcccctgcatcctcgga Alignment from GeneWise CACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTG cttgggcactgggaggcaattacctttaataattcccttccttcccctagCACAGTGCTAGTATTCCCAGGATCCTTGCTCTTGACCTCTGTCCCTCAGACACTAACAAGATTCTCACTGgttagcgtgggtgtgacttaatattgaatgacagcccctgcatcctcgga #### Prpf19_ID3054_13 --> 2 - 0 Original Alignment ctCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG aaaaatatgattctacatgattagcaaacacctttgtgtttcttcaccagccCTTACCTGTGCACAGTTCCACCCTGATGGGCTCACCTTTGGAAGTGGGACAATGGACTCCCAAATTAAGATTTGGGACCTA---gtaagtatgggatatagacatgaacaaagggaggtagtggtggggaattg Alignment from CESAR ctCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG aaaaatatgattctacatgattagcaaacacctttgtgtttcttcaccagccCTTACCTGTGCACAGTTCCACCCTGATGGGCTCACCTTTGGAAGTGGGACAATGGACTCCCAAATTAAGATTTGGGACCTA---gtaagtatgggatatagacatgaacaaagggaggtagtggtggggaa Alignment from Spaln_aa2Genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTG aaaaatatgattctacatgattagcaaacacctttgtgtttcttcaccagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCTCACCTTTGGAAGTGGGACAATGGACTCCCAAATTAAGATTTGGGACCTAgtaagtatgggatatagacatgaacaaagggaggtagtggtggggaattg Alignment from Spaln_nt2Genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTG aaaaatatgattctacatgattagcaaacacctttgtgtttcttcaccagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCTCACCTTTGGAAGTGGGACAATGGACTCCCAAATTAAGATTTGGGACCTAgtaagtatgggatatagacatgaacaaagggaggtagtggtggggaattg Alignment from Pairagon CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTG aaaaatatgattctacatgattagcaaacacctttgtgtttcttcaccagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCTCACCTTTGGAAGTGGGACAATGGACTCCCAAATTAAGATTTGGGACCTAgtaagtatgggatatagacatgaacaaagggaggtagtggtggggaattg Alignment from Exonerate_protein2genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG aaaaatatgattctacatgattagcaaacacctttgtgtttcttcaccagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCTCACCTTTGGAAGTGGGACAATGGACTCCCAAATTAAGATTTGGGACCTA---gtaagtatgggatatagacatgaacaaagggaggtagtggtggggaa Alignment from Exonerate_coding2genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG aaaaatatgattctacatgattagcaaacacctttgtgtttcttcaccagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCTCACCTTTGGAAGTGGGACAATGGACTCCCAAATTAAGATTTGGGACCTA---gtaagtatgggatatagacatgaacaaagggaggtagtggtggggaa Alignment from GeneWise CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTG aaaaatatgattctacatgattagcaaacacctttgtgtttcttcaccagCCCTTACCTGTGCACAGTTCCACCCTGATGGGCTCACCTTTGGAAGTGGGACAATGGACTCCCAAATTAAGATTTGGGACCTAgtaagtatgggatatagacatgaacaaagggaggtagtggtggggaattg #### Pygm_ID1680_4 --> 2 - 0 Original Alignment ctTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG agtatttgcagccttcaggtctatacagatatctacaacaatccctgcagctTGCTTTCTGGACTCTATGGCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGT------------gtaagtaatcctcggcaactagccgaccctaatattttttggggtttagt Alignment from CESAR ctTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG agtatttgcagccttcaggtctatacagatatctacaacaatccctgcagctTGCTTTCTGGACTCTATGGCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGT------------gtaagtaatcctcggcaactagccgaccctaatatttt Alignment from Spaln_aa2Genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGT agtatttgcagccttcaggtctatacagatatctacaacaatccctgcagCTTGCTTTCTGGACTCTATGGCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTgtaagtaatcctcggcaactagccgaccctaatattttttggggtttagt Alignment from Spaln_nt2Genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGG agtatttgcagccttcaggtctatacagatatctacaacaatccctgcagCTTGCTTTCTGGACTCTATGGCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGTAAgtaatcctcggcaactagccgaccctaatattttttggggtttagt Alignment from Pairagon CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGT agtatttgcagccttcaggtctatacagatatctacaacaatccctgcagCTTGCTTTCTGGACTCTATGGCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTgtaagtaatcctcggcaactagccgaccctaatattttttggggtttagt Alignment from Exonerate_protein2genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGT agtatttgcagccttcaggtctatacagatatctacaacaatccctgcagCTTGCTTTCTGGACTCTATGGCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTgtaagtaatcctcggcaactagccgaccctaatattttttggggtttagt Alignment from Exonerate_coding2genome agtatttgcagccttcaggtctatacagatatctacaacaatccctgcagcttgctttctggactctatggcccccctagggcttgctgcttatggctatgggatccgctatgagtttggaatttttaatcagaagatctgtgtaagtaatcctcggcaactagccgaccctaatattttttggggtttagt Alignment from GeneWise CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAGATGGAAGAAGCTGATGACTGGCTTCGCTAT- agtatttgcagccttcaggtctatacagatatctacaacaatccctgcagCTTGCTTTCTGGACTCTATGGCCCCCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGTAAGTAATCCTCGGCAACTAGCCGACCCTAATATTTTTTGGGgtttagt #### Pygm_ID1686_10 --> 0 - 0 Original Alignment GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC------ gcaaagatgtgtggagggcaactaatgtgctgtgtttcatttccctgtagGCCTGGGATGTTACAGTAAAGACTTGCGCCTACACTAACCACACAGTGCTGCCTGAAGCTCTCGAGCGCTGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGTGTTTCCTAAATAGCCTTgtaagaataggatgatgagaaaggagctcgggcatgatgtataaatccat Alignment from CESAR GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC------ gcaaagatgtgtggagggcaactaatgtgctgtgtttcatttccctgtagGCCTGGGATGTTACAGTAAAGACTTGCGCCTACACTAACCACACAGTGCTGCCTGAAGCTCTCGAGCGCTGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGTGTTTCCTAAATAGCCTTgtaagaataggatgatgagaaaggagctcgggcatgatgtataaatccat Alignment from Spaln_aa2Genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC------ gcaaagatgtgtggagggcaactaatgtgctgtgtttcatttccctgtagGCCTGGGATGTTACAGTAAAGACTTGCGCCTACACTAACCACACAGTGCTGCCTGAAGCTCTCGAGCGCTGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGTGTTTCCTAAATAGCCTTgtaagaataggatgatgagaaaggagctcgggcatgatgtataaatccat Alignment from Spaln_nt2Genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC------ gcaaagatgtgtggagggcaactaatgtgctgtgtttcatttccctgtagGCCTGGGATGTTACAGTAAAGACTTGCGCCTACACTAACCACACAGTGCTGCCTGAAGCTCTCGAGCGCTGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGTGTTTCCTAAATAGCCTTgtaagaataggatgatgagaaaggagctcgggcatgatgtataaatccat Alignment from Pairagon GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC------ gcaaagatgtgtggagggcaactaatgtgctgtgtttcatttccctgtagGCCTGGGATGTTACAGTAAAGACTTGCGCCTACACTAACCACACAGTGCTGCCTGAAGCTCTCGAGCGCTGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGTGTTTCCTAAATAGCCTTgtaagaataggatgatgagaaaggagctcgggcatgatgtataaatccat Alignment from Exonerate_protein2genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAACCGGGTG gcaaagatgtgtggagggcaactaatgtgctgtgtttcatttccctgtagGCCTGGGATGTTACAGTAAAGACTTGCGCCTACACTAACCACACAGTGCTGCCTGAAGCTCTCGAGCGCTGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGTGTTTCCTAAATAGCCTTgtaagaataggatgatgagaaaggagctcgggcatgatgtataaatccat Alignment from Exonerate_coding2genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAACCGGGTG gcaaagatgtgtggagggcaactaatgtgctgtgtttcatttccctgtagGCCTGGGATGTTACAGTAAAGACTTGCGCCTACACTAACCACACAGTGCTGCCTGAAGCTCTCGAGCGCTGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGTGTTTCCTAAATAGCCTTgtaagaataggatgatgagaaaggagctcgggcatgatgtataaatccat Alignment from GeneWise GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC------ gcaaagatgtgtggagggcaactaatgtgctgtgtttcatttccctgtagGCCTGGGATGTTACAGTAAAGACTTGCGCCTACACTAACCACACAGTGCTGCCTGAAGCTCTCGAGCGCTGGCCTGTGCATCTCATGGAGTCACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGTGTTTCCTAAATAGCCTTgtaagaataggatgatgagaaaggagctcgggcatgatgtataaatccat #### Pygm_ID1687_11 --> 0 - 2 Original Alignment CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCat gaaggggaagacttctgaaccaggggtcaacattgttattttcttcctagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGACGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTCTGGCTCGAATCCATTCA------------------atgtgagtgtaacttcatctaccttccggctcttagtaagattgagttgggc Alignment from CESAR CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCat gaaggggaagacttctgaaccaggggtcaacattgttattttcttcctagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGACGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTCTGGCTCGAATCCATTCA------------------atgtgagtgtaacttcatctaccttccggctcttagtaagattgagttgggc Alignment from Spaln_aa2Genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGA gaaggggaagacttctgaaccaggggtcaacattgttattttcttcctagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGACGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTCTGGCTCGAATCCATTCAATgtgagtgtaacttcatctaccttccggctcttagtaagattgagttgggc Alignment from Spaln_nt2Genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGA gaaggggaagacttctgaaccaggggtcaacattgttattttcttcctagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGACGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTCTGGCTCGAATCCATTCAATgtgagtgtaacttcatctaccttccggctcttagtaagattgagttgggc Alignment from Pairagon CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gaaggggaagacttctgaaccaggggtcaacattgttattttcttcctagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGACGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTCTGGCTCGAATCCATTCA------------------ATgtgagtgtaacttcatctaccttccggctcttagtaagattgagttgggc Alignment from Exonerate_protein2genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCT gaaggggaagacttctgaaccaggggtcaacattgttattttcttcctagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGACGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTCTGGCTCGAATCCATTCAATGTGAGTgtaacttcatctaccttccggctcttagtaagattgagttgggc Alignment from Exonerate_coding2genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCT gaaggggaagacttctgaaccaggggtcaacattgttattttcttcctagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGACGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTCTGGCTCGAATCCATTCAATGTGAGTgtaacttcatctaccttccggctcttagtaagattgagttgggc Alignment from GeneWise CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGA gaaggggaagacttctgaaccaggggtcaacattgttattttcttcctagCGGGTGGCAGCTGCATCCCCAGGGGATGTAGACAGGCTGTGGCGCATGTCACTTGTGGAGGACGGAGCAGTGAGGCGCATCAACATGTCACACCTGTGCATTACAGGCTCACACGCTGTCAACAGTCTGGCTCGAATCCATTCAATgtgagtgtaacttcatctaccttccggctcttagtaagattgagttgggc #### Pygm_ID1695_19 --> 1 - 0 Original Alignment g---------TTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aacctaaccttttcccttccaggtctgctttcttgatgctatttataaagaGAGTTGGAATTTAAAGTGTTTGTGGATCACGAGGAGTATATTAAATGTCAGGACAAAGTCAGTGGATTATATAATgtaacatagtgttcaataaccagggatggggtagacccactgctcttcaa Alignment from CESAR g---------TTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aacctaaccttttcccttccaggtctgctttcttgatgctatttataaagaGAGTTGGAATTTAAAGTGTTTGTGGATCACGAGGAGTATATTAAATGTCAGGACAAAGTCAGTGGATTATATAATgtaacatagtgttcaataaccagggatggggtagacccactgctcttcaa Alignment from Spaln_aa2Genome G---------TTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aacctaaccttttcccttccaggtctgctttcttgatgctatttataaagAGAGTTGGAATTTAAAGTGTTTGTGGATCACGAGGAGTATATTAAATGTCAGGACAAAGTCAGTGGATTATATAATgtaacatagtgttcaataaccagggatggggtagacccactgctcttcaa Alignment from Spaln_nt2Genome GTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aacctaaccttttcccttccaggtctgctttcttgatgctatttataaagagagttggaatttaaag-TGTTTGTGGATCACGAGGAGTATATTAAATGTCAGGACAAAGTCAGTGGATTATATAATgtaacatagtgttcaataaccagggatggggtagacccactgctcttcaa Alignment from Pairagon ------------------------------------------------------------TTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG AACCTAACCTTTTCCCTTCCAGGTCTGCTTTCTTGATGCTATTTATAAAGAGAGTTGGAATTTAAAGTGTTTGTGGATCACGAGGAGTATATTAAATGTCAGGACAAAGTCAGTGGATTATATAATgtaacatagtgttcaataaccagggatggggtagacccactgctcttcaa Alignment from Exonerate_protein2genome GAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aacctaaccttttcccttccaggtctgctttcttgatgctatttataaagagagttggaatttaaagtgtttgtggatcacGAGGAGTATATTAAATGTCAGGACAAAGTCAGTGGATTATATAATgtaacatagtgttcaataaccagggatggggtagacccactgctcttcaa Alignment from Exonerate_coding2genome GAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aacctaaccttttcccttccaggtctgctttcttgatgctatttataaagagagttggaatttaaagtgtttgtggatcacGAGGAGTATATTAAATGTCAGGACAAAGTCAGTGGATTATATAATgtaacatagtgttcaataaccagggatggggtagacccactgctcttcaa Alignment from GeneWise -------CGGTTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aacctaaccttttcccttccaggtctgctttcttgatgctatttataaagAGAGTTGGAATTTAAAGTGTTTGTGGATCACGAGGAGTATATTAAATGTCAGGACAAAGTCAGTGGATTATATAATgtaacatagtgttcaataaccagggatggggtagacccactgctcttcaa #### Rab1b_ID845_3 --> 0 - 0 Original Alignment GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT--------- gccagatcttggtttgtttcccactcagtctctctctctctctctctcagGATGATACTTACACAGAAAGCTACATCAGCACCATTGGTGTTGATTTTAAGATACGAACAATTAAGCTGGATGGCAAAACCATCAAACTGCAGATCTTGGATGAAgtacattctagcctggtccagtgtcttgtggctgtactttgttcggtctc Alignment from CESAR GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT--------- gccagatcttggtttgtttcccactcagtctctctctctctctctctcagGATGATACTTACACAGAAAGCTACATCAGCACCATTGGTGTTGATTTTAAGATACGAACAATTAAGCTGGATGGCAAAACCATCAAACTGCAGATCTTGGATGAAgtacattctagcctggtccagtgtcttgtggctgctttctctttttctct Alignment from Spaln_aa2Genome GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT--------- gccagatcttggtttgtttcccactcagtctctctctctctctctctcagGATGATACTTACACAGAAAGCTACATCAGCACCATTGGTGTTGATTTTAAGATACGAACAATTAAGCTGGATGGCAAAACCATCAAACTGCAGATCTTGGATGAAgtacattctagcctggtccagtgtcttgtggctgtactttgttcggtctc Alignment from Spaln_nt2Genome GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT--------- gccagatcttggtttgtttcccactcagtctctctctctctctctctcagGATGATACTTACACAGAAAGCTACATCAGCACCATTGGTGTTGATTTTAAGATACGAACAATTAAGCTGGATGGCAAAACCATCAAACTGCAGATCTTGGATGAAgtacattctagcctggtccagtgtcttgtggctgtactttgttcggtctc Alignment from Pairagon GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT----------------------------------------------------------- gccagatcttggtttgtttcccactcagtctctctctctctctctctcagGATGATACTTACACAGAAAGCTACATCAGCACCATTGGTGTTGATTTTAAGATACGAACAATTAAGCTGGATGGCAAAACCATCAAACTGCAGATCTTGGATGAAGTACATTCTAGCCTGGTCCAGTGTCTTGTGGCTGTACTTTGTTCGGTCTC Alignment from Exonerate_protein2genome GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT gccagatcttggtttgtttcccactcagtctctctctctctctctctcagGATGATACTTACACAGAAAGCTACATCAGCACCATTGGTGTTGATTTTAAGATACGAACAATTAAGCTGGATGGCAAAACCATCAAACTGCAGATCttggatgaagtacattctagcctggtccagtgtcttgtggctgtactttgttcggtctc Alignment from Exonerate_coding2genome GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT gccagatcttggtttgtttcccactcagtctctctctctctctctctcagGATGATACTTACACAGAAAGCTACATCAGCACCATTGGTGTTGATTTTAAGATACGAACAATTAAGCTGGATGGCAAAACCATCAAACTGCAGATCttggatgaagtacattctagcctggtccagtgtcttgtggctgtactttgttcggtctc Alignment from GeneWise GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT--------- gccagatcttggtttgtttcccactcagtctctctctctctctctctcagGATGATACTTACACAGAAAGCTACATCAGCACCATTGGTGTTGATTTTAAGATACGAACAATTAAGCTGGATGGCAAAACCATCAAACTGCAGATCTTGGATGAAgtacattctagcctggtccagtgtcttgtggctgtactttgttcggtctc #### Rasgrp2_ID1707_6 --> 0 - 0 Original Alignment TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG gaagtccactgtcaacagtttcacatcgtcacccttgttcttcactctag---CATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCTCTCTATTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTCAGCAAGCCAACGGCCACACAGCAGGCACTCGTCATTACCCACTTTGTACATGTAGCAGAGgtaagcacatttctgtcatatgagaccagattctttgttgaatgtacaga Alignment from CESAR TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agtgaagtccactgtcaacagtttctcgtcacccttgttcttcactctag---CATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCTCTCTATTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTCAGCAAGCCAACGGCCACACAGCAGGCACTCGTCATTACCCACTTTGTACATGTAGCAGAGgtaagcacatttctgtcatatgagaccagattctttgttgaatgtacaga Alignment from Spaln_aa2Genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG gaagtccactgtcaacagtttcacatcgtcacccttgttcttcactctag---CATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCTCTCTATTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTCAGCAAGCCAACGGCCACACAGCAGGCACTCGTCATTACCCACTTTGTACATGTAGCAGAGgtaagcacatttctgtcatatgagaccagattctttgttgaatgtacaga Alignment from Spaln_nt2Genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG gaagtccactgtcaacagtttcacatcgtcacccttgttcttcactctag---CATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCTCTCTATTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTCAGCAAGCCAACGGCCACACAGCAGGCACTCGTCATTACCCACTTTGTACATGTAGCAGAGgtaagcacatttctgtcatatgagaccagattctttgttgaatgtacaga Alignment from Pairagon TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG gaagtccactgtcaacagtttcacatcgtcacccttgttcttcactctag---CATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCTCTCTATTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTCAGCAAGCCAACGGCCACACAGCAGGCACTCGTCATTACCCACTTTGTACATGTAGCAGAGgtaagcacatttctgtcatatgagaccagattctttgttgaatgtacaga Alignment from Exonerate_protein2genome CAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG gaagtccactgtcaacagtttcacatcgtcacccttgttcttcactctagCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCTCTCTATTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTCAGCAAGCCAACGGCCACACAGCAGGCACTCGTCATTACCCACTTTGTACATGTAGCAGAGgtaagcacatttctgtcatatgagaccagattctttgttgaatgtacaga Alignment from Exonerate_coding2genome CAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG gaagtccactgtcaacagtttcacatcgtcacccttgttcttcactctagCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCTCTCTATTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTCAGCAAGCCAACGGCCACACAGCAGGCACTCGTCATTACCCACTTTGTACATGTAGCAGAGgtaagcacatttctgtcatatgagaccagattctttgttgaatgtacaga Alignment from GeneWise TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG gaagtccactgtcaacagtttcacatcgtcacccttgttcttcactctagCAT---GACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAATCCAGTCCTGGAGCGATTTATCTCTCTATTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTCAGCAAGCCAACGGCCACACAGCAGGCACTCGTCATTACCCACTTTGTACATGTAGCAGAGgtaagcacatttctgtcatatgagaccagattctttgttgaatgtacaga #### Rasgrp2_ID1710_9 --> 0 - 0 Original Alignment GTGTCCCTGGATCAGTATCAGACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG aaaagggaaagagcaggtggggtgccctcccttttcctttatttttatag---TCCCTGGAACAGTATCAGACAGAGGATGAGCTGTACCAACTCTCATTGCAGCGGAAGCCATGCTCCAAGTCATGGgtaggttagcccatctatctcccagttgtagcactctattcttttgggct Alignment from CESAR GTGTCCCTGGATCAGTATCAGACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG agcaaaagggaaagagcaggtggggcctcccttttcctttatttttatag---TCCCTGGAACAGTATCAGACAGAGGATGAGCTGTACCAACTCTCATTGCAGCGGAAGCCATGCTCCAAGTCATGGgtaggttagcccatctatctcccagttgtagcactctattcttttgggct Alignment from Spaln_aa2Genome GTGTCCCTGGATCAGTATCAGACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG aaaagggaaagagcaggtggggtgccctcccttttcctttatttttatag---TCCCTGGAACAGTATCAGACAGAGGATGAGCTGTACCAACTCTCATTGCAGCGGAAGCCATGCTCCAAGTCATGGgtaggttagcccatctatctcccagttgtagcactctattcttttgggct Alignment from Spaln_nt2Genome TCCCTGGATCAGTATCAGACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG aaaagggaaagagcaggtggggtgccctcccttttcctttatttttatagTCCCTGGAACAGTATCAGACAGAGGATGAGCTGTACCAACTCTCATTGCAGCGGAAGCCATGCTCCAAGTCATGGgtaggttagcccatctatctcccagttgtagcactctattcttttgggct Alignment from Pairagon GTGTCCCTGGATCAGTATCAGACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG aaaagggaaagagcaggtggggtgccctcccttttcctttatttttatag---TCCCTGGAACAGTATCAGACAGAGGATGAGCTGTACCAACTCTCATTGCAGCGGAAGCCATGCTCCAAGTCATGGgtaggttagcccatctatctcccagttgtagcactctattcttttgggct Alignment from Exonerate_protein2genome TCCCTGGATCAGTATCAGACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG aaaagggaaagagcaggtggggtgccctcccttttcctttatttttatagTCCCTGGAACAGTATCAGACAGAGGATGAGCTGTACCAACTCTCATTGCAGCGGAAGCCATGCTCCAAGTCATGGgtaggttagcccatctatctcccagttgtagcactctattcttttgggct Alignment from Exonerate_coding2genome TCCCTGGATCAGTATCAGACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG aaaagggaaagagcaggtggggtgccctcccttttcctttatttttatagTCCCTGGAACAGTATCAGACAGAGGATGAGCTGTACCAACTCTCATTGCAGCGGAAGCCATGCTCCAAGTCATGGgtaggttagcccatctatctcccagttgtagcactctattcttttgggct Alignment from GeneWise TCCCTGGATCAGTATCAGACAGAGGATGAGCTGTACCAGCTCTCACTGCAGCGAGAGCCACGCTCCAAGTCGTCG aaaagggaaagagcaggtggggtgccctcccttttcctttatttttatagTCCCTGGAACAGTATCAGACAGAGGATGAGCTGTACCAACTCTCATTGCAGCGGAAGCCATGCTCCAAGTCATGGgtaggttagcccatctatctcccagttgtagcactctattcttttgggct #### Rbp4_ID7524_3 --> 0 - 2 Original Alignment TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGag ctaatttaggtgggaggtgaacttaggcactgttctccattcttacacagTTTTCAGGGCTCTTGTACACTATTGCA---AAGGGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTC---aggtgagtagtgaacctgagtacagtactgtcactttagctaaataaggagg Alignment from CESAR TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGag ctaatttaggtgggaggtgaacttaggcactgttctccattcttacacagTTTTCAGGGCTCTTGTACACTATTGCA---AAGGGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTC---aggtgagtagtgaacctgagtacagtactgtcactttagctaaataaggagg Alignment from Spaln_aa2Genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaatttaggtgggaggtgaacttaggcactgttctccattcttacacagTTTTCAGGGCTCTTGTACACTATTGCA---AAGGGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACAT---CTCAGgtgagtagtgaacctgagtacagtactgtcactttagctaaataaggagg Alignment from Spaln_nt2Genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaatttaggtgggaggtgaacttaggcactgttctccattcttacacagTTTTCAGGGCTCTTGTACACTATTGC---AAAGGGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGT---ACATCTCAGgtgagtagtgaacctgagtacagtactgtcactttagctaaataaggagg Alignment from Pairagon TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaatttaggtgggaggtgaacttaggcactgttctccattcttacacagTTTTCAGGGCTCTTGTACACTATTGC---AAAGGGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGAC--------------AGgtacatctcaggtgagtagtgaacctgagtacagtactgtcactttagctaaataaggagg Alignment from Exonerate_protein2genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaatttaggtgggaggtgaacttaggcactgttctccattcttacacagTTTTCAGGGCTCTTGTACACTATTGCA---AAGGGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACAT---CTCAGgtgagtagtgaacctgagtacagtactgtcactttagctaaataaggagg Alignment from Exonerate_coding2genome GCTCGTTTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG ctaatttaggtgggaggtgaacttaggcactgttctccattcttACACAGTTTTCAGGGCTCTTGTACACTATTGCA---AAGGGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACAT---CTCAGgtgagtagtgaacctgagtacagtactgtcactttagctaaataaggagg Alignment from GeneWise TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCT ctaatttaggtgggaggtgaacttaggcactgttctccattcttacacagTTTTCAGGGCTCTTGTACACTATTGCAAAG---GGTCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGGCATATGAGTGCTACTGCCAAGGGACAGGTACATCTCAGgtgagtagtgaacctgagtacagtactgtcactttagctaaataaggagg #### Rce1_ID576_6 --> 2 - 1 Original Alignment CTTTTTTGGAGTCg ccCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAg CTTTCTTGGGGTTggtaagtccctgtacttgcattttttcctctcctaagcc---------CACATTATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAggtaaacgggaaaagtagtgagttacgaagaggaaaaagggctggatctgg Alignment from CESAR CTTTTTTGGAGTCg ccCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAg CTTTCTTGGGGTTggtgaggctgtgtacttgcattttttcctctcctaagcc---------CACATTATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAggtaaacgggaaaagtagtgagttacgaagaggaaaaagggctggatctgg Alignment from Spaln_aa2Genome CTTTTTTGGAGTCG CCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CTTTCTTGGGGTTGgtaagtccctgtacttgcattttttcctctcctaagCC---------CACATTATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAGgtaaacgggaaaagtagtgagttacgaagaggaaaaagggctggatctgg Alignment from Spaln_nt2Genome CTTTTTTGGAGTCG CCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CTTTCTTGGGGTTGgtaagtccctgtacttgcattttttcctctcctaagC---------CCACATTATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAGgtaaacgggaaaagtagtgagttacgaagaggaaaaagggctggatctgg Alignment from Pairagon CTTTTTTGGAGTCG CCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CTTTCTTGGGGTTGgtaagtccctgtacttgcattttttcctctcctaagC---------CCACATTATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAGgtaaacgggaaaagtagtgagttacgaagaggaaaaagggctggatctgg Alignment from Exonerate_protein2genome CTTTTTTGGAGTCG CCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CTTTCTTGGGGTTGgtaagtccctgtacttgcattttttcctctcctaagCC---------CACATTATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAGgtaaacgggaaaagtagtgagttacgaagaggaaaaagggctggatctgg Alignment from Exonerate_coding2genome CTTTTTTGGAGTCG CCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CTTTCTTGGGGTTGgtaagtccctgtacttgcattttttcctctcctaagCC---------CACATTATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAGgtaaacgggaaaagtagtgagttacgaagaggaaaaagggctggatctgg Alignment from GeneWise CTTTTTTGGAGTCGCC---------------CATTTTCAC------------CACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CTTTCTTGGGGTTGGTAAGTCCCTGTACTTGCATTTTTTCCTCTCCTAAGCCCACATTATAGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAGgtaaacgggaaaagtagtgagttacgaagaggaaaaagggctggatctgg #### Rce1_ID577_5 --> 2 - 1 Original Alignment ccCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCg ccCATTTTCACCAC gtagttttgttcaaacaggtggctagttatttttgtgttgtactttgcagcgCCTTGTTCATGGGCTCAATGCCTCACTGAAATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCCGTGTTCACATGCCCA---------------ggtaagtctgtggtgctcttgggctgttgtaactcagccCATTTTCAGCAC Alignment from CESAR ccCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCg ccCATTTTCACCAC gtagttttgttcaaacaggtggctagttatttttgtgttgtactttgcagcgCCTTGTTCATGGGCTCAATGCCTCACTGAAATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCCGTGTTCACATGCCCA---------------ggtaagtctgtggtgaccctgtacctttgttttccagccCATTTTCAGCAC Alignment from Spaln_aa2Genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCA------------CTCTTTTTTGGA---------GTCGCCCATTTTCACCAC gtagttttgttcaaacaggtggctagttatttttgtgttgtactttgcagCGCCTTGTTCATGGGCTCAATGCCTCACTGAAATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCCGTGTTCACATGCCCAGGTAAGTCTGTGGTGCTCTTGGGCTGTTGTAACTCAGCCCATTTTCAGCAC Alignment from Spaln_nt2Genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCAC gtagttttgttcaaacaggtggctagttatttttgtgttgtactttgcagCGCCTTGTTCATGGGCTCAATGCCTCACTGAAATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCCGTGTTCACATGCCCA---------------GgtaagtctgtggtgctcttgggctgttgtaactcagCCCATTTTCAGCAC Alignment from Pairagon CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCAC gtagttttgttcaaacaggtggctagttatttttgtgttgtactttgcagCGCCTTGTTCATGGGCTCAATGCCTCACTGAAATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCCGTGTTCACATGCCCA---------------GgtaagtctgtggtgctcttgggctgttgtaactcagCCCATTTTCAGCAC Alignment from Exonerate_protein2genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCAC gtagttttgttcaaacaggtggctagttatttttgtgttgtactttgcagCGCCTTGTTCATGGGCTCAATGCCTCACTGAAATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCCGTGTTCACATGCCCAGgtaagtctgtggtgctcttgggctgttgtaactcagcccattttcagcac Alignment from Exonerate_coding2genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCAC gtagttttgttcaaacaggtggctagttatttttgtgttgtactttgcagCGCCTTGTTCATGGGCTCAATGCCTCACTGAAATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCCGTGTTCACATGCCCAGgtaagtctgtggtgctcttgggctgttgtaactcagcccattttcagcac Alignment from GeneWise CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCA------------CTCTTTTTTGGAGTC---------GCCCATTTTCACCAC gtagttttgttcaaacaggtggctagttatttttgtgttgtactttgcagCGCCTTGTTCATGGGCTCAATGCCTCACTGAAATGCGCTGGCTAAGAAACAAAGTTATTGCACCATTGACAGGGGAGTTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCCGTGTTCACATGCCCAGGTAAGTCTGTGGTGCTCTTGGGCTGTTGTAACTCAGCCCATTTTCAGCAC #### Rce1_ID579_3 --> 0 - 0 Original Alignment CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG------ gaatcttttgctcacaaaggcacaacaaaaatattgcttttttccttcagCCTGGAACATCACTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCATTGCTGCCACTGCTACTAACTATGCATGATgtaagtcatgcttggtatttttactgcattattgtaacaagggatttggt Alignment from CESAR CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG------ gaatcttttgctcacaaaggcacaacaaaaatattgcttttttccttcagCCTGGAACATCACTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCATTGCTGCCACTGCTACTAACTATGCATGATgtaagtcatgcttggtatttttactgcattattgtaacaagggatttggt Alignment from Spaln_aa2Genome CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG------ gaatcttttgctcacaaaggcacaacaaaaatattgcttttttccttcagCCTGGAACATCACTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCATTGCTGCCACTGCTACTAACTATGCATGATgtaagtcatgcttggtatttttactgcattattgtaacaagggatttggt Alignment from Spaln_nt2Genome CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG------ gaatcttttgctcacaaaggcacaacaaaaatattgcttttttccttcagCCTGGAACATCACTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCATTGCTGCCACTGCTACTAACTATGCATGATgtaagtcatgcttggtatttttactgcattattgtaacaagggatttggt Alignment from Pairagon CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG------ gaatcttttgctcacaaaggcacaacaaaaatattgcttttttccttcagCCTGGAACATCACTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCATTGCTGCCACTGCTACTAACTATGCATGATgtaagtcatgcttggtatttttactgcattattgtaacaagggatttggt Alignment from Exonerate_protein2genome CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG------ gaatcttttgctcacaaaggcacaacaaaaatattgcttttttccttcagCCTGGAACATCACTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCATTGCTGCCACTGCTACTAACTATGCATGATgtaagtcatgcttggtatttttactgcattattgtaacaagggatttggt Alignment from Exonerate_coding2genome CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG------ gaatcttttgctcacaaaggcacaacaaaaatattgcttttttccttcagCCTGGAACATCACTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCATTGCTGCCACTGCTACTAACTATGCATGATgtaagtcatgcttggtatttttactgcattattgtaacaagggatttggt Alignment from GeneWise CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG------ gaatcttttgctcacaaaggcacaacaaaaatattgcttttttccttcagCCTGGAACATCACTGCTCATCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCTGCAGCATTGCTGCCACTGCTACTAACTATGCATGATgtaagtcatgcttggtatttttactgcattattgtaacaagggatttggt #### Rcor2_ID2093_4 --> 0 - 0 Original Alignment ------GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG taacttagcattggcatgcacagtcctatttgtcatatttctcaaaacagGTGTGCGCACTCGGTATGCTTCTGTGGCATAAACATGATGTTGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAAGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagactgtaattagttccccttgaatacctcccagcctttatgcagat Alignment from CESAR ------GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG taacttagcattggcatgcacagtcctatttgtcatatttctcaaaacagGTGTGCGCACTCGGTATGCTTCTGTGGCATAAACATGATGTTGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAAGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagactgtaattagttccccttgaatacctcccagcctttatgcagat Alignment from Spaln_aa2Genome GCACTCGGCATG------CTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG taacttagcattggcatgcacagtcctatttgtcatatttctcaaaacagGTGTGCGCACTCGGTATGCTTCTGTGGCATAAACATGATGTTGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAAGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagactgtaattagttccccttgaatacctcccagcctttatgcagat Alignment from Spaln_nt2Genome GCACTCGGCATG------CTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG taacttagcattggcatgcacagtcctatttgtcatatttctcaaaacagGTGTGCGCACTCGGTATGCTTCTGTGGCATAAACATGATGTTGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAAGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagactgtaattagttccccttgaatacctcccagcctttatgcagat Alignment from Pairagon --------------------------------------------------------GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG TAACTTAGCATTGGCATGCACAGTCCTATTTGTCATATTTCTCAAAACAGGTGTGCGCACTCGGTATGCTTCTGTGGCATAAACATGATGTTGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAAGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagactgtaattagttccccttgaatacctcccagcctttatgcagat Alignment from Exonerate_protein2genome ------GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG taacttagcattggcatgcacagtcctatttgtcatatttctcaaaacagGTGTGCGCACTCGGTATGCTTCTGTGGCATAAACATGATGTTGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAAGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagactgtaattagttccccttgaatacctcccagcctttatgcagat Alignment from Exonerate_coding2genome ------GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG taacttagcattggcatgcacagtcctatttgtcatatttctcaaaacagGTGTGCGCACTCGGTATGCTTCTGTGGCATAAACATGATGTTGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAAGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagactgtaattagttccccttgaatacctcccagcctttatgcagat Alignment from GeneWise ------GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG taacttagcattggcatgcacagtcctatttgtcatatttctcaaaacagGTGTGCGCACTCGGTATGCTTCTGTGGCATAAACATGATGTTGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAAGCCTTTGGGTTCCATGGCAAGTGCTTTCAGCGTATCCAGCAAATGgtaagactgtaattagttccccttgaatacctcccagcctttatgcagat #### Rela_ID1126_3 --> 2 - 0 Original Alignment agCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG gccagggcacactgtaccaccttttttttttcctctgccttctcctgcagaa------CAGGCAGCTGGCCCTTATGTGGACATCATCAAACAACCAAATCAACAAGGC---CGTTTCCGCTATAAATCTGAGGGGCACTCTGAAGGTGGTATCCCTGGTGAGAGAAGCATGGATACTAAAAAGACACATCCCACTATAAAGgtgagtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtatc Alignment from CESAR agCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG ctggaggccagggcacactgtaccattttttcctctgccttctcctgcagaa------CAGGCAGCTGGCCCTTATGTGGACATCATCAAACAACCAAATCAACAAGGC---CGTTTCCGCTATAAATCTGAGGGGCACTCTGAAGGTGGTATCCCTGGTGAGAGAAGCATGGATACTAAAAAGACACATCCCACTATAAAGgtgagtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtatc Alignment from Spaln_aa2Genome AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG gccagggcacactgtaccaccttttttttttcctctgccttctcctgcagAA------CAGGCAGCTGGCCCTTATGTGGACATCATCAAACAACCAAATCAACAAGGC---CGTTTCCGCTATAAATCTGAGGGGCACTCTGAAGGTGGTATCCCTGGTGAGAGAAGCATGGATACTAAAAAGACACATCCCACTATAAAGgtgagtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtatc Alignment from Spaln_nt2Genome AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG gccagggcacactgtaccaccttttttttttcctctgccttctcctgcagA------ACAGGCAGCTGGCCCTTATGTGGACATCATCAAACAACCAAATCAACAAGGC---CGTTTCCGCTATAAATCTGAGGGGCACTCTGAAGGTGGTATCCCTGGTGAGAGAAGCATGGATACTAAAAAGACACATCCCACTATAAAGgtgagtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtatc Alignment from Pairagon CAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG gccagggcacactgtaccaccttttttttttcctctgccttctcctgcagaaCAGGCAGCTGGCCCTTATGTGGACATCATCAAACAACCAAATCAACAAGGC---CGTTTCCGCTATAAATCTGAGGGGCACTCTGAAGGTGGTATCCCTGGTGAGAGAAGCATGGATACTAAAAAGACACATCCCACTATAAAGgtgagtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtatc Alignment from Exonerate_protein2genome AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG gccagggcacactgtaccaccttttttttttcctctgccttctcctgcagAA------CAGGCAGCTGGCCCTTATGTGGACATCATCAAACAACCAAATCAACAAGGC---CGTTTCCGCTATAAATCTGAGGGGCACTCTGAAGGTGGTATCCCTGGTGAGAGAAGCATGGATACTAAAAAGACACATCCCACTATAAAGgtgagtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtatc Alignment from Exonerate_coding2genome gccagggcacactgtaccaccttttttttttcctctgccttctcctgcagaacaggcagctggcccttatgtggacatcatcaaacaaccaaatcaacaaggccgtttccgctataaatctgaggggcactctgaaggtggtatccctggtgagagaagcatggatactaaaaagacacatcccactataaaggtgagtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtatc Alignment from GeneWise GACGATCTGTTTCCCCTCATCTTTCCCTCAGAGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG gcacactgtaccacctttt------TTTTTTCCTCTGCCTTCTCCTGCAGAA------CAGGCAGCTGGCCCTTATGTGGACATCATCAAACAACCAAATCAACAAGGC---CGTTTCCGCTATAAATCTGAGGGGCACTCTGAAGGTGGTATCCCTGGTGAGAGAAGCATGGATACTAAAAAGACACATCCCACTATAAAGgtgagtaacaaggtccttgcatggctaacaagcaaacaggtgtcagtatc #### Rela_ID1130_7 --> 2 - 1 Original Alignment ggGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAAg aatggtcagggctaaggcacccatcgatatgaacacttttctctgtgtagggGCTCCCAACACTTCTAAGCTTAAGATCTGCAGAGTAAACAGGAACTCAGGTAGCTGTCTTGGAGGGGAAGAGATTTTCCTTCTG------------------ggtgagtagtgaactacacggggagcaattggggtgcataaagacagtggg Alignment from CESAR ggGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAAg aatggtcagggctaaggcacccatcgatatgaacacttttctctgtgtagggGCTCCCAACACTTCTAAGCTTAAGATCTGCAGAGTAAACAGGAACTCAGGTAGCTGTCTTGGAGGGGAAGAGATTTTCCTTCTG------------------ggtgagtagtgaactacacggggagcaattggggtgcataaagacagtggg Alignment from Spaln_aa2Genome GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTG- aatggtcagggctaaggcacccatcgatatgaacacttttctctgtgtagGGGCTCCCAACACTTCTAAGCTTAAGATCTGCAGAGTAAACAGGAACTCAGGTAGCTGTCTTGGAGGGGAAGAGATTTTCCTTCTGGgtgagtagtgaactacacggggagcaattggggtgcataaagacagtggg Alignment from Spaln_nt2Genome GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGT aatggtcagggctaaggcacccatcgatatgaacacttttctctgtgtagGGGCTCCCAACACTTCTAAGCTTAAGATCTGCAGAGTAAACAGGAACTCAGGTAGCTGTCTTGGAGGGGAAGAGATTTTCCTTCTGGgtgagtagtgaactacacggggagcaattggggtgcataaagacagtggg Alignment from Pairagon GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAAG aatggtcagggctaaggcacccatcgatatgaacacttttctctgtgtagGGGCTCCCAACACTTCTAAGCTTAAGATCTGCAGAGTAAACAGGAACTCAGGTAGCTGTCTTGGAGGGGAAGAGATTTTCCTTCTG------------------Ggtgagtagtgaactacacggggagcaattggggtgcataaagacagtggg Alignment from Exonerate_protein2genome GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGT aatggtcagggctaaggcacccatcgatatgaacacttttctctgtgtagGGGCTCCCAACACTTCTAAGCTTAAGATCTGCAGAGTAAACAGGAACTCAGGTAGCTGTCTTGGAGGGGAAGAGATTTTCCTTCTGGgtgagtagtgaactacacggggagcaattggggtgcataaagacagtggg Alignment from Exonerate_coding2genome aatggtcagggctaaggcacccatcgatatgaacacttttctctgtgtaggggctcccaacacttctaagcttaagatctgcagagtaaacaggaactcaggtagctgtcttggaggggaagagattttccttctgggtgagtagtgaactacacggggagcaattggggtgcataaagacagtggg Alignment from GeneWise GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGT aatggtcagggctaaggcacccatcgatatgaacacttttctctgtgtagGGGCTCCCAACACTTCTAAGCTTAAGATCTGCAGAGTAAACAGGAACTCAGGTAGCTGTCTTGGAGGGGAAGAGATTTTCCTTCTGGgtgagtagtgaactacacggggagcaattggggtgcataaagacagtggg #### Rin1_ID809_4 --> 2 - 2 Original Alignment gt---GTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCag tgaggattgcactgagctaaacagatagaatgtatgtatgtgatatgcaggaATCATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCaggtgagactgtctgtgcacacctgctgacccttcaagccaactcagcacat Alignment from CESAR gt---GTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCag tgaggattgcactgagctaaacagatagaatgtatgtatgtgatatgcaggaATCATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCaggtgagactgtctgtgcacacctgctgacccttcaagccaactcagcacat Alignment from Spaln_aa2Genome GCGGTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgaggattgcactgagctaaacagatagaatgtatgtatgtgatatgcagGAATCATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCAGgtgagactgtctgtgcacacctgctgacccttcaagccaactcagcacat Alignment from Spaln_nt2Genome GTGTCTCTTTGG---AGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgaggattgcactgagctaaacagatagaatgtatgtatgtgatatgcagGAATCATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCAGgtgagactgtctgtgcacacctgctgacccttcaagccaactcagcacat Alignment from Pairagon -------------------------------------------------------GTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG TGAGGATTGCACTGAGCTAAACAGATAGAATGTATGTATGTGATATGCAGGAATCATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCAGgtgagactgtctgtgcacacctgctgacccttcaagccaactcagcacat Alignment from Exonerate_protein2genome GCGGTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgaggattgcactgagctaaacagatagaatgtatgtatgtgatatgcagGAATCATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCAGgtgagactgtctgtgcacacctgctgacccttcaagccaactcagcacat Alignment from Exonerate_coding2genome GCGGTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgaggattgcactgagctaaacagatagaatgtatgtatgtgatatgcagGAATCATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCAGgtgagactgtctgtgcacacctgctgacccttcaagccaactcagcacat Alignment from GeneWise --GGTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tgaggattgcactgagctaaacagatagaatgtatgtatgtgatatgcagGAATCATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGCCGTACCAGgtgagactgtctgtgcacacctgctgacccttcaagccaactcagcacat #### Rin1_ID812_7 --> 2 - 1 Original Alignment aa---TTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAg agtacgatttcaacacaaaatcccctggtatcctaaacatgtcttgacagaaGTATTGGTGCTGGAGAAGTCCCTGCATCGCTCGGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGCCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCGAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTATGTCAGAAGCTTCTACAGCTCCTACGTGCGTACTCACCTAGTGCCCAAGTTAAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGCCAAGCAggtgagtgacaaccatcttcccctagggctagagcacatatcacacctcca Alignment from CESAR aaTTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAg agaagtacgatttcaacacaaaatcccctatcctaaacatgtcttgacagaagtaTTGGTGCTGGAGAAGTCCCTGCATCGCTCGGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGCCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCGAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTATGTCAGAAGCTTCTACAGCTCCTACGTGCGTACTCACCTAGTGCCCAAGTTAAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGCCAAGCAggtgagtgacaaccatcttcccctagggctagagcacatatcacacctcca Alignment from Spaln_aa2Genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG agtacgatttcaacacaaaatcccctggtatcctaaacatgtcttgacagaagTATTGGTGCTGGAGAAGTCCCTGCATCGCTCGGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGCCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCGAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTATGTCAGAAGCTTCTACAGCTCCTACGTGCGTACTCACCTAGTGCCCAAGTTAAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGCCAAGCAGgtgagtgacaaccatcttcccctagggctagagcacatatcacacctcca Alignment from Spaln_nt2Genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG agtacgatttcaacacaaaatcccctggtatcctaaacatgtcttgacagaagTATTGGTGCTGGAGAAGTCCCTGCATCGCTCGGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGCCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCGAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTATGTCAGAAGCTTCTACAGCTCCTACGTGCGTACTCACCTAGTGCCCAAGTTAAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGCCAAGCAGgtgagtgacaaccatcttcccctagggctagagcacatatcacacctcca Alignment from Pairagon ---------------------------------------------------GGAATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG AGTACGATTTCAACACAAAATCCCCTGGTATCCTAAACATGTCTTGACAGAAGTATTGGTGCTGGAGAAGTCCCTGCATCGCTCGGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGCCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCGAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTATGTCAGAAGCTTCTACAGCTCCTACGTGCGTACTCACCTAGTGCCCAAGTTAAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGCCAAGCAGgtgagtgacaaccatcttcccctagggctagagcacatatcacacctcca Alignment from Exonerate_protein2genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG agtacgatttcaacacaaaatcccctggtatcctaaacatgtcttgacagaagTATTGGTGCTGGAGAAGTCCCTGCATCGCTCGGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGCCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCGAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTATGTCAGAAGCTTCTACAGCTCCTACGTGCGTACTCACCTAGTGCCCAAGTTAAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGCCAAGCAGgtgagtgacaaccatcttcccctagggctagagcacatatcacacctcca Alignment from Exonerate_coding2genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG agtacgatttcaacacaaaatcccctggtatcctaaacatgtcttgacagaagTATTGGTGCTGGAGAAGTCCCTGCATCGCTCGGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGCCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCGAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTATGTCAGAAGCTTCTACAGCTCCTACGTGCGTACTCACCTAGTGCCCAAGTTAAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGCCAAGCAGgtgagtgacaaccatcttcccctagggctagagcacatatcacacctcca Alignment from GeneWise AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG agtacgatttcaacacaaaatcccctggtatcctaaacatgtcttgacagaagTATTGGTGCTGGAGAAGTCCCTGCATCGCTCGGTTCTCAAACCACTTCGACCTATCCTGGCTGCTCGCCTACGCCACCGGCTTTCTACTGATGGTTCTCTTGGTTGTCTAGCAGAGGGCTTTCTCCTCACCCGAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTTCTCCAGTGGAGACAGAACAGGTATGTCAGAAGCTTCTACAGCTCCTACGTGCGTACTCACCTAGTGCCCAAGTTAAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTGAAGAGCCAAGCAGgtgagtgacaaccatcttcccctagggctagagcacatatcacacctcca #### Rpp30_ID7088_8 --> 0 - 0 Original Alignment AATGTAATTCTGTCCAGTGCTGCAGAAAGG--------- tagtatgcaactggtcattgatttctctctctgccttcctcttgatgcagAATGTTATTCTGTCAAGTACGGCAGCGAGAACCATCAGTgtgagtttagggcactggcagtggttaggacacttaacataggcaactct Alignment from CESAR AATGTAATTCTGTCCAGTGCTGCAGAAAGG--------- tagtatgcaactggtcattgatttctctctctgccttcctcttgatgcagAATGTTATTCTGTCAAGTACGGCAGCGAGAACCATCAGTgtgagtttagggcactggcagtggttaggacacttaacataggcaactct Alignment from Spaln_aa2Genome AATGTAATTCTGTCCAGTGCTGCAGAAAGG--------- tagtatgcaactggtcattgatttctctctctgccttcctcttgatgcagAATGTTATTCTGTCAAGTACGGCAGCGAGAACCATCAGTgtgagtttagggcactggcagtggttaggacacttaacataggcaactct Alignment from Spaln_nt2Genome AATGTAATTCTGTCCAGTGCTGCA tagtatgcaactggtcattgatttctctctctgccttcctcttgatgcagAATGTTATTCTGTCAAGTACGGCAgcgagaaccatcagtgtgagtttagggcactggcagtggttaggacacttaacataggcaactct Alignment from Pairagon AATGTAATTCTGTCCAGTGCTGCA tagtatgcaactggtcattgatttctctctctgccttcctcttgatgcagAATGTTATTCTGTCAAGTACGGCAgcgagaaccatcagtgtgagtttagggcactggcagtggttaggacacttaacataggcaactct Alignment from Exonerate_protein2genome AATGTAATTCTGTCCAGTGCTGCAGAAAGGCCTTTGG tagtatgcaactggtcattgatttctctctctgccttcctcttgatgcagAATGTTATTCTGTCAAGTACGGCAGCGAGAACCATCAgtgtgagtttagggcactggcagtggttaggacacttaacataggcaactct Alignment from Exonerate_coding2genome tagtatgcaactggtcattgatttctctctctgccttcctcttgatgcagaatgttattctgtcaagtacggcagcgagaaccatcagtgtgagtttagggcactggcagtggttaggacacttaacataggcaactct Alignment from GeneWise tagtatgcaactggtcattgatttctctctctgccttcctcttgatgcagaatgttattctgtcaagtacggcagcgagaaccatcagtgtgagtttagggcactggcagtggttaggacacttaacataggcaactct #### Rps6ka4_ID1805_15 --> 0 - 1 Original Alignment TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGAg tgaccatgtgttccacttgtgggtaatgtggccatctgtttctgtttcagTACATGATGCTCTCTAGCCAGGTTCCATTCCAAGGTGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCGCGTTTCTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTG------ggtgagccctgcatggttggaggtaagatctgattaaggaaacagcaatgt Alignment from CESAR TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGAg tgaccatgtgttccacttgtgggtaatgtggccatctgtttctgtttcagTACATGATGCTCTCTAGCCAGGTTCCATTCCAAGGTGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCGCGTTTCTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTG------ggtgagccctgcatggttggaggtaagatctgattaaggaaacagcaatgt Alignment from Spaln_aa2Genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTG- tgaccatgtgttccacttgtgggtaatgtggccatctgtttctgtttcagTACATGATGCTCTCTAGCCAGGTTCCATTCCAAGGTGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCGCGTTTCTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTGGgtgagccctgcatggttggaggtaagatctgattaaggaaacagcaatgt Alignment from Spaln_nt2Genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGG tgaccatgtgttccacttgtgggtaatgtggccatctgtttctgtttcagTACATGATGCTCTCTAGCCAGGTTCCATTCCAAGGTGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCGCGTTTCTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTGGgtgagccctgcatggttggaggtaagatctgattaaggaaacagcaatgt Alignment from Pairagon TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGG tgaccatgtgttccacttgtgggtaatgtggccatctgtttctgtttcagTACATGATGCTCTCTAGCCAGGTTCCATTCCAAGGTGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCGCGTTTCTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTGGgtgagccctgcatggttggaggtaagatctgattaaggaaacagcaatgt Alignment from Exonerate_protein2genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGG tgaccatgtgttccacttgtgggtaatgtggccatctgtttctgtttcagTACATGATGCTCTCTAGCCAGGTTCCATTCCAAGGTGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCGCGTTTCTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTGGgtgagccctgcatggttggaggtaagatctgattaaggaaacagcaatgt Alignment from Exonerate_coding2genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGG tgaccatgtgttccacttgtgggtaatgtggccatctgtttctgtttcagTACATGATGCTCTCTAGCCAGGTTCCATTCCAAGGTGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCGCGTTTCTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTGGgtgagccctgcatggttggaggtaagatctgattaaggaaacagcaatgt Alignment from GeneWise TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGG tgaccatgtgttccacttgtgggtaatgtggccatctgtttctgtttcagTACATGATGCTCTCTAGCCAGGTTCCATTCCAAGGTGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATTTGTGAAGCGCGTTTCTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTGGgtgagccctgcatggttggaggtaagatctgattaaggaaacagcaatgt #### Rps6ka4_ID1808_12 --> 1 - 0 Original Alignment gCTGGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG tttggggtgacagcacaattcacttagtctcagacacacacccttctcagg---GAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGTCAGTCACACCCCAATGTGGTGAATCTTCATGAGGTGCTTCATGATCAGgtatccagtgcttgttagtgaccacccgtgtagagagggagagagatgga Alignment from CESAR gCTGGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG tgatttggggtgacagcacaattcaagtctcagacacacacccttctcagg---GAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGTCAGTCACACCCCAATGTGGTGAATCTTCATGAGGTGCTTCATGATCAGgtatccagtgcttgttagtgaccacccgtgtagagagggagagagatgga Alignment from Spaln_aa2Genome GCTGGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG tttggggtgacagcacaattcacttagtctcagacacacacccttctcagG---GAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGTCAGTCACACCCCAATGTGGTGAATCTTCATGAGGTGCTTCATGATCAGgtatccagtgcttgttagtgaccacccgtgtagagagggagagagatgga Alignment from Spaln_nt2Genome GCTGGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG tttggggtgacagcacaattcacttagtctcagacacacacccttctcag---GGAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGTCAGTCACACCCCAATGTGGTGAATCTTCATGAGGTGCTTCATGATCAGgtatccagtgcttgttagtgaccacccgtgtagagagggagagagatgga Alignment from Pairagon GCTGGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG tttggggtgacagcacaattcacttagtctcagacacacacccttctcag---GGAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGTCAGTCACACCCCAATGTGGTGAATCTTCATGAGGTGCTTCATGATCAGgtatccagtgcttgttagtgaccacccgtgtagagagggagagagatgga Alignment from Exonerate_protein2genome GCTGGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG tttggggtgacagcacaattcacttagtctcagacacacacccttctcagG---GAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGTCAGTCACACCCCAATGTGGTGAATCTTCATGAGGTGCTTCATGATCAGgtatccagtgcttgttagtgaccacccgtgtagagagggagagagatgga Alignment from Exonerate_coding2genome GCTGGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG tttggggtgacagcacaattcacttagtctcagacacacacccttctcagG---GAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGTCAGTCACACCCCAATGTGGTGAATCTTCATGAGGTGCTTCATGATCAGgtatccagtgcttgttagtgaccacccgtgtagagagggagagagatgga Alignment from GeneWise GGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG tttggggtgacagcacaattcacttagtctcagacacacacccttctcagGGAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGTCAGTCACACCCCAATGTGGTGAATCTTCATGAGGTGCTTCATGATCAGgtatccagtgcttgttagtgaccacccgtgtagagagggagagagatgga #### Rps6ka4_ID1814_6 --> 0 - 0 Original Alignment ---------------------------AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAAG gtgggggcaaaaactgactacatttgattgtcttgtcttttcttcccaagTGGCTGATCTTGTCAAACAACCTTCTAAAAGAGTGGACTTTTTCCTTCTGTGGTACAGTTGAATACATGGCTCCTGAGATTTTCCGTAGCAAAGCTGGACGTGGTAAGgtaagctgctttggcggacagaggtcgtgtttcattgtgctttacatata Alignment from CESAR ---------------------------AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAAG gtgggggcaaaaactgactacatttgattgtcttgtcttttcttcccaagTGGCTGATCTTGTCAAACAACCTTCTAAAAGAGTGGACTTTTTCCTTCTGTGGTACAGTTGAATACATGGCTCCTGAGATTTTCCGTAGCAAAGCTGGACGTGGTAAGgtaagctgctttggcggacagaggtcgtggcttcccccgcccccttccca Alignment from Spaln_aa2Genome AGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAAG gtgggggcaaaaactgactacatttgattgtcttgtcttttcttcccaagtggctgatcttgtcaaacaaccttctaaaagAGTGGACTTTTTCCTTCTGTGGTACAGTTGAATACATGGCTCCTGAGATTTTCCGTAGCAAAGCTGGACGTGGTAAGgtaagctgctttggcggacagaggtcgtgtttcattgtgctttacatata Alignment from Spaln_nt2Genome AGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAAG gtgggggcaaaaactgactacatttgattgtcttgtcttttcttcccaagtggctgatcttgtcaaacaaccttctaaaagAGTGGACTTTTTCCTTCTGTGGTACAGTTGAATACATGGCTCCTGAGATTTTCCGTAGCAAAGCTGGACGTGGTAAGgtaagctgctttggcggacagaggtcgtgtttcattgtgctttacatata Alignment from Pairagon ---------------------------AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAAG gtgggggcaaaaactgactacatttgattgtcttgtcttttcttcccaagTGGCTGATCTTGTCAAACAACCTTCTAAAAGAGTGGACTTTTTCCTTCTGTGGTACAGTTGAATACATGGCTCCTGAGATTTTCCGTAGCAAAGCTGGACGTGGTAAGgtaagctgctttggcggacagaggtcgtgtttcattgtgctttacatata Alignment from Exonerate_protein2genome AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAAG gtgggggcaaaaactgactacatttgattgtcttgtcttttcttcccaagtggctgatcttgtcaaacaaccttctaAAAGAGTGGACTTTTTCCTTCTGTGGTACAGTTGAATACATGGCTCCTGAGATTTTCCGTAGCAAAGCTGGACGTGGTAAGgtaagctgctttggcggacagaggtcgtgtttcattgtgctttacatata Alignment from Exonerate_coding2genome AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAA gtgggggcaaaaactgactacatttgattgtcttgtcttttcttcccaagtggctgatcttgtcaaacaaccttctaaaagagtggactttttccttctgtggtacagttgaatacatggctcctgagATTTTCCGTAGCAAAGCTGGACGTGGTAAGGTAAGCTGCTTTGGCGGACAGAGGTCGTGTTTCATTGTGCTTTACATATA Alignment from GeneWise AGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAAG gtgggggcaaaaactgactacatttgattgtcttgtcttttcttcccaagtggctgatcttgtcaaacaaccttctaaaagAGTGGACTTTTTCCTTCTGTGGTACAGTTGAATACATGGCTCCTGAGATTTTCCGTAGCAAAGCTGGACGTGGTAAGgtaagctgctttggcggacagaggtcgtgtttcattgtgctttacatata #### Rps6kb2_ID370_12 --> 0 - 0 Original Alignment AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG caagtcaagttgacatagtctctcgggttatcctaaacatgtcttgacag---------TTCTTCCGACACATCAATTGGGATGACCTCTTAGCCTGCTGCGTGGACCCTCTCTTCAGGCCAAGTCTAgtaagtacatggacattggtattctttacacactataggggttttcagta Alignment from CESAR AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG gcaggaagacaagtcaagttgacatggttatcctaaacatgtcttgacag---------TTCTTCCGACACATCAATTGGGATGACCTCTTAGCCTGCTGCGTGGACCCTCTCTTCAGGCCAAGTCTAgtaagtacatggacattggtattctttacacactataggggttttcagta Alignment from Spaln_aa2Genome AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG caagtcaagttgacatagtctctcgggttatcctaaacatgtcttgacag---------TTCTTCCGACACATCAATTGGGATGACCTCTTAGCCTGCTGCGTGGACCCTCTCTTCAGGCCAAGTCTAgtaagtacatggacattggtattctttacacactataggggttttcagta Alignment from Spaln_nt2Genome AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG caagtcaagttgacatagtctctcgggttatcctaaacatgtcttgacag---------TTCTTCCGACACATCAATTGGGATGACCTCTTAGCCTGCTGCGTGGACCCTCTCTTCAGGCCAAGTCTAgtaagtacatggacattggtattctttacacactataggggttttcagta Alignment from Pairagon AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG caagtcaagttgacatagtctctcgggttatcctaaacatgtcttgacag---------TTCTTCCGACACATCAATTGGGATGACCTCTTAGCCTGCTGCGTGGACCCTCTCTTCAGGCCAAGTCTAgtaagtacatggacattggtattctttacacactataggggttttcagta Alignment from Exonerate_protein2genome AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG caagtcaagttgacatagtctctcgggttatcctaaacatgTCTTGACAGTTCTTCCGACACATCAATTGGGATGACCTCTTAGCCTGCTGCGTGGACCCTCTCTTCAGGCCAAGTCTAgtaagtacatggacattggtattctttacacactataggggttttcagta Alignment from Exonerate_coding2genome AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG caagtcaagttgacatagtctctcgggttatcctaaacatgTCTTGACAGTTCTTCCGACACATCAATTGGGATGACCTCTTAGCCTGCTGCGTGGACCCTCTCTTCAGGCCAAGTCTAgtaagtacatggacattggtattctttacacactataggggttttcagta Alignment from GeneWise TTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG caagtcaagttgacatagtctctcgggttatcctaaacatgtcttgacagTTCTTCCGACACATCAATTGGGATGACCTCTTAGCCTGCTGCGTGGACCCTCTCTTCAGGCCAAGTCTAgtaagtacatggacattggtattctttacacactataggggttttcagta #### Rps6kb2_ID374_8 --> 2 - 2 Original Alignment gc---CACATCAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACat accttcagttttgccagtgtcaattcatcctccccccactgccacctcaggtGTACACATCAAACTGACATACTTAGGACTTTGCAAGGAGTCGATTCATGAGGGCACTATCAACCATACTTTCTGTGGCACCATAGAGTACatgtgagctttgagagggataccacaaagggactacaactgtgtaacttttc Alignment from CESAR gc---CACATCAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACat accttcagttttgccagtgtcaattcatcctccccccactgccacctcaggtGTACACATCAAACTGACATACTTAGGACTTTGCAAGGAGTCGATTCATGAGGGCACTATCAACCATACTTTCTGTGGCACCATAGAGTACatgtgagctttgagagggataccacaaagggactacaactgtgtatgtatgg Alignment from Spaln_aa2Genome GC---CACATCAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT accttcagttttgccagtgtcaattcatcctccccccactgccacctcagGTGTACACATCAAACTGACATACTTAGGACTTTGCAAGGAGTCGATTCATGAGGGCACTATCAACCATACTTTCTGTGGCACCATAGAGTACATgtgagctttgagagggataccacaaagggactacaactgtgtaacttttc Alignment from Spaln_nt2Genome GC---CACATCAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT accttcagttttgccagtgtcaattcatcctccccccactgccacctcagGTGTACACATCAAACTGACATACTTAGGACTTTGCAAGGAGTCGATTCATGAGGGCACTATCAACCATACTTTCTGTGGCACCATAGAGTACATgtgagctttgagagggataccacaaagggactacaactgtgtaacttttc Alignment from Pairagon GC---CACATCAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT accttcagttttgccagtgtcaattcatcctccccccactgccacctcagGTGTACACATCAAACTGACATACTTAGGACTTTGCAAGGAGTCGATTCATGAGGGCACTATCAACCATACTTTCTGTGGCACCATAGAGTACATgtgagctttgagagggataccacaaagggactacaactgtgtaacttttc Alignment from Exonerate_protein2genome GC---CACATCAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT accttcagttttgccagtgtcaattcatcctccccccactgccacctcagGTGTACACATCAAACTGACATACTTAGGACTTTGCAAGGAGTCGATTCATGAGGGCACTATCAACCATACTTTCTGTGGCACCATAGAGTACATgtgagctttgagagggataccacaaagggactacaactgtgtaacttttc Alignment from Exonerate_coding2genome GC---CACATCAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT accttcagttttgccagtgtcaattcatcctccccccactgccacctcagGTGTACACATCAAACTGACATACTTAGGACTTTGCAAGGAGTCGATTCATGAGGGCACTATCAACCATACTTTCTGTGGCACCATAGAGTACATgtgagctttgagagggataccacaaagggactacaactgtgtaacttttc Alignment from GeneWise --GGCCACATCAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT accttcagttttgccagtgtcaattcatcctccccccactgccacctcagGTGTACACATCAAACTGACATACTTAGGACTTTGCAAGGAGTCGATTCATGAGGGCACTATCAACCATACTTTCTGTGGCACCATAGAGTACATgtgagctttgagagggataccacaaagggactacaactgtgtaacttttc #### Rps6kb2_ID375_7 --> 1 - 1 Original Alignment cTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAG------g tgtgtagtagatattaagctctgcctccaccatgccttacatcccaccagtTTCTACCTTGCAGAGATCACTCTGGCACTAGGCCATCTCCATTTCCATAGTATCATTTACCGTGACCGCAAGCCTGGAAACATAATGCTCACCAGTCAGACACTGggtaggtgagatgcgagcatccctgtgtgttaaaccttcagttttgccagt Alignment from CESAR cTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAG------g tgtgtagtagatattaagctctgcctccaccatgccttacatcccaccagtTTCTACCTTGCAGAGATCACTCTGGCACTAGGCCATCTCCATTTCCATAGTATCATTTACCGTGACCGCAAGCCTGGAAACATAATGCTCACCAGTCAGACACTGggtaggtgagatgcgagcatccctgtgtgttaaaccttcagttttgccagt Alignment from Spaln_aa2Genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAG------G tgtgtagtagatattaagctctgcctccaccatgccttacatcccaccagTTTCTACCTTGCAGAGATCACTCTGGCACTAGGCCATCTCCATTTCCATAGTATCATTTACCGTGACCGCAAGCCTGGAAACATAATGCTCACCAGTCAGACACTGGgtaggtgagatgcgagcatccctgtgtgttaaaccttcagttttgccagt Alignment from Spaln_nt2Genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAG------G tgtgtagtagatattaagctctgcctccaccatgccttacatcccaccagTTTCTACCTTGCAGAGATCACTCTGGCACTAGGCCATCTCCATTTCCATAGTATCATTTACCGTGACCGCAAGCCTGGAAACATAATGCTCACCAGTCAGACACTGGgtaggtgagatgcgagcatccctgtgtgttaaaccttcagttttgccagt Alignment from Pairagon CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAG--------------------------------------------------------- tgtgtagtagatattaagctctgcctccaccatgccttacatcccaccagTTTCTACCTTGCAGAGATCACTCTGGCACTAGGCCATCTCCATTTCCATAGTATCATTTACCGTGACCGCAAGCCTGGAAACATAATGCTCACCAGTCAGACACTGGGTAGGTGAGATGCGAGCATCCCTGTGTGTTAAACCTTCAGTTTTGCCAGT Alignment from Exonerate_protein2genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAG------G tgtgtagtagatattaagctctgcctccaccatgccttacatcccaccagTTTCTACCTTGCAGAGATCACTCTGGCACTAGGCCATCTCCATTTCCATAGTATCATTTACCGTGACCGCAAGCCTGGAAACATAATGCTCACCAGTCAGACACTGGgtaggtgagatgcgagcatccctgtgtgttaaaccttcagttttgccagt Alignment from Exonerate_coding2genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAG------G tgtgtagtagatattaagctctgcctccaccatgccttacatcccaccagTTTCTACCTTGCAGAGATCACTCTGGCACTAGGCCATCTCCATTTCCATAGTATCATTTACCGTGACCGCAAGCCTGGAAACATAATGCTCACCAGTCAGACACTGGgtaggtgagatgcgagcatccctgtgtgttaaaccttcagttttgccagt Alignment from GeneWise CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAG------G tgtgtagtagatattaagctctgcctccaccatgccttacatcccaccagTTTCTACCTTGCAGAGATCACTCTGGCACTAGGCCATCTCCATTTCCATAGTATCATTTACCGTGACCGCAAGCCTGGAAACATAATGCTCACCAGTCAGACACTGGgtaggtgagatgcgagcatccctgtgtgttaaaccttcagttttgccagt #### Rps6kb2_ID379_3 --> 1 - 0 Original Alignment gACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTATGGCAAG tagggcaccatataagattttgtctctcatgtaattttgttgatttgtaggACAGTGGGACACTATGACGAAGTCGAATTGACAGAGAGA------AACCTTGATCCTGAACGTATAGGGCCCCACTGCTTTGAGTTACTCAGTGTCCTGGTCAAAGGAGGTTATGGA---gtgagtaggtatcttacccctcccagtgacatcagctctagtgcaagtgt Alignment from CESAR gACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTATGGCAAG tagggcaccatataagattttgtctctcatgtaattttgttgatttgtaggACAGTGGGACACTATGACGAAGTCGAATTGACAGAGAGA------AACCTTGATCCTGAACGTATAGGGCCCCACTGCTTTGAGTTACTCAGTGTCCTGGTCAAAGGAGGTTATGGA---gtgagtaggtatcttacccctcccagtgacatcagctctagtgcaag Alignment from Spaln_aa2Genome GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTATGGC tagggcaccatataagattttgtctctcatgtaattttgttgatttgtagGACAGTGGGACACTATGACGAAGTCGAATTGACAGAGAGA------AACCTTGATCCTGAACGTATAGGGCCCCACTGCTTTGAGTTACTCAGTGTCCTGGTCAAAGGAGGTTATGGAgtgagtaggtatcttacccctcccagtgacatcagctctagtgcaagtgt Alignment from Spaln_nt2Genome GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTATGGCAAG- tagggcaccatataagattttgtctctcatgtaattttgttgatttgtagGACAGTGGGACACTATGACGAAGTCGAATTGACAGAGAG------AAACCTTGATCCTGAACGTATAGGGCCCCACTGCTTTGAGTTACTCAGTGTCCTGGTCAAAGGAGGTTATGGAGTGAgtaggtatcttacccctcccagtgacatcagctctagtgcaagtgt Alignment from Pairagon GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTATGGC tagggcaccatataagattttgtctctcatgtaattttgttgatttgtagGACAGTGGGACACTATGACGAAGTCGAATTGACAGAGAG------AAACCTTGATCCTGAACGTATAGGGCCCCACTGCTTTGAGTTACTCAGTGTCCTGGTCAAAGGAGGTTATGGAgtgagtaggtatcttacccctcccagtgacatcagctctagtgcaagtgt Alignment from Exonerate_protein2genome GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTATGGCAAG tagggcaccatataagattttgtctctcatgtaattttgttgatttgtagGACAGTGGGACACTATGACGAAGTCGAATTGACAGAGAGA------AACCTTGATCCTGAACGTATAGGGCCCCACTGCTTTGAGTTACTCAGTGTCCTGGTCAAAGGAGGTTATGGA---gtgagtaggtatcttacccctcccagtgacatcagctctagtgcaag Alignment from Exonerate_coding2genome GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTATGGCAAG tagggcaccatataagattttgtctctcatgtaattttgttgatttgtagGACAGTGGGACACTATGACGAAGTCGAATTGACAGAGAGA------AACCTTGATCCTGAACGTATAGGGCCCCACTGCTTTGAGTTACTCAGTGTCCTGGTCAAAGGAGGTTATGGA---gtgagtaggtatcttacccctcccagtgacatcagctctagtgcaag Alignment from GeneWise GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTATGGC tagggcaccatataagattttgtctctcatgtaattttgttgatttgtagGACAGTGGGACACTATGACGAAGTCGAATTGACAGAGAGA------AACCTTGATCCTGAACGTATAGGGCCCCACTGCTTTGAGTTACTCAGTGTCCTGGTCAAAGGAGGTTATGGAgtgagtaggtatcttacccctcccagtgacatcagctctagtgcaagtgt #### Rps6kb2_ID380_2 --> 0 - 2 Original Alignment GACGTGTGTCCCCTTGGCGAATTAAGGGCTGCTGGCCTGga ttgctagctgggagttagttgagagtgtctcaccaccctttgccctctagGATGTGTGTCCACTCGGCAAACTAAGGGCTGCTGGC---gagtgagcatgtgaggtctagtgtaaggtagaggctaggggtcaaaaagagg Alignment from CESAR GACGTGTGTCCCCTTGGCGAATTAAGGGCTGCTGGCCTGga ttgctagctgggagttagttgagagtgtctcaccaccctttgccctctagGATGTGTGTCCACTCGGCAAACTAAGGGCTGCTGGC---gagtgagcatgtgaggtctagtgtaaggtagaggctaggggtcaaaaagagg Alignment from Spaln_aa2Genome GACGTGTGTCCCCTTGGCGAATTAAGGGCTGCTGGCCT ttgctagctgggagttagttgagagtgtctcaccaccctttgccctctagGATGTGTGTCCACTCGGCAAACTAAGGGCTGCTGGCGAgtgagcatgtgaggtctagtgtaaggtagaggctaggggtcaaaaagagg Alignment from Spaln_nt2Genome GACGTGTGTCCCCTTGGCGAATTAAGGGCTGCTGGCCTGGA ttgctagctgggagttagttgagagtgtctcaccaccctttgccctctagGATGTGTGTCCACTCGGCAAACTAAGGGCTGCTGGC---GAgtgagcatgtgaggtctagtgtaaggtagaggctaggggtcaaaaagagg Alignment from Pairagon GACGTGTGTCCCCTTGGCGAATTAAGGGCTGCTGGCCTGGA ttgctagctgggagttagttgagagtgtctcaccaccctttgccctctagGATGTGTGTCCACTCGGCAAACTAAGGGCTGCTGGC---GAgtgagcatgtgaggtctagtgtaaggtagaggctaggggtcaaaaagagg Alignment from Exonerate_protein2genome GACGTGTGTCCCCTTGGCGAATTAAGGGCTGCTGGCCTGGA ttgctagctgggagttagttgagagtgtctcaccaccctttgccctctagGATGTGTGTCCACTCGGCAAACTAAGGGCTGCTGGC---GAgtgagcatgtgaggtctagtgtaaggtagaggctaggggtcaaaaagagg Alignment from Exonerate_coding2genome GACGTGTGTCCCCTTGGCGAATTAAGGGCTGCTGGCCTGGA ttgctagctgggagttagttgagagtgtctcaccaccctttgccctctagGATGTGTGTCCACTCGGCAAACTAAGGGCTGCTGGC---GAgtgagcatgtgaggtctagtgtaaggtagaggctaggggtcaaaaagagg Alignment from GeneWise GACGTGTGTCCCCTTGGCGAATTAAGGGCTGCTGGCCT ttgctagctgggagttagttgagagtgtctcaccaccctttgccctctagGATGTGTGTCCACTCGGCAAACTAAGGGCTGCTGGCGAgtgagcatgtgaggtctagtgtaaggtagaggctaggggtcaaaaagagg #### Rrp12_ID8296_27 --> 1 - 2 Original Alignment aTTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGAC---ag atgccattcagacatcaattcctggcgataagtttcctctccttctgcaggTATGAATTGGTCAAGGGATTGTTACCTGCAGAGTACCACAAAGTACTGATAAACATGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCCGTGCAAAGCAAAGGTGACGCTaggtgagaccaattctcttctcagcaatgagttagctagggctgggtagcct Alignment from CESAR aTTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGAC---ag atgccattcagacatcaattcctggcgataagtttcctctccttctgcaggTATGAATTGGTCAAGGGATTGTTACCTGCAGAGTACCACAAAGTACTGATAAACATGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCCGTGCAAAGCAAAGGTGACGCTaggtgagaccaattctcttctcagcaatgagttagctagggctgggtagcct Alignment from Spaln_aa2Genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAGC-- atgccattcagacatcaattcctggcgataagtttcctctccttctgcagGTATGAATTGGTCAAGGGATTGTTACCTGCAGAGTACCACAAAGTACTGATAAACATGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCCGTGCAAAGCAAAGGTGACGCTAGgtgagaccaattctcttctcagcaatgagttagctagggctgggtagcct Alignment from Spaln_nt2Genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGAC---AG atgccattcagacatcaattcctggcgataagtttcctctccttctgcagGTATGAATTGGTCAAGGGATTGTTACCTGCAGAGTACCACAAAGTACTGATAAACATGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCCGTGCAAAGCAAAGGTGACGCTAGgtgagaccaattctcttctcagcaatgagttagctagggctgggtagcct Alignment from Pairagon ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGAC------------------------------------------------------- atgccattcagacatcaattcctggcgataagtttcctctccttctgcagGTATGAATTGGTCAAGGGATTGTTACCTGCAGAGTACCACAAAGTACTGATAAACATGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCCGTGCAAAGCAAAGGTGACGCTAGGTGAGACCAATTCTCTTCTCAGCAATGAGTTAGCTAGGGCTGGGTAGCCT Alignment from Exonerate_protein2genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGAC---AG atgccattcagacatcaattcctggcgataagtttcctctccttctgcagGTATGAATTGGTCAAGGGATTGTTACCTGCAGAGTACCACAAAGTACTGATAAACATGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCCGTGCAAAGCAAAGGTGACGCTAGgtgagaccaattctcttctcagcaatgagttagctagggctgggtagcct Alignment from Exonerate_coding2genome atgccattcagacatcaattcctggcgataagtttcctctccttctgcaggtatgaattggtcaagggattgttacctgcagagtaccacaaagtactgataaacatgaggaaagcagagacccgggcaaagaaatatagggccttgagtcaggctgctgtagaggaggaagaagtggaagaagaggaacaggagcccgtgcaaagcaaaggtgacgctaggtgagaccaattctcttctcagcaatgagttagctagggctgggtagcct Alignment from GeneWise ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAGC-- atgccattcagacatcaattcctggcgataagtttcctctccttctgcagGTATGAATTGGTCAAGGGATTGTTACCTGCAGAGTACCACAAAGTACTGATAAACATGAGGAAAGCAGAGACCCGGGCAAAGAAATATAGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAAGAAGTGGAAGAAGAGGAACAGGAGCCCGTGCAAAGCAAAGGTGACGCTAGgtgagaccaattctcttctcagcaatgagttagctagggctgggtagcct #### Rrp12_ID8297_26 --> 0 - 2 Original Alignment ATGGAAGCCATTGGGAAGTTGTCAGATGACATGCGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTT---------gg taatgatggatgggcaaggtgggtagtgatatattctgttcatttgtcagATGGAAGCTATAGGGAAACTGTCAGATGACATGCGACGGCACTTCCGGATGAAGCTCCGGAATCTGTTCATCAAGTTCACGCGCAAGTTTATTTATCCAgggtactcccaaagtagagggagaatgaaacatggtgtatctgcagagtcct Alignment from CESAR ATGGAAGCCATTGGGAAGTTGTCAGATGACATGCGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTT---------gg taatgatggatgggcaaggtgggtagtgatatattctgttcatttgtcagATGGAAGCTATAGGGAAACTGTCAGATGACATGCGACGGCACTTCCGGATGAAGCTCCGGAATCTGTTCATCAAGTTCACGCGCAAGTTTATTTATCCAgggtactcccaaagtagagggagaatgaaacatggtgtatctgcagagtcct Alignment from Spaln_aa2Genome ATGGAAGCCATTGGGAAGTTGTCAGATGACATGCGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTGGA-------- taatgatggatgggcaaggtgggtagtgatatattctgttcatttgtcagATGGAAGCTATAGGGAAACTGTCAGATGACATGCGACGGCACTTCCGGATGAAGCTCCGGAATCTGTTCATCAAGTTCACGCGCAAGTTTATTTATCCAGGgtactcccaaagtagagggagaatgaaacatggtgtatctgcagagtcct Alignment from Spaln_nt2Genome ATGGAAGCCATTGGGAAGTTGTCAGATGACATGCGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTT---------GG taatgatggatgggcaaggtgggtagtgatatattctgttcatttgtcagATGGAAGCTATAGGGAAACTGTCAGATGACATGCGACGGCACTTCCGGATGAAGCTCCGGAATCTGTTCATCAAGTTCACGCGCAAGTTTATTTATCCAGGgtactcccaaagtagagggagaatgaaacatggtgtatctgcagagtcct Alignment from Pairagon ATGGAAGCCATTGGGAAGTTGTCAGATGACATGCGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTT------------------------------------------------------------- taatgatggatgggcaaggtgggtagtgatatattctgttcatttgtcagATGGAAGCTATAGGGAAACTGTCAGATGACATGCGACGGCACTTCCGGATGAAGCTCCGGAATCTGTTCATCAAGTTCACGCGCAAGTTTATTTATCCAGGGTACTCCCAAAGTAGAGGGAGAATGAAACATGGTGTATCTGCAGAGTCCT Alignment from Exonerate_protein2genome ATGGAAGCCATTGGGAAGTTGTCAGATGACATGCGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTTGG taatgatggatgggcaaggtgggtagtgatatattctgttcatttgtcagATGGAAGCTATAGGGAAACTGTCAGATGACATGCGACGGCACTTCCGGATGAAGCTCCGGAATCTGTTCATCAAGTTCACGCGCAAGTTTATttatccagggtactcccaaagtagagggagaatgaaacatggtgtatctgcagagtcct Alignment from Exonerate_coding2genome taatgatggatgggcaaggtgggtagtgatatattctgttcatttgtcagatggaagctatagggaaactgtcagatgacatgcgacggcacttccggatgaagctccggaatctgttcatcaagttcacgcgcaagtttatttatccagggtactcccaaagtagagggagaatgaaacatggtgtatctgcagagtcct Alignment from GeneWise ATGGAAGCCATTGGGAAGTTGTCAGATGACATGCGACGGCACTTCCGGATGAAGCTTCGGAACCTGTTCATCAAGTTCACCCGCAAGTTT---------GG taatgatggatgggcaaggtgggtagtgatatattctgttcatttgtcagATGGAAGCTATAGGGAAACTGTCAGATGACATGCGACGGCACTTCCGGATGAAGCTCCGGAATCTGTTCATCAAGTTCACGCGCAAGTTTATTTATCCAGGgtactcccaaagtagagggagaatgaaacatggtgtatctgcagagtcct #### Rrp12_ID8304_19 --> 0 - 2 Original Alignment ---------TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCag cagacgtagttaatggatgggtcttttaatacaacatgtgctccctccagGTGACAGGTCTGGTGAATAGCTTCCTAGATAAGGCAATTGAAAAGGTTCTTGACCCCCCCAGTTCAGATTTCACTaggtgagtctgctgagcttttcaggtgtcttggtatgtgatgcatggtacct Alignment from CESAR ---------TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCag cagacgtagttaatggatgggtcttttaatacaacatgtgctccctccagGTGACAGGTCTGGTGAATAGCTTCCTAGATAAGGCAATTGAAAAGGTTCTTGACCCCCCCAGTTCAGATTTCACTaggtgagtctgctgagcttttcaggtgtcttggtatgtgatgcatggtacct Alignment from Spaln_aa2Genome ---------TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAG cagacgtagttaatggatgggtcttttaatacaacatgtgctccctccagGTGACAGGTCTGGTGAATAGCTTCCTAGATAAGGCAATTGAAAAGGTTCTTGACCCCCCCAGTTCAGATTTCACTAGgtgagtctgctgagcttttcaggtgtcttggtatgtgatgcatggtacct Alignment from Spaln_nt2Genome TT--GGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAG cagacgtagttaatggatgggtcttttaatacaacatgtgctccctccaggtgacagGTCTGGTGAATAGCTTCCTAGATAAGGCAATTGAAAAGGTTCTTGACCCCCCCAGTTCAGATTTCACTAGgtgagtctgctgagcttttcaggtgtcttggtatgtgatgcatggtacct Alignment from Pairagon ------------------------------------------------------------TGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAG CAGACGTAGTTAATGGATGGGTCTTTTAATACAACATGTGCTCCCTCCAGGTGACAGGTCTGGTGAATAGCTTCCTAGATAAGGCAATTGAAAAGGTTCTTGACCCCCCCAGTTCAGATTTCACTAGgtgagtctgctgagcttttcaggtgtcttggtatgtgatgcatggtacct Alignment from Exonerate_protein2genome ---------TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAG cagacgtagttaatggatgggtcttttaatacaacatgtgctccctccagGTGACAGGTCTGGTGAATAGCTTCCTAGATAAGGCAATTGAAAAGGTTCTTGACCCCCCCAGTTCAGATTTCACTAGgtgagtctgctgagcttttcaggtgtcttggtatgtgatgcatggtacct Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ---------TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAG cagacgtagttaatggatgggtcttttaatacaacatgtgctccctccagGTGACAGGTCTGGTGAATAGCTTCCTAGATAAGGCAATTGAAAAGGTTCTTGACCCCCCCAGTTCAGATTTCACTAGgtgagtctgctgagcttttcaggtgtcttggtatgtgatgcatggtacct #### Rrp12_ID8308_15 --> 1 - 1 Original Alignment gGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAA------------------g cagggggctggttcaataagctttcgcttttttttcgcatttaattttaggGAAACTCTGGACTTT---CAGAGCTGGTTGCTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGTTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAATGGCTCCTGAAGTAGTGggtgagcagcttttctttctataaaatacaggtcacagaaggaatatcagt Alignment from CESAR gGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAA------------------g cagggggctggttcaataagctttcgcttttttttcgcatttaattttaggGAAACTCTGGACTTT---CAGAGCTGGTTGCTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGTTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAATGGCTCCTGAAGTAGTGggtgagcagcttttctttctataaaatacaggtcacagaaggaatatcagt Alignment from Spaln_aa2Genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAGCAATGGACCTGGCTCAGG cagggggctggttcaataagctttcgcttttttttcgcatttaattttagGGAAACTCTGGACTTT---CAGAGCTGGTTGCTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGTTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAATGGCTCCTGAAGTAGTGGgtgagcagcttttctttctataaaatacaggtcacagaaggaatatcagt Alignment from Spaln_nt2Genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAA--G cagggggctggttcaataagctttcgcttttttttcgcatttaattttagGGAAACTCTGGACTT---TCAGAGCTGGTTGCTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGTTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAATGgctcctgaagtagtgggtgagcagcttttctttctataaaatacaggtcacagaaggaatatcagt Alignment from Pairagon GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAA------------------G cagggggctggttcaataagctttcgcttttttttcgcatttaattttagGGAAACTCTGGACTTT---CAGAGCTGGTTGCTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGTTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAATGGCTCCTGAAGTAGTGGgtgagcagcttttctttctataaaatacaggtcacagaaggaatatcagt Alignment from Exonerate_protein2genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAGCAATGG cagggggctggttcaataagctttcgcttttttttcgcatttaattttagGGAAACTCTGGACTTT---CAGAGCTGGTTGCTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGTTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAATGGCTCctgaagtagtgggtgagcagcttttctttctataaaatacaggtcacagaaggaatatcagt Alignment from Exonerate_coding2genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAGCAATGGACCTGGCTCAGG cagggggctggttcaataagctttcgcttttttttcgcatttaattttagGGAAACTCTGGACTTT---CAGAGCTGGTTGCTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGTTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAATGGCTCCTGAAGTAGTGGgtgagcagcttttctttctataaaatacaggtcacagaaggaatatcagt Alignment from GeneWise GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAA------------------G cagggggctggttcaataagctttcgcttttttttcgcatttaattttagGGAAACTCTGGACTTT---CAGAGCTGGTTGCTGTCTGTCATCCGGGATTATGTCCAGGAAACCCGGCTTGGTTTCTTCACCACTTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAATGGCTCCTGAAGTAGTGGgtgagcagcttttctttctataaaatacaggtcacagaaggaatatcagt #### Sart1_ID957_18 --> 0 - 0 Original Alignment GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG--- cccacttctagtgggttcactcaccctcagggttcttcctccacccacagGCTTTCCGGCAACTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAAACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCATTGgtaggactgaagccaggtggctagtctccattcctgtgaaatataatatg Alignment from CESAR GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG--- cccacttctagtgggttcactcaccctcagggttcttcctccacccacagGCTTTCCGGCAACTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAAACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCATTGgtaggactgaagccaggtggctagtctccattcctgtgaaatataatatg Alignment from Spaln_aa2Genome GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCGCTC cccacttctagtgggttcactcaccctcagggttcttcctccacccacagGCTTTCCGGCAACTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAAACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCATTGgtaggactgaagccaggtggctagtctccattcctgtgaaatataatatg Alignment from Spaln_nt2Genome GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGC---G cccacttctagtgggttcactcaccctcagggttcttcctccacccacagGCTTTCCGGCAACTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAAACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCATTGgtaggactgaagccaggtggctagtctccattcctgtgaaatataatatg Alignment from Pairagon GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGC------------------------------------------------------ cccacttctagtgggttcactcaccctcagggttcttcctccacccacagGCTTTCCGGCAACTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAAACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCATTGGTAGGACTGAAGCCAGGTGGCTAGTCTCCATTCCTGTGAAATATAATATG Alignment from Exonerate_protein2genome GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCGCTC cccacttctagtgggttcactcaccctcagggttcttcctccacccacagGCTTTCCGGCAACTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAAACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCATTGgtaggactgaagccaggtggctagtctccattcctgtgaaatataatatg Alignment from Exonerate_coding2genome GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCGCTC cccacttctagtgggttcactcaccctcagggttcttcctccacccacagGCTTTCCGGCAACTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAAACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCATTGgtaggactgaagccaggtggctagtctccattcctgtgaaatataatatg Alignment from GeneWise GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCGCTC cccacttctagtgggttcactcaccctcagggttcttcctccacccacagGCTTTCCGGCAACTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAAACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCATTGgtaggactgaagccaggtggctagtctccattcctgtgaaatataatatg #### Sart1_ID958_17 --> 1 - 0 Original Alignment gGCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAGGAG--------- caagaaagaagtcttcagaggacctgatttgtgttttgtgttttctttaggGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACTCAGGACTTTAAGGAGAGAGACGGGTATAAGCCTGATGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACTCCTGAAAAGATCCCCCAGgtaggtagagactttgtagataatcaatccacttacaatggtgtatggca Alignment from CESAR gGCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCC---AAG------GAG caagaaagaagtcttcagaggacctgatttgtgttttgtgttttctttaggGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACTCAGGACTTTAAGGAGAGAGACGGGTATAAGCCTGATGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACTCCTGAAAAGATCCCCCAGgtaggtagagactttgtagataatcaatccacttacaatggtgtatggca Alignment from Spaln_aa2Genome GGCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAG---------GAG caagaaagaagtcttcagaggacctgatttgtgttttgtgttttctttagGGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACTCAGGACTTTAAGGAGAGAGACGGGTATAAGCCTGATGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACTCCTGAAAAGATCCCCCAGgtaggtagagactttgtagataatcaatccacttacaatggtgtatggca Alignment from Spaln_nt2Genome GGCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCC--AAGGA-------G caagaaagaagtcttcagaggacctgatttgtgttttgtgttttctttagGGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACTCAGGACTTTAAGGAGAGAGACGGGTATAAGCCTGATGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACTCCTGAAAAGATCCCCCAGgtaggtagagactttgtagataatcaatccacttacaatggtgtatggca Alignment from Pairagon GGCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACT-------------CCCAAGGAG caagaaagaagtcttcagaggacctgatttgtgttttgtgttttctttagGGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACTCAGGACTTTAAGGAGAGAGACGGGTATAAGCCTGATGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACTCCTGAAAAGATCCCCCAGGTAGgtagagactttgtagataatcaatccacttacaatggtgtatggca Alignment from Exonerate_protein2genome GGCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAGGAG caagaaagaagtcttcagaggacctgatttgtgttttgtgttttctttagGGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACTCAGGACTTTAAGGAGAGAGACGGGTATAAGCCTGATGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACTCCTGAAAAGatcccccaggtaggtagagactttgtagataatcaatccacttacaatggtgtatggca Alignment from Exonerate_coding2genome GGCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAGGAG caagaaagaagtcttcagaggacctgatttgtgttttgtgttttctttagGGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACTCAGGACTTTAAGGAGAGAGACGGGTATAAGCCTGATGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACTCCTGAAAAGatcccccaggtaggtagagactttgtagataatcaatccacttacaatggtgtatggca Alignment from GeneWise GGCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAGGAG--------- caagaaagaagtcttcagaggacctgatttgtgttttgtgttttctttagGGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACTCAGGACTTTAAGGAGAGAGACGGGTATAAGCCTGATGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACTCCTGAAAAGATCCCCCAGgtaggtagagactttgtagataatcaatccacttacaatggtgtatggca #### Sart1_ID962_13 --> 0 - 0 Original Alignment GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG cttacagattctatactgcctataaagtccactctttcatttaatcacag---CTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCGTGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAAGGGGACATCAGTTTTCAATGCCACATCAGAATTTTGCTGTATACTAGGGGAATCTCCCACATATGAGTTGGTGGGTAACCGTGAGGGGCAGGAGGAGTTGATGgtgaggcaatcaattcttagcttttatcgtaaggctagtgatacatctag Alignment from CESAR GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG aggcttacagattctatactgcctaagtccactctttcatttaatcacag---CTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCGTGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAAGGGGACATCAGTTTTCAATGCCACATCAGAATTTTGCTGTATACTAGGGGAATCTCCCACATATGAGTTGGTGGGTAACCGTGAGGGGCAGGAGGAGTTGATGgtgaggcaatcaattcttagcttttatcgtaaggctagtgatacatctag Alignment from Spaln_aa2Genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG cttacagattctatactgcctataaagtccactctttcatttaatcacagCTGGAGATTGTG---AAGAAACTAGAGTCCCATCAGCGTGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAAGGGGACATCAGTTTTCAATGCCACATCAGAATTTTGCTGTATACTAGGGGAATCTCCCACATATGAGTTGGTGGGTAACCGTGAGGGGCAGGAGGAGTTGATGgtgaggcaatcaattcttagcttttatcgtaaggctagtgatacatctag Alignment from Spaln_nt2Genome CTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG cttacagattctatactgcctataaagtccactctttcatttaatcacagCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCGTGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAAGGGGACATCAGTTTTCAATGCCACATCAGAATTTTGCTGTATACTAGGGGAATCTCCCACATATGAGTTGGTGGGTAACCGTGAGGGGCAGGAGGAGTTGATGgtgaggcaatcaattcttagcttttatcgtaaggctagtgatacatctag Alignment from Pairagon CTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG cttacagattctatactgcctataaagtccactctttcatttaatcacagCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCGTGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAAGGGGACATCAGTTTTCAATGCCACATCAGAATTTTGCTGTATACTAGGGGAATCTCCCACATATGAGTTGGTGGGTAACCGTGAGGGGCAGGAGGAGTTGATGgtgaggcaatcaattcttagcttttatcgtaaggctagtgatacatctag Alignment from Exonerate_protein2genome CTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG cttacagattctatactgcctataaagtccactctttcatttaatcacagCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCGTGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAAGGGGACATCAGTTTTCAATGCCACATCAGAATTTTGCTGTATACTAGGGGAATCTCCCACATATGAGTTGGTGGGTAACCGTGAGGGGCAGGAGGAGTTGATGgtgaggcaatcaattcttagcttttatcgtaaggctagtgatacatctag Alignment from Exonerate_coding2genome CTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG cttacagattctatactgcctataaagtccactctttcatttaatcacagCTGGAGATTGTGAAGAAACTAGAGTCCCATCAGCGTGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAAGGGGACATCAGTTTTCAATGCCACATCAGAATTTTGCTGTATACTAGGGGAATCTCCCACATATGAGTTGGTGGGTAACCGTGAGGGGCAGGAGGAGTTGATGgtgaggcaatcaattcttagcttttatcgtaaggctagtgatacatctag Alignment from GeneWise GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG cttacagattctatactgcctataaagtccactctttcatttaatcacagCTG---GAGATTGTGAAGAAACTAGAGTCCCATCAGCGTGGTTGGGAGGAGGGAGAGGACCCAAAGAGGAAGGGGACATCAGTTTTCAATGCCACATCAGAATTTTGCTGTATACTAGGGGAATCTCCCACATATGAGTTGGTGGGTAACCGTGAGGGGCAGGAGGAGTTGATGgtgaggcaatcaattcttagcttttatcgtaaggctagtgatacatctag #### Sart1_ID964_11 --> 1 - 1 Original Alignment gCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAA------g tatgagatggagaaattcaaaaaacatagctatggttctggtcttggcagaCTTCGGGGCCGGGGTAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGACCTTGTAGCCAAACCACCTCCATCAGATGACACTCGAGTC------ATGGACATCAGTGATGAAGTGGATggtgagctgttgattaataggggtcagggtaaatatgcaggcaaggctatc Alignment from CESAR gCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAA------g tatgagatggagaaattcaaaaaacatagctatggttctggtcttggcagaCTTCGGGGCCGGGGTAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGACCTTGTAGCCAAACCACCTCCATCAGATGACACTCGAGTC------ATGGACATCAGTGATGAAGTGGATggtgagctgttgattaataggggtcagggtaaatatgcaggcaaggctatc Alignment from Spaln_aa2Genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAG tatgagatggagaaattcaaaaaacatagctatggttctggtcttggcagACTTCGGGGCCGGGGTAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGACCTTGTAGCCAAACCACCTCCATCAGATGACACTCGAGTCATGGACATCAGTGATGAAGTGGATGgtgagctgttgattaataggggtcagggtaaatatgcaggcaaggctatc Alignment from Spaln_nt2Genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAGAGG--- tatgagatggagaaattcaaaaaacatagctatggttctggtcttggcagACTTCGGGGCCGGGGTAGGCACCAAGTTCC------CAAGGAGGAGACACTTGAGGATGAGGAGAAGGACCTTGTAGCCAAACCACCTCCATCAGATGACACTCGAGT------CATGGACATCAGTGATGAAGTGGATGgtgagctgttgattaataggggtcagggtaaatatgcaggcaaggctatc Alignment from Pairagon -----------------------------------------------CAGGCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAG------ TATGAGATGGAGAAATTCAAAAAACATAGCTATGGTTCTGGTCTTGGCAGACTTCGGGGCCGGGGTAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGACCTTGTAGCCAAACCACCTCCATCAGATGACACTCGAGT------CATGGACATCAGTGATGAAGTGGATGgtgagctgttgattaataggggtcagggtaaatatgcaggcaaggctatc Alignment from Exonerate_protein2genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAG tatgagatggagaaattcaaaaaacatagctatggttctggtcttggcagACTTCGGGGCCGGGGTAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGACCTTGTAGCCAAACCACCTCCATCAGATGACACTCGAGTCATGGACATCAGTGATGAAGTGGATGgtgagctgttgattaataggggtcagggtaaatatgcaggcaaggctatc Alignment from Exonerate_coding2genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAG tatgagatggagaaattcaaaaaacatagctatggttctggtcttggcagACTTCGGGGCCGGGGTAGGCACCAAGTTCCC------AAGGAGGAGACACTTGAGGATGAGGAGAAGGACCTTGTAGCCAAACCACCTCCATCAGATGACACTCGAGTCATGGACATCAGTGATGAAGTGGATGgtgagctgttgattaataggggtcagggtaaatatgcaggcaaggctatc Alignment from GeneWise GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAGAGGAT- tatgagatggagaaattcaaaaaacatagctatggttctggtcttggcagACTTCGGGGCCGGGGTAGGCACCAAGTTCCCAAG------GAGGAGACACTTGAGGATGAGGAGAAGGACCTTGTAGCCAAACCACCTCCATCAGATGACACTCGAGTC------ATGGACATCAGTGATGAAGTGGATGgtgagctgttgattaataggggtcagggtaaatatgcaggcaaggctatc #### Sart1_ID966_9 --> 0 - 0 Original Alignment CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG gtgagcctagtaagtctgagagaagaaattctgagcctgggcccttttagCAGAAACCTTGTTCAATTCTAGCTAAATATGATGAAGAATTAGACGGTGAGCGACCACATTCCTGCCGTCTTAAGCACGGTGGGATGGCTGATGGACTGAGGGAGAAAGAGTTAGAAGAAATTCGCACCAAGCTTCGACTACCAGCCCAATCTCTAAGTTCAATGGGCCCCAGACTTACTACTCAGTATCTCAGTCCT---------gtgagtcatgtggacccccgggttatggtcatctattcagcccacagcta Alignment from CESAR CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG gtaggtctagtaagtctgagagaagaaattctgagcctgggcccttttagCAGAAACCTTGTTCAATTCTAGCTAAATATGATGAAGAATTAGACGGTGAGCGACCACATTCCTGCCGTCTTAAGCACGGTGGGATGGCTGATGGACTGAGGGAGAAAGAGTTAGAAGAAATTCGCACCAAGCTTCGACTACCAGCCCAATCTCTAAGTTCAATGGGCCCCAGACTTACTACTCAGTATCTCAGTCCT---------gtgagtcatgtggacccccgggttatggtcatctattcagc Alignment from Spaln_aa2Genome CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG gtgagcctagtaagtctgagagaagaaattctgagcctgggcccttttagCAGAAACCTTGTTCAATTCTAGCTAAATATGATGAAGAATTAGACGGTGAGCGACCACATTCCTGCCGTCTTAAGCACGGTGGGATGGCTGATGGACTGAGGGAGAAAGAGTTAGAAGAAATTCGCACCAAGCTTCGACTACCAGCCCAATCTCTAAGTTCAATGGGCCCCAGACTTACTACTCAGTATCTCAGTCCTGTGAGTCATgtggacccccgggttatggtcatctattcagcccacagcta Alignment from Spaln_nt2Genome CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCC gtgagcctagtaagtctgagagaagaaattctgagcctgggcccttttagCAGAAACCTTGTTCAATTCTAGCTAAATATGATGAAGAATTAGACGGTGAGCGACCACATTCCTGCCGTCTTAAGCACGGTGGGATGGCTGATGGACTGAGGGAGAAAGAGTTAGAAGAAATTCGCACCAAGCTTCGACTACCAGCCCAATCTCTAAGTTCAATGGGCCCCAGACTTACTACTCAGTATCTCAGTCCTgtgagtcatgtggacccccgggttatggtcatctattcagcccacagcta Alignment from Pairagon CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCC gtgagcctagtaagtctgagagaagaaattctgagcctgggcccttttagCAGAAACCTTGTTCAATTCTAGCTAAATATGATGAAGAATTAGACGGTGAGCGACCACATTCCTGCCGTCTTAAGCACGGTGGGATGGCTGATGGACTGAGGGAGAAAGAGTTAGAAGAAATTCGCACCAAGCTTCGACTACCAGCCCAATCTCTAAGTTCAATGGGCCCCAGACTTACTACTCAGTATCTCAGTCCTgtgagtcatgtggacccccgggttatggtcatctattcagcccacagcta Alignment from Exonerate_protein2genome CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG gtgagcctagtaagtctgagagaagaaattctgagcctgggcccttttagCAGAAACCTTGTTCAATTCTAGCTAAATATGATGAAGAATTAGACGGTGAGCGACCACATTCCTGCCGTCTTAAGCACGGTGGGATGGCTGATGGACTGAGGGAGAAAGAGTTAGAAGAAATTCGCACCAAGCTTCGACTACCAGCCCAATCTCTAAGTTCAATGGGCCCCAGACTTACTACTCAGTATCTCAGTCCTGTGAGTCATgtggacccccgggttatggtcatctattcagcccacagcta Alignment from Exonerate_coding2genome CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG gtgagcctagtaagtctgagagaagaaattctgagcctgggcccttttagCAGAAACCTTGTTCAATTCTAGCTAAATATGATGAAGAATTAGACGGTGAGCGACCACATTCCTGCCGTCTTAAGCACGGTGGGATGGCTGATGGACTGAGGGAGAAAGAGTTAGAAGAAATTCGCACCAAGCTTCGACTACCAGCCCAATCTCTAAGTTCAATGGGCCCCAGACTTACTACTCAGTATCTCAGTCCTGTGAGTCATgtggacccccgggttatggtcatctattcagcccacagcta Alignment from GeneWise CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG gtgagcctagtaagtctgagagaagaaattctgagcctgggcccttttagCAGAAACCTTGTTCAATTCTAGCTAAATATGATGAAGAATTAGACGGTGAGCGACCACATTCCTGCCGTCTTAAGCACGGTGGGATGGCTGATGGACTGAGGGAGAAAGAGTTAGAAGAAATTCGCACCAAGCTTCGACTACCAGCCCAATCTCTAAGTTCAATGGGCCCCAGACTTACTACTCAGTATCTCAGTCCTGTGAGTCATgtggacccccgggttatggtcatctattcagcccacagcta #### Sart1_ID967_8 --> 2 - 0 Original Alignment ggGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG atggggtagaatatgactggtatgtgggtttttttttcccatttctttaggg---------GATGGAGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATTTAGCACAGgtaggtctagtaagtctgagagaagaaactccctctctccttccctctag Alignment from CESAR ggGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG agatgcttaatggggtagaatatgagggtttttttttcccatttctttaggg---------GATGGAGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATTTAGCACAGgtaggtctagtaagtctgagagaagaaattctgagcctgggcccttttag Alignment from Spaln_aa2Genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG atggggtagaatatgactggtatgtgggtttttttttcccatttctttagGG---------GATGGAGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATTTAGCACAGgtaggtctagtaagtctgagagaagaaactccctctctccttccctctag Alignment from Spaln_nt2Genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG atggggtagaatatgactggtatgtgggtttttttttcccatttctttagG---------GGATGGAGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATTTAGCACAGgtaggtctagtaagtctgagagaagaaactccctctctccttccctctag Alignment from Pairagon GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG atggggtagaatatgactggtatgtgggtttttttttcccatttctttagG---------GGATGGAGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATTTAGCACAGgtaggtctagtaagtctgagagaagaaactccctctctccttccctctag Alignment from Exonerate_protein2genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG atggggtagaatatgactggtatgtgggtttttttttcccaTTTCTTTAGGGGATGGAGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATTTAGCACAGgtaggtctagtaagtctgagagaagaaactccctctctccttccctctag Alignment from Exonerate_coding2genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG atggggtagaatatgactggtatgtgggtttttttttcccaTTTCTTTAGGGGATGGAGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATTTAGCACAGgtaggtctagtaagtctgagagaagaaactccctctctccttccctctag Alignment from GeneWise GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG atggggtagaatatgactggtatgtgggtttttttttcccatttctttagGG---------GATGGAGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCTGATCGAAATGTGGAGCTTCGGAAAGAGAAGGCGGATTACCTGAGCTATGTTGAAGATGAGGGTGTGGATGATTTAGCACAGgtaggtctagtaagtctgagagaagaaactccctctctccttccctctag #### Sart1_ID970_5 --> 1 - 0 Original Alignment gAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG gggaagatggattaagtcaccatgatcatccctgtcaccctccaaaccagt------------------GAAGATGACCCCTGGCTGGACGATACAGCAGCATGGATAGAGAGGAGC------CTCCAGAAAGAGAAGGATCTGGCAAAGAAGAGGgtacaaacacaaggttcttcaagagcaccatctacccgttaatttaccca Alignment from CESAR gAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG ttcatctgcccaagggtggggaagatcatccctgtcaccctccaaaccagt------------------GAAGATGACCCCTGGCTGGACGATACAGCAGCATGGATAGAGAGGAGC------CTCCAGAAAGAGAAGGATCTGGCAAAGAAGAGGgtacaaacacaaggttcttcaagagcaccatctacccgttaatttaccca Alignment from Spaln_aa2Genome GGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG gggaagatggattaagtcaccatgatcatccctgtcaccctccaaaccagTGAAGATGACCCCTGGCTGGACGATACAGCAGCATGGATAGAGAGGAGC------CTCCAGAAAGAGAAGGATCTGGCAAAGAAGAGGgtacaaacacaaggttcttcaagagcaccatctacccgttaatttaccca Alignment from Spaln_nt2Genome GGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG gggaagatggattaagtcaccatgatcatccctgtcaccctccaaaccagTGAAGATGACCCCTGGCTGGACGATACAGCAGCATGGATAGAGAGGAGC------CTCCAGAAAGAGAAGGATCTGGCAAAGAAGAGGgtacaaacacaaggttcttcaagagcaccatctacccgttaatttaccca Alignment from Pairagon GGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG gggaagatggattaagtcaccatgatcatccctgtcaccctccaaaccagTGAAGATGACCCCTGGCTGGACGATACAGCAGCATGGATAGAGAGGAGC------CTCCAGAAAGAGAAGGATCTGGCAAAGAAGAGGgtacaaacacaaggttcttcaagagcaccatctacccgttaatttaccca Alignment from Exonerate_protein2genome AAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG gggaagatggattaagtcaccatgatcatccctgtcacCCTCCAAACCAGTGAAGATGACCCCTGGCTGGACGATACAGCAGCATGGATAGAGAGGAGC------CTCCAGAAAGAGAAGGATCTGGCAAAGAAGAGGgtacaaacacaaggttcttcaagagcaccatctacccgttaatttaccca Alignment from Exonerate_coding2genome AAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG gggaagatggattaagtcaccatgatcatccctgtcacCCTCCAAACCAGTGAAGATGACCCCTGGCTGGACGATACAGCAGCATGGATAGAGAGGAGC------CTCCAGAAAGAGAAGGATCTGGCAAAGAAGAGGgtacaaacacaaggttcttcaagagcaccatctacccgttaatttaccca Alignment from GeneWise GGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG gggaagatggattaagtcaccatgatcatccctgtcaccctccaaaccagTGAAGATGACCCCTGGCTGGACGATACAGCAGCATGGATAGAGAGGAGC------CTCCAGAAAGAGAAGGATCTGGCAAAGAAGAGGgtacaaacacaaggttcttcaagagcaccatctacccgttaatttaccca #### Sec31b_ID9037_15 --> 0 - 1 Original Alignment CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTg gatgcaccagcccgtgggttcgcattcttacctctccactcgcattccag---------TGTGTTATAAAAAAGAATTGGAAAGACCTCGTGTGTGCTTTTCGCTTG---AACTGGAGAGAGACACTGGCCTTGCTACTAACATATTCAGGGCCAGAAAAGTTCCCTGAACTTTGTggtgagagtgagattaacatgattcattgtaccgatgccaagtaaaggcaa Alignment from CESAR CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTg tgctcttccgatgcaccagcccgtgtcttacctctccactcgcattccag---------TGTGTTATAAAAAAGAATTGGAAAGACCTCGTGTGTGCTTTTCGCTTG---AACTGGAGAGAGACACTGGCCTTGCTACTAACATATTCAGGGCCAGAAAAGTTCCCTGAACTTTGTggtgagagtgagattaacatgattcattgtaccgatgccaagtaaaggcaa Alignment from Spaln_aa2Genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG gatgcaccagcccgtgggttcgcattcttacctctccactcgcattccag---------TGTGTTATAAAAAAGAATTGGAAAGACCTCGTGTGTGCTTTTCGCTTG---AACTGGAGAGAGACACTGGCCTTGCTACTAACATATTCAGGGCCAGAAAAGTTCCCTGAACTTTGTGgtgagagtgagattaacatgattcattgtaccgatgccaagtaaaggcaa Alignment from Spaln_nt2Genome CTTCTAGCC TGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG ccagC------CCgtgggttcgcattcttacctctccactcgcattccagTGTGTTATAAAAAAGAATTGGAAAGACCTCGTGTGTGCTTTTCGCTT---GAACTGGAGAGAGACACTGGCCTTGCTACTAACATATTCAGGGCCAGAAAAGTTCCCTGAACTTTGTGgtgagagtgagattaacatgattcattgtaccgatgccaagtaaaggcaa Alignment from Pairagon CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG gatgcaccagcccgtgggttcgcattcttacctctccactcgcattccag---------TGTGTTATAAAAAAGAATTGGAAAGACCTCGTGTGTGCTTTTCGCTT---GAACTGGAGAGAGACACTGGCCTTGCTACTAACATATTCAGGGCCAGAAAAGTTCCCTGAACTTTGTGgtgagagtgagattaacatgattcattgtaccgatgccaagtaaaggcaa Alignment from Exonerate_protein2genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG gatgcaccagcccgtgggttcgcattcttacctctccactcGCATTCCAGTGTGTTATAAAAAAGAATTGGAAAGACCTCGTGTGTGCTTTTCGCTTG---AACTGGAGAGAGACACTGGCCTTGCTACTAACATATTCAGGGCCAGAAAAGTTCCCTGAACTTTGTGgtgagagtgagattaacatgattcattgtaccgatgccaagtaaaggcaa Alignment from Exonerate_coding2genome CTTCTAGCCTGTGTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG gatgcaccagcccgtgggttcgcattcttacctctccactcGCATTCCAGTGTGTTATAAAAAAGAATTGGAAAGACCTCGTGTGTGCTTTTCGCTTG---AACTGGAGAGAGACACTGGCCTTGCTACTAACATATTCAGGGCCAGAAAAGTTCCCTGAACTTTGTGgtgagagtgagattaacatgattcattgtaccgatgccaagtaaaggcaa Alignment from GeneWise ---GTTGTAAAGAAGAATTGGAAGGACCTAGTATGTGCCTGTAGGCTGAAGAACTGGAGAGAGGCGCTGGCCTTGCTACTGACGTATTCAGGGCCAGAGAAGTTCCCTGAGCTCTGTG gatgcaccagcccgtgggttcgcattcttacctctccactcgcattccagTGTGTTATAAAAAAGAATTGGAAAGACCTCGTGTGTGCTTTTCGCTTG---AACTGGAGAGAGACACTGGCCTTGCTACTAACATATTCAGGGCCAGAAAAGTTCCCTGAACTTTGTGgtgagagtgagattaacatgattcattgtaccgatgccaagtaaaggcaa #### Sec31b_ID9038_14 --> 2 - 0 Original Alignment acACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG gatgtttgaggaagcaactgagtgagtgtggactttgtcttttcccttagatACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAACGATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGA---------------gtaacccctgttgtcccgagaatttttggtcataattgtgttgccctcac Alignment from CESAR acACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG gatgtttgaggaagcaactgagtgagtgtggactttgtcttttcccttagatACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAACGATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGA---------------gtaacccctgttgtcccgagaatttttggtcataa Alignment from Spaln_aa2Genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG gatgtttgaggaagcaactgagtgagtgtggactttgtcttttcccttagATACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAACGATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAGTA---ACCCCTGTTgtcccgagaatttttggtcataattgtgttgccct Alignment from Spaln_nt2Genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG gatgtttgaggaagcaactgagtgagtgtggactttgtcttttcccttagATACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAACGATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGA---GTAACCCCTGTTgtcccgagaatttttggtcataattgtgttgccct Alignment from Pairagon ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGA gatgtttgaggaagcaactgagtgagtgtggactttgtcttttcccttagATACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAACGATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAgtaacccctgttgtcccgagaatttttggtcataattgtgttgccctcac Alignment from Exonerate_protein2genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAG gatgtttgaggaagcaactgagtgagtgtggactttgtcttttcccttagATACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAACGATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGgagagtaacccctgttgtcccgagaatttttggtcataattgtgttgccctcac Alignment from Exonerate_coding2genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAG gatgtttgaggaagcaactgagtgagtgtggactttgtcttttcccttagATACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAACGATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGgagagtaacccctgttgtcccgagaatttttggtcataattgtgttgccctcac Alignment from GeneWise ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG gatgtttgaggaagcaactgagtgagtgtggactttgtcttttcccttagATACTGATGGGCTCCTGAGCCAGGCTTTGCTAATTGGGGAACTGCACTCTGCTGTAGAGCTGTGTTTGAAAGAGGAACGATTTGCAGATGCTGTCATTTTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAGTA---ACCCCTGTTgtcccgagaatttttggtcataattgtgttgccct #### Sec31b_ID9039_13 --> 0 - 1 Original Alignment GCCTCCAAACACACTGCCAAGGAAGCCTCTGAGTCCTCAGCC---TTCTTTGATGAGCTGATACCTCAGAACATGACTCCCTGGGAGATCCCCACCACAGAAg ggcttaagagatgcacttcacacatgatcctctgtggttcattcatacagGCCACCAAACACACTGCTAGGGAAACTTCTGAATCCTCAGCAGCTTTCTTTGATGAGCTAATACCTGAAAACATGACCCCCTGGGTGATCCCC---------ggtgcagtgttggcagaaatcctgtgcaaggggatatcactgtataggcat Alignment from CESAR GCCTCCAAACACACTGCCAAGGAAGCCTCTGAGTCCTCA---GCCTTCTTTGATGAGCTGATACCTCAGAACATGACTCCCTGGGAGATCCCCACCACAGAAg ggcttaagagatgcacttcacacatgatcctctgtggttcattcatacagGCCACCAAACACACTGCTAGGGAAACTTCTGAATCCTCAGCAGCTTTCTTTGATGAGCTAATACCTGAAAACATGACCCCCTGGGTGATCCCC---------ggtgcagtgttggcagaaatcctgtgcaaggggatatcactgtataggcat Alignment from Spaln_aa2Genome GCCTCCAAACACACTGCCAAGGAAGCCTCTGAGTCCTCAGCCTTCTTTGAT---GAGCTGATACCTCAGAACATGACTCCCTGGGAGATCCCC- ggcttaagagatgcacttcacacatgatcctctgtggttcattcatacagGCCACCAAACACACTGCTAGGGAAACTTCTGAATCCTCAGCAGCTTTCTTTGATGAGCTAATACCTGAAAACATGACCCCCTGGGTGATCCCCGgtgcagtgttggcagaaatcctgtgcaaggggatatcactgtataggcat Alignment from Spaln_nt2Genome GCCTCCAAACACACTGCCAAGGAAGCCTCTGAGTCCTCAGCC---TTCTTTGATGAGCTGATACCTCAGAACATGACTCCCTGGGAGATCCCCA CCAC ggcttaagagatgcacttcacacatgatcctctgtggttcattcatacagGCCACCAAACACACTGCTAGGGAAACTTCTGAATCCTCAGCAGCTTTCTTTGATGAGCTAATACCTGAAAACATGACCCCCTGGGTGATCCCCGgtgcagtgttggcagaaatcctgtgcaaggggatatcactgtatagGCAT Alignment from Pairagon GCCTCCAAACACACTGCCAAGGAAGCCTCTGAGTCCT---CAGCCTTCTTTGATGAGCTGATACCTCAGAACATGACTCCCTGGGAGATCCCCACCACAGAAG ggcttaagagatgcacttcacacatgatcctctgtggttcattcatacagGCCACCAAACACACTGCTAGGGAAACTTCTGAATCCTCAGCAGCTTTCTTTGATGAGCTAATACCTGAAAACATGACCCCCTGGGTGATCCCC---------Ggtgcagtgttggcagaaatcctgtgcaaggggatatcactgtataggcat Alignment from Exonerate_protein2genome GCCTCCAAACACACTGCCAAGGAAGCCTCTGAGTCCTCA---GCCTTCTTTGATGAGCTGATACCTCAGAACATGACTCCCTGGGAGATCCCCA ggcttaagagatgcacttcacacatgatcctctgtggttcattcatacagGCCACCAAACACACTGCTAGGGAAACTTCTGAATCCTCAGCAGCTTTCTTTGATGAGCTAATACCTGAAAACATGACCCCCTGGGTGATCCCCGgtgcagtgttggcagaaatcctgtgcaaggggatatcactgtataggcat Alignment from Exonerate_coding2genome GCCTCCAAACACACTGCCAAGGAAGCCTCTGAGTCCTCA---GCCTTCTTTGATGAGCTGATACCTCAGAACATGACTCCCTGGGAGATCCCCA ggcttaagagatgcacttcacacatgatcctctgtggttcattcatacagGCCACCAAACACACTGCTAGGGAAACTTCTGAATCCTCAGCAGCTTTCTTTGATGAGCTAATACCTGAAAACATGACCCCCTGGGTGATCCCCGgtgcagtgttggcagaaatcctgtgcaaggggatatcactgtataggcat Alignment from GeneWise GCCTCCAAACACACTGCCAAGGAAGCCTCTGAGTCCTCAGCC---TTCTTTGATGAGCTGATACCTCAGAACATGACTCCCTGGGAGATCCCCA ggcttaagagatgcacttcacacatgatcctctgtggttcattcatacagGCCACCAAACACACTGCTAGGGAAACTTCTGAATCCTCAGCAGCTTTCTTTGATGAGCTAATACCTGAAAACATGACCCCCTGGGTGATCCCCGgtgcagtgttggcagaaatcctgtgcaaggggatatcactgtataggcat #### Sema4g_ID9248_6 --> 2 - 1 Original Alignment atGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCAATg ggtccaaaaccaataaagccctatctcctttgttcttcgtcctctaacagat---------------------------------CGGAGCATTCCTGATATTCGACGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCGATGCACTGGCTCAATggcaagtatagggtgctttcaaggggttggagaagggggcagctctggtgt Alignment from CESAR atGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCAATg gtttcctagtagtgcatgccctatctcctttgttcttcgtcctctaacagat---------------------------------CGGAGCATTCCTGATATTCGACGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCGATGCACTGGCTCAATggcaagtatagggtgctttcaaggggttggagaagggggcagctctggtgt Alignment from Spaln_aa2Genome AGGCCTC---TACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCAATG ggtccaaaaccaataaagCCCTATCTCCTTTGTTCTTCGTCCTCTAACAGATCGGAGCATTCCTGATATTCGACGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCGATGCACTGGCTCAATGgcaagtatagggtgctttcaaggggttggagaagggggcagctctggtgt Alignment from Spaln_nt2Genome G GTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCAATG GgtccaaaaccaataaagccctatctcctttgttcttcgtcctctaacagAT--------CGGAGCATTCCTGATATTCGACGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCGATGCACTGGCTCAATGgcaagtatagggtgctttcaaggggttggagaagggggcagctctggtgt Alignment from Pairagon ATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCAATG ggtccaaaaccaataaagccctatctcctttgttcttcgtcctctaacagAT---------------------------------CGGAGCATTCCTGATATTCGACGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCGATGCACTGGCTCAATGgcaagtatagggtgctttcaaggggttggagaagggggcagctctggtgt Alignment from Exonerate_protein2genome ATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCAATG ggtccaaaaccaataaaGCCCTATCTCCTTTGTTCTTCGTCCTCTAACAGATCGGAGCATTCCTGATATTCGACGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCGATGCACTGGCTCAATGgcaagtatagggtgctttcaaggggttggagaagggggcagctctggtgt Alignment from Exonerate_coding2genome ATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCAATG ggtccaaaaccaataaaGCCCTATCTCCTTTGTTCTTCGTCCTCTAACAGATCGGAGCATTCCTGATATTCGACGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCGATGCACTGGCTCAATGgcaagtatagggtgctttcaaggggttggagaagggggcagctctggtgt Alignment from GeneWise AGGCCTCTACACAGCCACCCGG---TATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCAAT------------ ggtccaaaaccaataaagCCCTATCTCCTTTGTTCTTCGTCCTCTAACAGATCGGAGCATTCCTGATATTCGACGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCGATGCACTGGCTCAATGGCAAGTATAGGgtgctttcaaggggttggagaagggggcagctctggtgt #### Sema4g_ID9250_8 --> 0 - 2 Original Alignment ---------GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGtg tagttttaccccccagatttatggactgtcctattcatctcctgctgcagGACCGTCACGGAGATCTGGCTGGAGAAGAAATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTTCCTCAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCATCCCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGtggtaagtgtggagaatgggcatagacagcgggtaaggacaagagagctggc Alignment from CESAR ---------GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGtg tagttttaccccccagatttatggactgtcctattcatctcctgctgcagGACCGTCACGGAGATCTGGCTGGAGAAGAAATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTTCCTCAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCATCCCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGtggtaagtgtggagaatgggcatagacagcgggtaaggacaagagagctggc Alignment from Spaln_aa2Genome ATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG tagttttaccccccagatttatggactgtcctattcatctcctgctgcaggaccgtcacggagATCTGGCTGGAGAAGAAATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTTCCTCAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCATCCCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtaagtgtggagaatgggcatagacagcgggtaaggacaagagagctggc Alignment from Spaln_nt2Genome G---------GAGATCTGGGAGG-GAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG tagttttaccccccagatttatggactgtcctattcatctcctgctgcagGACCGTCACGGAGATCTGGCTGGAGAAGAA-ATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTTCCTCAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCATCCCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtaagtgtggagaatgggcatagacagcgggtaaggacaagagagctggc Alignment from Pairagon ---------GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG tagttttaccccccagatttatggactgtcctattcatctcctgctgcagGACCGTCACGGAGATCTGGCTGGAGAAGAAATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTTCCTCAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCATCCCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtaagtgtggagaatgggcatagacagcgggtaaggacaagagagctggc Alignment from Exonerate_protein2genome GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG tagttttaccccccagatttatggactgtcctattcatctcctgctgcaggaccgtcacGGAGATCTGGCTGGAGAAGAAATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTTCCTCAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCATCCCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtaagtgtggagaatgggcatagacagcgggtaaggacaagagagctggc Alignment from Exonerate_coding2genome GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG tagttttaccccccagatttatggactgtcctattcatctcctgctgcaggaccgtcacGGAGATCTGGCTGGAGAAGAAATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTTCCTCAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCATCCCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtaagtgtggagaatgggcatagacagcgggtaaggacaagagagctggc Alignment from GeneWise ---------GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG tagttttaccccccagatttatggactgtcctattcatctcctgctgcagGACCGTCACGGAGATCTGGCTGGAGAAGAAATTTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTTCCTCAGTATGACACATTACGGGGAGTCTGCAGTCTTAATGCTGATACATCATCCCACACACATTTCTATTCTGTCTTTATGCTATCAACCCAGTGgtaagtgtggagaatgggcatagacagcgggtaaggacaagagagctggc #### Sema4g_ID9251_9 --> 1 - 0 Original Alignment gAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG cataggtgcaggttgaaggtatttgaattctgtgattttgtatgctctaggAAGACACTGGAGGCTTCAGAAATCTGCCGGTATGACTTGGCAGAGATTCAAGCTGTCTTT---AGCCCCTTTATGGAGTACCAGGATGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACATCAACCCCGACCTGGC---gtaaggagaactccaagtttggaccccactaattgggacatagagagttg Alignment from CESAR gAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG cataggtgcaggttgaaggtatttgaattctgtgattttgtatgctctaggAAGACACTGGAGGCTTCAGAAATCTGCCGGTATGACTTGGCAGAGATTCAAGCTGTCTTT---AGCCCCTTTATGGAGTACCAGGATGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACATCAACCCCGACCTGGC---gtaaggagaactccaagtttggaccccactaattgggacatagagag Alignment from Spaln_aa2Genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGC cataggtgcaggttgaaggtatttgaattctgtgattttgtatgctctagGAAGACACTGGAGGCTTCAGAAATCTGCCGGTATGACTTGGCAGAGATTCAAGCTGTCTTTAGC---CCCTTTATGGAGTACCAGGATGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACATCAACCCCGACCTGGCgtaaggagaactccaagtttggaccccactaattgggacatagagagttg Alignment from Spaln_nt2Genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGC cataggtgcaggttgaaggtatttgaattctgtgattttgtatgctctagGAAGACACTGGAGGCTTCAGAAATCTGCCGGTATGACTTGGCAGAGATTCAAGCTGTCTTTA---GCCCCTTTATGGAGTACCAGGATGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACATCAACCCCGACCTGGCgtaaggagaactccaagtttggaccccactaattgggacatagagagttg Alignment from Pairagon GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGC cataggtgcaggttgaaggtatttgaattctgtgattttgtatgctctagGAAGACACTGGAGGCTTCAGAAATCTGCCGGTATGACTTGGCAGAGATTCAAGCTGTCTTTA---GCCCCTTTATGGAGTACCAGGATGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACATCAACCCCGACCTGGCgtaaggagaactccaagtttggaccccactaattgggacatagagagttg Alignment from Exonerate_protein2genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGC cataggtgcaggttgaaggtatttgaattctgtgattttgtatgctctagGAAGACACTGGAGGCTTCAGAAATCTGCCGGTATGACTTGGCAGAGATTCAAGCTGTCTTTAGC---CCCTTTATGGAGTACCAGGATGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACATCAACCCCGACCTGGCgtaaggagaactccaagtttggaccccactaattgggacatagagagttg Alignment from Exonerate_coding2genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGC cataggtgcaggttgaaggtatttgaattctgtgattttgtatgctctagGAAGACACTGGAGGCTTCAGAAATCTGCCGGTATGACTTGGCAGAGATTCAAGCTGTCTTTAGC---CCCTTTATGGAGTACCAGGATGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACATCAACCCCGACCTGGCgtaaggagaactccaagtttggaccccactaattgggacatagagagttg Alignment from GeneWise GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG cataggtgcaggttgaaggtatttgaattctgtgattttgtatgctctagGAAGACACTGGAGGCTTCAGAAATCTGCCGGTATGACTTGGCAGAGATTCAAGCTGTCTTTAGC---CCCTTTATGGAGTACCAGGATGGTGCCCGATGTTGGGGGTGCTATGGAGGTGGAGTACATCAACCCCGACCT---GGCgtaaggagaactccaagtttggaccccactaattgggacatagagagttg #### Sema4g_ID9252_10 --> 0 - 1 Original Alignment ------------TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAg gtcatgtggaagtatagcagcagagtcctttaaaatgtccccttccctagTTAATTTCGGTATGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGACTTGCCATCGCTTGTCCTTGACTCCGTGAAGCTGCATCCACCACTGATGGCTCAGCCTGTAGTGCCCACGCGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACATGTCAGTACACCTGCAGGACCTACCTATGAGTTGCTCTTTCTAGGCACGggtaagtcatacccaccctggacatgtctccacctagcggggatacaatgc Alignment from CESAR ------------TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCC---CTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAg gtcatgtggaagtatagcagcagagtcctttaaaatgtccccttccctagTTAATTTCGGTATGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGACTTGCCATCGCTTGTCCTTGACTCCGTGAAGCTGCATCCACCACTGATGGCTCAGCCTGTAGTGCCCACGCGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACATGTCAGTACACCTGCAGGACCTACCTATGAGTTGCTCTTTCTAGGCACGggtaagtcatacccaccctggacatgtctccacctagcggggatacaatgc Alignment from Spaln_aa2Genome -------TCGTGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagagtcctttaaaatgtccccttccctagTTAATTTCGGTATGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGACTTGCCATCGCTTGTCCTTGACTCCGTGAAGCTGCATCCACCACTGATGGCTCAGCCTGTAGTGCCCACGCGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACATGTCAGTACACCTGCAGGACCTACCTATGAGTTGCTCTTTCTAGGCACGGgtaagtcatacccaccctggacatgtctccacctagcggggatacaatgc Alignment from Spaln_nt2Genome -------CG---TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagagtcctttaaaatgtccccttccctagTTAATTTCGGTATGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGACTTGCCATCGCTTGTCCTTGACTCCGTGAAGCTGCATCCACCACTGATGGCTCAGCCTGTAGTGCCCACGCGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACATGTCAGTACACCTGCAGGACCTACCTATGAGTTGCTCTTTCTAGGCACGGgtaagtcatacccaccctggacatgtctccacctagcggggatacaatgc Alignment from Pairagon ------------TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagagtcctttaaaatgtccccttccctagTTAATTTCGGTATGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGACTTGCCATCGCTTGTCCTTGACTCCGTGAAGCTGCATCCACCACTGATGGCTCAGCCTGTAGTGCCCACGCGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACATGTCAGTACACCTGCAGGACCTACCTATGAGTTGCTCTTTCTAGGCACGGgtaagtcatacccaccctggacatgtctccacctagcggggatacaatgc Alignment from Exonerate_protein2genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagagtcctttaaaatgtccccttccctagttaatttcggtaTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGACTTGCCATCGCTTGTCCTTGACTCCGTGAAGCTGCATCCACCACTGATGGCTCAGCCTGTAGTGCCCACGCGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACATGTCAGTACACCTGCAGGACCTACCTATGAGTTGCTCTTTCTAGGCACGGgtaagtcatacccaccctggacatgtctccacctagcggggatacaatgc Alignment from Exonerate_coding2genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagagtcctttaaaatgtccccttccctagttaatttcggtaTGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGACTTGCCATCGCTTGTCCTTGACTCCGTGAAGCTGCATCCACCACTGATGGCTCAGCCTGTAGTGCCCACGCGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACATGTCAGTACACCTGCAGGACCTACCTATGAGTTGCTCTTTCTAGGCACGGgtaagtcatacccaccctggacatgtctccacctagcggggatacaatgc Alignment from GeneWise ------------TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcatgtggaagtatagcagcagagtcctttaaaatgtccccttccctagTTAATTTCGGTATGTATCTCTGATTCTCTGCGGAGCCAAGGATACAACTCATCCCAAGACTTGCCATCGCTTGTCCTTGACTCCGTGAAGCTGCATCCACCACTGATGGCTCAGCCTGTAGTGCCCACGCGGGGACAGCCCCTACTGCTGAAGCACAATGTACGCTACACACATGTCACAGGTACACATGTCAGTACACCTGCAGGACCTACCTATGAGTTGCTCTTTCTAGGCACGGgtaagtcatacccaccctggacatgtctccacctagcggggatacaatgc #### Sema4g_ID9254_12 --> 0 - 2 Original Alignment CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAAC---------ag tgggatggctggaaaaacactacgcattgtgtatctatttttccacccagCATAGCCTATATGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCGCGAGACCCCTACTGTGGCTGGGATTCTAGCATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACGATGGCTCCaggtaagcagacaggatataacagtgctcattaagaaggaaaccctggttgc Alignment from CESAR CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAAC---------ag tgggatggctggaaaaacactacgcattgtgtatctatttttccacccagCATAGCCTATATGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCGCGAGACCCCTACTGTGGCTGGGATTCTAGCATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACGATGGCTCCaggtaagcagacaggatataacagtgctcattaagaaggaaaccctggttgc Alignment from Spaln_aa2Genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAGG-------- tgggatggctggaaaaacactacgcattgtgtatctatttttccacccagCATAGCCTATATGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCGCGAGACCCCTACTGTGGCTGGGATTCTAGCATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACGATGGCTCCAGgtaagcagacaggatataacagtgctcattaagaaggaaaccctggttgc Alignment from Spaln_nt2Genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAAC---------AG tgggatggctggaaaaacactacgcattgtgtatctatttttccacccagCATAGCCTATATGTGGGGGCTGCTAGTGGA---ATTCAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCGCGAGACCCCTACTGTGGCTGGGATTCTAGCATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACGATGGCTCCAGgtaagcagacaggatataacagtgctcattaagaaggaaaccctggttgc Alignment from Pairagon CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAA---------CAG tgggatggctggaaaaacactacgcattgtgtatctatttttccacccagCATAGCCTATATGTGGGGGCTGCTAGTGGAA---TTCAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCGCGAGACCCCTACTGTGGCTGGGATTCTAGCATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACGATGGCTCCAGgtaagcagacaggatataacagtgctcattaagaaggaaaccctggttgc Alignment from Exonerate_protein2genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAAC---------AG tgggatggctggaaaaacactacgcattgtgtatctatttttccacccagCATAGCCTATATGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCGCGAGACCCCTACTGTGGCTGGGATTCTAGCATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACGATGGCTCCAGgtaagcagacaggatataacagtgctcattaagaaggaaaccctggttgc Alignment from Exonerate_coding2genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAAC---------AG tgggatggctggaaaaacactacgcattgtgtatctatttttccacccagCATAGCCTATATGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCGCGAGACCCCTACTGTGGCTGGGATTCTAGCATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACGATGGCTCCAGgtaagcagacaggatataacagtgctcattaagaaggaaaccctggttgc Alignment from GeneWise CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAAC---------AG tgggatggctggaaaaacactacgcattgtgtatctatttttccacccagCATAGCCTATATGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTTTCTAGCTGCTCACGCTACCAGTCTTGTTATGACTGCATTCTAGCGCGAGACCCCTACTGTGGCTGGGATTCTAGCATCCATGTGTGCATGGTGGCCACTACAGTAGCAAACGATGGCTCCAGgtaagcagacaggatataacagtgctcattaagaaggaaaccctggttgc #### Sf1_ID1665_6 --> 1 - 0 Original Alignment aGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAGATCATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG gaacaggagtaatctgagtcagagacgcctcacactgctgtgccctccaga---------------AACATTGATAAGGACTGCAATGCAAAGATCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAAGTTGGACGTAAAGATGGACAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCCCTAGTCACAGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGgtgatggttcagcccaggaaacctggcaacctattcatagtagggtgagt Alignment from CESAR aGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAGATCATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG ccagtaggagtaactgaacaggagtcgcctcacactgctgtgccctccaga---------------AACATTGATAAGGACTGCAATGCAAAGATCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAAGTTGGACGTAAAGATGGACAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCCCTAGTCACAGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGgtgatggttcagcccaggaaacctggcaacctattcatagtagggtgagt Alignment from Spaln_aa2Genome AGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAGATCATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG gaacaggagtaatctgagtcagagacgcctcacactgctgtgccctccagA---------------AACATTGATAAGGACTGCAATGCAAAGATCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAAGTTGGACGTAAAGATGGACAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCCCTAGTCACAGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGgtgatggttcagcccaggaaacctggcaacctattcatagtagggtgagt Alignment from Spaln_nt2Genome AGAACATTGAGAAGGAATGCAACGCCAAGATCATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG gaacaggagtaatctgagtcagagacgcctcacactgctgtgccctccagA-AACATTGATAAGGACTGCAATGCAAAGATCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAAGTTGGACGTAAAGATGGACAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCCCTAGTCACAGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGgtgatggttcagcccaggaaacctggcaacctattcatagtagggtgagt Alignment from Pairagon AGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAGATCATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG gaacaggagtaatctgagtcagagacgcctcacactgctgtgccctccagA---------------AACATTGATAAGGACTGCAATGCAAAGATCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAAGTTGGACGTAAAGATGGACAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCCCTAGTCACAGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGgtgatggttcagcccaggaaacctggcaacctattcatagtagggtgagt Alignment from Exonerate_protein2genome AGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAGATCATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG gaacaggagtaatctgagtcagagacgcctcacacTGCTGTGCCCTCCAGAAACATTGATAAGGACTGCAATGCAAAGATCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAAGTTGGACGTAAAGATGGACAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCCCTAGTCACAGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGgtgatggttcagcccaggaaacctggcaacctattcatagtagggtgagt Alignment from Exonerate_coding2genome AGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAGATCATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG gaacaggagtaatctgagtcagagacgcctcacacTGCTGTGCCCTCCAGAAACATTGATAAGGACTGCAATGCAAAGATCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAAGTTGGACGTAAAGATGGACAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCCCTAGTCACAGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGgtgatggttcagcccaggaaacctggcaacctattcatagtagggtgagt Alignment from GeneWise AGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAGATCATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG gaacaggagtaatctgagtcagagacgcctcacactgctgtgccctccagA---------------AACATTGATAAGGACTGCAATGCAAAGATCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAAGTTGGACGTAAAGATGGACAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCCCTAGTCACAGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGgtgatggttcagcccaggaaacctggcaacctattcatagtagggtgagt #### Sf1_ID1666_7 --> 0 - 2 Original Alignment ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATag actgccaagttttttgatgaggcttcctttccttctcttgcctcccacag------AATATGCTAAAGCAAGGTATTGAAACCCCAGAAGGCCAGAATGATCTACACAAGATGCAGCTTCGAGAGCTGGCTCACCTAAATGGCACTCTACGGGAGGAA---GCCcggtaagtggaatgttgaagaaactgcataggcaggtttaagttttactgaa Alignment from CESAR ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATag agccaaactgccaagttttttgatgcctttccttctcttgcctcccacag------AATATGCTAAAGCAAGGTATTGAAACCCCAGAAGGCCAGAATGATCTACACAAGATGCAGCTTCGAGAGCTGGCTCACCTAAATGGCACTCTACGGGAG---GAAGCCcggtaagtggaatgttgaagaaactgcataggcaggtttaagttttactgaa Alignment from Spaln_aa2Genome ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG actgccaagttttttgatgaggcttcctttccttctcttgcctcccacag------AATATGCTAAAGCAAGGTATTGAAACCCCAGAAGGCCAGAATGATCTACACAAGATGCAGCTTCGAGAGCTGGCTCACCTAAATGGCACTCTACGGGAG---GAAGCCCGgtaagtggaatgttgaagaaactgcataggcaggtttaagttttactgaa Alignment from Spaln_nt2Genome ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG actgccaagttttttgatgaggcttcctttccttctcttgcctcccacag------AATATGCTAAAGCAAGGTATTGAAACCCCAGAAGGCCAGAATGATCTACACAAGATGCAGCTTCGAGAGCTGGCTCACCTAAATGGCACTCTACGGGAGGAAG---CCCGgtaagtggaatgttgaagaaactgcataggcaggtttaagttttactgaa Alignment from Pairagon ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATG------------------------------------------------------ actgccaagttttttgatgaggcttcctttccttctcttgcctcccacag------AATATGCTAAAGCAAGGTATTGAAACCCCAGAAGGCCAGAATGATCTACACAAGATGCAGCTTCGAGAGCTGGCTCACCTAAATGGCACTCTACGGGAGGAAGCCCGGTAAGTGGAATGTTGAAGAAACTGCATAGGCAGGTTTAAGTTTTACTGAA Alignment from Exonerate_protein2genome AACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG actgccaagttttttgatgaggcttcctttccttctcttgcctcccacagAATATGCTAAAGCAAGGTATTGAAACCCCAGAAGGCCAGAATGATCTACACAAGATGCAGCTTCGAGAGCTGGCTCACCTAAATGGCACTCTACGGGAG---GAAGCCCGgtaagtggaatgttgaagaaactgcataggcaggtttaagttttactgaa Alignment from Exonerate_coding2genome AACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG actgccaagttttttgatgaggcttcctttccttctcttgcctcccacagAATATGCTAAAGCAAGGTATTGAAACCCCAGAAGGCCAGAATGATCTACACAAGATGCAGCTTCGAGAGCTGGCTCACCTAAATGGCACTCTACGGGAG---GAAGCCCGgtaagtggaatgttgaagaaactgcataggcaggtttaagttttactgaa Alignment from GeneWise AACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGAT-- actgccaagttttttgatgaggcttcctttccttctcttgcctcccacagAATATGCTAAAGCAAGGTATTGAAACCCCAGAAGGCCAGAATGATCTACACAAGATGCAGCTTCGAGAGCTGGCTCACCTAAATGGCACTCTACGGGAGGAAGCCCGgtaagtggaatgttgaagaaactgcataggcaggtttaagttttactgaa #### Sf3b2_ID907_11 --> 0 - 0 Original Alignment GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG--- tcaggctgcctcacatgatgacacctaacatcttttgtcttgtcacctagAAGAAGAAGCCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGTATGAACCGATTTACTGTTGCAGAATTAAAGCAACCTgtaatgtctgggaaggtcaagccagctactccagctctgttcaacattca Alignment from CESAR GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG--- tcaggctgcctcacatgatgacacctaacatcttttgtcttgtcacctagAAGAAGAAGCCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGTATGAACCGATTTACTGTTGCAGAATTAAAGCAACCTgtaatgtctgggaaggtcaagccagctactccagctctgttcaacattca Alignment from Spaln_aa2Genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG--- tcaggctgcctcacatgatgacacctaacatcttttgtcttgtcacctagAAGAAGAAGCCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGTATGAACCGATTTACTGTTGCAGAATTAAAGCAACCTgtaatgtctgggaaggtcaagccagctactccagctctgttcaacattca Alignment from Spaln_nt2Genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAGC-- tcaggctgcctcacatgatgacacctaacatcttttgtcttgtcacctagAAGAAGAAGCCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGTATGAACCGATTTACTGTTGCAGAATTAAAGCAACCTgtaatgtctgggaaggtcaagccagctactccagctctgttcaacattca Alignment from Pairagon GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG--- tcaggctgcctcacatgatgacacctaacatcttttgtcttgtcacctagAAGAAGAAGCCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGTATGAACCGATTTACTGTTGCAGAATTAAAGCAACCTgtaatgtctgggaaggtcaagccagctactccagctctgttcaacattca Alignment from Exonerate_protein2genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAGCTGG tcaggctgcctcacatgatgacacctaacatcttttgtcttgtcacctagAAGAAGAAGCCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGTATGAACCGATTTACTGTTGCAGAATTAAAGCAACCTGtaatgtctgggaaggtcaagccagctactccagctctgttcaacattca Alignment from Exonerate_coding2genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAGCTGG tcaggctgcctcacatgatgacacctaacatcttttgtcttgtcacctagAAGAAGAAGCCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGTATGAACCGATTTACTGTTGCAGAATTAAAGCAACCTGtaatgtctgggaaggtcaagccagctactccagctctgttcaacattca Alignment from GeneWise GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAGCTG tcaggctgcctcacatgatgacacctaacatcttttgtcttgtcacctagAAGAAGAAGCCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGTATGAACCGATTTACTGTTGCAGAATTAAAGCAACCTgtaatgtctgggaaggtcaagccagctactccagctctgttcaacattca #### Sf3b2_ID908_10 --> 0 - 0 Original Alignment CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG gcggcaaaccatattctgaatggcttgagaattgcctcttttctttctag------GATGAGGTAAGGAAAGAAAAAGAAAAAGAGCCTGAGAAGCTTGACACAATGGAAAGCCCTGCAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGTGATGATGATAGCAGTGATGATGAACAAgtaagggcccttatgtgacagtgagttgtcgatagggggtttagcccact Alignment from CESAR CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG attaaggcggcaaaccatattctgatgagaattgcctcttttctttctag------GATGAGGTAAGGAAAGAAAAAGAAAAAGAGCCTGAGAAGCTTGACACAATGGAAAGCCCTGCAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGTGATGATGATAGCAGTGATGATGAACAAgtaagggcccttatgtgacagtgagttgtcgatagggggtttagcccact Alignment from Spaln_aa2Genome CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAGGAAAAG gcggcaaaccatattctgaatggcttgagaattgcctcttttctttctag------GATGAGGTAAGGAAAGAAAAAGAAAAAGAGCCTGAGAAGCTTGACACAATGGAAAGCCCTGCAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGTGATGATGATAGCAGTGATGATGAACAAGTAAGGgcccttatgtgacagtgagttgtcgatagggggtttagcccact Alignment from Spaln_nt2Genome CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG gcggcaaaccatattctgaatggcttgagaattgcctcttttctttctag------GATGAGGTAAGGAAAGAAAAAGAAAAAGAGCCTGAGAAGCTTGACACAATGGAAAGCCCTGCAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGTGATGATGATAGCAGTGATGATGAACAAgtaagggcccttatgtgacagtgagttgtcgatagggggtttagcccact Alignment from Pairagon CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG gcggcaaaccatattctgaatggcttgagaattgcctcttttctttctag------GATGAGGTAAGGAAAGAAAAAGAAAAAGAGCCTGAGAAGCTTGACACAATGGAAAGCCCTGCAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGTGATGATGATAGCAGTGATGATGAACAAgtaagggcccttatgtgacagtgagttgtcgatagggggtttagcccact Alignment from Exonerate_protein2genome GATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG gcggcaaaccatattctgaatggcttgagaattgcctcttttctttctagGATGAGGTAAGGAAAGAAAAAGAAAAAGAGCCTGAGAAGCTTGACACAATGGAAAGCCCTGCAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGTGATGATGATAGCAGTGATGATGAACAAgtaagggcccttatgtgacagtgagttgtcgatagggggtttagcccact Alignment from Exonerate_coding2genome GATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG gcggcaaaccatattctgaatggcttgagaattgcctcttttctttctagGATGAGGTAAGGAAAGAAAAAGAAAAAGAGCCTGAGAAGCTTGACACAATGGAAAGCCCTGCAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGTGATGATGATAGCAGTGATGATGAACAAgtaagggcccttatgtgacagtgagttgtcgatagggggtttagcccact Alignment from GeneWise GATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG gcggcaaaccatattctgaatggcttgagaattgcctcttttctttctagGATGAGGTAAGGAAAGAAAAAGAAAAAGAGCCTGAGAAGCTTGACACAATGGAAAGCCCTGCAGTCCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGAAAGTGATGATGATAGCAGTGATGATGAACAAgtaagggcccttatgtgacagtgagttgtcgatagggggtttagcccact #### Sf3b2_ID911_7 --> 0 - 1 Original Alignment ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAG------------------------------g tctgcatagatttttgagtttcagacccgaccttgcctttccggttccagATT---GACCCCTCAGTGGGCCCCAAAATCCCTCAGGCTGTGGAAAAGATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAG---CTGGCAATCCACTCCCTCATAGTTCTGCCCggtaactgattaaacattcccttgatacttcaacacacgttagctggggac Alignment from CESAR ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGg tctgcatagatttttgagtttcagacccgaccttgcctttccggttccagATT---GACCCCTCAGTGGGCCCCAAAATCCCTCAGGCTGTGGAAAAGATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGCTGgcaatccactccctcatagttctgcccggtaactgattaaacattcccttgatacttcaacacacgttagctggggac Alignment from Spaln_aa2Genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCA tctgcatagatttttgagtttcagacccgaccttgcctttccggttccagATT---GACCCCTCAGTGGGCCCCAAAATCCCTCAGGCTGTGGAAAAGATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAgctggcaatccactccctcatagttctgcccggtaactgattaaacattcccttgatacttcaacacacgttagctggggac Alignment from Spaln_nt2Genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAG tctgcatagatttttgagtttcagacccgaccttgcctttccggttccagAT---TGACCCCTCAGTGGGCCCCAAAATCCCTCAGGCTGTGGAAAAGATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGCTGgcaatccactccctcatagttctgcccggtaactgattaaacattcccttgatacttcaacacacgttagctggggac Alignment from Pairagon ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG--------------------------- tctgcatagatttttgagtttcagacccgaccttgcctttccggttccagAT---TGACCCCTCAGTGGGCCCCAAAATCCCTCAGGCTGTGGAAAAGATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGCTGGCAATCCACTCCCTCATAGTTCTGCCCGgtaactgattaaacattcccttgatacttcaacacacgttagctggggac Alignment from Exonerate_protein2genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG tctgcatagatttttgagtttcagacccgaccttgcctttccggttccagATT---GACCCCTCAGTGGGCCCCAAAATCCCTCAGGCTGTGGAAAAGATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGCTGGcaatccactccctcatagttctgcccggtaactgattaaacattcccttgatacttcaacacacgttagctggggac Alignment from Exonerate_coding2genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG tctgcatagatttttgagtttcagacccgaccttgcctttccggttccagATT---GACCCCTCAGTGGGCCCCAAAATCCCTCAGGCTGTGGAAAAGATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGCTGGcaatccactccctcatagttctgcccggtaactgattaaacattcccttgatacttcaacacacgttagctggggac Alignment from GeneWise ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAG---------------------------G tctgcatagatttttgagtttcagacccgaccttgcctttccggttccagATT---GACCCCTCAGTGGGCCCCAAAATCCCTCAGGCTGTGGAAAAGATCCTTCAGCTGAAGGAGAGTCAGCAGCAAGAGATGAACTCTCAGCTGGCAATCCACTCCCTCATAGTTCTGCCCGgtaactgattaaacattcccttgatacttcaacacacgttagctggggac #### Sfxn2_ID9971_9 --> 0 - 2 Original Alignment AAGGTCAAAGTGATGCACGCCCCCCTGCAGGTCTTGCTGTGTGGCTGCtt ttggctccctgctcctagctttacggcatccttattcttcttttctttagAAAGTCAAAGTGATGCATGCCCCCCTACAGGTG---CTT---------tcgtgagttgatcatatgtttcttccaagaccatgagctgatcagtattctt Alignment from CESAR AAGGTCAAAGTGATGCACGCCCCCCTGCAGGTCTTGCTGTGTGGCTGCtt ttggctccctgctcctagctttacggcatccttattcttcttttctttagAAAGTCAAAGTGATGCATGCCCCCCTACAGGTGCTT------------tcgtgagttgatcatatgtttcttccaagaccatgagctgatcagtattctt Alignment from Spaln_aa2Genome AAGGTCAAAGTGATGCACGCCCCCCTGCAGGTCTTGCT ttggctccctgctcctagctttacggcatccttattcttcttttctttagAAAGTCAAAGTGATGCATGCCCCCCTACAGGTGCTTTCgtgagttgatcatatgtttcttccaagaccatgagctgatcagtattctt Alignment from Spaln_nt2Genome AAGGTCAAAGTGATGCACGCCCCCCTGCAGGT-CTTGC ttggctccctgctcctagctttacggcatccttattcttcttttctttagAAAGTCAAAGTGATGCATGCCCCCCTACAGGTGCTTTCgtgagttgatcatatgtttcttccaagaccatgagctgatcagtattctt Alignment from Pairagon AAGGTCAAAGTGATGCACGCCCCCCTGCAGGTCTTGCTGTGTGGCTGCTT-- ttggctccctgctcctagctttacggcatccttattcttcttttctttagAAAGTCAAAGTGATGCATGCCCCCCTACAGG--------------TGCTTTCgtgagttgatcatatgtttcttccaagaccatgagctgatcagtattctt Alignment from Exonerate_protein2genome AAGGTCAAAGTGATGCACGCCCCCCTGCAGGTCTTGCTGTGTG ttggctccctgctcctagctttacggcatccttattcttcttttctttagAAAGTCAAAGTGATGCATGCCCCCCTACAGGTGCTTTCGTGAGttgatcatatgtttcttccaagaccatgagctgatcagtattctt Alignment from Exonerate_coding2genome TCCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAGAAGGTCAAAGTGATGCACGCCCCCCTGCAGGTCTTGCTGTGTGGCTGCTTCCTCCTCTTTATGGTGCCAGTGGCGTGCGGACTCTTCC TTGGCTCCCTGCTCCTAGCTTTACGGCATCCTTATTCTTCTTTTCTTTAGAAAGTCAAAGTGATGCATGCCCCCCTACAGGTGCTTTCGTGAGTTGATCATATGTTTCTTCCAAGACCATGAGCTGATCAGTATTCTT Alignment from GeneWise AAGGTCAAAGTGATGCACGCCCCCCTGCAGGTCTTGCT ttggctccctgctcctagctttacggcatccttattcttcttttctttagAAAGTCAAAGTGATGCATGCCCCCCTACAGGTGCTTTCgtgagttgatcatatgtttcttccaagaccatgagctgatcagtattctt #### Sfxn3_ID9284_2 --> 1 - 2 Original Alignment gGCTGGTGTGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCCAAATACGTGTATGACTCAGCATTCCATCCGGACACGGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTCACCTTCTACag ccaacctcacacaggactcctctccttgtccttaatcattcctccaccaggGCTGGTCCAGCGACCCCTGGTCTCACTGAGGACCAGCTATGGCGCGCTAAATATGTGTATGACTCATCATTCCATCCAGATACAGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTTACCTTT---aggtgcgaattatgccaattttgggaggagatgattgagtatggatgattga Alignment from CESAR gGCTGGTGTGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCCAAATACGTGTATGACTCAGCATTCCATCCGGACACGGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTCACCTTCTACag ccaacctcacacaggactcctctccttgtccttaatcattcctccaccaggGCTGGTCCAGCGACCCCTGGTCTCACTGAGGACCAGCTATGGCGCGCTAAATATGTGTATGACTCATCATTCCATCCAGATACAGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTTACCTTT---aggtgcgaattatgccaattttgggaggagatgattgagtatggatgattga Alignment from Spaln_aa2Genome GGCTGGTGTGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCCAAATACGTGTATGACTCAGCATTCCATCCGGACACGGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTCACCTTCTA ccaacctcacacaggactcctctccttgtccttaatcattcctccaccagGGCTGGTCCAGCGACCCCTGGTCTCACTGAGGACCAGCTATGGCGCGCTAAATATGTGTATGACTCATCATTCCATCCAGATACAGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTTACCTTTAGgtgcgaattatgccaattttgggaggagatgattgagtatggatgattga Alignment from Spaln_nt2Genome GGCTGGTGTGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCCAAATACGTGTATGACTCAGCATTCCATCCGGACACGGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTCACCTTCTAC ccaacctcacacaggactcctctccttgtccttaatcattcctccaccagGGCTGGTCCAGCGACCCCTGGTCTCACTGAGGACCAGCTATGGCGCGCTAAATATGTGTATGACTCATCATTCCATCCAGATACAGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTTACCTT-TAGgtgcgaattatgccaattttgggaggagatgattgagtatggatgattga Alignment from Pairagon GGCTGGTGTGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCCAAATACGTGTATGACTCAGCATTCCATCCGGACACGGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTCACCTTCTACAG ccaacctcacacaggactcctctccttgtccttaatcattcctccaccagGGCTGGTCCAGCGACCCCTGGTCTCACTGAGGACCAGCTATGGCGCGCTAAATATGTGTATGACTCATCATTCCATCCAGATACAGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTTACCTT---TAGgtgcgaattatgccaattttgggaggagatgattgagtatggatgattga Alignment from Exonerate_protein2genome GGCTGGTGTGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCCAAATACGTGTATGACTCAGCATTCCATCCGGACACGGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTCACCTTCTACAG ccaacctcacacaggactcctctccttgtccttaatcattcctccaccagGGCTGGTCCAGCGACCCCTGGTCTCACTGAGGACCAGCTATGGCGCGCTAAATATGTGTATGACTCATCATTCCATCCAGATACAGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTTACCTTT---AGgtgcgaattatgccaattttgggaggagatgattgagtatggatgattga Alignment from Exonerate_coding2genome ccaacctcacacaggactcctctccttgtccttaatcattcctccaccagggctggtccagcgacccctggtctcactgaggaccagctatggcgcgctaaatatgtgtatgactcatcattccatccagatacaggggagaaggtggtcttgattggccgtatgtcagcccaggtgcccatgaacatgaccattactggctgcatgcttacctttaggtgcgaattatgccaattttgggaggagatgattgagtatggatgattga Alignment from GeneWise GGCTGGTGTGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCCAAATACGTGTATGACTCAGCATTCCATCCGGACACGGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTCACCTTCTA ccaacctcacacaggactcctctccttgtccttaatcattcctccaccagGGCTGGTCCAGCGACCCCTGGTCTCACTGAGGACCAGCTATGGCGCGCTAAATATGTGTATGACTCATCATTCCATCCAGATACAGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTTACCTTTAGgtgcgaattatgccaattttgggaggagatgattgagtatggatgattga #### Sfxn3_ID9285_3 --> 1 - 2 Original Alignment gAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTG------------------------ca ataaaaagcttatacacctgaacccagtagtcttcctataccctcgtcagaAAGACTCCCACTGTGGTGTTTTGGCAGTGGGTGAATCAATCATTTAATGCTATCATTAACTACTCTAATCGGAGTGGAGATGCTCCTATCACTGTCCTCTCAGTCTCTGGCCATGATGACaggtaagtcacacccccacacaagcatccctagtccccatggcttttgtgtc Alignment from CESAR gAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTG------------------------ca ataaaaagcttatacacctgaacccagtagtcttcctataccctcgtcagaAAGACTCCCACTGTGGTGTTTTGGCAGTGGGTGAATCAATCATTTAATGCTATCATTAACTACTCTAATCGGAGTGGAGATGCTCCTATCACTGTCCTCTCAGTCTCTGGCCATGATGACaggtaagtcacacccccacacaagcatccctagtccccatggcttttgtgtc Alignment from Spaln_aa2Genome GAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGCAGCAG ataaaaagcttatacacctgaacccagtagtcttcctataccctcgtcagAAAGACTCCCACTGTGGTGTTTTGGCAGTGGGTGAATCAATCATTTAATGCTATCATTAACTACTCTAATCGGAGTGGAGATGCTCCTATCACTGTCCTCTCAgtctctggccatgatgacaggtaagtcacacccccacacaagcatccctagtccccatggcttttgtgtc Alignment from Spaln_nt2Genome GAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGC----A ataaaaagcttatacacctgaacccagtagtcttcctataccctcgtcagAAAGACTCCCACTGTGGTGTTTTGGCAGTGGGTGAATCAATCATTTAATGCTATCATTAACTACTCTAATCGGAGTGGAGATGCTCCTATCACTGTCCTCTCAgtctctggccatgatgacaggtaagtcacacccccacacaagcatccctagtccccatggcttttgtgtc Alignment from Pairagon GAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGCA------------------------ ataaaaagcttatacacctgaacccagtagtcttcctataccctcgtcagAAAGACTCCCACTGTGGTGTTTTGGCAGTGGGTGAATCAATCATTTAATGCTATCATTAACTACTCTAATCGGAGTGGAGATGCTCCTATCACTGTCCTCTCAGTCTCTGGCCATGATGACAGgtaagtcacacccccacacaagcatccctagtccccatggcttttgtgtc Alignment from Exonerate_protein2genome GAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGCA ataaaaagcttatacacctgaacccagtagtcttcctataccctcgtcagAAAGACTCCCACTGTGGTGTTTTGGCAGTGGGTGAATCAATCATTTAATGCTATCATTAACTACTCTAATCGGAGTGGAGATGCTCCTATCACTGTCCTctcagtctctggccatgatgacaggtaagtcacacccccacacaagcatccctagtccccatggcttttgtgtc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGCAGCAG ataaaaagcttatacacctgaacccagtagtcttcctataccctcgtcagAAAGACTCCCACTGTGGTGTTTTGGCAGTGGGTGAATCAATCATTTAATGCTATCATTAACTACTCTAATCGGAGTGGAGATGCTCCTATCACTGTCCTCTCAgtctctggccatgatgacaggtaagtcacacccccacacaagcatccctagtccccatggcttttgtgtc #### Sipa1_ID1138_14 --> 1 - 0 Original Alignment gCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG------------------ ctcaattttctgttgggtgtggcatccttcccatctctttgttatttcaggCCA---CCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAATTGCAAGAGGATTCGCAGAGACACCGCTACCTGGAGGGAgtaagttgcctacctgggaagggtttaaagggctgccatgggacatggga Alignment from CESAR gCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG------------------ ctcaattttctgttgggtgtggcatccttcccatctctttgttatttcaggCCA---CCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAATTGCAAGAGGATTCGCAGAGACACCGCTACCTGGAGGGAgtaagttgcctacctgggaagggtttaaagggctgccatgggacatggga Alignment from Spaln_aa2Genome GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG------------------ ctcaattttctgttgggtgtggcatccttcccatctctttgttatttcagGCCA---CCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAATTGCAAGAGGATTCGCAGAGACACCGCTACCTGGAGGGAgtaagttgcctacctgggaagggtttaaagggctgccatgggacatggga Alignment from Spaln_nt2Genome GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG---- ctcaattttctgttgggtgtggcatccttcccatctctttgttatttcagGCC---ACCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAATTGCAAGAGGATTCGCAGAGACACCgctacctggagggagtaagttgcctacctgggaagggtttaaagggctgccatgggacatggga Alignment from Pairagon GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGG------------------ACCTGCAGAGG ctcaattttctgttgggtgtggcatccttcccatctctttgttatttcagGCC---ACCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAATTGCAAGAGGATTCGCAGAGACACCGCTACCTGGAGGGAgtaagttgcctacctgggaagggtttaaagggctgccatgggacatggga Alignment from Exonerate_protein2genome GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAG ctcaattttctgttgggtgtggcatccttcccatctctttgttatttcagGCCA---CCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAATTGCAAGAGGATTCGCAGagacaccgctacctggagggagtaagttgcctacctgggaagggtttaaagggctgccatgggacatggga Alignment from Exonerate_coding2genome ctcaattttctgttgggtgtggcatccttcccatctctttgttatttcaggccacctgggagcctatcagaaaagatctctcatctagagtccatgctctggaaattgcaagaggattcgcagagacaccgctacctggagggagtaagttgcctacctgggaagggtttaaagggctgccatgggacatggga Alignment from GeneWise GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG------------------ ctcaattttctgttgggtgtggcatccttcccatctctttgttatttcagGCCA---CCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAATTGCAAGAGGATTCGCAGAGACACCGCTACCTGGAGGGAgtaagttgcctacctgggaagggtttaaagggctgccatgggacatggga #### Sipa1_ID1141_11 --> 0 - 1 Original Alignment ---GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGa gtcaaggttacattgagtcccatactgtccttttctgatcctcttgacagGTCGATCAGTCAGGAAGCCCTAGTAGTCATGAGGATACCAGTGACTCAGGTCCAGAATTAAAGGCTCCGATCCTGCCTAGAACCTTATCGGTACGGAATTCCATCAGTAAAagtaagtgcaggtgacaggggttagggacagtctcctgctcatgccctgtc Alignment from CESAR ---GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGa gtcaaggttacattgagtcccatactgtccttttctgatcctcttgacagGTCGATCAGTCAGGAAGCCCTAGTAGTCATGAGGATACCAGTGACTCAGGTCCAGAATTAAAGGCTCCGATCCTGCCTAGAACCTTATCGGTACGGAATTCCATCAGTAAAagtaagtgcaggtgacaggggttagggacagtctcctgctcatgccctgtc Alignment from Spaln_aa2Genome GACCAGTCAGGA---AGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtcaaggttacattgagtcccatactgtccttttctgatcctcttgacagGTCGATCAGTCAGGAAGCCCTAGTAGTCATGAGGATACCAGTGACTCAGGTCCAGAATTAAAGGCTCCGATCCTGCCTAGAACCTTATCGGTACGGAATTCCATCAGTAAAAgtaagtgcaggtgacaggggttagggacagtctcctgctcatgccctgtc Alignment from Spaln_nt2Genome GACCAGTCAGGA---AGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtcaaggttacattgagtcccatactgtccttttctgatcctcttgacagGTCGATCAGTCAGGAAGCCCTAGTAGTCATGAGGATACCAGTGACTCAGGTCCAGAATTAAAGGCTCCGATCCTGCCTAGAACCTTATCGGTACGGAATTCCATCAGTAAAAgtaagtgcaggtgacaggggttagggacagtctcctgctcatgccctgtc Alignment from Pairagon ---GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtcaaggttacattgagtcccatactgtccttttctgatcctcttgacagGTCGATCAGTCAGGAAGCCCTAGTAGTCATGAGGATACCAGTGACTCAGGTCCAGAATTAAAGGCTCCGATCCTGCCTAGAACCTTATCGGTACGGAATTCCATCAGTAAAAgtaagtgcaggtgacaggggttagggacagtctcctgctcatgccctgtc Alignment from Exonerate_protein2genome ---GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtcaaggttacattgagtcccatactgtccttttctgatcctcttgacagGTCGATCAGTCAGGAAGCCCTAGTAGTCATGAGGATACCAGTGACTCAGGTCCAGAATTAAAGGCTCCGATCCTGCCTAGAACCTTATCGGTACGGAATTCCATCAGTAAAAgtaagtgcaggtgacaggggttagggacagtctcctgctcatgccctgtc Alignment from Exonerate_coding2genome gtcaaggttacattgagtcccatactgtccttttctgatcctcttgacaggtcgatcagtcaggaagccctagtagtcatgaggataccagtgactcaggtccagaattaaaggctccgatcctgcctagaaccttatcggtacggaattccatcagtaaaagtaagtgcaggtgacaggggttagggacagtctcctgctcatgccctgtc Alignment from GeneWise ---GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtcaaggttacattgagtcccatactgtccttttctgatcctcttgacagGTCGATCAGTCAGGAAGCCCTAGTAGTCATGAGGATACCAGTGACTCAGGTCCAGAATTAAAGGCTCCGATCCTGCCTAGAACCTTATCGGTACGGAATTCCATCAGTAAAAgtaagtgcaggtgacaggggttagggacagtctcctgctcatgccctgtc #### Sipa1_ID1142_10 --> 1 - 0 Original Alignment cTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG agatgcttccacaagaagaacctcttctgtaacactgctgacctcaacagc------ACTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTACTTATTACAACAGCTAACACTTCTGCCCCTGATACTGATAGAGAAACACCGCCTTCCCAGgtaggcagggaggcgtacgctctatcaacacatggcccactgtcaaggtt Alignment from CESAR cTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG caagggagatgcttccacaagaagatctgtaacactgctgacctcaacagc------ACTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTACTTATTACAACAGCTAACACTTCTGCCCCTGATACTGATAGAGAAACACCGCCTTCCCAGgtaggcagggaggcgtacgctctatcaacacatggcccactgtcaaggtt Alignment from Spaln_aa2Genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG agatgcttccacaagaagaacctcttctgtaacactgctgacctcaacagC------ACTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTACTTATTACAACAGCTAACACTTCTGCCCCTGATACTGATAGAGAAACACCGCCTTCCCAGgtaggcagggaggcgtacgctctatcaacacatggcccactgtcaaggtt Alignment from Spaln_nt2Genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG agatgcttccacaagaagaacctcttctgtaacactgctgacctcaacagC------ACTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTACTTATTACAACAGCTAACACTTCTGCCCCTGATACTGATAGAGAAACACCGCCTTCCCAGgtaggcagggaggcgtacgctctatcaacacatggcccactgtcaaggtt Alignment from Pairagon CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG agatgcttccacaagaagaacctcttctgtaacactgctgacctcaacagC------ACTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTACTTATTACAACAGCTAACACTTCTGCCCCTGATACTGATAGAGAAACACCGCCTTCCCAGgtaggcagggaggcgtacgctctatcaacacatggcccactgtcaaggtt Alignment from Exonerate_protein2genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG agatgcttccacaagaagaacctcttctgtaacactgctgacctCAACAGCACTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTACTTATTACAACAGCTAACACTTCTGCCCCTGATACTGATAGAGAAACACCGCCTTCCCAGgtaggcagggaggcgtacgctctatcaacacatggcccactgtcaaggtt Alignment from Exonerate_coding2genome agatgcttccacaagaagaacctcttctgtaacactgctgacctcaacagcactgatgaggtccctgtcctacccaagattacaccagatctcctacttattacaacagctaacacttctgcccctgatactgatagagaaacaccgccttcccaggtaggcagggaggcgtacgctctatcaacacatggcccactgtcaaggtt Alignment from GeneWise CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG agatgcttccacaagaagaacctcttctgtaacactgctgacctcaacagCACT------GATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTACTTATTACAACAGCTAACACTTCTGCCCCTGATACTGATAGAGAAACACCGCCTTCCCAGgtaggcagggaggcgtacgctctatcaacacatggcccactgtcaaggtt #### Sipa1_ID1146_6 --> 0 - 2 Original Alignment CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATAC------ag ttgagcacactgaaaatcatgtattttttaaacacaccttccctttgcagCTCCTAAGGAAACGTCACATCAGTAATGACATTGTGACCATTGTGTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAATATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACGTCAACaggtaatgatttggttaaactggtgtcttagggttgggtcaactgtcatggt Alignment from CESAR CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATAC------ag ttgagcacactgaaaatcatgtattttttaaacacaccttccctttgcagCTCCTAAGGAAACGTCACATCAGTAATGACATTGTGACCATTGTGTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAATATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACGTCAACaggtaatgatttggttaaactggtgtcttagggttgggtcaactgtcatggt Alignment from Spaln_aa2Genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAGG----- ttgagcacactgaaaatcatgtattttttaaacacaccttccctttgcagCTCCTAAGGAAACGTCACATCAGTAATGACATTGTGACCATTGTGTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAATATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACGTCAACAGgtaatgatttggttaaactggtgtcttagggttgggtcaactgtcatggt Alignment from Spaln_nt2Genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATAC------AG ttgagcacactgaaaatcatgtattttttaaacacaccttccctttgcagCTCCTAAGGAAACGTCACATCAGTAATGACATTGTGACCATTGTGTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAATATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACGTCAACAGgtaatgatttggttaaactggtgtcttagggttgggtcaactgtcatggt Alignment from Pairagon CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCA------------------------------------------------------------- ttgagcacactgaaaatcatgtattttttaaacacaccttccctttgcagCTCCTAAGGAAACGTCACATCAGTAATGACATTGTGACCATTGTGTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAATATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACGTCAACAGGTAATGATTTGGTTAAACTGGTGTCTTAGGGTTGGGTCAACTGTCATGGT Alignment from Exonerate_protein2genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATAC------AG ttgagcacactgaaaatcatgtattttttaaacacaccttccctttgcagCTCCTAAGGAAACGTCACATCAGTAATGACATTGTGACCATTGTGTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAATATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACGTCAACAGgtaatgatttggttaaactggtgtcttagggttgggtcaactgtcatggt Alignment from Exonerate_coding2genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATAC------AG ttgagcacactgaaaatcatgtattttttaaacacaccttccctttgcagCTCCTAAGGAAACGTCACATCAGTAATGACATTGTGACCATTGTGTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAATATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACGTCAACAGgtaatgatttggttaaactggtgtcttagggttgggtcaactgtcatggt Alignment from GeneWise CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATAC------AG ttgagcacactgaaaatcatgtattttttaaacacaccttccctttgcagCTCCTAAGGAAACGTCACATCAGTAATGACATTGTGACCATTGTGTTTCAAGAGCCTGGCAGCAAGCCCTTCTGTCCTATGACAATATGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCATATGCATCTTGCACTCCCCACACATCATACGTCAACAGgtaatgatttggttaaactggtgtcttagggttgggtcaactgtcatggt #### Sipa1_ID1147_5 --> 2 - 0 Original Alignment cgGATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG agccttccataacatccttgccaacgactttttgatggtttatttttcagcg---TCCACGGGCACCCACTCACTCTACACCACCTACCAAGATCATGAGATCATGTTTCACGTGTCCACGATGTTGCCTTACACACCTAATAACCAGCAACAGgtaagtagagaatttgccaaggctaggaaagaccactgggaatcagtctc Alignment from CESAR cgGATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tgtagccttccataacatccttgccgactttttgatggtttatttttcagcg---TCCACGGGCACCCACTCACTCTACACCACCTACCAAGATCATGAGATCATGTTTCACGTGTCCACGATGTTGCCTTACACACCTAATAACCAGCAACAGgtaagtagagaatttgccaaggctaggaaagaccactgggaatcagtctc Alignment from Spaln_aa2Genome CGGATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG agccttccataacatccttgccaacgactttttgatggtttatttttcagCG---TCCACGGGCACCCACTCACTCTACACCACCTACCAAGATCATGAGATCATGTTTCACGTGTCCACGATGTTGCCTTACACACCTAATAACCAGCAACAGgtaagtagagaatttgccaaggctaggaaagaccactgggaatcagtctc Alignment from Spaln_nt2Genome CGGATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG agccttccataacatccttgccaacgactttttgatggtttatttttcagCG---TCCACGGGCACCCACTCACTCTACACCACCTACCAAGATCATGAGATCATGTTTCACGTGTCCACGATGTTGCCTTACACACCTAATAACCAGCAACAGgtaagtagagaatttgccaaggctaggaaagaccactgggaatcagtctc Alignment from Pairagon AACGGATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG agccttccataacatccttgccaacgactttttgatggtttatttttcag-----CGTCCACGGGCACCCACTCACTCTACACCACCTACCAAGATCATGAGATCATGTTTCACGTGTCCACGATGTTGCCTTACACACCTAATAACCAGCAACAGgtaagtagagaatttgccaaggctaggaaagaccactgggaatcagtctc Alignment from Exonerate_protein2genome ATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG agccttccataacatccttgccaacgactttttgatggtttatttttcagCGTCCACGGGCACCCACTCACTCTACACCACCTACCAAGATCATGAGATCATGTTTCACGTGTCCACGATGTTGCCTTACACACCTAATAACCAGCAACAGgtaagtagagaatttgccaaggctaggaaagaccactgggaatcagtctc Alignment from Exonerate_coding2genome ATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG agccttccataacatccttgccaacgactttttgatggtttatttttcagCGTCCACGGGCACCCACTCACTCTACACCACCTACCAAGATCATGAGATCATGTTTCACGTGTCCACGATGTTGCCTTACACACCTAATAACCAGCAACAGgtaagtagagaatttgccaaggctaggaaagaccactgggaatcagtctc Alignment from GeneWise CGGATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG agccttccataacatccttgccaacgactttttgatggtttatttttcagCG---TCCACGGGCACCCACTCACTCTACACCACCTACCAAGATCATGAGATCATGTTTCACGTGTCCACGATGTTGCCTTACACACCTAATAACCAGCAACAGgtaagtagagaatttgccaaggctaggaaagaccactgggaatcagtctc #### Slc18a2_ID12939_7 --> 2 - 0 Original Alignment ctATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA gccaagtatgggatgcctgcggtatatccttctctctgttgactctacagctATTCAACTCTTTGTAATTCAA---TCCTGCATACTT------gtaagcggtgtaagctgggaatttacagcacggttaaaatgtttcttttt Alignment from CESAR ctATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA gccaagtatgggatgcctgcggtatatccttctctctgttgactctacagctATTCAACTCTTTGTAATTCAATCCTGCATACTTGTAAGCGGTgtaagctgggaatttacagcacggttttcgttttgtctgac Alignment from Spaln_aa2Genome CTATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA gccaagtatgggatgcctgcggtatatccttctctctgttgactctacagCTATTCAACTCTTTGTAATTCAATCCTGCATACTTGTAAGCGGTgtaagctgggaatttacagcacggttaaaatgtttcttttt Alignment from Spaln_nt2Genome CTATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA gccaagtatgggatgcctgcggtatatccttctctctgttgactctacagCTATTCAACTCTTTGTAATTCAATCCTGCATACTTGTAAGCGGTgtaagctgggaatttacagcacggttaaaatgtttcttttt Alignment from Pairagon CTATTCAGCTCTTT gccaagtatgggatgcctgcggtatatccttctctctgttgactctacagCTATTCAACTCTTTgtaattcaatcctgcatacttgtaagcggtgtaagctgggaatttacagcacggttaaaatgtttcttttt Alignment from Exonerate_protein2genome CTATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA gccaagtatgggatgcctgcggtatatccttctctctgttgactctacagCTATTCAACTCTTTGTAATTCAATCCTGCATACTTGTAAGCGGTgtaagctgggaatttacagcacggttaaaatgtttcttttt Alignment from Exonerate_coding2genome gccaagtatgggatgcctgcggtatatccttctctctgttgactctacagctattcaactctttgtaattcaatcctgcatacttgtaagcggtgtaagctgggaatttacagcacggttaaaatgtttcttttt Alignment from GeneWise gccaagtatgggatgcctgcggtatatccttctctctgttgactctacagctattcaactctttgtaattcaatcctgcatacttgtaagcggtgtaagctgggaatttacagcacggttaaaatgtttcttttt #### Slc18a2_ID12944_11 --> 1 - 0 Original Alignment gTGGCTGTGTGCTCTTCTGGGAATGATAGTTGTTGGGATCAGCATTTTATGT atggatgcagttttccctcactagagagctggttcgacttttctacccaggTGGCTGTGTGCCCTTTTGGGAATG---------------------------gtaagtcaggggggacagtatccttagggtatatgtatactcctgcactt Alignment from CESAR gTGGCTGTGTGCTCTTCTGGGAATGATAGTTGTTGGGATCAGCATTTTATGT atggatgcagttttccctcactagagagctggttcgacttttctacccaggTGGCTGTGTGCCCTTTTGGGAATG---------------------------gtaagtcaggggggacagtatcc Alignment from Spaln_aa2Genome GTGGCTGTGTGCTCTTCTGGGAATGATA-GTTGTTGGGATCAGCATTTTATGT atggatgcagttttccctcactagagagctggttcgacttttctacccagGTGGCTGTGTGCCCTTTTGGGAATGGTAaGTCAGGGGGGACAGTATCCTTAGGgtatatgtatactcctgcactt Alignment from Spaln_nt2Genome GTGGCTGTGTGCTCTTCTGGGAATG atggatgcagttttccctcactagagagctggttcgacttttctacccagGTGGCTGTGTGCCCTTTTGGGAATGgtaagtcaggggggacagtatccttagggtatatgtatactcctgcactt Alignment from Pairagon GTGGCTGTGTGCTCTTCTGGGAATG atggatgcagttttccctcactagagagctggttcgacttttctacccagGTGGCTGTGTGCCCTTTTGGGAATGgtaagtcaggggggacagtatccttagggtatatgtatactcctgcactt Alignment from Exonerate_protein2genome GTGGCTGTGTGCTCTTCTGGGAATGATA-GTTGTTGGGATCAGCATTTTATGT atggatgcagttttccctcactagagagctggttcgacttttctacccagGTGGCTGTGTGCCCTTTTGGGAATGGTAAGTCAGGGGGGACAGTATCCTTAGGgtatatgtatactcctgcactt Alignment from Exonerate_coding2genome GTGGCTGTGTGCTCTTCTGGGAATGATA-GTTGTTGGGATCAGCATTTTATGT atggatgcagttttccctcactagagagctggttcgacttttctacccagGTGGCTGTGTGCCCTTTTGGGAATGGTAAGTCAGGGGGGACAGTATCCTTAGGgtatatgtatactcctgcactt Alignment from GeneWise atggatgcagttttccctcactagagagctggttcgacttttctacccaggtggctgtgtgcccttttgggaatggtaagtcaggggggacagtatccttagggtatatgtatactcctgcactt #### Slc22a12_ID1789_8 --> 2 - 2 Original Alignment ggATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCag gttgatacattgcgaattgctttgtctatttgaattttatattttaatagca---------CTTCGCTCTGCTCTGGCTGTGCTAGGATTGGGCTGCCTAGGTGGTGCCTTCACGTGCATCACCATTTTCTCTAGCGAGCTCTTTCCCACTGTTATCaggtagcagcaattagtccatggatcacaccaccagaccattgcccatagat Alignment from CESAR ggATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCag ctatggctggttgatacattgcgaactatttgaattttatattttaatagca---------CTTCGCTCTGCTCTGGCTGTGCTAGGATTGGGCTGCCTAGGTGGTGCCTTCACGTGCATCACCATTTTCTCTAGCGAGCTCTTTCCCACTGTTATCaggtagcagcaattagtccatggatcacaccaccagaccattgcccatagat Alignment from Spaln_aa2Genome GGGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ttgcgaattgctttgtctatttgaattttatattttaata gCACTTCGCTCTGCTCTGGCTGTGCTAGGATTGGGCTGCCTAGGTGGTGCCTTCACGTGCATCACCATTTTCTCTAGCGAGCTCTTTCCCACTGTTATCAGgtagcagcaattagtccatggatcacaccaccagaccattgcccatagat Alignment from Spaln_nt2Genome TCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG gttgatacattgcgaattgctttgtctatttgaattttatattttaatagCACTTCGCTCTGCTCTGGCTGTGCTAGGATTGGGCTGCCTAGGTGGTGCCTTCACGTGCATCACCATTTTCTCTAGCGAGCTCTTTCCCACTGTTATCAGgtagcagcaattagtccatggatcacaccaccagaccattgcccatagat Alignment from Pairagon GTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG gttgatacattgcgaattgctttgtctatttgaattttatattttaatag-CACTTCGCTCTGCTCTGGCTGTGCTAGGATTGGGCTGCCTAGGTGGTGCCTTCACGTGCATCACCATTTTCTCTAGCGAGCTCTTTCCCACTGTTATCAGgtagcagcaattagtccatggatcacaccaccagaccattgcccatagat Alignment from Exonerate_protein2genome GGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG gttgatacattgcgaattgctttgtctatttgaattttatattttaatAGCACTTCGCTCTGCTCTGGCTGTGCTAGGATTGGGCTGCCTAGGTGGTGCCTTCACGTGCATCACCATTTTCTCTAGCGAGCTCTTTCCCACTGTTATCAGgtagcagcaattagtccatggatcacaccaccagaccattgcccatagat Alignment from Exonerate_coding2genome gttgatacattgcgaattgctttgtctatttgaattttatattttaatagcacttcgctctgctctggctgtgctaggattgggctgcctaggtggtgccttcacgtgcatcaccattttctctagcgagctctttcccactgttatcaggtagcagcaattagtccatggatcacaccaccagaccattgcccatagat Alignment from GeneWise GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG gttgatacattgcgaattgctttgtctatttgaattttatattttaatagCA---------CTTCGCTCTGCTCTGGCTGTGCTAGGATTGGGCTGCCTAGGTGGTGCCTTCACGTGCATCACCATTTTCTCTAGCGAGCTCTTTCCCACTGTTATCAGgtagcagcaattagtccatggatcacaccaccagaccattgcccatagat #### Slc22a12_ID1791_6 --> 0 - 2 Original Alignment GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCtg gagaacctggaaatgaaaatgagtgctgtctgatgttcctgtttatctag------TGGTCAGCTATGGACAAGGAACCAAGCAGGGACCAGGCCAGCGCCAGTCTTAGCACTTTACTCCACACACCTGGACTGCGCCACCGCAGCATTATCTCTATGCTGTGCctgtgcggcctccactgcaatggttggcaagtggaagttccccagtcattag Alignment from CESAR GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCtg ctgggggagaacctggaaatgaaaactgtctgatgttcctgtttatctag------TGGTCAGCTATGGACAAGGAACCAAGCAGGGACCAGGCCAGCGCCAGTCTTAGCACTTTACTCCACACACCTGGACTGCGCCACCGCAGCATTATCTCTATGCTGTGCctgtgcggcctccactgcaatggttggcaagtggaagttccccagtcattag Alignment from Spaln_aa2Genome CGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG gagaacctggaaatgaaaatgagtgctgtctgatgttcctgtttatctagTGGTCAGCTATGGACAAGGAACCAAGCAGGGACCAGGCCAGCGCCAGTCTTAGCACTTTACTCCACACACCTGGACTGCGCCACCGCAGCATTATCTCTATGCTGTGCCTgtgcggcctccactgcaatggttggcaagtggaagttccccagtcattag Alignment from Spaln_nt2Genome -GGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG gagaacctggaaatgaaaatgagtgctgtctgatgttcctgtttatctagTGGTCAGCTATGGACAAGGAACCAAGCAGGGACCAGGCCAGCGCCAGTCTTAGCACTTTACTCCACACACCTGGACTGCGCCACCGCAGCATTATCTCTATGCTGTGCCTgtgcggcctccactgcaatggttggcaagtggaagttccccagtcattag Alignment from Pairagon CTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG gagaacctggaaatgaaaatgagtgctgtctgatgttcctgtttatctag---TGGTCAGCTATGGACAAGGAACCAAGCAGGGACCAGGCCAGCGCCAGTCTTAGCACTTTACTCCACACACCTGGACTGCGCCACCGCAGCATTATCTCTATGCTGTGCCTgtgcggcctccactgcaatggttggcaagtggaagttccccagtcattag Alignment from Exonerate_protein2genome TCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG gagaacctggaaatgaaaatgagtgctgtctgatgttcctgtttatctagtggTCAGCTATGGACAAGGAACCAAGCAGGGACCAGGCCAGCGCCAGTCTTAGCACTTTACTCCACACACCTGGACTGCGCCACCGCAGCATTATCTCTATGCTGTGCCTgtgcggcctccactgcaatggttggcaagtggaagttccccagtcattag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ---TCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG gagaacctggaaatgaaaatgagtgctgtctgatgttcctgtttatctagTGGTCAGCTATGGACAAGGAACCAAGCAGGGACCAGGCCAGCGCCAGTCTTAGCACTTTACTCCACACACCTGGACTGCGCCACCGCAGCATTATCTCTATGCTGTGCCTgtgcggcctccactgcaatggttggcaagtggaagttccccagtcattag #### Slc22a12_ID1794_3 --> 1 - 1 Original Alignment gTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCt ggcaccgcgacccatcgctagcatcctcgcctgtttcctacctactgcagg---------------------------AGCTATCTCTTGGTGTCTGTGTCTGTCACAGGTGCTGCTTTCATGCCCACCTTCCCACTGCATTGTCTGTTTTCCTTCCTGCTGGCATCCTCAGTGGCCGGTATCATGATGAATACAGCCAGTCTTtgtgagtaccactcctagtgtgacggttgcaaggctactgcggtctttccc Alignment from CESAR gTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCt tagccacacagagctattgttgctcctcgcctgtttcctacctactgcagg---------------------------AGCTATCTCTTGGTGTCTGTGTCTGTCACAGGTGCTGCTTTCATGCCCACCTTCCCACTGCATTGTCTGTTTTCCTTCCTGCTGGCATCCTCAGTGGCCGGTATCATGATGAATACAGCCAGTCTTtgtgagtaccactcctagtgtgacggttgcaaggctactgcggtcccctct Alignment from Spaln_aa2Genome TCAGATAGGTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gcgacccatcgctagCATCCTCGCCTG------TTTCCTACCTACTGCAGGAGCTATCTCTTGGTGTCTGTGTCTGTCACAGGTGCTGCTTTCATGCCCACCTTCCCACTGCATTGTCTGTTTTCCTTCCTGCTGGCATCCTCAGTGGCCGGTATCATGATGAATACAGCCAGTCTTTgtgagtaccactcctagtgtgacggttgcaaggctactgcggtctttccc Alignment from Spaln_nt2Genome GAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT ggcaccgcgacccatcgctagcatcctcgcctgtttcctacctactgcagGAGCTATCTCTTGGTGTCTGTGTCTGTCACAGGTGCTGCTTTCATGCCCACCTTCCCACTGCATTGTCTGTTTTCCTTCCTGCTGGCATCCTCAGTGGCCGGTATCATGATGAATACAGCCAGTCTTTgtgagtaccactcctagtgtgacggttgcaaggctactgcggtctttccc Alignment from Pairagon GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT ggcaccgcgacccatcgctagcatcctcgcctgtttcctacctactgcag---------------------------GAGCTATCTCTTGGTGTCTGTGTCTGTCACAGGTGCTGCTTTCATGCCCACCTTCCCACTGCATTGTCTGTTTTCCTTCCTGCTGGCATCCTCAGTGGCCGGTATCATGATGAATACAGCCAGTCTTTgtgagtaccactcctagtgtgacggttgcaaggctactgcggtctttccc Alignment from Exonerate_protein2genome ACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT ggcaccgcgacccatcgctagcatcctcgcctgtttcctacctacTGCAGGAGCTATCTCTTGGTGTCTGTGTCTGTCACAGGTGCTGCTTTCATGCCCACCTTCCCACTGCATTGTCTGTTTTCCTTCCTGCTGGCATCCTCAGTGGCCGGTATCATGATGAATACAGCCAGTCTTTgtgagtaccactcctagtgtgacggttgcaaggctactgcggtctttccc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT ggcaccgcgacccatcgctagcatcctcgcctgtttcctacctactgcagG---------------------------AGCTATCTCTTGGTGTCTGTGTCTGTCACAGGTGCTGCTTTCATGCCCACCTTCCCACTGCATTGTCTGTTTTCCTTCCTGCTGGCATCCTCAGTGGCCGGTATCATGATGAATACAGCCAGTCTTTgtgagtaccactcctagtgtgacggttgcaaggctactgcggtctttccc #### Slc22a20_ID1345_8 --> 2 - 2 Original Alignment atCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCag ttaccagtacatgcaggtccagctcagatggttctctcctctcttcccaggtCAGCAGATGTTGCGAACTGTACCGGCTGAACTAGGGAAGGGCTGTCTGGCGAGCTCGTTCGTCTGTGTGTACCTTTTTATGGGGGGACTGTATCCA---------aggtgagaatgtttcgacatggaggatgccaccatagctaagctgcaattta Alignment from CESAR atCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCag ttaccagtacatgcaggtccagctcagatggttctctcctctcttcccaggtCAGCAGATGTTGCGAACTGTACCGGCTGAACTAGGGAAGGGCTGTCTGGCGAGCTCGTTCGTCTGTGTGTACCTTTTTATGGGGGGACTGTATCCA---------aggtgagaatgtttcgacatggaggatgccaccatagctaagctgcaattta Alignment from Spaln_aa2Genome ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCAC ttaccagtacatgcaggtccagctcagatggttctctcctctcttcccagGTCAGCAGATGTTGCGAACTGTACCGGCTGAACTAGGGAAGGGCTGTCTGGCGAGCTCGTTCGTCTGTGTGTACCTTTTTATGGGGGGACTGTATCCAAGgtgagaatgtttcgacatggaggatgccaccatagctaagctgcaattta Alignment from Spaln_nt2Genome ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCAG ttaccagtacatgcaggtccagctcagatggttctctcctctcttcccagGTCAGCAGATGTTGCGAACTGTACCGGCTGAACTAGGGAAGGGCTGTCTGGCGAGCTCGTTCGTCTGTGTGTACCTTTTTATGGGGGGACTGTATCC---------AAGgtgagaatgtttcgacatggaggatgccaccatagctaagctgcaattta Alignment from Pairagon ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCAG ttaccagtacatgcaggtccagctcagatggttctctcctctcttcccagGTCAGCAGATGTTGCGAACTGTACCGGCTGAACTAGGGAAGGGCTGTCTGGCGAGCTCGTTCGTCTGTGTGTACCTTTTTATGGGGGGACTGTATCC---------AAGgtgagaatgtttcgacatggaggatgccaccatagctaagctgcaattta Alignment from Exonerate_protein2genome ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCAC ttaccagtacatgcaggtccagctcagatggttctctcctctcttcccagGTCAGCAGATGTTGCGAACTGTACCGGCTGAACTAGGGAAGGGCTGTCTGGCGAGCTCGTTCGTCTGTGTGTACCTTTTTATGGGGGGACTGTATCCAAGgtgagaatgtttcgacatggaggatgccaccatagctaagctgcaattta Alignment from Exonerate_coding2genome ttaccagtacatgcaggtccagctcagatggttctctcctctcttcccaggtcagcagatgttgcgaactgtaccggctgaactagggaagggctgtctggcgagctcgttcgtctgtgtgtacctttttatggggggactgtatccaaggtgagaatgtttcgacatggaggatgccaccatagctaagctgcaattta Alignment from GeneWise ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCAC ttaccagtacatgcaggtccagctcagatggttctctcctctcttcccagGTCAGCAGATGTTGCGAACTGTACCGGCTGAACTAGGGAAGGGCTGTCTGGCGAGCTCGTTCGTCTGTGTGTACCTTTTTATGGGGGGACTGTATCCAAGgtgagaatgtttcgacatggaggatgccaccatagctaagctgcaattta #### Slc22a20_ID1351_2 --> 0 - 2 Original Alignment TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACag accgcacaatcatagcccagagactccacttgatttcaacctcttctcag---------GTTTGTGAAACCCGCACTCTACATGACCTGGCCCAATCTATCTATATGTCTGGAGTATCAGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACaggtgagttgcttggatggcaacatctattcccttactctttattgtaattt Alignment from CESAR TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACag ggcatagtaaccgcacaatcatagcccacttgatttcaacctcttctcag---------GTTTGTGAAACCCGCACTCTACATGACCTGGCCCAATCTATCTATATGTCTGGAGTATCAGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACaggtgagttgcttggatggcaacatctattcccttactctttattgtaattt Alignment from Spaln_aa2Genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG accgcacaatcatagcccagagactccacttgatttcaacctcttctcag---------GTTTGTGAAACCCGCACTCTACATGACCTGGCCCAATCTATCTATATGTCTGGAGTATCAGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACAGgtgagttgcttggatggcaacatctattcccttactctttattgtaattt Alignment from Spaln_nt2Genome GTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG accgcacaatcatagcccagagactccacttgatttcaacctcttctcagGTTTGTGAAACCCGCACTCTACATGACCTGGCCCAATCTATCTATATGTCTGGAGTATCAGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACAGgtgagttgcttggatggcaacatctattcccttactctttattgtaattt Alignment from Pairagon TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG accgcacaatcatagcccagagactccacttgatttcaacctcttctcag---------GTTTGTGAAACCCGCACTCTACATGACCTGGCCCAATCTATCTATATGTCTGGAGTATCAGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACAGgtgagttgcttggatggcaacatctattcccttactctttattgtaattt Alignment from Exonerate_protein2genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG accgcacaatcatagcccagagactccacttgatttcaaccTCTTCTCAGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCAATCTATCTATATGTCTGGAGTATCAGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACAGgtgagttgcttggatggcaacatctattcccttactctttattgtaattt Alignment from Exonerate_coding2genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG accgcacaatcatagcccagagactccacttgatttcaaccTCTTCTCAGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCAATCTATCTATATGTCTGGAGTATCAGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACAGgtgagttgcttggatggcaacatctattcccttactctttattgtaattt Alignment from GeneWise ---------------------TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGAC-- accgcacaatcatagcccagAGACTCCACTTGATTTCAACCTCTTCTCAGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCAATCTATCTATATGTCTGGAGTATCAGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACAGgtgagttgcttggatggcaacatctattcccttactctttattgtaattt #### Slc22a6_ID2284_5 --> 1 - 0 Original Alignment g---------TTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaatgagtaactatatccatctctaccatgcatccctctgtttaggGGGACGCCGTTCTTCATTGAGTCAACGCGGTGGTACTCATCATCTGGTAGGCTGGACTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATCAATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacgttctatttattcctagacactgcctgtaatcttactctggttcat Alignment from CESAR g---------TTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaatgagtaactatatccatctctaccatgcatccctctgtttaggGGGACGCCGTTCTTCATTGAGTCAACGCGGTGGTACTCATCATCTGGTAGGCTGGACTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATCAATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacgttctatttattcctagacactgcctgtaatcttactctggttcat Alignment from Spaln_aa2Genome GTTCTTCATT---------GAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaatgagtaactatatccatctctaccatgcatccctctgtttagGGGGACGCCGTTCTTCATTGAGTCAACGCGGTGGTACTCATCATCTGGTAGGCTGGACTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATCAATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacgttctatttattcctagacactgcctgtaatcttactctggttcat Alignment from Spaln_nt2Genome GTTCTTCATTG---------AGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaatgagtaactatatccatctctaccatgcatccctctgtttagGGGGACGCCGTTCTTCATTGAGTCAACGCGGTGGTACTCATCATCTGGTAGGCTGGACTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATCAATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacgttctatttattcctagacactgcctgtaatcttactctggttcat Alignment from Pairagon ---------GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaatgagtaactatatccatctctaccatgcatccctctgtttagGGGGACGCCGTTCTTCATTGAGTCAACGCGGTGGTACTCATCATCTGGTAGGCTGGACTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATCAATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacgttctatttattcctagacactgcctgtaatcttactctggttcat Alignment from Exonerate_protein2genome G---------TTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaatgagtaactatatccatctctaccatgcatccctctgtttagGGGGACGCCGTTCTTCATTGAGTCAACGCGGTGGTACTCATCATCTGGTAGGCTGGACTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATCAATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacgttctatttattcctagacactgcctgtaatcttactctggttcat Alignment from Exonerate_coding2genome G---------TTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaatgagtaactatatccatctctaccatgcatccctctgtttagGGGGACGCCGTTCTTCATTGAGTCAACGCGGTGGTACTCATCATCTGGTAGGCTGGACTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATCAATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacgttctatttattcctagacactgcctgtaatcttactctggttcat Alignment from GeneWise -------TGGTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaacttaatgagtaactatatccatctctaccatgcatccctctgtttagGGGGACGCCGTTCTTCATTGAGTCAACGCGGTGGTACTCATCATCTGGTAGGCTGGACTTCACCCTCCGAGCTTTGCAGAGAGTGGCTTGTATCAATGCAAAACAAGAGGAAGGGCCTAAACTGTGCATTGAGgtacgttctatttattcctagacactgcctgtaatcttactctggttcat #### Slc22a8_ID2275_8 --> 2 - 2 Original Alignment aaATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCag tgtcccctagcaaatttacatgcaaaggagagtgtctcactttactttagaaATGGAGATAGTGAGGACAGCACTGGCTGTGTTTGGCATGGGATGCTTATCTGGCTCCTTCAGCTGCCTCTTCTTTTAC---------------------------aggtaaccagtgtacttgggtcaggagacccggcccggaaggtagccattat Alignment from CESAR aaATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCag tgtcccctagcaaatttacatgcaaaggagagtgtctcactttactttagaaATGGAGATAGTGAGGACAGCACTGGCTGTGTTTGGCATGGGATGCTTATCTGGCTCCTTCAGCTGCCTCTTCTTTTAC---------------------------aggtaaccagtgtacttgggtcaggagacccggcccggaaggtagccattat Alignment from Spaln_aa2Genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACAC tgtcccctagcaaatttacatgcaaaggagagtgtctcactttactttagAAATGGAGATAGTGAGGACAGCACTGGCTGTGTTTGGCATGGGATGCTTATCTGGCTCCTTCAGCTGCCTCTTCTTTTACAGgtaaccagtgtacttgggtcaggagacccggcccggaaggtagccattat Alignment from Spaln_nt2Genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACA- tgtcccctagcaaatttacatgcaaaggagagtgtctcactttactttagAAATGGAGATAGTGAGGACAGCACTGGCTGTGTTTGGCATGGGATGCTTATCTGGCTCCTTCAGCTGCCTCTTCTTTTACAGgtaaccagtgtacttgggtcaggagacccggcccggaaggtagccattat Alignment from Pairagon AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtcccctagcaaatttacatgcaaaggagagtgtctcactttactttagAAATGGAGATAGTGAGGACAGCACTGGCTGTGTTTGGCATGGGATGCTTATCTGGCTCCTTCAGCTGCCTCTTCTTTTA---------------------------CAGgtaaccagtgtacttgggtcaggagacccggcccggaaggtagccattat Alignment from Exonerate_protein2genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTA tgtcccctagcaaatttacatgcaaaggagagtgtctcactttactttagAAATGGAGATAGTGAGGACAGCACTGGCTGTGTTTGGCATGGGATGCTTATCTGGCTCCTTCAGCTGCCTCTTCTTTTACAGGTAACCAGTGTACTTGGgtcaggagacccggcccggaaggtagccattat Alignment from Exonerate_coding2genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTA tgtcccctagcaaatttacatgcaaaggagagtgtctcactttactttagAAATGGAGATAGTGAGGACAGCACTGGCTGTGTTTGGCATGGGATGCTTATCTGGCTCCTTCAGCTGCCTCTTCTTTTACAGGTAACCAGTGTACTTGGgtcaggagacccggcccggaaggtagccattat Alignment from GeneWise AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACAC tgtcccctagcaaatttacatgcaaaggagagtgtctcactttactttagAAATGGAGATAGTGAGGACAGCACTGGCTGTGTTTGGCATGGGATGCTTATCTGGCTCCTTCAGCTGCCTCTTCTTTTACAGgtaaccagtgtacttgggtcaggagacccggcccggaaggtagccattat #### Slc22a8_ID2276_9 --> 1 - 2 Original Alignment g---CAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACtg tgatgtcttttaagatcagtagactctctggggtcttctctctcctgcaggCAGCAAACAGGCATGGGTATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGAGAACTGCAGTCCTTCATTCCTAATGTCATCTTTGGTACCATG---CTACTAGGAGGCAGTGCTGCATTCTTTCTACTTGAGACCCTAAATCGATCTCTACCAGAGACCATCAAGGACATACAAGATtggtaagaccttaacttttgttacacacagttaacctagcaggctaggttgc Alignment from CESAR g---CAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACtg tgatgtcttttaagatcagtagactctctggggtcttctctctcctgcaggCAGCAAACAGGCATGGGTATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGAGAACTGCAGTCCTTCATTCCTAATGTCATCTTTGGTACCATG---CTACTAGGAGGCAGTGCTGCATTCTTTCTACTTGAGACCCTAAATCGATCTCTACCAGAGACCATCAAGGACATACAAGATtggtaagaccttaacttttgttacacacagttaacctagcaggctaggttgc Alignment from Spaln_aa2Genome GCAAACAGGTATG---GGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG tgatgtcttttaagatcagtagactctctggggtcttctctctcctgcagGCAGCAAACAGGCATGGGTATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGAGAACTGCAGTCCTTCATTCCTAATGTCATCTTTGGTACCATGCTA---CTAGGAGGCAGTGCTGCATTCTTTCTACTTGAGACCCTAAATCGATCTCTACCAGAGACCATCAAGGACATACAAGATTGgtaagaccttaacttttgttacacacagttaacctagcaggctaggttgc Alignment from Spaln_nt2Genome GCAAACAGGTAT---GGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG tgatgtcttttaagatcagtagactctctggggtcttctctctcctgcagGCAGCAAACAGGCATGGGTATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGAGAACTGCAGTCCTTCATTCCTAATGTCATCTTTGGTACCATG---CTACTAGGAGGCAGTGCTGCATTCTTTCTACTTGAGACCCTAAATCGATCTCTACCAGAGACCATCAAGGACATACAAGATTGgtaagaccttaacttttgttacacacagttaacctagcaggctaggttgc Alignment from Pairagon ---GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG tgatgtcttttaagatcagtagactctctggggtcttctctctcctgcagGCAGCAAACAGGCATGGGTATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGAGAACTGCAGTCCTTCATTCCTAATGTCATCTTTGGTACCATG---CTACTAGGAGGCAGTGCTGCATTCTTTCTACTTGAGACCCTAAATCGATCTCTACCAGAGACCATCAAGGACATACAAGATTGgtaagaccttaacttttgttacacacagttaacctagcaggctaggttgc Alignment from Exonerate_protein2genome G---CAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG tgatgtcttttaagatcagtagactctctggggtcttctctctcctgcagGCAGCAAACAGGCATGGGTATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGAGAACTGCAGTCCTTCATTCCTAATGTCATCTTTGGTACCATG---CTACTAGGAGGCAGTGCTGCATTCTTTCTACTTGAGACCCTAAATCGATCTCTACCAGAGACCATCAAGGACATACAAGATTGgtaagaccttaacttttgttacacacagttaacctagcaggctaggttgc Alignment from Exonerate_coding2genome G---CAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG tgatgtcttttaagatcagtagactctctggggtcttctctctcctgcagGCAGCAAACAGGCATGGGTATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGAGAACTGCAGTCCTTCATTCCTAATGTCATCTTTGGTACCATG---CTACTAGGAGGCAGTGCTGCATTCTTTCTACTTGAGACCCTAAATCGATCTCTACCAGAGACCATCAAGGACATACAAGATTGgtaagaccttaacttttgttacacacagttaacctagcaggctaggttgc Alignment from GeneWise -AGGCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG tgatgtcttttaagatcagtagactctctggggtcttctctctcctgcagGCAGCAAACAGGCATGGGTATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCCTGGTCAAAGTCACCGGAGAACTGCAGTCCTTCATTCCTAATGTCATCTTTGGTACCATG---CTACTAGGAGGCAGTGCTGCATTCTTTCTACTTGAGACCCTAAATCGATCTCTACCAGAGACCATCAAGGACATACAAGATTGgtaagaccttaacttttgttacacacagttaacctagcaggctaggttgc #### Slc25a45_ID1291_2 --> 2 - 0 Original Alignment gaGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG atgggcatgttacgtgggcctggcattttttccattttttttctgtgaaggaGCTGTGGGCCTGGTCCTGGGGCAC------------------gtatggaacatgctgggacgtggtgaaaattgagtctgagagcaagtgtt Alignment from CESAR gaGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG atgggcatgttacgtgggcctggcattttttccattttttttctgtgaaggaGCTGTGGGCCTGGTCCTGGGGCAC------------------gtatggaacatgctgggacgtggtgaaaattg Alignment from Spaln_aa2Genome GAGCTGTGGGCCTGGTCCTGGGGCAC atgggcatgttacgtgggcctggcattttttccattttttttctgtgaagGAGCTGTGGGCCTGGTCCTGGGGCACgtatggaacatgctgggacgtggtgaaaattgagtctgagagcaagtgtt Alignment from Spaln_nt2Genome GAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACA--CTGTAAAG-- atgggcatgttacgtgggcctggcattttttccattttttttctgtgaagGAGCTGTGGGCCTGGTCCTGGGGCACGTATGGAACATGCTGGGACGTGgtgaaaattgagtctgagagcaagtgtt Alignment from Pairagon GAGCTGTGGGCCTGGTCCTGGGGCAC atgggcatgttacgtgggcctggcattttttccattttttttctgtgaagGAGCTGTGGGCCTGGTCCTGGGGCACgtatggaacatgctgggacgtggtgaaaattgagtctgagagcaagtgtt Alignment from Exonerate_protein2genome GAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG atgggcatgttacgtgggcctggcattttttccattttttttctgtgaagGAGCTGTGGGCCTGGTCCTGGGGCACGTATGGAACATGCTG---ggacgtggtgaaaattgagtctgagagcaagt Alignment from Exonerate_coding2genome atgggcatgttacgtgggcctggcattttttccattttttttctgtgaaggagctgtgggcctggtcctggggcacgtatggaacatgctgggacgtggtgaaaattgagtctgagagcaagtgtt Alignment from GeneWise atgggcatgttacgtgggcctggcattttttccattttttttctgtgaaggagctgtgggcctggtcctggggcacgtatggaacatgctgggacgtggtgaaaattgagtctgagagcaagtgtt #### Slc25a45_ID1292_3 --> 0 - 0 Original Alignment GTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgacttgatcattatgggagcactgcactctaattgccccgtctccccagGTGCGCTTACAAACCCAAAGCACATATCGGGGCATTGTTGACTGTGTTGCTAAGACATATCGT---------gtacttccccatcagtaaatccttgctataacactatttttgcccttaag Alignment from CESAR GTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgacttgatcattatgggagcactgcactctaattgccccgtctccccagGTGCGCTTACAAACCCAAAGCACATATCGGGGCATTGTTGACTGTGTTGCTAAGACATATCGT---------gtacttccccatcagtaaatccttgctataacactattttt Alignment from Spaln_aa2Genome GTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGC tgacttgatcattatgggagcactgcactctaattgccccgtctccccagGTGCGCTTACAAACCCAAAGCACATATCGGGGCATTGTTGACTGTGTTGCTAAGACATATCGTgtacttccccatcagtaaatccttgctataacactatttttgcccttaag Alignment from Spaln_nt2Genome GTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGC tgacttgatcattatgggagcactgcactctaattgccccgtctccccagGTGCGCTTACAAACCCAAAGCACATATCGGGGCATTGTTGACTGTGTTGCTAAGACATATCGTgtacttccccatcagtaaatccttgctataacactatttttgcccttaag Alignment from Pairagon GTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGC tgacttgatcattatgggagcactgcactctaattgccccgtctccccagGTGCGCTTACAAACCCAAAGCACATATCGGGGCATTGTTGACTGTGTTGCTAAGACATATCGTgtacttccccatcagtaaatccttgctataacactatttttgcccttaag Alignment from Exonerate_protein2genome GTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGC tgacttgatcattatgggagcactgcactctaattgccccgtctccccagGTGCGCTTACAAACCCAAAGCACATATCGGGGCATTGTTGACTGTGTTGCTAAGACATATCGTgtacttccccatcagtaaatccttgctataacactatttttgcccttaag Alignment from Exonerate_coding2genome tgacttgatcattatgggagcactgcactctaattgccccgtctccccaggtgcgcttacaaacccaaagcacatatcggggcattgttgactgtgttgctaagacatatcgtgtacttccccatcagtaaatccttgctataacactatttttgcccttaag Alignment from GeneWise GTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgacttgatcattatgggagcactgcactctaattgccccgtctccccagGTGCGCTTACAAACCCAAAGCACATATCGGGGCATTGTTGACTGTGTTGCTAAGACATAT---------CGTgtacttccccatcagtaaatccttgctataacactatttttgcccttaag #### Slc29a2_ID793_7 --> 0 - 1 Original Alignment AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGCT---g catttggagttaactgtatcaagatgttccatccacccctctctttccagAAGTTTTCCCGTTACTACCTAACCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCTGAACTCCTTCAAGCAGCTggtaagtatcaggattaattggctctgttggaggcttaactcttttttctc Alignment from CESAR AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAA---GCTg catttggagttaactgtatcaagatgttccatccacccctctctttccagAAGTTTTCCCGTTACTACCTAACCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCTGAACTCCTTCAAGCAGCTggtaagtatcaggattaattggctctgttggaggcttaactcttttttctc Alignment from Spaln_aa2Genome AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAA---GCTG catttggagttaactgtatcaagatgttccatccacccctctctttccagAAGTTTTCCCGTTACTACCTAACCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCTGAACTCCTTCAAGCAGCTGgtaagtatcaggattaattggctctgttggaggcttaactcttttttctc Alignment from Spaln_nt2Genome AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGC---TG catttggagttaactgtatcaagatgttccatccacccctctctttccagAAGTTTTCCCGTTACTACCTAACCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCTGAACTCCTTCAAGCAGCTGgtaagtatcaggattaattggctctgttggaggcttaactcttttttctc Alignment from Pairagon AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCA---AGCTG catttggagttaactgtatcaagatgttccatccacccctctctttccagAAGTTTTCCCGTTACTACCTAACCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCTGAACTCCTTCAAGCAGCTGgtaagtatcaggattaattggctctgttggaggcttaactcttttttctc Alignment from Exonerate_protein2genome AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAA---GCTG catttggagttaactgtatcaagatgttccatccacccctctctttccagAAGTTTTCCCGTTACTACCTAACCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCTGAACTCCTTCAAGCAGCTGgtaagtatcaggattaattggctctgttggaggcttaactcttttttctc Alignment from Exonerate_coding2genome AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAA---GCTG catttggagttaactgtatcaagatgttccatccacccctctctttccagAAGTTTTCCCGTTACTACCTAACCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCTGAACTCCTTCAAGCAGCTGgtaagtatcaggattaattggctctgttggaggcttaactcttttttctc Alignment from GeneWise AAGTTTGCCCGTTACTACCTGACCGAGAAGCTGTCTCAGGCTCCAACTCAGGAGCTGGAGACTAAAGCTGAGCTCCTCCAAGCTGAT- catttggagttaactgtatcaagatgttccatccacccctctctttccagAAGTTTTCCCGTTACTACCTAACCAAGAAGCTATCTCAAGCTCCAACTCAGGAGCTTGAGAATAAAGCTGAACTCCTTCAAGCAGCTGgtaagtatcaggattaattggctctgttggaggcttaactcttttttctc #### Slc3a2_ID2306_3 --> 2 - 1 Original Alignment gtCTGAAGAGCCAT---CTGGAGTACTTGAGCACCCTGAAGGTGAAGGGCCTGGTGTTAGGC------CCAATTCACAAGAACCAGAAGGATGAAATCAATGAAACCGACCTGAAACAGATTAATCCCACTTTGGGCTCCCAGGAAGATTTTAAAGACCTTCTACAAAGTGCCAAGAAAAAG---a ggttgcagctatttttaactgcgtattatgatcattttgttttcccgtaggtCTGAAGAGCCATCTTCTAGAGTTCTTGAGCATGTTGAAGGTGAAGGGCCTTGTGTCAGGCCCGTCCCCCATTCACAAGAACCAAAAAGATGAGATCAATGAGACAGACCTGAAACAGATTAATCCCACTCAGGGCTCTCAGAAAGATTTTAAGGACCTTTTACAGAGCACCAAAATAAGGGACagtaagtccctgaatgggtctcaaatggtctattttagttcagctaacact Alignment from CESAR gtCTGAAGAGCCAT---CTGGAGTACTTGAGCACCCTGAAGGTGAAGGGCCTGGTGTTAGGCCCA------ATTCACAAGAACCAGAAGGATGAAATCAATGAAACCGACCTGAAACAGATTAATCCCACTTTGGGCTCCCAGGAAGATTTTAAAGACCTTCTACAAAGTGCCAAGAAAAAG---a ggttgcagctatttttaactgcgtattatgatcattttgttttcccgtaggtCTGAAGAGCCATCTTCTAGAGTTCTTGAGCATGTTGAAGGTGAAGGGCCTTGTGTCAGGCCCGTCCCCCATTCACAAGAACCAAAAAGATGAGATCAATGAGACAGACCTGAAACAGATTAATCCCACTCAGGGCTCTCAGAAAGATTTTAAGGACCTTTTACAGAGCACCAAAATAAGGGACagtaagtccctgaatgggtctcaaatggtctattttagttcagctaacact Alignment from Spaln_aa2Genome GTCTGAAGAGCCAT---CTGGAGTACTTGAGCACCCTGAAGGTGAAGGGCCTGGTGTTAGGC------CCAATTCACAAGAACCAGAAGGATGAAATCAATGAAACCGACCTGAAACAGATTAATCCCACTTTGGGCTCCCAGGAAGATTTTAAAGACCTTCTACAAAGTGCCAAG---AAAAAGA ggttgcagctatttttaactgcgtattatgatcattttgttttcccgtagGTCTGAAGAGCCATCTTCTAGAGTTCTTGAGCATGTTGAAGGTGAAGGGCCTTGTGTCAGGCCCGTCCCCCATTCACAAGAACCAAAAAGATGAGATCAATGAGACAGACCTGAAACAGATTAATCCCACTCAGGGCTCTCAGAAAGATTTTAAGGACCTTTTACAGAGCACCAAAATAAGGGACAgtaagtccctgaatgggtctcaaatggtctattttagttcagctaacact Alignment from Spaln_nt2Genome GTCTGAAGAGCCA---TCTGGAGTACTTGAGCACCCTGAAGGTGAAGGGCCTGGTGTTAGGCCCA------ATTCACAAGAACCAGAAGGATGAAATCAATGAAACCGACCTGAAACAGATTAATCCCACTTTGGGCTCCCAGGAAGATTTTAAAGACCTTCTACAAAGTGCCAAGAAAAAG---A ggttgcagctatttttaactgcgtattatgatcattttgttttcccgtagGTCTGAAGAGCCATCTTCTAGAGTTCTTGAGCATGTTGAAGGTGAAGGGCCTTGTGTCAGGCCCGTCCCCCATTCACAAGAACCAAAAAGATGAGATCAATGAGACAGACCTGAAACAGATTAATCCCACTCAGGGCTCTCAGAAAGATTTTAAGGACCTTTTACAGAGCACCAAAATAAGGGACAgtaagtccctgaatgggtctcaaatggtctattttagttcagctaacact Alignment from Pairagon GTCTGAAGAGCCA---TCTGGAGTACTTGAGCACCCTGAAGGTGAAGGGCCTGGTGTTAGGCCCA------ATTCACAAGAACCAGAAGGATGAAATCAATGAAACCGACCTGAAACAGATTAATCCCACTTTGGGCTCCCAGGAAGATTTTAAAGACCTTCTACAAAGTGCCAAGAAAAAG---A ggttgcagctatttttaactgcgtattatgatcattttgttttcccgtagGTCTGAAGAGCCATCTTCTAGAGTTCTTGAGCATGTTGAAGGTGAAGGGCCTTGTGTCAGGCCCGTCCCCCATTCACAAGAACCAAAAAGATGAGATCAATGAGACAGACCTGAAACAGATTAATCCCACTCAGGGCTCTCAGAAAGATTTTAAGGACCTTTTACAGAGCACCAAAATAAGGGACAgtaagtccctgaatgggtctcaaatggtctattttagttcagctaacact Alignment from Exonerate_protein2genome GTCTGAAGAGCCAT---CTGGAGTACTTGAGCACCCTGAAGGTGAAGGGCCTGGTGTTAGGC------CCAATTCACAAGAACCAGAAGGATGAAATCAATGAAACCGACCTGAAACAGATTAATCCCACTTTGGGCTCCCAGGAAGATTTTAAAGACCTTCTACAAAGTGCCAAG---AAAAAGA ggttgcagctatttttaactgcgtattatgatcattttgttttcccgtagGTCTGAAGAGCCATCTTCTAGAGTTCTTGAGCATGTTGAAGGTGAAGGGCCTTGTGTCAGGCCCGTCCCCCATTCACAAGAACCAAAAAGATGAGATCAATGAGACAGACCTGAAACAGATTAATCCCACTCAGGGCTCTCAGAAAGATTTTAAGGACCTTTTACAGAGCACCAAAATAAGGGACAgtaagtccctgaatgggtctcaaatggtctattttagttcagctaacact Alignment from Exonerate_coding2genome GTCTGAAGAGCCAT---CTGGAGTACTTGAGCACCCTGAAGGTGAAGGGCCTGGTGTTAGGC------CCAATTCACAAGAACCAGAAGGATGAAATCAATGAAACCGACCTGAAACAGATTAATCCCACTTTGGGCTCCCAGGAAGATTTTAAAGACCTTCTACAAAGTGCCAAG---AAAAAGA ggttgcagctatttttaactgcgtattatgatcattttgttttcccgtagGTCTGAAGAGCCATCTTCTAGAGTTCTTGAGCATGTTGAAGGTGAAGGGCCTTGTGTCAGGCCCGTCCCCCATTCACAAGAACCAAAAAGATGAGATCAATGAGACAGACCTGAAACAGATTAATCCCACTCAGGGCTCTCAGAAAGATTTTAAGGACCTTTTACAGAGCACCAAAATAAGGGACAgtaagtccctgaatgggtctcaaatggtctattttagttcagctaacact Alignment from GeneWise GTCTGAAGAGCCATCTG---GAGTACTTGAGCACCCTGAAGGTGAAGGGCCTGGTGTTAGGCCCA------ATTCACAAGAACCAGAAGGATGAAATCAATGAAACCGACCTGAAACAGATTAATCCCACTTTGGGCTCCCAGGAAGATTTTAAAGACCTTCTACAAAGTGCCAAGAAAAAGAGC- ggttgcagctatttttaactgcgtattatgatcattttgttttcccgtagGTCTGAAGAGCCATCTTCTAGAGTTCTTGAGCATGTTGAAGGTGAAGGGCCTTGTGTCAGGCCCGTCCCCCATTCACAAGAACCAAAAAGATGAGATCAATGAGACAGACCTGAAACAGATTAATCCCACTCAGGGCTCTCAGAAAGATTTTAAGGACCTTTTACAGAGCACCAAAATAAGGGACAgtaagtccctgaatgggtctcaaatggtctattttagttcagctaacact #### Slit1_ID8230_9 --> 2 - 2 Original Alignment gcCAGGGGGAGGCTGCGGGAGCACCTGCCTGCACCCTCTCGTCCGGTTCCTGCCCAGCCATGTGCAGCTGTAGCAGCGGCATCGTGGACTGCCGTGGCAAGGGCCTCACTGCCATCCCTGCTAACCTTCCAGAGACCATGACAGAGat ctagtttgagagtctctgagtactcctctactaaattgaatgttttgtaggcCAGGGGAGGGCGGCAGGAGCACCTACTTGCACCCTCTCATCAGGTTCCTGCCCAACCATGTGTAGCTGCAGCAGCAGCATTTTGGACTGTCGTGGCAAGGGCCTTACTGCCATCCCTGCCAACCTTCCGGAGACTATG------gtgtacttaacctaaaaaagccaggcaagctattctagtcagtggcaaacca Alignment from CESAR gcCAGGGGGAGGCTGCGGGAGCACCTGCCTGCACCCTCTCGTCCGGTTCCTGCCCAGCCATGTGCAGCTGTAGCAGCGGCATCGTGGACTGCCGTGGCAAGGGCCTCACTGCCATCCCTGCTAACCTTCCAGAGACCATGACAGAGat ctagtttgagagtctctgagtactcctctactaaattgaatgttttgtaggcCAGGGGAGGGCGGCAGGAGCACCTACTTGCACCCTCTCATCAGGTTCCTGCCCAACCATGTGTAGCTGCAGCAGCAGCATTTTGGACTGTCGTGGCAAGGGCCTTACTGCCATCCCTGCCAACCTTCCGGAGACTATG------gtgtacttaacctaaaaaagccaggcaagctattctagtcagtggcaaacca Alignment from Spaln_aa2Genome GCCAGGGGGAGGCTGCGGGAGCACCTGCCTGCACCCTCTCGTCCGGTTCCTGCCCAGCCATGTGCAGCTGTAGCAGCGGCATCGTGGACTGCCGTGGCAAGGGCCTCACTGCCATCCCTGCTAACCTTCCAGAGACCATGAC ctagtttgagagtctctgagtactcctctactaaattgaatgttttgtagGCCAGGGGAGGGCGGCAGGAGCACCTACTTGCACCCTCTCATCAGGTTCCTGCCCAACCATGTGTAGCTGCAGCAGCAGCATTTTGGACTGTCGTGGCAAGGGCCTTACTGCCATCCCTGCCAACCTTCCGGAGACTATGGTgtacttaacctaaaaaagccaggcaagctattctagtcagtggcaaacca Alignment from Spaln_nt2Genome GCCAGGGGGAGGCTGCGGGAGCACCTGCCTGCACCCTCTCGTCCGGTTCCTGCCCAGCCATGTGCAGCTGTAGCAGCGGCATCGTGGACTGCCGTGGCAAGGGCCTCACTGCCATCCCTGCTAACCTTCCAGAGACCATGAC ctagtttgagagtctctgagtactcctctactaaattgaatgttttgtagGCCAGGGGAGGGCGGCAGGAGCACCTACTTGCACCCTCTCATCAGGTTCCTGCCCAACCATGTGTAGCTGCAGCAGCAGCATTTTGGACTGTCGTGGCAAGGGCCTTACTGCCATCCCTGCCAACCTTCCGGAGACTATGGTgtacttaacctaaaaaagccaggcaagctattctagtcagtggcaaacca Alignment from Pairagon GCCAGGGGGAGGCTGCGGGAGCACCTGCCTGCACCCTCTCGTCCGGTTCCTGCCCAGCCATGTGCAGCTGTAGCAGCGGCATCGTGGACTGCCGTGGCAAGGGCCTCACTGCCATCCCTGCTAACCTTCCAGAGACCATG ctagtttgagagtctctgagtactcctctactaaattgaatgttttgtagGCCAGGGGAGGGCGGCAGGAGCACCTACTTGCACCCTCTCATCAGGTTCCTGCCCAACCATGTGTAGCTGCAGCAGCAGCATTTTGGACTGTCGTGGCAAGGGCCTTACTGCCATCCCTGCCAACCTTCCGGAGACTATGgtgtacttaacctaaaaaagccaggcaagctattctagtcagtggcaaacca Alignment from Exonerate_protein2genome GCCAGGGGGAGGCTGCGGGAGCACCTGCCTGCACCCTCTCGTCCGGTTCCTGCCCAGCCATGTGCAGCTGTAGCAGCGGCATCGTGGACTGCCGTGGCAAGGGCCTCACTGCCATCCCTGCTAACCTTCCAGAGACCATGACAGAGATCCG ctagtttgagagtctctgagtactcctctactaaattgaatgttttgtagGCCAGGGGAGGGCGGCAGGAGCACCTACTTGCACCCTCTCATCAGGTTCCTGCCCAACCATGTGTAGCTGCAGCAGCAGCATTTTGGACTGTCGTGGCAAGGGCCTTACTGCCATCCCTGCCAACCTTCCGGAGACTATGGTGTACTTAACctaaaaaagccaggcaagctattctagtcagtggcaaacca Alignment from Exonerate_coding2genome GCCAGGGGGAGGCTGCGGGAGCACCTGCCTGCACCCTCTCGTCCGGTTCCTGCCCAGCCATGTGCAGCTGTAGCAGCGGCATCGTGGACTGCCGTGGCAAGGGCCTCACTGCCATCCCTGCTAACCTTCCAGAGACCATGACAGAGATCCG ctagtttgagagtctctgagtactcctctactaaattgaatgttttgtagGCCAGGGGAGGGCGGCAGGAGCACCTACTTGCACCCTCTCATCAGGTTCCTGCCCAACCATGTGTAGCTGCAGCAGCAGCATTTTGGACTGTCGTGGCAAGGGCCTTACTGCCATCCCTGCCAACCTTCCGGAGACTATGGTGTACTTAACctaaaaaagccaggcaagctattctagtcagtggcaaacca Alignment from GeneWise GCCAGGGGGAGGCTGCGGGAGCACCTGCCTGCACCCTCTCGTCCGGTTCCTGCCCAGCCATGTGCAGCTGTAGCAGCGGCATCGTGGACTGCCGTGGCAAGGGCCTCACTGCCATCCCTGCTAACCTTCCAGAGACCATGAC ctagtttgagagtctctgagtactcctctactaaattgaatgttttgtagGCCAGGGGAGGGCGGCAGGAGCACCTACTTGCACCCTCTCATCAGGTTCCTGCCCAACCATGTGTAGCTGCAGCAGCAGCATTTTGGACTGTCGTGGCAAGGGCCTTACTGCCATCCCTGCCAACCTTCCGGAGACTATGGTgtacttaacctaaaaaagccaggcaagctattctagtcagtggcaaacca #### Slit1_ID8232_7 --> 1 - 2 Original Alignment g---------------------------------------------ACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCtt cggtcccttttaggcatgggtggccaggctatatttctacctcaccctagtGCCTTTCGGGAAGACCTGGAATGCCTCATCATTGTGGATACAGGTCCACTCAATAATAATAACATCAGTGCTATCCCC------CGTTTCAATCATATCCCTAAGCTCCACACTttgtaaggcgtcttggctattggtgcatcaccttgactgtggataaagtgta Alignment from CESAR cacagatctcaacagtttattgtccaaaggacgcacccttaggctgctaca Alignment from Spaln_aa2Genome G---ACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT cggtcccttttaggcatgggtggccaggctatatttctacctcaccctagtgcctttcgggaagacctggaatgcctcatcattgtggatacAGGTCCACTCAATAATAATAACATCAGTGCTATCCCC------CGTTTCAATCATATCCCTAAGCTCCACACTTTgtaaggcgtcttggctattggtgcatcaccttgactgtggataaagtgta Alignment from Spaln_nt2Genome GACC-CTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT cggtcccttttaggcatgggtggccaggctatatttctacctcaccctagtgcctttcgggaagacctggaatgcctcatcattgtggatacagGTCCACTCAATAATAATAACATCAGTGCTATCC------CCCGTTTCAATCATATCCCTAAGCTCCACACTTTgtaaggcgtcttggctattggtgcatcaccttgactgtggataaagtgta Alignment from Pairagon GACC-CTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT cggtcccttttaggcatgggtggccaggctatatttctacctcaccctagtgcctttcgggaagacctggaatgcctcatcattgtggatacagGTCCACTCAATAATAATAACATCAGTGCTATCC------CCCGTTTCAATCATATCCCTAAGCTCCACACTTTgtaaggcgtcttggctattggtgcatcaccttgactgtggataaagtgta Alignment from Exonerate_protein2genome GACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT cggtcccttttaggcatgggtggccaggctatatttctacctcaccctagtgcctttcgggaagacctggaatgcctcatcattgtggatacaggTCCACTCAATAATAATAACATCAGTGCTATCCCC------CGTTTCAATCATATCCCTAAGCTCCACACTTTgtaaggcgtcttggctattggtgcatcaccttgactgtggataaagtgta Alignment from Exonerate_coding2genome cggtcccttttaggcatgggtggccaggctatatttctacctcaccctagtgcctttcgggaagacctggaatgcctcatcattgtggatacaggtccactcaataataataacatcagtgctatcccccgtttcaatcatatccctaagctccacactttgtaaggcgtcttggctattggtgcatcaccttgactgtggataaagtgta Alignment from GeneWise -------------------------------------------CTGACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT cggtcccttttaggcatgggtggccaggctatatttctacctcaccctagTGCCTTTCGGGAAGACCTGGAATGCCTCATCATTGTGGATACAGGTCCACTCAATAATAATAACATCAGTGCTATCCCC------CGTTTCAATCATATCCCTAAGCTCCACACTTTgtaaggcgtcttggctattggtgcatcaccttgactgtggataaagtgta #### Slit1_ID8233_6 --> 1 - 2 Original Alignment aCAGCTGGACAAGAACCGGATCAGCTGCATCGAGGAAGGGGCCTTCCGTGCCCTACGGGGACTGGAGGTT---ct gtctgaaacttttcttctggttactttcctggatatgtttcgtcttctagaCAGCTGGACAAGAACCGCATTAGCTGCATCAAGGAAGGGGCCCTCCGTGCCCTACGCGGGTTGGATGTTGTGctgtgagaggagtatgagggttaagttggagcgtcaatactgttcttcaatg Alignment from CESAR aCAGCTGGACAAGAACCGGATCAGCTGCATCGAGGAAGGGGCCTTCCGTGCCCTACGGGGACTGGAGGTT---ct gtctgaaacttttcttctggttactttcctggatatgtttcgtcttctagaCAGCTGGACAAGAACCGCATTAGCTGCATCAAGGAAGGGGCCCTCCGTGCCCTACGCGGGTTGGATGTTGTGctgtgagaggagtatgagggttaagttggagcgtcaatactgttcttcaatg Alignment from Spaln_aa2Genome ACAGCTGGACAAGAACCGGATCAGCTGCATCGAGGAAGGGGCCTTCCGTGCCCTACGGGGACTGGAGGTTCT gtctgaaacttttcttctggttactttcctggatatgtttcgtcttctagACAGCTGGACAAGAACCGCATTAGCTGCATCAAGGAAGGGGCCCTCCGTGCCCTACGCGGGTTGGATGTTGTgctgtgagaggagtatgagggttaagttggagcgtcaatactgttcttcaatg Alignment from Spaln_nt2Genome ACAGCTGGACAAGAACCGGATCAGCTGCATCGAGGAAGGGGCCTTCCGTGCCCTACGGGGACTGGAGGTTCTGA- gtctgaaacttttcttctggttactttcctggatatgtttcgtcttctagACAGCTGGACAAGAACCGCATTAGCTGCATCAAGGAAGGGGCCCTCCGTGCCCTACGCGGGTTGGATGTTGTGCTgtgagaggagtatgagggttaagttggagcgtcaatactgttcttcaatg Alignment from Pairagon ACAGCTGGACAAGAACCGGATCAGCTGCATCGAGGAAGGGGCCTTCCGTGCCCTACGGGGACTGGAGGTT---CT gtctgaaacttttcttctggttactttcctggatatgtttcgtcttctagACAGCTGGACAAGAACCGCATTAGCTGCATCAAGGAAGGGGCCCTCCGTGCCCTACGCGGGTTGGATGTTGTGCTgtgagaggagtatgagggttaagttggagcgtcaatactgttcttcaatg Alignment from Exonerate_protein2genome ACAGCTGGACAAGAACCGGATCAGCTGCATCGAGGAAGGGGCCTTCCGTGCCCTACGGGGACTGGAG---GTTCT gtctgaaacttttcttctggttactttcctggatatgtttcgtcttctagACAGCTGGACAAGAACCGCATTAGCTGCATCAAGGAAGGGGCCCTCCGTGCCCTACGCGGGTTGGATGTTGTGCTgtgagaggagtatgagggttaagttggagcgtcaatactgttcttcaatg Alignment from Exonerate_coding2genome gtctgaaacttttcttctggttactttcctggatatgtttcgtcttctagacagctggacaagaaccgcattagctgcatcaaggaaggggccctccgtgccctacgcgggttggatgttgtgctgtgagaggagtatgagggttaagttggagcgtcaatactgttcttcaatg Alignment from GeneWise ACAGCTGGACAAGAACCGGATCAGCTGCATCGAGGAAGGGGCCTTCCGTGCCCTACGGGGACTGGAGGTTCTG-- gtctgaaacttttcttctggttactttcctggatatgtttcgtcttctagACAGCTGGACAAGAACCGCATTAGCTGCATCAAGGAAGGGGCCCTCCGTGCCCTACGCGGGTTGGATGTTGTGCTgtgagaggagtatgagggttaagttggagcgtcaatactgttcttcaatg #### Smc3_ID11323_11 --> 0 - 0 Original Alignment ------GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG tgtgatcccacaatccatgcattatactatggatctatttaaactttcagTCCTATGATACGGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAAGATTTACATGTTGAGCTGGCTGGGAACAGTGAACAGCGCgtgagacaaaaagaaaactgatcagatttcagtgtagtggagaagacact Alignment from CESAR ------GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG tgtgatcccacaatccatgcattatactatggatctatttaaactttcagTCCTATGATACGGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAAGATTTACATGTTGAGCTGGCTGGGAACAGTGAACAGCGCgtgagacaaaaagaaaactgatcagatttcagtgtagtggagaagacact Alignment from Spaln_aa2Genome ------GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG tgtgatcccacaatccatgcattatactatggatctatttaaactttcagTCCTATGATACGGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAAGATTTACATGTTGAGCTGGCTGGGAACAGTGAACAGCGCgtgagacaaaaagaaaactgatcagatttcagtgtagtggagaagacact Alignment from Spaln_nt2Genome GATATTGAGCGCCA------GGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG tgtgatcccacaatccatgcattatactatggatctatttaaactttcagTCCTATGATACGGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAAGATTTACATGTTGAGCTGGCTGGGAACAGTGAACAGCGCgtgagacaaaaagaaaactgatcagatttcagtgtagtggagaagacact Alignment from Pairagon ------GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG tgtgatcccacaatccatgcattatactatggatctatttaaactttcagTCCTATGATACGGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAAGATTTACATGTTGAGCTGGCTGGGAACAGTGAACAGCGCgtgagacaaaaagaaaactgatcagatttcagtgtagtggagaagacact Alignment from Exonerate_protein2genome GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG tgtgatcccacaatccatgcattatactatggatctatttaaactttcagtcctatGATACGGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAAGATTTACATGTTGAGCTGGCTGGGAACAGTGAACAGCGCgtgagacaaaaagaaaactgatcagatttcagtgtagtggagaagacact Alignment from Exonerate_coding2genome GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG tgtgatcccacaatccatgcattatactatggatctatttaaactttcagtcctatGATACGGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAAGATTTACATGTTGAGCTGGCTGGGAACAGTGAACAGCGCgtgagacaaaaagaaaactgatcagatttcagtgtagtggagaagacact Alignment from GeneWise ------GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG tgtgatcccacaatccatgcattatactatggatctatttaaactttcagTCCTATGATACGGAGCGCCAGGTCAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGGAAGACAAGAACGGATTAAGCAAAGGACAAAGTTGGAACTCAAGGCCAAAGATTTACATGTTGAGCTGGCTGGGAACAGTGAACAGCGCgtgagacaaaaagaaaactgatcagatttcagtgtagtggagaagacact #### Smc3_ID11337_25 --> 0 - 0 Original Alignment ------------------TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attaaaggtccaagacctcccagtaaatatttcaactttatctcttctagTGGTTCCACTGTCACTTCGTATTCCAAAAACTGGAGCAATGCAACACAGAATTGAAGAAATATGGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAGAAGGAAAAGTTGATAAAATGGCAGGAGGAACTGGATAGC---TATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagaaataagttattctagtgtgcagaatgaatggatatgtgtaaaat Alignment from CESAR ------------------TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attaaaggtccaagacctcccagtaaatatttcaactttatctcttctagTGGTTCCACTGTCACTTCGTATTCCAAAAACTGGAGCAATGCAACACAGAATTGAAGAAATATGGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAGAAGGAAAAGTTGATAAAATGGCAGGAGGAACTGGAT---AGCTATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagaaataagttattctagtgtgcagaatgaatggatatgtgtaaaat Alignment from Spaln_aa2Genome ----------------TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attaaaggtccaagacctcccagtaaatatttcaactttatctcttctagTGGTTCCACTGTCACTTCGTATTCCAAAAACTGGAGCAATGCAACACAGAATTGAAGAAATATGGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAGAAGGAAAAGTTGATAAAATGGCAGGAGGAACTGGAT---AGCTATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagaaataagttattctagtgtgcagaatgaatggatatgtgtaaaat Alignment from Spaln_nt2Genome TTGTT-----------TCG-------AAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attaaaggtccaagacctcccagtaaatatttcaactttatctcttctagTGGTTCCACTGTCACTTCGTATTCCAAAAACTGGAGCAATGCAACACAGAATTGAAGAAATATGGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAGAAGGAAAAGTTGATAAAATGGCAGGAGGAACTGGATA---GCTATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagaaataagttattctagtgtgcagaatgaatggatatgtgtaaaat Alignment from Pairagon -----------------------------------------------------------------------TTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG ATTAAAGGTCCAAGACCTCCCAGTAAATATTTCAACTTTATCTCTTCTAGTGGTTCCACTGTCACTTCGTATTCCAAAAACTGGAGCAATGCAACACAGAATTGAAGAAATATGGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAGAAGGAAAAGTTGATAAAATGGCAGGAGGAACTGGATA---GCTATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagaaataagttattctagtgtgcagaatgaatggatatgtgtaaaat Alignment from Exonerate_protein2genome TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attaaaggtccaagacctcccagtaaatatttcaactttatctcttctagtggttccactgtcacttcGTATTCCAAAAACTGGAGCAATGCAACACAGAATTGAAGAAATATGGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAGAAGGAAAAGTTGATAAAATGGCAGGAGGAACTGGAT---AGCTATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagaaataagttattctagtgtgcagaatgaatggatatgtgtaaaat Alignment from Exonerate_coding2genome TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attaaaggtccaagacctcccagtaaatatttcaactttatctcttctagtggttccactgtcacttcGTATTCCAAAAACTGGAGCAATGCAACACAGAATTGAAGAAATATGGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAGAAGGAAAAGTTGATAAAATGGCAGGAGGAACTGGAT---AGCTATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagaaataagttattctagtgtgcagaatgaatggatatgtgtaaaat Alignment from GeneWise ------------------TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attaaaggtccaagacctcccagtaaatatttcaactttatctcttctagTGGTTCCACTGTCACTTCGTATTCCAAAAACTGGAGCAATGCAACACAGAATTGAAGAAATATGGCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTAAACTTTTCTGAGAAGAAGGAAAAGTTGATAAAATGGCAGGAGGAACTGGAT---AGCTATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACATGAAGCTGTTCATTTAACTTTCAAGCAAgtgagaaataagttattctagtgtgcagaatgaatggatatgtgtaaaat #### Smc5_ID5110_21 --> 0 - 0 Original Alignment GTGGTTGAGGAGTACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCGCAG tactctaattttgttttatcccatattattgccccgtccaatctttccagGTGGTCGAGAAGTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAGGAACTGCAAGGTAAAAAAGTTGAACTAGATGAATATAGGGAAAACATTCTA---gtaaggaggaataagcttttccagtgtcatgatcaagatttgattacaaa Alignment from CESAR GTGGTTGAGGAGTACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCGCAG tactctaattttgttttatcccatattattgccccgtccaatctttccagGTGGTCGAGAAGTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAGGAACTGCAAGGTAAAAAAGTTGAACTAGATGAATATAGGGAAAACATT---CTAgtaaggaggaataagcttttccagtgtcatgatcaagatttgattacaaa Alignment from Spaln_aa2Genome GTGGTTGAGGAGTACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCG tactctaattttgttttatcccatattattgccccgtccaatctttccagGTGGTCGAGAAGTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAGGAACTGCAAGGTAAAAAAGTTGAACTAGATGAATATAGGGAAAACATTCTAgtaaggaggaataagcttttccagtgtcatgatcaagatttgattacaaa Alignment from Spaln_nt2Genome GTGGTTGAGGAGTACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACAT---- tactctaattttgttttatcccatattattgccccgtccaatctttccagGTGGTCGAGAAGTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAGGAACTGCAAGGTAAAAAAGTTGAACTAGATGAATATAGGGAAAACATTCTAgtaaggaggaataagcttttccagtgtcatgatcaagatttgattacaaa Alignment from Pairagon GTGGTTGAGGAGTACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCG tactctaattttgttttatcccatattattgccccgtccaatctttccagGTGGTCGAGAAGTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAGGAACTGCAAGGTAAAAAAGTTGAACTAGATGAATATAGGGAAAACATTCTAgtaaggaggaataagcttttccagtgtcatgatcaagatttgattacaaa Alignment from Exonerate_protein2genome GTGGTTGAGGAGTACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCG tactctaattttgttttatcccatattattgccccgtccaatctttccagGTGGTCGAGAAGTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAGGAACTGCAAGGTAAAAAAGTTGAACTAGATGAATATAGGGAAAACATTCTAgtaaggaggaataagcttttccagtgtcatgatcaagatttgattacaaa Alignment from Exonerate_coding2genome GTGGTTGAGGAGTACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCG tactctaattttgttttatcccatattattgccccgtccaatctttccagGTGGTCGAGAAGTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAGGAACTGCAAGGTAAAAAAGTTGAACTAGATGAATATAGGGAAAACATTCTAgtaaggaggaataagcttttccagtgtcatgatcaagatttgattacaaa Alignment from GeneWise GTGGTTGAGGAGTACTCAAAAAGAGAAGTAGAAATACAGCAGTTGACCGAAGAACTGCAGGGGAAGAAAGTTGAACTAGATGAATACAGGGAAAACATTTCGCAG tactctaattttgttttatcccatattattgccccgtccaatctttccagGTGGTCGAGAAGTATTCAAAGAGAGAAGTAGAGATTCAGCAATTGACTGAGGAACTGCAAGGTAAAAAAGTTGAACTAGATGAATATAGGGAAAACATT---CTAgtaaggaggaataagcttttccagtgtcatgatcaagatttgattacaaa #### Snx15_ID1468_4 --> 2 - 0 Original Alignment ggCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG------ caccaacactgaaacattcatgctgccacttgtgtctattttaaaaataggaCGATTTGAAGCTTCTGTTATTGAGGAGCATCGGAAAGGTGCAGATGACCTGCTGCGCTTTACAGTGCCAATCCCAGCCCTCAACAACAGCCCTCAAGTTAAGGAATTTTTCCGACCGGATgtaagtgcctgtactgacagggtccccttctagtcaaaccacctggcctc Alignment from CESAR ggCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG------ caccaacactgaaacattcatgctgccacttgtgtctattttaaaaataggaCGATTTGAAGCTTCTGTTATTGAGGAGCATCGGAAAGGTGCAGATGACCTGCTGCGCTTTACAGTGCCAATCCCAGCCCTCAACAACAGCCCTCAAGTTAAGGAATTTTTCCGACCGGATgtaagtgcctgtactgacagggtccccttctagtcaaaccacctggcctc Alignment from Spaln_aa2Genome GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG------ caccaacactgaaacattcatgctgccacttgtgtctattttaaaaatagGACGATTTGAAGCTTCTGTTATTGAGGAGCATCGGAAAGGTGCAGATGACCTGCTGCGCTTTACAGTGCCAATCCCAGCCCTCAACAACAGCCCTCAAGTTAAGGAATTTTTCCGACCGGATgtaagtgcctgtactgacagggtccccttctagtcaaaccacctggcctc Alignment from Spaln_nt2Genome GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG------ caccaacactgaaacattcatgctgccacttgtgtctattttaaaaatagGACGATTTGAAGCTTCTGTTATTGAGGAGCATCGGAAAGGTGCAGATGACCTGCTGCGCTTTACAGTGCCAATCCCAGCCCTCAACAACAGCCCTCAAGTTAAGGAATTTTTCCGACCGGATgtaagtgcctgtactgacagggtccccttctagtcaaaccacctggcctc Alignment from Pairagon GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG------ caccaacactgaaacattcatgctgccacttgtgtctattttaaaaatagGACGATTTGAAGCTTCTGTTATTGAGGAGCATCGGAAAGGTGCAGATGACCTGCTGCGCTTTACAGTGCCAATCCCAGCCCTCAACAACAGCCCTCAAGTTAAGGAATTTTTCCGACCGGATgtaagtgcctgtactgacagggtccccttctagtcaaaccacctggcctc Alignment from Exonerate_protein2genome GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG------ caccaacactgaaacattcatgctgccacttgtgtctattttaaaaatagGACGATTTGAAGCTTCTGTTATTGAGGAGCATCGGAAAGGTGCAGATGACCTGCTGCGCTTTACAGTGCCAATCCCAGCCCTCAACAACAGCCCTCAAGTTAAGGAATTTTTCCGACCGGATgtaagtgcctgtactgacagggtccccttctagtcaaaccacctggcctc Alignment from Exonerate_coding2genome GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG------ caccaacactgaaacattcatgctgccacttgtgtctattttaaaaatagGACGATTTGAAGCTTCTGTTATTGAGGAGCATCGGAAAGGTGCAGATGACCTGCTGCGCTTTACAGTGCCAATCCCAGCCCTCAACAACAGCCCTCAAGTTAAGGAATTTTTCCGACCGGATgtaagtgcctgtactgacagggtccccttctagtcaaaccacctggcctc Alignment from GeneWise GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG------ caccaacactgaaacattcatgctgccacttgtgtctattttaaaaatagGACGATTTGAAGCTTCTGTTATTGAGGAGCATCGGAAAGGTGCAGATGACCTGCTGCGCTTTACAGTGCCAATCCCAGCCCTCAACAACAGCCCTCAAGTTAAGGAATTTTTCCGACCGGATgtaagtgcctgtactgacagggtccccttctagtcaaaccacctggcctc #### Snx15_ID1469_3 --> 0 - 1 Original Alignment GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTg cagtgttttacccagctcttgctaaggtaaaggagatttttcttctccagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTATACTCACCGGAATCTCTTTCAGGATCTAGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTG---ggtaagaagctttagactctgtacctctccagctcaaggcatcaagaatct Alignment from CESAR GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTg cagtgttttacccagctcttgctaaggtaaaggagatttttcttctccagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTATACTCACCGGAATCTCTTTCAGGATCTAGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTG---ggtaagaagctttagactctgtacctctccagctcaaggcatcaagaatct Alignment from Spaln_aa2Genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTG- cagtgttttacccagctcttgctaaggtaaaggagatttttcttctccagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTATACTCACCGGAATCTCTTTCAGGATCTAGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGGgtaagaagctttagactctgtacctctccagctcaaggcatcaagaatct Alignment from Spaln_nt2Genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG cagtgttttacccagctcttgctaaggtaaaggagatttttcttctccagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTATACTCACCGGAATCTCTTTCAGGATCTAGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTG---Ggtaagaagctttagactctgtacctctccagctcaaggcatcaagaatct Alignment from Pairagon GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG cagtgttttacccagctcttgctaaggtaaaggagatttttcttctccagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTATACTCACCGGAATCTCTTTCAGGATCTAGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTG---Ggtaagaagctttagactctgtacctctccagctcaaggcatcaagaatct Alignment from Exonerate_protein2genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGT cagtgttttacccagctcttgctaaggtaaaggagatttttcttctccagGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTATACTCACCGGAATCTCTTTCAGGATCTAGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGGgtaagaagctttagactctgtacctctccagctcaaggcatcaagaatct Alignment from Exonerate_coding2genome TTCATCTCAAAGAAGGACCCAGAGGATATCAAAGAGGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGT cagtgttttacccaGCTCTTGCTAAGGTAAAGGAGATTTTTCTTCTCCAGGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTATACTCACCGGAATCTCTTTCAGGATCTAGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGGgtaagaagctttagactctgtacctctccagctcaaggcatcaagaatct Alignment from GeneWise --------------TTCATCTCAAAGAAGGACCCAGAGGATATCAAAGAGGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGT CAGTGTTTTACCCAGCTCTTGCTAAGGTAAAGGAGATTTTTCTTCTCCAGGTAGTTGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTGAATTAGCCTATACTCACCGGAATCTCTTTCAGGATCTAGAGGAGTTCCCAGCCTTCCCACAAGCCCAGGTGGgtaagaagctttagactctgtacctctccagctcaaggcatcaagaatct #### Snx32_ID1067_11 --> 0 - 1 Original Alignment ------------GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAg agtgataacacttccatgacataattgcttgtcctgttttgtttgaacagTCTTACATGAGGGATCTATTGTACCGCCGGCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAGCAGTTTGACTGCCTCTCTGACTCTGCCAAACAAggtgaggcctgaaggattgcaacaatcaatacagttgtttccaattcttta Alignment from CESAR ------------GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGCCAGCGC---TTCGAGCGCCTCTCTGACTCCGCCAAACAAg agtgataacacttccatgacataattgcttgtcctgttttgtttgaacagTCTTACATGAGGGATCTATTGTACCGCCGGCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAGCAGTTTGACTGCCTCTCTGACTCTGCCAAACAAggtgaggcctgaaggattgcaacaatcaattgtccatttctgtttgccata Alignment from Spaln_aa2Genome GCA---GCCAAGGACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAG agtgataacacttccatgacataattgcttgtcctgttttgtttgaacagTCTTACATGAGGGATCTATTGTACCGCCGGCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAGCAGTTTGACTGCCTCTCTGACTCTGCCAAACAAGgtgaggcctgaaggattgcaacaatcaatacagttgtttccaattcttta Alignment from Spaln_nt2Genome GGACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGCCAGC-GC--TTCGAGCGCCTCTCTGACTCCGCCAAACAAG agtgataacacttccatgacataattgcttgtcctgttttgtttgaacagtcttacatgagGGATCTATTGTACCGCCGGCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAGCAGTTTGACTGCCTCTCTGACTCTGCCAAACAAGgtgaggcctgaaggattgcaacaatcaatacagttgtttccaattcttta Alignment from Pairagon -------------------------------------------------------------GGACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGCCAGCGCTTCGAGC---------GCCTCTCTGACTCCGCCAAACAAG AGTGATAACACTTCCATGACATAATTGCTTGTCCTGTTTTGTTTGAACAGTCTTACATGAGGGATCTATTGTACCGCCGGCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGC------AGCAGTTTGACTGCCTCTCTGACTCTGCCAAACAAGgtgaggcctgaaggattgcaacaatcaatacagttgtttccaattcttta Alignment from Exonerate_protein2genome GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAG agtgataacacttccatgacataattgcttgtcctgttttgtttgaacagtcttacatgaggGATCTATTGTACCGCCGGCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAGCAGTTTGACTGCCTCTCTGACTCTGCCAAACAAGgtgaggcctgaaggattgcaacaatcaatacagttgtttccaattcttta Alignment from Exonerate_coding2genome GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAG agtgataacacttccatgacataattgcttgtcctgttttgtttgaacagtcttacatgaggGATCTATTGTACCGCCGGCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAGCAGTTTGACTGCCTCTCTGACTCTGCCAAACAAGgtgaggcctgaaggattgcaacaatcaatacagttgtttccaattcttta Alignment from GeneWise ------------GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGCCAGCGC---TTCGAGCGCCTCTCTGACTCCGCCAAACAAG agtgataacacttccatgacataattgcttgtcctgttttgtttgaacagTCTTACATGAGGGATCTATTGTACCGCCGGCTCCGGGCACTAGCTGAGTATGAGAATGCTAACAAAGCTCTTGATAAAGCCCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCACCAGCAACTGTGTTGCCAGCAGCAGTTTGACTGCCTCTCTGACTCTGCCAAACAAGgtgaggcctgaaggattgcaacaatcaatacagttgtttccaattcttta #### Snx32_ID1070_8 --> 2 - 2 Original Alignment gcCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGag atacctccaattacaattgcccagagcatggcacgctcttgctttcacaggc------GACAACTATATTCCCATTTCAGCT---GTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAaggtaagggtcatgcgatgctgctttgctcacccatgtaccattactggggt Alignment from CESAR gcCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGag gcgcacatacctccaattacaattggcatggcacgctcttgctttcacaggc------GACAACTATATTCCCATTTCAGCTGTG---AGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAaggtaagggtcatgcgatgctgctttgctcacccatgtaccattactggggt Alignment from Spaln_aa2Genome TGCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG ccaattacaattgcccagagcatggcacgctcttgctttcaca gGCGACAACTATATTCCCATTTCA---GCTGTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAAGgtaagggtcatgcgatgctgctttgctcacccatgtaccattactggggt Alignment from Spaln_nt2Genome GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG atacctccaattacaattgcccagagcatggcacgctcttgctttcacagGC------GACAACTATATTCCCATTTCAGCTG---TGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAAGgtaagggtcatgcgatgctgctttgctcacccatgtaccattactggggt Alignment from Pairagon ----------------------AGTGCCTGGCA-------------------GACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG ATACCTCCAATTACAATTGCCCAGAGCATGGCACGCTCTTGCTTTCACAGGCGACAACTATATTCCCATTTCAGCTG---TGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAAGgtaagggtcatgcgatgctgctttgctcacccatgtaccattactggggt Alignment from Exonerate_protein2genome CAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG atacctccaattacaattgcccagagcatggcacgctcttgctttcacagGCGACAACTATATTCCCATTTCA---GCTGTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAAGgtaagggtcatgcgatgctgctttgctcacccatgtaccattactggggt Alignment from Exonerate_coding2genome CAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG atacctccaattacaattgcccagagcatggcacgctcttgctttcacagGCGACAACTATATTCCCATTTCA---GCTGTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAAGgtaagggtcatgcgatgctgctttgctcacccatgtaccattactggggt Alignment from GeneWise GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG atacctccaattacaattgcccagagcatggcacgctcttgctttcacagGC------GACAACTATATTCCCATTTCAGCT---GTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTTAAAAGgtaagggtcatgcgatgctgctttgctcacccatgtaccattactggggt #### Snx32_ID1072_6 --> 0 - 0 Original Alignment CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAG acaacattattaagattatccaagtctctctgatttcaccctctctacagCTGAGTGTCCAGGAGAAGAACAGGAAGGAGGTATCTGGGGGGCTCCTAAGAGGT---GTTAGGTATGCAGATGAAATCCTCATCACTGGTGGCATATCA---------gtaaagatgccgcgacgagcctctgttgtggtaggaggaacatgccaggt Alignment from CESAR CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAG acaacattattaagattatccaagtctctctgatttcaccctctctacagCTGAGTGTCCAGGAGAAGAACAGGAAGGAGGTATCTGGGGGGCTCCTAAGAGGT---GTTAGGTATGCAGATGAAATCCTCATCACTGGTGGCATATCA---------gtaaagatgccgcgacgagcctctgttgtggtaggaggaac Alignment from Spaln_aa2Genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACCGGCATATCAGGGCTCAAG acaacattattaagattatccaagtctctctgatttcaccctctctacagCTGAGTGTCCAGGAGAAGAACAGGAAGGAGGTATCTGGGGGGCTCCTAAGAGGT---GTTAGGTATGCAGATGAAATCCTCATCACTGGT------GGCATATCAgtaaagatgccgcgacgagcctctgttgtggtaggaggaacatgccaggt Alignment from Spaln_nt2Genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACCG GCATATCAGGGCTCAA acaacattattaagattatccaagtctctctgatttcaccctctctacagCTGAGTGTCCAGGAGAAGAACAGGAAGGAGGTATCTGGGGGGCTCCTAAGAGG---TGTTAGGTATGCAGATGAAATCCTCATCACTGgtggcatatcagtaaagatgccgcgacgagcctctgttgtggtagGAGGAACATG---CCA Alignment from Pairagon CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCAC---CGGCATATCA acaacattattaagattatccaagtctctctgatttcaccctctctacagCTGAGTGTCCAGGAGAAGAACAGGAAGGAGGTATCTGGGGGGCTCCTAAGAGG---TGTTAGGTATGCAGATGAAATCCTCATCACTGGTGGCATATCAgtaaagatgccgcgacgagcctctgttgtggtaggaggaacatgccaggt Alignment from Exonerate_protein2genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACCGGCATATCAGGGCTCAAG acaacattattaagattatccaagtctctctgatttcaccctctctacagCTGAGTGTCCAGGAGAAGAACAGGAAGGAGGTATCTGGGGGGCTCCTAAGAGGT---GTTAGGTATGCAGATGAAATCCTCATCACTGGTGGCATATCAGTAAAGatgccgcgacgagcctctgttgtggtaggaggaacatgccaggt Alignment from Exonerate_coding2genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACCGGCATATCAGGGCTCAAG acaacattattaagattatccaagtctctctgatttcaccctctctacagCTGAGTGTCCAGGAGAAGAACAGGAAGGAGGTATCTGGGGGGCTCCTAAGAGGT---GTTAGGTATGCAGATGAAATCCTCATCACTGGTGGCATATCAGTAAAGatgccgcgacgagcctctgttgtggtaggaggaacatgccaggt Alignment from GeneWise CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACCGGCATATCAGGGCTCAAG acaacattattaagattatccaagtctctctgatttcaccctctctacagCTGAGTGTCCAGGAGAAGAACAGGAAGGAGGTATCTGGGGGGCTCCTAAGAGGT---GTTAGGTATGCAGATGAAATCCTCATCACTGGT------GGCATATCAgtaaagatgccgcgacgagcctctgttgtggtaggaggaacatgccaggt #### Snx32_ID1074_4 --> 0 - 2 Original Alignment ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAgc atatgttgtgttaaccattgggaaatggtatctcttttatttttcattag------CCAGCCCCCCCCAGGTCAGACTTTGAGGCATCAAGGGAAAAATTGCAAAGGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCAGAGCTAGAAgcgtatgcatctccttcaatccccctgatttctgtagggttttcaaagacac Alignment from CESAR ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAgc gtgtggatatgttgtgttaaccatttggtatctcttttatttttcattag------CCAGCCCCCCCCAGGTCAGACTTTGAGGCATCAAGGGAAAAATTGCAAAGGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCAGAGCTAGAAgcgtatgcatctccttcaatccccctgatttctgtagggttttcaaagacac Alignment from Spaln_aa2Genome CCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC atatgttgtgttaaccattgggaaatggtatctcttttatttttcattagCCAGCCCCCCCCAGGTCAGACTTTGAGGCATCAAGGGAAAAATTGCAAAGGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCAGAGCTAGAAGCgtatgcatctccttcaatccccctgatttctgtagggttttcaaagacac Alignment from Spaln_nt2Genome CCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC atatgttgtgttaaccattgggaaatggtatctcttttatttttcattagCCAGCCCCCCCCAGGTCAGACTTTGAGGCATCAAGGGAAAAATTGCAAAGGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCAGAGCTAGAAGCgtatgcatctccttcaatccccctgatttctgtagggttttcaaagacac Alignment from Pairagon GTACGCCGGCCTCATCATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC atatgttgtgttaaccattgggaaatggtatctcttttatttttcattag----------------------CCAGCCCCCCCCAGGTCAGACTTTGAGGCATCAAGGGAAAAATTGCAAAGGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCAGAGCTAGAAGCgtatgcatctccttcaatccccctgatttctgtagggttttcaaagacac Alignment from Exonerate_protein2genome CCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC atatgttgtgttaaccattgggaaatggtatctcttttatttttcattagCCAGCCCCCCCCAGGTCAGACTTTGAGGCATCAAGGGAAAAATTGCAAAGGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCAGAGCTAGAAGCgtatgcatctccttcaatccccctgatttctgtagggttttcaaagacac Alignment from Exonerate_coding2genome CCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC atatgttgtgttaaccattgggaaatggtatctcttttatttttcattagCCAGCCCCCCCCAGGTCAGACTTTGAGGCATCAAGGGAAAAATTGCAAAGGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCAGAGCTAGAAGCgtatgcatctccttcaatccccctgatttctgtagggttttcaaagacac Alignment from GeneWise CCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC atatgttgtgttaaccattgggaaatggtatctcttttatttttcattagCCAGCCCCCCCCAGGTCAGACTTTGAGGCATCAAGGGAAAAATTGCAAAGGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCAGAGCTAGAAGCgtatgcatctccttcaatccccctgatttctgtagggttttcaaagacac #### Snx32_ID1075_3 --> 0 - 0 Original Alignment AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAA------GAGTACGCCGGCCTCATC gcttgaggtaacaagaaattgcgagagaaactgctcccctgtccttacag------CTCCCCCACTCTGCCCAGTCTGAATTCTCAGTGGTTTGCCAGCATAAAGAGTTCATCTGGCTGCATGACACTTATGTAGAGAATGAAGAGTATGAATACAACAGCCTTGTTgtatgcagcagtggagcagggttggagtgaaaaaaaagcaaggaagtgtg Alignment from CESAR AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAG------TACGCCGGCCTCATC agggtagcttgaggtaacaagaaatagaaactgctcccctgtccttacag------CTCCCCCACTCTGCCCAGTCTGAATTCTCAGTGGTTTGCCAGCATAAAGAGTTCATCTGGCTGCATGACACTTATGTAGAGAATGAAGAGTATGAATACAACAGCCTTGTTgtatgcagcagtggagcagggttggagtgaaaaaaaagcaaggaagtgtg Alignment from Spaln_aa2Genome AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAA------GAGTACGCCGGCCTCATC gcttgaggtaacaagaaattgcgagagaaactgctcccctgtccttacag------CTCCCCCACTCTGCCCAGTCTGAATTCTCAGTGGTTTGCCAGCATAAAGAGTTCATCTGGCTGCATGACACTTATGTAGAGAATGAAGAGTATGAATACAACAGCCTTGTTgtatgcagcagtggagcagggttggagtgaaaaaaaagcaaggaagtgtg Alignment from Spaln_nt2Genome CTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAGTACGC------CGGCCTC gcttgaggtaacaagaaattgcgagagaaactgctcccctgtccttacagCTCCCCCACTCTGCCCAGTCTGAATTCTCAGTGGTTTGCCAGCATAAAGAGTTCATCTGGCTGCATGACACTTATGTAGAGAATGAAGAGTATGAATACAACAGCCTTgttgtatgcagcagtggagcagggttggagtgaaaaaaaagcaaggaagtgtg Alignment from Pairagon AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGA gcttgaggtaacaagaaattgcgagagaaactgctcccctgtccttacag------CTCCCCCACTCTGCCCAGTCTGAATTCTCAGTGGTTTGCCAGCATAAAGAGTTCATCTGGCTGCATGACACTTATGTAGAGAATGAAGAgtatgaatacaacagccttgttgtatgcagcagtggagcagggttggagtgaaaaaaaagcaaggaagtgtg Alignment from Exonerate_protein2genome CTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAGTACGCC------GGCCTCATC gcttgaggtaacaagaaattgcgagagaaactgctcccctgtccttacagCTCCCCCACTCTGCCCAGTCTGAATTCTCAGTGGTTTGCCAGCATAAAGAGTTCATCTGGCTGCATGACACTTATGTAGAGAATGAAGAGTATGAATACAACAGCCTTGTTgtatgcagcagtggagcagggttggagtgaaaaaaaagcaaggaagtgtg Alignment from Exonerate_coding2genome CTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAGTACGCC------GGCCTCATC gcttgaggtaacaagaaattgcgagagaaactgctcccctgtccttacagCTCCCCCACTCTGCCCAGTCTGAATTCTCAGTGGTTTGCCAGCATAAAGAGTTCATCTGGCTGCATGACACTTATGTAGAGAATGAAGAGTATGAATACAACAGCCTTGTTgtatgcagcagtggagcagggttggagtgaaaaaaaagcaaggaagtgtg Alignment from GeneWise ---CCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAGTACGCC------GGCCTCATC gcttgaggtaacaagaaattgcgagagaaactgctcccctgtccttacagCTCCCCCACTCTGCCCAGTCTGAATTCTCAGTGGTTTGCCAGCATAAAGAGTTCATCTGGCTGCATGACACTTATGTAGAGAATGAAGAGTATGAATACAACAGCCTTGTTgtatgcagcagtggagcagggttggagtgaaaaaaaagcaaggaagtgtg #### Sptbn2_ID615_10 --> 0 - 0 Original Alignment ---GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ctaacccgttctgccactacccccacttcttttctgtatttcttttacagCTCGCCTGGGAGCGGTTGGAGAAATCTGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTCATTCGCCAGAAAAAACTAGAGAAACTAGCTGCTCGATTTGACCACAAGGCTTCTATGCGGAAGACTTGGCTCAGAGAGAACCAGCGACTTGTTTCTCAAgtaagttttccccaccagcctaaatgtgtgtcttaactaggcctgtgcag Alignment from CESAR ---GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ctaacccgttctgccactacccccacttcttttctgtatttcttttacagCTCGCCTGGGAGCGGTTGGAGAAATCTGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTCATTCGCCAGAAAAAACTAGAGAAACTAGCTGCTCGATTTGACCACAAGGCTTCTATGCGGAAGACTTGGCTCAGAGAGAACCAGCGACTTGTTTCTCAAgtaagttttccccaccagcctaaatgtgtgtcttaactaggcctgtgcag Alignment from Spaln_aa2Genome GCCTGGGAG---CGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ctaacccgttctgccactacccccacttcttttctgtatttcttttacagCTCGCCTGGGAGCGGTTGGAGAAATCTGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTCATTCGCCAGAAAAAACTAGAGAAACTAGCTGCTCGATTTGACCACAAGGCTTCTATGCGGAAGACTTGGCTCAGAGAGAACCAGCGACTTGTTTCTCAAgtaagttttccccaccagcctaaatgtgtgtcttaactaggcctgtgcag Alignment from Spaln_nt2Genome GCCTGGGAGC---GGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ctaacccgttctgccactacccccacttcttttctgtatttcttttacagCTCGCCTGGGAGCGGTTGGAGAAATCTGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTCATTCGCCAGAAAAAACTAGAGAAACTAGCTGCTCGATTTGACCACAAGGCTTCTATGCGGAAGACTTGGCTCAGAGAGAACCAGCGACTTGTTTCTCAAgtaagttttccccaccagcctaaatgtgtgtcttaactaggcctgtgcag Alignment from Pairagon ---GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ctaacccgttctgccactacccccacttcttttctgtatttcttttacagCTCGCCTGGGAGCGGTTGGAGAAATCTGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTCATTCGCCAGAAAAAACTAGAGAAACTAGCTGCTCGATTTGACCACAAGGCTTCTATGCGGAAGACTTGGCTCAGAGAGAACCAGCGACTTGTTTCTCAAgtaagttttccccaccagcctaaatgtgtgtcttaactaggcctgtgcag Alignment from Exonerate_protein2genome ctaacccgttctgccactacccccacttcttttctgtatttcttttacagctcgcctgggagcggttggagaaatctgaacatgagagagagctagcattgcgcacagagctcattcgccagaaaaaactagagaaactagctgctcgatttgaccacaaggcttctatgcggaagacttggctcagagagaaccagcgacttgtttctcaagtaagttttccccaccagcctaaatgtgtgtcttaactaggcctgtgcag Alignment from Exonerate_coding2genome ctaacccgttctgccactacccccacttcttttctgtatttcttttacagctcgcctgggagcggttggagaaatctgaacatgagagagagctagcattgcgcacagagctcattcgccagaaaaaactagagaaactagctgctcgatttgaccacaaggcttctatgcggaagacttggctcagagagaaccagcgacttgtttctcaagtaagttttccccaccagcctaaatgtgtgtcttaactaggcctgtgcag Alignment from GeneWise ---GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ctaacccgttctgccactacccccacttcttttctgtatttcttttacagCTCGCCTGGGAGCGGTTGGAGAAATCTGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTCATTCGCCAGAAAAAACTAGAGAAACTAGCTGCTCGATTTGACCACAAGGCTTCTATGCGGAAGACTTGGCTCAGAGAGAACCAGCGACTTGTTTCTCAAgtaagttttccccaccagcctaaatgtgtgtcttaactaggcctgtgcag #### Sptbn2_ID633_28 --> 0 - 1 Original Alignment ---ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTg ggtggattcaaatgcatgtcaagtcccagattgaatttttatcttttcagCATATTTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTggtaccgtaattaacaatatcgtgggaggtaggggttattgaagggtgcac Alignment from CESAR ---ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTg ggtggattcaaatgcatgtcaagtcccagattgaatttttatcttttcagCATATTTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTggtaccgtaattaacaatatcgtgggaggtaggggttattgaagggtgcac Alignment from Spaln_aa2Genome ATCTCAGAGAAGCTGTCT---CAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ggtggattcaaatgcatgtcaagtcccagattgaatttttatcttttcagCATATTTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTGgtaccgtaattaacaatatcgtgggaggtaggggttattgaagggtgcac Alignment from Spaln_nt2Genome ---ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ggtggattcaaatgcatgtcaagtcccagattgaatttttatcttttcagCATATTTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTGgtaccgtaattaacaatatcgtgggaggtaggggttattgaagggtgcac Alignment from Pairagon ---ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ggtggattcaaatgcatgtcaagtcccagattgaatttttatcttttcagCATATTTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTGgtaccgtaattaacaatatcgtgggaggtaggggttattgaagggtgcac Alignment from Exonerate_protein2genome ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ggtggattcaaatgcatgtcaagtcccagattgaatttttatcttttcagcatATTTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTGgtaccgtaattaacaatatcgtgggaggtaggggttattgaagggtgcac Alignment from Exonerate_coding2genome ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ggtggattcaaatgcatgtcaagtcccagattgaatttttatcttttcagcatATTTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTGgtaccgtaattaacaatatcgtgggaggtaggggttattgaagggtgcac Alignment from GeneWise ---ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG ggtggattcaaatgcatgtcaagtcccagattgaatttttatcttttcagCATATTTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTGgtaccgtaattaacaatatcgtgggaggtaggggttattgaagggtgcac #### Sptbn2_ID634_29 --> 2 - 0 Original Alignment tt------TTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG ctgtcaaccaacctatgaagtctctataactaaagctacttactttatagttAGTGATTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGTAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATCAAGCGGCATGAGGCCTATCAGAAGTCAGCTGTAGCATGGGAAGAGCGGTTTGGTGCATTAGATAAGCTCACTGCAgtgagtgctgtagaggctcacaaacctgatagtgtcgttcttaacccaat Alignment from CESAR tt------TTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG ctgtcaaccaacctatgaagtctctataactaaagctacttactttatagttAGTGATTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGTAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATCAAGCGGCATGAGGCCTATCAGAAGTCAGCTGTAGCATGGGAAGAGCGGTTTGGTGCATTAGATAAGCTCACTGCAgtgagtgctgtagaggctcacaaacctgatagtgtcgttcttaacccaat Alignment from Spaln_aa2Genome TT------TTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG ctgtcaaccaacctatgaagtctctataactaaagctacttactttatagTTAGTGATTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGTAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATCAAGCGGCATGAGGCCTATCAGAAGTCAGCTGTAGCATGGGAAGAGCGGTTTGGTGCATTAGATAAGCTCACTGCAgtgagtgctgtagaggctcacaaacctgatagtgtcgttcttaacccaat Alignment from Spaln_nt2Genome TTTTGGAGGTGC--TTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG ctgtcaaccaacctatgaagtctctataactaaagctacttactttatagttagTGATTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGTAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATCAAGCGGCATGAGGCCTATCAGAAGTCAGCTGTAGCATGGGAAGAGCGGTTTGGTGCATTAGATAAGCTCACTGCAgtgagtgctgtagaggctcacaaacctgatagtgtcgttcttaacccaat Alignment from Pairagon T------TTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG ctgtcaaccaacctatgaagtctctataactaaagctacttactttatagTTAGTGATTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGTAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATCAAGCGGCATGAGGCCTATCAGAAGTCAGCTGTAGCATGGGAAGAGCGGTTTGGTGCATTAGATAAGCTCACTGCAgtgagtgctgtagaggctcacaaacctgatagtgtcgttcttaacccaat Alignment from Exonerate_protein2genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG ctgtcaaccaacctatgaagtctctataactaaagctacttactttatagttagtgATTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGTAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATCAAGCGGCATGAGGCCTATCAGAAGTCAGCTGTAGCATGGGAAGAGCGGTTTGGTGCATTAGATAAGCTCACTGCAgtgagtgctgtagaggctcacaaacctgatagtgtcgttcttaacccaat Alignment from Exonerate_coding2genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG ctgtcaaccaacctatgaagtctctataactaaagctacttactttatagttagtgATTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGTAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATCAAGCGGCATGAGGCCTATCAGAAGTCAGCTGTAGCATGGGAAGAGCGGTTTGGTGCATTAGATAAGCTCACTGCAgtgagtgctgtagaggctcacaaacctgatagtgtcgttcttaacccaat Alignment from GeneWise -----GTTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG ctgtcaaccaacctatgaagtctctataactaaagctacttactttatagTTAGTGATTTAGAGGTGCTTGTATTTGGGAAAGATGCAGGGATGGCAGAGGCATGGCTGTGTAGCCAGGCACCAGTGGTGCGAAGTGCAGAATTGGGTTGTACTGTGGATGAAGTAGAGGCCCTCATCAAGCGGCATGAGGCCTATCAGAAGTCAGCTGTAGCATGGGAAGAGCGGTTTGGTGCATTAGATAAGCTCACTGCAgtgagtgctgtagaggctcacaaacctgatagtgtcgttcttaacccaat #### Sptbn2_ID638_33 --> 0 - 2 Original Alignment GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTG---CCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACag aaggagaatacaattagtagtactgtttgctgtgttttcctcccccacagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCAGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGCGAACAAGACATGGAAGCGTTGAACAAGAAAGCT------aggtaagtccaggaatcgtgcctactgatgcctttgcctcgctgcccctagc Alignment from CESAR GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACag aaggagaatacaattagtagtactgtttgctgtgttttcctcccccacagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCAGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGCGAACAAGACATGGAAGCGTTGAACAAGAAAGCT------aggtaagtccaggaatcgtgcctactgatgcctttgcctcgctgcccctagc Alignment from Spaln_aa2Genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGC aaggagaatacaattagtagtactgtttgctgtgttttcctcccccacagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCAGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGCGAACAAGACATGGAAGCGTTGAACAAGAAAGCTAGgtaagtccaggaatcgtgcctactgatgcctttgcctcgctgcccctagc Alignment from Spaln_nt2Genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTGC---CCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG aaggagaatacaattagtagtactgtttgctgtgttttcctcccccacagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCAGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGCGAACAAGACATGGAAGCGTTGAACAAGAAAGCT------AGgtaagtccaggaatcgtgcctactgatgcctttgcctcgctgcccctagc Alignment from Pairagon GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG aaggagaatacaattagtagtactgtttgctgtgttttcctcccccacagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCAGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGCGAACAAGACATGGAAGCGTTGAACAAGAAAGCT------AGgtaagtccaggaatcgtgcctactgatgcctttgcctcgctgcccctagc Alignment from Exonerate_protein2genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGC aaggagaatacaattagtagtactgtttgctgtgttttcctcccccacagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCAGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGCGAACAAGACATGGAAGCGTTGAACAAGAAAGCTAGgtaagtccaggaatcgtgcctactgatgcctttgcctcgctgcccctagc Alignment from Exonerate_coding2genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGC aaggagaatacaattagtagtactgtttgctgtgttttcctcccccacagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCAGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGCGAACAAGACATGGAAGCGTTGAACAAGAAAGCTAGgtaagtccaggaatcgtgcctactgatgcctttgcctcgctgcccctagc Alignment from GeneWise GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTG---CCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGC aaggagaatacaattagtagtactgtttgctgtgttttcctcccccacagGGCTCTGGTATGGGAGATGAGCCCCGTGGGCCCCAGGGTGAGAGACAGACTCTGCTGCCACGTGGAGCTGCTCCTTCTCCAATGTCACAAAGTAAATCATTGGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCAGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGCGAACAAGACATGGAAGCGTTGAACAAGAAAGCTAGgtaagtccaggaatcgtgcctactgatgcctttgcctcgctgcccctagc #### Ssh3_ID443_13 --> 1 - 0 Original Alignment c------CGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcaattgtcgtagcactaagggttatttggtcccctggaatctccagcGAATCACAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGTA---CCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTCTGGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGTCTGCCAGAGgtaggttcagaccggaggtgtctgtcaatccagtaaccaccttgtcaccc Alignment from CESAR c------CGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcaattgtcgtagcactaagggttatttggtcccctggaatctccagcGAATCACAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGTA---CCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTCTGGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGTCTGCCAGAGgtaggttcagaccggaggtgtctgtcaatccagtaaccaccttgtcaccc Alignment from Spaln_aa2Genome C------CGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcaattgtcgtagcactaagggttatttggtcccctggaatctccagCGAATCACAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGTA---CCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTCTGGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGTCTGCCAGAGgtaggttcagaccggaggtgtctgtcaatccagtaaccaccttgtcaccc Alignment from Spaln_nt2Genome C------CGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcaattgtcgtagcactaagggttatttggtcccctggaatctccagCGAATCACAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGT---ACCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTCTGGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGTCTGCCAGAGgtaggttcagaccggaggtgtctgtcaatccagtaaccaccttgtcaccc Alignment from Pairagon C------CGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcaattgtcgtagcactaagggttatttggtcccctggaatctccagCGAATCACAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGT---ACCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTCTGGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGTCTGCCAGAGgtaggttcagaccggaggtgtctgtcaatccagtaaccaccttgtcaccc Alignment from Exonerate_protein2genome GCATTCTGACTGCCAGCCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcaattgtcgtagcactaagggttatttggtcccctgGAATCTCCAGCGAATCACAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGTA---CCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTCTGGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGTCTGCCAGAGgtaggttcagaccggaggtgtctgtcaatccagtaaccaccttgtcaccc Alignment from Exonerate_coding2genome GCATTCTGACTGCCAGCCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcaattgtcgtagcactaagggttatttggtcccctgGAATCTCCAGCGAATCACAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGTA---CCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTCTGGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGTCTGCCAGAGgtaggttcagaccggaggtgtctgtcaatccagtaaccaccttgtcaccc Alignment from GeneWise ----AGCCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA gagtcaattgtcgtagcactaagggttatttggtcccctggaatctccagCGAATCACAACAGAGCCGTGTTTGGGAGCAAAAAGTAGGTGGTGTA---CCAGAGGAACCTCTAGCACCTGAAGTTTCCACACCGTTGCCACCTTTTCCACCTGAACCAGGGGGCAGTGGGGAGGTGATGGTGATGGGTCTGGAAGGAAGCCAAGAAATGCCAAAAGAAGATCTAGGACTGCAGCCCAGAATCAACCTTCGGGGGGTCATGCAATCCATTCCTCTCCTTGAACCCTCAGAGGCAGAGAGTACCCCAGAGGCAGGGGGTCTGCCAGAGgtaggttcagaccggaggtgtctgtcaatccagtaaccaccttgtcaccc #### Ssh3_ID446_10 --> 0 - 2 Original Alignment CCCCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACag CCACACCTCTACTTGgtctgtggtcctttcaaaccgttgctcttcaccagGGCACTGAATGGAATGCTGCCAACCTAGAGGAGCTCCAAAAG---aggtctgtaggttgctggctgtgagtccttattgacctctcctctcagcttc Alignment from CESAR CCCCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACag CCACACCTCTACTTGgtatatggtcctttcaaaccgttgctcttcaccagGGCACTGAATGGAATGCTGCCAACCTAGAGGAGCTCCAAAAG---aggtctgtaggttgctggctgtgagtccttattgacctctcctctcagcttc Alignment from Spaln_aa2Genome CCCCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAA CCACACCTCTACTTGgtctgtggtcctttcaaaccgttgctcttcaccagGGCACTGAATGGAATGCTGCCAACCTAGAGGAGCTCCAAAAGAGgtctgtaggttgctggctgtgagtccttattgacctctcctctcagcttc Alignment from Spaln_nt2Genome CCCCACCTCTACTTGGG-----------------------------------CTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG CCACACCTCTACTTGGTCTGTGGTCCTTTCAAACCGTTGCTCTTCACCAGGGCACTGAATGGAATGCTGCCAACCTAGAGGAGCTCC---AAAAGAGgtctgtaggttgctggctgtgagtccttattgacctctcctctcagcttc Alignment from Pairagon CCCCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG CCACACCTCTACTTGgtctgtggtcctttcaaaccgttgctcttcaccagGGCACTGAATGGAATGCTGCCAACCTAGAGGAGCTCC---AAAAGAGgtctgtaggttgctggctgtgagtccttattgacctctcctctcagcttc Alignment from Exonerate_protein2genome CCCCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG CCACACCTCTACTTGgtctgtggtcctttcaaaccgttgctcttcaccagGGCACTGAATGGAATGCTGCCAACCTAGAGGAGCTCCAAAAG---AGgtctgtaggttgctggctgtgagtccttattgacctctcctctcagcttc Alignment from Exonerate_coding2genome CCCCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG CCACACCTCTACTTGgtctgtggtcctttcaaaccgttgctcttcaccagGGCACTGAATGGAATGCTGCCAACCTAGAGGAGCTCCAAAAG---AGgtctgtaggttgctggctgtgagtccttattgacctctcctctcagcttc Alignment from GeneWise CCCCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAGAGTA- CCACACCTCTACTTGgtctgtggtcctttcaaaccgttgctcttcaccagGGCACTGAATGGAATGCTGCCAACCTAGAGGAGCTCCAAAAGAGGTCTGTAGgttgctggctgtgagtccttattgacctctcctctcagcttc #### Ssh3_ID447_9 --> 0 - 0 Original Alignment ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGCTCTGAGTGGAAT atctctatcagcgataatacacttaaaccgtgtactttctcatgacgcagCTCCATCAAGCCTTAGAACTACACCTTGGATGTCCTTTA------TATCGTGACTTTATTGACAATCAGATGTTGCTTCTCATGGCCCACCAGGATCAGACATCTCGCATCTACCCACACCTCTAC---gtggtttatggtctgctgactcgcctgtgttatagGGCACTGAATGGAAT Alignment from CESAR ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGCTCTGAGTGGAAT atctctatcagcgataatacacttaaaccgtgtactttctcatgacgcagCTCCATCAAGCCTTAGAACTACACCTTGGATGTCCTTTA------TATCGTGACTTTATTGACAATCAGATGTTGCTTCTCATGGCCCACCAGGATCAGACATCTCGCATCTACCCACACCTCTACGTGgtttatgctttcaaaccgttgctcttcaccagGGCACTGAATGGAAT Alignment from Spaln_aa2Genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGCTCTGAGTGGAAT atctctatcagcgataatacacttaaaccgtgtactttctcatgacgcagCTCCATCAAGCCTTAGAACTACACCTTGGATGTCCTTTA------TATCGTGACTTTATTGACAATCAGATGTTGCTTCTCATGGCCCACCAGGATCAGACATCTCGCATCTACCCACACCTCTACGTGgtttatggtctgctgactcgcctgtgttatagGGCACTGAATGGAAT Alignment from Spaln_nt2Genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTT--------------------------------GGGCTCTGAGTGGAAT atctctatcagcgataatacacttaaaccgtgtactttctcatgacgcagCTCCATCAAGCCTTAGAACTACACCTTGGATGTCCTTT------ATATCGTGACTTTATTGACAATCAGATGTTGCTTCTCATGGCCCACCAGGATCAGACATCTCGCATCTACCCACACCTCTACGTGGTTTATGGTCTGCTGACTCGCCTGTGTTATAGGGCACTGAATGGAAT Alignment from Pairagon ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTT--------------------------------GGGCTCTGAGTGGAAT atctctatcagcgataatacacttaaaccgtgtactttctcatgacgcagCTCCATCAAGCCTTAGAACTACACCTTGGATGTCCTTT------ATATCGTGACTTTATTGACAATCAGATGTTGCTTCTCATGGCCCACCAGGATCAGACATCTCGCATCTACCCACACCTCTACGTGGTTTATGGTCTGCTGACTCGCCTGTGTTATAGGGCACTGAATGGAAT Alignment from Exonerate_protein2genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGCTCTGAGTGGAAT atctctatcagcgataatacacttaaaccgtgtactttctcatgacgcagCTCCATCAAGCCTTAGAACTACACCTTGGATGTCCTTTA------TATCGTGACTTTATTGACAATCAGATGTTGCTTCTCATGGCCCACCAGGATCAGACATCTCGCATCTACCCACACCTCTACGTGgtttatggtctgctgactcgcctgtgttatagGGCACTGAATGGAAT Alignment from Exonerate_coding2genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGCTCTGAGTGGAAT atctctatcagcgataatacacttaaaccgtgtactttctcatgacgcagCTCCATCAAGCCTTAGAACTACACCTTGGATGTCCTTTA------TATCGTGACTTTATTGACAATCAGATGTTGCTTCTCATGGCCCACCAGGATCAGACATCTCGCATCTACCCACACCTCTACGTGgtttatggtctgctgactcgcctgtgttatagGGCACTGAATGGAAT Alignment from GeneWise ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGCTCTGAGTGGAAT atctctatcagcgataatacacttaaaccgtgtactttctcatgacgcagCTCCATCAAGCCTTAGAACTACACCTTGGATGTCCTTTA------TATCGTGACTTTATTGACAATCAGATGTTGCTTCTCATGGCCCACCAGGATCAGACATCTCGCATCTACCCACACCTCTACGTGgtttatggtctgctgactcgcctgtgttatagGGCACTGAATGGAAT #### Ssh3_ID448_8 --> 1 - 0 Original Alignment gGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG--------- catgtttgttgctactaactaacaggtaatatatatttgttctctttcaggGCCTCAGAGCAGGAGAAGACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAGAGTGTTACTTCCAAAGAGTCTCTAGATgtaagtaatcaagcaggctagctgccaattgttcctttctgactccccct Alignment from CESAR gGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG--------- catgtttgttgctactaactaacaggtaatatatatttgttctctttcaggGCCTCAGAGCAGGAGAAGACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAGAGTGTTACTTCCAAAGAGTCTCTAGATgtaagtaatcaagcaggctagctgccaattgttcctttctgactccccct Alignment from Spaln_aa2Genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG--------- catgtttgttgctactaactaacaggtaatatatatttgttctctttcagGGCCTCAGAGCAGGAGAAGACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAGAGTGTTACTTCCAAAGAGTCTCTAGATgtaagtaatcaagcaggctagctgccaattgttcctttctgactccccct Alignment from Spaln_nt2Genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGA catgtttgttgctactaactaacaggtaatatatatttgttctctttcagGGCCTCAGAGCAGGAGAAGACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAGAGTGTTACTTCCAAAGAgtctctagatgtaagtaatcaagcaggctagctgccaattgttcctttctgactccccct Alignment from Pairagon GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG--------- catgtttgttgctactaactaacaggtaatatatatttgttctctttcagGGCCTCAGAGCAGGAGAAGACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAGAGTGTTACTTCCAAAGAGTCTCTAGATgtaagtaatcaagcaggctagctgccaattgttcctttctgactccccct Alignment from Exonerate_protein2genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAGATCCGTCAG catgtttgttgctactaactaacaggtaatatatatttgttctctttcagGGCCTCAGAGCAGGAGAAGACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAGAGTGTTACTTCCAAAGAGTCTCTAGATgtaagtaatcaagcaggctagctgccaattgttcctttctgactccccct Alignment from Exonerate_coding2genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAGATCCGTCAG catgtttgttgctactaactaacaggtaatatatatttgttctctttcagGGCCTCAGAGCAGGAGAAGACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAGAGTGTTACTTCCAAAGAGTCTCTAGATgtaagtaatcaagcaggctagctgccaattgttcctttctgactccccct Alignment from GeneWise GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG--------- catgtttgttgctactaactaacaggtaatatatatttgttctctttcagGGCCTCAGAGCAGGAGAAGACAGAGCAGGCAATTCTGATAGAATTGTGGCAAGTGTTAGATACTAGTGATCTAGAGAGTGTTACTTCCAAAGAGTCTCTAGATgtaagtaatcaagcaggctagctgccaattgttcctttctgactccccct #### Ssh3_ID449_7 --> 1 - 2 Original Alignment g---GCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGAca tacctggttgaccatctaggcccaaggctacgtaaatgattttcctataggGGCGCCACATTGCAAGTATTGCACCAGGCCTGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGAAGTGCTCTAGCATGGGCTACTTACTACCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCCGACCTGGAGTCATTTCGACCACCCAATGCAGAGCCCACAcagtaagtggcgggacaggatgaagcagaaaaattatgtggaacatgtttgt Alignment from CESAR g---GCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGAca tacctggttgaccatctaggcccaaggctacgtaaatgattttcctataggGGCGCCACATTGCAAGTATTGCACCAGGCCTGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGAAGTGCTCTAGCATGGGCTACTTACTACCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCCGACCTGGAGTCATTTCGACCACCCAATGCAGAGCCCACAcagtaagtggcgggacaggatgaagcagaaaaattatgtggaacatgtttgt Alignment from Spaln_aa2Genome GGCCACACTGCAGGTA---TTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tacctggttgaccatctaggcccaaggctacgtaaatgattttcctatagGGGCGCCACATTGCAAGTATTGCACCAGGCCTGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGAAGTGCTCTAGCATGGGCTACTTACTACCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCCGACCTGGAGTCATTTCGACCACCCAATGCAGAGCCCACACAgtaagtggcgggacaggatgaagcagaaaaattatgtggaacatgtttgt Alignment from Spaln_nt2Genome GGCCACACTGCA---GGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tacctggttgaccatctaggcccaaggctacgtaaatgattttcctatagGGGCGCCACATTGCAAGTATTGCACCAGGCCTGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGAAGTGCTCTAGCATGGGCTACTTACTACCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCCGACCTGGAGTCATTTCGACCACCCAATGCAGAGCCCACACAgtaagtggcgggacaggatgaagcagaaaaattatgtggaacatgtttgt Alignment from Pairagon GTGGGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tacctggttgaccatctaggcccaaggctacgtaaatgattttcctatagGGGCGCCACATTGCAAGTATTGCACCAGGCCTGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGAAGTGCTCTAGCATGGGCTACTTACTACCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCCGACCTGGAGTCATTTCGACCACCCAATGCAGAGCCCACACAgtaagtggcgggacaggatgaagcagaaaaattatgtggaacatgtttgt Alignment from Exonerate_protein2genome GTGGGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tacctggttgaccatctaggcccaaggctacgtaaatgattttcctatagGGGCGCCACATTGCAAGTATTGCACCAGGCCTGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGAAGTGCTCTAGCATGGGCTACTTACTACCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCCGACCTGGAGTCATTTCGACCACCCAATGCAGAGCCCACACAgtaagtggcgggacaggatgaagcagaaaaattatgtggaacatgtttgt Alignment from Exonerate_coding2genome GTGGGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tacctggttgaccatctaggcccaaggctacgtaaatgattttcctatagGGGCGCCACATTGCAAGTATTGCACCAGGCCTGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGAAGTGCTCTAGCATGGGCTACTTACTACCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCCGACCTGGAGTCATTTCGACCACCCAATGCAGAGCCCACACAgtaagtggcgggacaggatgaagcagaaaaattatgtggaacatgtttgt Alignment from GeneWise -TGGGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA tacctggttgaccatctaggcccaaggctacgtaaatgattttcctatagGGGCGCCACATTGCAAGTATTGCACCAGGCCTGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGAAGTGCTCTAGCATGGGCTACTTACTACCAGGTGAAGCTTAACTCTGATCAGGGCTGCCTAAATGAATGGATGGCAATGTCCGACCTGGAGTCATTTCGACCACCCAATGCAGAGCCCACACAgtaagtggcgggacaggatgaagcagaaaaattatgtggaacatgtttgt #### Ssh3_ID451_5 --> 1 - 2 Original Alignment tTCCCAC---------AGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGAT---gg gttgaggctcaaatgtactggtgagcaatttcactcctatttcccctcagtTGCCACAGCTGCACCAGTTGCACGCTTGGACTTGTCCTGCCCCTCTGGAGTGATACTCATGTATACCTATACGGAGATTTTgggtatgagggtctcccttggagaaacaagatagggctgagaaaagtagacc Alignment from CESAR tTCCCACAGCTGCACC---------CTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGAT---gg gttgaggctcaaatgtactggtgagcaatttcactcctatttcccctcagtTGCCACAGCTGCACCAGTTGCACGCTTGGACTTGTCCTGCCCCTCTGGAGTGATACTCATGTATACCTATACGGAGATTTTgggtatgagggtctcccttggagaaacaagatagggctgagaaaagtagacc Alignment from Spaln_aa2Genome TTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGGGGG gttgaggctcaaatgtactggtgagcaatttcactcctatttcccctcagttgccacagCTGCACCAGTTGCACGCTTGGACTTGTCCTGCCCCTCTGGAGTGATACTCATGTATACCTATACGGAGATTTTGGgtatgagggtctcccttggagaaacaagatagggctgagaaaagtagacc Alignment from Spaln_nt2Genome TTCCCACAGCTGCACC---------CTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGGGGG gttgaggctcaaatgtactggtgagcaatttcactcctatttcccctcagTTGCCACAGCTGCACCAGTTGCACGCTTGGACTTGTCCTGCCCCTCTGGAGTGATACTCATGTATACCTATACGGAGATTTTGGgtatgagggtctcccttggagaaacaagatagggctgagaaaagtagacc Alignment from Pairagon TTCCCACAGCTGCACC---------CTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGGGGG gttgaggctcaaatgtactggtgagcaatttcactcctatttcccctcagTTGCCACAGCTGCACCAGTTGCACGCTTGGACTTGTCCTGCCCCTCTGGAGTGATACTCATGTATACCTATACGGAGATTTTGGgtatgagggtctcccttggagaaacaagatagggctgagaaaagtagacc Alignment from Exonerate_protein2genome TTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGGGGG gttgaggctcaaatgtactggtgagcaatttcactcctatttcccctcagttgccacagCTGCACCAGTTGCACGCTTGGACTTGTCCTGCCCCTCTGGAGTGATACTCATGTATACCTATACGGAGATTTTGGgtatgagggtctcccttggagaaacaagatagggctgagaaaagtagacc Alignment from Exonerate_coding2genome TTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGGGGG gttgaggctcaaatgtactggtgagcaatttcactcctatttcccctcagttgccacagCTGCACCAGTTGCACGCTTGGACTTGTCCTGCCCCTCTGGAGTGATACTCATGTATACCTATACGGAGATTTTGGgtatgagggtctcccttggagaaacaagatagggctgagaaaagtagacc Alignment from GeneWise TTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGGGGG gttgaggctcaaatgtactggtgagcaatttcactcctatttcccctcagttgccacagCTGCACCAGTTGCACGCTTGGACTTGTCCTGCCCCTCTGGAGTGATACTCATGTATACCTATACGGAGATTTTGGgtatgagggtctcccttggagaaacaagatagggctgagaaaagtagacc #### Stip1_ID1988_13 --> 0 - 2 Original Alignment GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCT------------GAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCga cacatatatagtattgatgtgctccgcgactaatcttgtttcctaaacag---GCAGCAGATGGATACCAACGGTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAAGTGACA------------------CCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATACTGGAGCAAATGCAAAAAGACCCCCAGGCTTTGAGTgagtatgttacacagagatggaagaatgggagagaaatttttatttgcatgc Alignment from CESAR GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGC------------CCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCga aaacacatatatagtattgatgtgcgcgactaatcttgtttcctaaacag---GCAGCAGATGGATACCAACGGTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAAGTGACA------------------CCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATACTGGAGCAAATGCAAAAAGACCCCCAGGCTTTGAGTgagtatgttacacagagatggaagaatgggagagaaatttttatttgcatgc Alignment from Spaln_aa2Genome GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA cacatatatagtattgatgtgctccgcgactaatcttgtttcctaaacag---GCAGCAGATGGATACCAACGGTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAAGTGACA------CCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATACTGGAGCAAATGCAAAAAGACCCCCAGGCTTTGAGTGAgtatgttacacagagatggaagaatgggagagaaatttttatttgcatgc Alignment from Spaln_nt2Genome GCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGAC-CCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA cacatatatagtattgatgtgctccgcgactaatcttgtttcctaaacagGCAGCAGATGGATACCAACGGTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGA----CAGCCCTGAGGAA---GTGACACCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATACTGGAGCAAATGCAAAAAGACCCCCAGGCTTTGAGTGAgtatgttacacagagatggaagaatgggagagaaatttttatttgcatgc Alignment from Pairagon GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAG------------ACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA cacatatatagtattgatgtgctccgcgactaatcttgtttcctaaacag---GCAGCAGATGGATACCAACGGTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAAGTGACA------------------CCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATACTGGAGCAAATGCAAAAAGACCCCCAGGCTTTGAGTGAgtatgttacacagagatggaagaatgggagagaaatttttatttgcatgc Alignment from Exonerate_protein2genome GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA cacatatatagtattgatgtgctccgcgactaatcttgtttcctaaaCAGGCAGCAGATGGATACCAACGGTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAA------GTGACACCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATACTGGAGCAAATGCAAAAAGACCCCCAGGCTTTGAGTGAgtatgttacacagagatggaagaatgggagagaaatttttatttgcatgc Alignment from Exonerate_coding2genome GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA cacatatatagtattgatgtgctccgcgactaatcttgtttcctaaaCAGGCAGCAGATGGATACCAACGGTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAA------GTGACACCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATACTGGAGCAAATGCAAAAAGACCCCCAGGCTTTGAGTGAgtatgttacacagagatggaagaatgggagagaaatttttatttgcatgc Alignment from GeneWise GCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA cacatatatagtattgatgtgctccgcgactaatcttgtttcctaaacagGCAGCAGATGGATACCAACGGTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAAGTGACA------CCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATACTGGAGCAAATGCAAAAAGACCCCCAGGCTTTGAGTGAgtatgttacacagagatggaagaatgggagagaaatttttatttgcatgc #### Stip1_ID1994_7 --> 2 - 2 Original Alignment ct------------------------------------------------GTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCaa gttgatttgtctggcttttttatctaacctccctgctcttcccctgacagctTTTGAGATGTTCTACAGCCCTGAGAACGTGGCCTTTCGGATTGACCTGGTGCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGACTACCGGCAAATTGCTaagtttgccatcaaattcagaggcttaggcaaggcacctttcttgctgccta Alignment from CESAR gttgtggcatgggtaggatgatcactcggcaatgattgtctgccagtactc Alignment from Spaln_aa2Genome GCAGCT------------------GTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA gttgatttgtctggcttttttatctaacctccctgctcttcccctgacagcttttgagatgttctacagccctgagAACGTGGCCTTTCGGATTGACCTGGTGCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGACTACCGGCAAATTGCTAAgtttgccatcaaattcagaggcttaggcaaggcacctttcttgctgccta Alignment from Spaln_nt2Genome ---------------------CTG-TGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA gttgatttgtctggcttttttatctaacctccctgctcttcccctgacagcttttgagatgttctacagccctgagAACGTGGCCTTTCGGATTGACCTGGTGCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGACTACCGGCAAATTGCTAAgtttgccatcaaattcagaggcttaggcaaggcacctttcttgctgccta Alignment from Pairagon ----------------------------------------------------------------------------------------------------GTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA GTTGATTTGTCTGGCTTTTTTATCTAACCTCCCTGCTCTTCCCCTGACAGCTTTTGAGATGTTCTACAGCCCTGAGAACGTGGCCTTTCGGATTGACCTGGTGCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGACTACCGGCAAATTGCTAAgtttgccatcaaattcagaggcttaggcaaggcacctttcttgctgccta Alignment from Exonerate_protein2genome CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA gttgatttgtctggcttttttatctaacctccctgctcttcccctgacagcttttgagatgttctacagccctgagaacgtggcctttcggattgaccTGGTGCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGACTACCGGCAAATTGCTAAgtttgccatcaaattcagaggcttaggcaaggcacctttcttgctgccta Alignment from Exonerate_coding2genome CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA gttgatttgtctggcttttttatctaacctccctgctcttcccctgacagcttttgagatgttctacagccctgagaacgtggcctttcggattgaccTGGTGCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGACTACCGGCAAATTGCTAAgtttgccatcaaattcagaggcttaggcaaggcacctttcttgctgccta Alignment from GeneWise ----------------------------------------------------------------------------------------------------GTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA GTTGATTTGTCTGGCTTTTTTATCTAACCTCCCTGCTCTTCCCCTGACAGCTTTTGAGATGTTCTACAGCCCTGAGAACGTGGCCTTTCGGATTGACCTGGTGCACTTTGACAAGGGTGATTATAATGAATGTCGGGATCTCTGTGAAAAGGCTATAGAGGTTGGAAGAGAGAACCGAGAGGACTACCGGCAAATTGCTAAgtttgccatcaaattcagaggcttaggcaaggcacctttcttgctgccta #### Stx3_ID3299_7 --> 2 - 0 Original Alignment ct---GGCAAGAAGACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG ccagactctccttcttcctaaattttgttgcctctcaatgggacggacagctTTTGGCAAGAAGACAACAGATGAAGAGCTAGAGGAGATGTTAGAGAGTGGTAATCCAGCCATCTTCACTTCTGGGgtgagttacatatgtgcttggttatagtccaagtatattgccatggacca Alignment from CESAR ct---GGCAAGAAGACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG ccagactctccttcttcctaaattttgttgcctctcaatgggacggacagctTTTGGCAAGAAGACAACAGATGAAGAGCTAGAGGAGATGTTAGAGAGTGGTAATCCAGCCATCTTCACTTCTGGGgtgagttacatatgtgcttggttatagtccaagtatattgccatggacca Alignment from Spaln_aa2Genome CTGGCAAGAAGACA---ACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG ccagactctccttcttcctaaattttgttgcctctcaatgggacggacagCTTTTGGCAAGAAGACAACAGATGAAGAGCTAGAGGAGATGTTAGAGAGTGGTAATCCAGCCATCTTCACTTCTGGGgtgagttacatatgtgcttggttatagtccaagtatattgccatggacca Alignment from Spaln_nt2Genome CTGGCAAGAA---GACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG ccagactctccttcttcctaaattttgttgcctctcaatgggacggacagCTTTTGGCAAGAAGACAACAGATGAAGAGCTAGAGGAGATGTTAGAGAGTGGTAATCCAGCCATCTTCACTTCTGGGgtgagttacatatgtgcttggttatagtccaagtatattgccatggacca Alignment from Pairagon C---TGGCAAGAAGACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG ccagactctccttcttcctaaattttgttgcctctcaatgggacggacagCTTTTGGCAAGAAGACAACAGATGAAGAGCTAGAGGAGATGTTAGAGAGTGGTAATCCAGCCATCTTCACTTCTGGGgtgagttacatatgtgcttggttatagtccaagtatattgccatggacca Alignment from Exonerate_protein2genome GAAGACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG ccagactctccttcttcctaaattttgttgcctctcaatgggacggacagcttttggcaaGAAGACAACAGATGAAGAGCTAGAGGAGATGTTAGAGAGTGGTAATCCAGCCATCTTCACTTCTGGGgtgagttacatatgtgcttggttatagtccaagtatattgccatggacca Alignment from Exonerate_coding2genome GAAGACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG ccagactctccttcttcctaaattttgttgcctctcaatgggacggacagcttttggcaaGAAGACAACAGATGAAGAGCTAGAGGAGATGTTAGAGAGTGGTAATCCAGCCATCTTCACTTCTGGGgtgagttacatatgtgcttggttatagtccaagtatattgccatggacca Alignment from GeneWise --ACTGGCAAGAAGACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG ccagactctccttcttcctaaattttgttgcctctcaatgggacggacagCTTTTGGCAAGAAGACAACAGATGAAGAGCTAGAGGAGATGTTAGAGAGTGGTAATCCAGCCATCTTCACTTCTGGGgtgagttacatatgtgcttggttatagtccaagtatattgccatggacca #### Stx5a_ID2331_3 --> 1 - 1 Original Alignment gCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATCt cctcagtttctcacacatcatgtcgccccacacttctcttgttctttcagg---------AAAGATCTGAGTAATACATTTGCCAAACTTGAGAAGTTAACAATCtgtaagcatctcctaggcctttcaaggtgagacttaaatccccgctcccca Alignment from CESAR gCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATCt atggcatcacctcagtttctcacacccccacacttctcttgttctttcagg---------AAAGATCTGAGTAATACATTTGCCAAACTTGAGAAGTTAACAATCtgtaagcatctcctaggcctttcaaggtgagacttaaatccccgctcccca Alignment from Spaln_aa2Genome GCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATCT cctcagtttctcacacatcatgtcgccccacacttctcttgttctttcagG---------AAAGATCTGAGTAATACATTTGCCAAACTTGAGAAGTTAACAATCTgtaagcatctcctaggcctttcaaggtgagacttaaatccccgctcccca Alignment from Spaln_nt2Genome GAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATCT cctcagtttctcacacatcatgtcgccccacacttctcttgttctttcagGAAAGATCTGAGTAATACATTTGCCAAACTTGAGAAGTTAACAATCTgtaagcatctcctaggcctttcaaggtgagacttaaatccccgctcccca Alignment from Pairagon GCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATCT cctcagtttctcacacatcatgtcgccccacacttctcttgttctttcag---------GAAAGATCTGAGTAATACATTTGCCAAACTTGAGAAGTTAACAATCTgtaagcatctcctaggcctttcaaggtgagacttaaatccccgctcccca Alignment from Exonerate_protein2genome AAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATCT cctcagtttctcacacatcatgtcgccccacacttctcttgttctttcaggAAAGATCTGAGTAATACATTTGCCAAACTTGAGAAGTTAACAATCTgtaagcatctcctaggcctttcaaggtgagacttaaatccccgctcccca Alignment from Exonerate_coding2genome AAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATCT cctcagtttctcacacatcatgtcgccccacacttctcttgttctttcaggAAAGATCTGAGTAATACATTTGCCAAACTTGAGAAGTTAACAATCTgtaagcatctcctaggcctttcaaggtgagacttaaatccccgctcccca Alignment from GeneWise ---------------------------------------------------AAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATCT CCTCAGTTTCTCACACATCATGTCGCCCCACACTTCTCTTGTTCTTTCAGGAAAGATCTGAGTAATACATTTGCCAAACTTGAGAAGTTAACAATCTgtaagcatctcctaggcctttcaaggtgagacttaaatccccgctcccca #### Stx5a_ID2334_6 --> 0 - 0 Original Alignment TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAG caacataaatttcaactctaccccacctgtggctgtttctgtgtctgcag------------TCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAGgtgagtgggataagcagttcactgggctttgattgtgcaatcttcttccc Alignment from CESAR TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAG ttggggggaaaacaacataaatttccctgtggctgtttctgtgtctgcag------------TCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAGgtgagtgggataagcagttcactgggctttgattgtgcaatcttcttccc Alignment from Spaln_aa2Genome TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAG caacataaatttcaactctaccccacctgtggctgtttctgtgtctgcag------------TCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAGgtgagtgggataagcagttcactgggctttgattgtgcaatcttcttccc Alignment from Spaln_nt2Genome TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAG caacataaatttcaactctaccccacctgtggctgtttctgtgtctgcag------------TCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAGgtgagtgggataagcagttcactgggctttgattgtgcaatcttcttccc Alignment from Pairagon TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAG caacataaatttcaactctaccccacctgtggctgtttctgtgtctgcag------------TCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAGgtgagtgggataagcagttcactgggctttgattgtgcaatcttcttccc Alignment from Exonerate_protein2genome TCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAG caacataaatttcaactctaccccacctgtggctgtttctgtgtctgcagTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAGgtgagtgggataagcagttcactgggctttgattgtgcaatcttcttccc Alignment from Exonerate_coding2genome TCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAG caacataaatttcaactctaccccacctgtggctgtttctgtgtctgcagTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAGgtgagtgggataagcagttcactgggctttgattgtgcaatcttcttccc Alignment from GeneWise TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAG caacataaatttcaactctaccccacctgtggctgtttctgtgtctgcagTCT------------ATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAGgtgagtgggataagcagttcactgggctttgattgtgcaatcttcttccc #### Suv420h1_ID146_8 --> 0 - 2 Original Alignment TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAA---ag tatttggcttgcttaatgtcaggtgttaggactttgttttttggttttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAACCaggtaagcacccaagccctctacctatcttccatggaggagtattgttgtga Alignment from CESAR TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAA---ag tatttggcttgcttaatgtcaggtgttaggactttgttttttggttttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAACCaggtaagcacccaagccctctacctatcttccatggaggagtattgttgtga Alignment from Spaln_aa2Genome TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAGA-- tatttggcttgcttaatgtcaggtgttaggactttgttttttggttttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAACCAGgtaagcacccaagccctctacctatcttccatggaggagtattgttgtga Alignment from Spaln_nt2Genome TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAA---G tatttggcttgcttaatgtcaggtgttaggactttgttttttggttttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAACCAGgtaagcacccaagccctctacctatcttccatggaggagtattgttgtga Alignment from Pairagon TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAA---AG tatttggcttgcttaatgtcaggtgttaggactttgttttttggttttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAACCAGgtaagcacccaagccctctacctatcttccatggaggagtattgttgtga Alignment from Exonerate_protein2genome TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAA---AG tatttggcttgcttaatgtcaggtgttaggactttgttttttggttttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAACCAGgtaagcacccaagccctctacctatcttccatggaggagtattgttgtga Alignment from Exonerate_coding2genome ATTGCAGACCTAACTGTAAGTTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAA---AG tatttggcttgcttaatgtcaggtgttaggACTTTGTTTTTTGGTTTTAGTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAACCAGgtaagcacccaagccctctacctatcttccatggaggagtattgttgtga Alignment from GeneWise TTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAGA-- tatttggcttgcttaatgtcaggtgttaggactttgttttttggttttagTTTGTGTCAACTGGACGAGATACAGTATGTGTGAAGGCTCTGAGAGATATTGAACCTGGAGAAGAGATCTCTTGTTATTATGGAGATGGGTTTTTTGGAGAAAATAATGAGTTCTGTGAGTGTTATACTTGTGAAACCAGgtaagcacccaagccctctacctatcttccatggaggagtattgttgtga #### Syvn1_ID1388_7 --> 2 - 2 Original Alignment gcTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGag tctgccaaccttgcagttggcatttttctggtcttaattcctttttgaaggc------AAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGaggtaagataggccttacatttgttagtttgtcaccttgatatttgtcttcc Alignment from CESAR gcTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGag ggtgcatctgccaaccttgcagttgttctggtcttaattcctttttgaaggc------AAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGaggtaagataggccttacatttgttagtttgtcaccttgatatttgtcttcc Alignment from Spaln_aa2Genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG tctgccaaccttgcagttggcatttttctggtcttaattcctttttgaagGC------AAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGAGgtaagataggccttacatttgttagtttgtcaccttgatatttgtcttcc Alignment from Spaln_nt2Genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG tctgccaaccttgcagttggcatttttctggtcttaattcctttttgaagG------CAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGAGgtaagataggccttacatttgttagtttgtcaccttgatatttgtcttcc Alignment from Pairagon GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG tctgccaaccttgcagttggcatttttctggtcttaattcctttttgaagG------CAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGAGgtaagataggccttacatttgttagtttgtcaccttgatatttgtcttcc Alignment from Exonerate_protein2genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG tctgccaaccttgcagttggcatttttctggtcttaattcctttttgaagGC------AAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGAGgtaagataggccttacatttgttagtttgtcaccttgatatttgtcttcc Alignment from Exonerate_coding2genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG tctgccaaccttgcagttggcatttttctggtcttaattcctttttgaagGC------AAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGAGgtaagataggccttacatttgttagtttgtcaccttgatatttgtcttcc Alignment from GeneWise GTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG tctgccaaccttgcagttggcatttttctggtcttaattcctttttgaaggcaagGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGAGgtaagataggccttacatttgttagtttgtcaccttgatatttgtcttcc #### Syvn1_ID1392_11 --> 2 - 1 Original Alignment tcCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAg ggtcgtactgacagctgagtcttgtcctgccccgtgggctccccttgcagtcCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTACTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCTGCTGCTCCACCCACA------ggtgagtcgcagtgtgtgtaagccagagtgattttgagagcagtggacagg Alignment from CESAR tcCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAg ggtcgtactgacagctgagtcttgtcctgccccgtgggctccccttgcagtcCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTACTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCTGCTGCTCCACCC------ACAggtgagtcgcagtgtgtgtaagccagagtgattttgagagcagtggacagg Alignment from Spaln_aa2Genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACC- ggtcgtactgacagctgagtcttgtcctgccccgtgggctccccttgcagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTACTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCTGCTGCTCCACCCACAGgtgagtcgcagtgtgtgtaagccagagtgattttgagagcagtggacagg Alignment from Spaln_nt2Genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAG ggtcgtactgacagctgagtcttgtcctgccccgtgggctccccttgcagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTACTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCTGCTGCTCCACCCA-CAGgtgagtcgcagtgtgtgtaagccagagtgattttgagagcagtggacagg Alignment from Pairagon TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG ggtcgtactgacagctgagtcttgtcctgccccgtgggctccccttgcagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTACTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCTGCTGCTCCACCC------ACAGgtgagtcgcagtgtgtgtaagccagagtgattttgagagcagtggacagg Alignment from Exonerate_protein2genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCA ggtcgtactgacagctgagtcttgtcctgccccgtgggctccccttgcagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTACTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCTGCTGCTCCACCCACAGgtgagtcgcagtgtgtgtaagccagagtgattttgagagcagtggacagg Alignment from Exonerate_coding2genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCA ggtcgtactgacagctgagtcttgtcctgccccgtgggctccccttgcagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTACTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCTGCTGCTCCACCCACAGgtgagtcgcagtgtgtgtaagccagagtgattttgagagcagtggacagg Alignment from GeneWise TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACC------AGTACAG ggtcgtactgacagctgagtcttgtcctgccccgtgggctccccttgcagTCCCCCAGGGCCTCCTGTCATCTTTTCCTCCAGGCATGTTCCTACTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCGAGCTCTGGAAAGGCTGCTGCTGCTCCACCCACAGGTGAGTCGCAGTgtgtgtaagccagagtgattttgagagcagtggacagg #### Syvn1_ID1393_12 --> 2 - 1 Original Alignment ccGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTg attgactcacttccaatttaccttatcgtttttttctcccttcccggaagct---TCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGCCCCCGATTTCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACCATTTggtaagttgcccatcaccctactctctttggcatgatgtcaaatactaagc Alignment from CESAR ccGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTg gtaattgactcacttccaatttacctcgtttttttctcccttcccggaagct---TCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGCCCCCGATTTCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACCATTTggtaagttgcccatcaccctactctctttggcatgatgtcaaatactaagc Alignment from Spaln_aa2Genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG attgactcacttccaatttaccttatcgtttttttctcccttcccggaagCT---TCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGCCCCCGATTTCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACCATTTGgtaagttgcccatcaccctactctctttggcatgatgtcaaatactaagc Alignment from Spaln_nt2Genome -TTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG attgactcacttccaatttaccttatcgtttttttctcccttcccggaagCTTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGCCCCCGATTTCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACCATTTGgtaagttgcccatcaccctactctctttggcatgatgtcaaatactaagc Alignment from Pairagon TTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG attgactcacttccaatttaccttatcgtttttttctcccttcccggaagCTTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGCCCCCGATTTCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACCATTTGgtaagttgcccatcaccctactctctttggcatgatgtcaaatactaagc Alignment from Exonerate_protein2genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG attgactcacttccaatttaccttatcgtttttttctcccttcccggAAGCTTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGCCCCCGATTTCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACCATTTGgtaagttgcccatcaccctactctctttggcatgatgtcaaatactaagc Alignment from Exonerate_coding2genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG attgactcacttccaatttaccttatcgtttttttctcccttcccggAAGCTTCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGCCCCCGATTTCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACCATTTGgtaagttgcccatcaccctactctctttggcatgatgtcaaatactaagc Alignment from GeneWise GTACAGCCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG attgactcacttccaatttaccttatcgtttttttctcccttcccggaagCT---------TCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTTCCAGCACAGGTCCCTCTGCCCCAGCACCTGGATCTGTACCAAGTGCAGAGGCTGGTCCTGCCCCCGATTTCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACCATTTGgtaagttgcccatcaccctactctctttggcatgatgtcaaatactaagc #### Syvn1_ID1394_13 --> 2 - 2 Original Alignment cc------TTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGgg caaatactaagccggtagctaggcctgatccccattggtctccctcacagccGGGGCTTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAATCAACCAATACCTCACTGTGCTGGCCTCCCTGgggtatgtacgcatgttcaattgcacatttccctgtagacagacctcctatt Alignment from CESAR cc------TTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGgg caaatactaagccggtagctaggcctgatccccattggtctccctcacagccGGGGCTTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAATCAACCAATACCTCACTGTGCTGGCCTCCCTGgggtatgtacgcatgttcaattgcacatttccctgtagacagacctcctatt Alignment from Spaln_aa2Genome CCTTCCCCCCA------ATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG caaatactaagccggtagctaggcctgatccccattggtctccctcacagCCGGGGCTTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAATCAACCAATACCTCACTGTGCTGGCCTCCCTGGGgtatgtacgcatgttcaattgcacatttccctgtagacagacctcctatt Alignment from Spaln_nt2Genome CCTTCCCCCCA------ATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG caaatactaagccggtagctaggcctgatccccattggtctccctcacagCCGGGGCTTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAATCAACCAATACCTCACTGTGCTGGCCTCCCTGGGgtatgtacgcatgttcaattgcacatttccctgtagacagacctcctatt Alignment from Pairagon -------------------------------------------------------GCCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG CAAATACTAAGCCGGTAGCTAGGCCTGATCCCCATTGGTCTCCCTCACAGCCGGGGCTTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAATCAACCAATACCTCACTGTGCTGGCCTCCCTGGGgtatgtacgcatgttcaattgcacatttccctgtagacagacctcctatt Alignment from Exonerate_protein2genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG caaatactaagccggtagctaggcctgatccccattggtctccctcacagccggggCTTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAATCAACCAATACCTCACTGTGCTGGCCTCCCTGGGgtatgtacgcatgttcaattgcacatttccctgtagacagacctcctatt Alignment from Exonerate_coding2genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG caaatactaagccggtagctaggcctgatccccattggtctccctcacagccggggCTTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAATCAACCAATACCTCACTGTGCTGGCCTCCCTGGGgtatgtacgcatgttcaattgcacatttccctgtagacagacctcctatt Alignment from GeneWise -----GCCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG caaatactaagccggtagctaggcctgatccccattggtctccctcacagCCGGGGCTTTCCCCCCAATGCCAGTACCACCTGCTGGATTTGCTGGTCTAACTCCAGAGGAGTTGTGTGCACTAGAAGGTCATGAGCGGCAAGACCTGGAGGCCTGTCTGCAGAGTCTGTGCAACATACACACACTACTGGATGCTGCGATGCTTCAAATCAACCAATACCTCACTGTGCTGGCCTCCCTGGGgtatgtacgcatgttcaattgcacatttccctgtagacagacctcctatt #### Taf5_ID10097_5 --> 1 - 0 Original Alignment aATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG agattccacacaatggactgtccacccgttccctttcttcctatccacaga------CTCCCGGAACTAAAGGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTTGTTAATGCTTACCAGgtgagtaagaaaccaggcagtgctatgtcacacaagtggtcacagctgca Alignment from CESAR aATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG gatacaagattccacacaatggactccgttccctttcttcctatccacaga------CTCCCGGAACTAAAGGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTTGTTAATGCTTACCAGgtgagtaagaaaccaggcagtgctatgtcacacaagtggtcacagctgca Alignment from Spaln_aa2Genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG agattccacacaatggactgtccacccgttccctttcttcctatccacagA------CTCCCGGAACTAAAGGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTTGTTAATGCTTACCAGgtgagtaagaaaccaggcagtgctatgtcacacaagtggtcacagctgca Alignment from Spaln_nt2Genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG agattccacacaatggactgtccacccgttccctttcttcctatccacagA------CTCCCGGAACTAAAGGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTTGTTAATGCTTACCAGgtgagtaagaaaccaggcagtgctatgtcacacaagtggtcacagctgca Alignment from Pairagon AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG agattccacacaatggactgtccacccgttccctttcttcctatccacagA------CTCCCGGAACTAAAGGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTTGTTAATGCTTACCAGgtgagtaagaaaccaggcagtgctatgtcacacaagtggtcacagctgca Alignment from Exonerate_protein2genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG agattccacacaatggactgtccacccgttccctttcttcctatCCACAGACTCCCGGAACTAAAGGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTTGTTAATGCTTACCAGgtgagtaagaaaccaggcagtgctatgtcacacaagtggtcacagctgca Alignment from Exonerate_coding2genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG agattccacacaatggactgtccacccgttccctttcttcctatCCACAGACTCCCGGAACTAAAGGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTTGTTAATGCTTACCAGgtgagtaagaaaccaggcagtgctatgtcacacaagtggtcacagctgca Alignment from GeneWise AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG agattccacacaatggactgtccacccgttccctttcttcctatccacagA------CTCCCGGAACTAAAGGATTCAGACAAACTAGACAAAATAATGAATATGAAAGAAACTACCAAACGGGTGCGCCTTGGGCCAGACTGTTTACCTTCAATTTGTTATTATACCTTTGTTAATGCTTACCAGgtgagtaagaaaccaggcagtgctatgtcacacaagtggtcacagctgca #### Tbc1d10c_ID398_6 --> 0 - 0 Original Alignment ------GAGGCCTTCTGGTGCTTGGTGCAGATCTGCGAGGTCTACCTCCCTGGCTACTATGGGCCCCACATG cttcttagttagactcgtatacacgcatgtgtccgtgtctccattgtcagCATGGTGAGGCCTTCTGGTGCTTAGTGCAGATCTGTGAGGTTTACCTCCCAGGCTACTATGGGCCCCACATGgtaagtgcttgggttgaagtttaaaaaggggcactgagccagtggaggcc Alignment from CESAR ------GAGGCCTTCTGGTGCTTGGTGCAGATCTGCGAGGTCTACCTCCCTGGCTACTATGGGCCCCACATG cttcttagttagactcgtatacacgcatgtgtccgtgtctccattgtcagCATGGTGAGGCCTTCTGGTGCTTAGTGCAGATCTGTGAGGTTTACCTCCCAGGCTACTATGGGCCCCACATGgtaagtgcttgggttgaagtttaaaaaggggcactgagccagtggaggcc Alignment from Spaln_aa2Genome GAGGCCTTCTGG------TGCTTGGTGCAGATCTGCGAGGTCTACCTCCCTGGCTACTATGGGCCCCACATG cttcttagttagactcgtatacacgcatgtgtccgtgtctccattgtcagCATGGTGAGGCCTTCTGGTGCTTAGTGCAGATCTGTGAGGTTTACCTCCCAGGCTACTATGGGCCCCACATGgtaagtgcttgggttgaagtttaaaaaggggcactgagccagtggaggcc Alignment from Spaln_nt2Genome GAGGCCTTCT------GGTGCTTGGTGCAGATCTGCGAGGTCTACCTCCCTGGCTACTATGGGCCCCACATG cttcttagttagactcgtatacacgcatgtgtccgtgtctccattgtcagCATGGTGAGGCCTTCTGGTGCTTAGTGCAGATCTGTGAGGTTTACCTCCCAGGCTACTATGGGCCCCACATGgtaagtgcttgggttgaagtttaaaaaggggcactgagccagtggaggcc Alignment from Pairagon ------GAGGCCTTCTGGTGCTTGGTGCAGATCTGCGAGGTCTACCTCCCTGGCTACTATGGGCCCCACATG cttcttagttagactcgtatacacgcatgtgtccgtgtctccattgtcagCATGGTGAGGCCTTCTGGTGCTTAGTGCAGATCTGTGAGGTTTACCTCCCAGGCTACTATGGGCCCCACATGgtaagtgcttgggttgaagtttaaaaaggggcactgagccagtggaggcc Alignment from Exonerate_protein2genome ---GAGGCCTTCTGGTGCTTGGTGCAGATCTGCGAGGTCTACCTCCCTGGCTACTATGGGCCCCACATG cttcttagttagactcgtatacacgcatgtgtccgtgtctccattgtcagcatGGTGAGGCCTTCTGGTGCTTAGTGCAGATCTGTGAGGTTTACCTCCCAGGCTACTATGGGCCCCACATGgtaagtgcttgggttgaagtttaaaaaggggcactgagccagtggaggcc Alignment from Exonerate_coding2genome ---GAGGCCTTCTGGTGCTTGGTGCAGATCTGCGAGGTCTACCTCCCTGGCTACTATGGGCCCCACATG cttcttagttagactcgtatacacgcatgtgtccgtgtctccattgtcagcatGGTGAGGCCTTCTGGTGCTTAGTGCAGATCTGTGAGGTTTACCTCCCAGGCTACTATGGGCCCCACATGgtaagtgcttgggttgaagtttaaaaaggggcactgagccagtggaggcc Alignment from GeneWise ------GAGGCCTTCTGGTGCTTGGTGCAGATCTGCGAGGTCTACCTCCCTGGCTACTATGGGCCCCACATG cttcttagttagactcgtatacacgcatgtgtccgtgtctccattgtcagCATGGTGAGGCCTTCTGGTGCTTAGTGCAGATCTGTGAGGTTTACCTCCCAGGCTACTATGGGCCCCACATGgtaagtgcttgggttgaagtttaaaaaggggcactgagccagtggaggcc #### Tbc1d10c_ID399_5 --> 1 - 0 Original Alignment gCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATAC------TGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG gaagggaataggggggaatatatgggagttgtttcttaaaatgtttatagaCAGCAAGGGCATCTACAGGTTATGAAAGCCTACAACCTGCACCACCCAGAACAAGGATATTGTCACTGTCAGGCA---------------------------------------------gcaagtgacctagatagaccctccatccctaataagacccaacctgactg Alignment from CESAR gCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG gaagggaataggggggaatatatgggagttgtttcttaaaatgtttatagaCAGCAAGGGCATCTACAGGTTATGAAAGCCTACAACCTGCACCACCCAGAACAAGGATATTGTCACTGTCAG---------GCA------------------------------gcaagtgacctagatagacc Alignment from Spaln_aa2Genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGCCAGGCTCAG gaagggaataggggggaatatatgggagttgtttcttaaaatgtttatagACAGCAAGGGCATCTACAGGTTATGAAAGCCTACAACCTGCACCACCCAGAACAAGGATATTGTCACTGTCAGgcagcaagtgacctagatagaccctccatccctaataagacccaacctgactg Alignment from Spaln_nt2Genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGCCAGGCTCAGGGA gaagggaataggggggaatatatgggagttgtttcttaaaatgtttatagACAGCAAGGGCATCTACAGGTTATGAAAGCCTACAACCTGCACCACCCAGAACAAGGATATTGTCACTGTCAGGCAgcaagtgacctagatagaccctccatccctaataagacccaacctgactg Alignment from Pairagon GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGCCAGGCTCAGGGA gaagggaataggggggaatatatgggagttgtttcttaaaatgtttatagACAGCAAGGGCATCTACAGGTTATGAAAGCCTACAACCTGCACCACCCAGAACAAGGATATTGTCACTGTCAGGCAgcaagtgacctagatagaccctccatccctaataagacccaacctgactg Alignment from Exonerate_protein2genome gaagggaataggggggaatatatgggagttgtttcttaaaatgtttatagacagcaagggcatctacaggttatgaaagcctacaacctgcaccacccagaacaaggatattgtcactgtcaggcagcaagtgacctagatagaccctccatccctaataagacccaacctgactg Alignment from Exonerate_coding2genome gaagggaataggggggaatatatgggagttgtttcttaaaatgtttatagacagcaagggcatctacaggttatgaaagcctacaacctgcaccacccagaacaaggatattgtcactgtcaggcagcaagtgacctagatagaccctccatccctaataagacccaacctgactg Alignment from GeneWise GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGCCAGGCTCAGGGACCT- gaagggaataggggggaatatatgggagttgtttcttaaaatgtttatagACAGCAAGGGCATCTACAGGTTATGAAAGCCTACAACCTGCACCACCCAGAACAAGGATATTGTCACTGTCAGGCAGCAAgtgacctagatagaccctccatccctaataagacccaacctgactg #### Tbc1d10c_ID401_3 --> 0 - 0 Original Alignment GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG ttttataatgtttgtttgctggctgtcctgagcaagtgattttgtttcag------ATACAATGTCACAAGGGCATTCCCACTGTCTTGCGTGCCCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAACCCTGGTACATATCAGgtaggaaggctaggaagtgcccttttactttgtttgtgataaagGAACTG Alignment from CESAR GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG gctcttttttataatgtttgtttgctcctgagcaagtgattttgtttcag------ATACAATGTCACAAGGGCATTCCCACTGTCTTGCGTGCCCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAACCCTGGTACATATCAGgtaggaaggctaggaagtgccctacattctgtccattgctccagGAACTG Alignment from Spaln_aa2Genome ATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG ttttataatgtttgtttgctggctgtcctgagcaagtgattttgtttcagATACAATGTCACAAGGGCATTCCCACTGTCTTGCGTGCCCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAACCCTGGTACATATCAGgtaggaaggctaggaagtgcccttttactttgtttgtgataaagGAACTG Alignment from Spaln_nt2Genome ATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG ttttataatgtttgtttgctggctgtcctgagcaagtgattttgtttcagATACAATGTCACAAGGGCATTCCCACTGTCTTGCGTGCCCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAACCCTGGTACATATCAGgtaggaaggctaggaagtgcccttttactttgtttgtgataaagGAACTG Alignment from Pairagon ATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG ttttataatgtttgtttgctggctgtcctgagcaagtgattttgtttcagATACAATGTCACAAGGGCATTCCCACTGTCTTGCGTGCCCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAACCCTGGTACATATCAGgtaggaaggctaggaagtgcccttttactttgtttgtgataaagGAACTG Alignment from Exonerate_protein2genome ATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG ttttataatgtttgtttgctggctgtcctgagcaagtgattttgtttcagATACAATGTCACAAGGGCATTCCCACTGTCTTGCGTGCCCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAACCCTGGTACATATCAGgtaggaaggctaggaagtgcccttttactttgtttgtgataaagGAACTG Alignment from Exonerate_coding2genome ATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG ttttataatgtttgtttgctggctgtcctgagcaagtgattttgtttcagATACAATGTCACAAGGGCATTCCCACTGTCTTGCGTGCCCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAACCCTGGTACATATCAGgtaggaaggctaggaagtgcccttttactttgtttgtgataaagGAACTG Alignment from GeneWise ------------GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG GAGCTG ttttataatgtttgtttgctggctgtcctgagCAAGTGATTTTGTTTCAGATACAATGTCACAAGGGCATTCCCACTGTCTTGCGTGCCCGGTGCTGGCCCCTCCTATGTGGTGCCCGGATGTGTCAGAAGAATAACCCTGGTACATATCAGgtaggaaggctaggaagtgcccttttactttgtttgtgataaagGAACTG #### Tcirg1_ID169_18 --> 2 - 2 Original Alignment agCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACtg acaggtttacaatgctcttaggccccattcctcaaatgaccaattggcagag------GAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTTGCAATTCTGTTAGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTACATtggtgagagtgatatctatttgatgggatttggcagggaccataggttgatt Alignment from CESAR agCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACtg catgtcacaggtttacaatgctcttcattcctcaaatgaccaattggcagag------GAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTTGCAATTCTGTTAGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTACATtggtgagagtgatatctatttgatgggatttggcagggaccataggttgatt Alignment from Spaln_aa2Genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG acaggtttacaatgctcttaggccccattcctcaaatgaccaattggcagAG------GAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTTGCAATTCTGTTAGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTACATTGgtgagagtgatatctatttgatgggatttggcagggaccataggttgatt Alignment from Spaln_nt2Genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG acaggtttacaatgctcttaggccccattcctcaaatgaccaattggcagAG------GAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTTGCAATTCTGTTAGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTACATTGgtgagagtgatatctatttgatgggatttggcagggaccataggttgatt Alignment from Pairagon AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG acaggtttacaatgctcttaggccccattcctcaaatgaccaattggcagAG------GAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTTGCAATTCTGTTAGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTACATTGgtgagagtgatatctatttgatgggatttggcagggaccataggttgatt Alignment from Exonerate_protein2genome GAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG acaggtttacaatgctcttaggccccattcctcaaatgaccaattggcagagGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTTGCAATTCTGTTAGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTACATTGgtgagagtgatatctatttgatgggatttggcagggaccataggttgatt Alignment from Exonerate_coding2genome GAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTGGGTGGAG acaggtttacaatgctcttaggccccattcctcaaatgaccaattggcagagGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTTGCAATTCTGTTAGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTACATTGGTGAGAGtgatatctatttgatgggatttggcagggaccataggttgatt Alignment from GeneWise CTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG acaggtttacaatgctcttaggccccattcctcaaatgaccaattggcagAGGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTCGCAGCTGTAGTATTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTTGCAATTCTGTTAGTAATGGAGGGTCTTTTAGCCTTCTTACATGCTCTGCGGTTACATTGgtgagagtgatatctatttgatgggatttggcagggaccataggttgatt #### Tcirg1_ID172_15 --> 0 - 0 Original Alignment GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG--- agataatgtaactccaattcaacatgcagatttttaaaattaatttttagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTACGTGAGCACCAGCACAGAAGAAACTCCCAAAGACGA---GCAGGCCAACAGAAAgtaaaaacatagtgtttgggctaagtgctgacacatgtaacctcttcttc Alignment from CESAR GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG--- agataatgtaactccaattcaacatgcagatttttaaaattaatttttagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTACGTGAGCACCAGCACAGAAGAAACTCCCAAAGACGA---GCAGGCCAACAGAAAgtaaaaacatagtgtttgggctaagtgctgacacatgtaacctcttcttc Alignment from Spaln_aa2Genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG agataatgtaactccaattcaacatgcagatttttaaaattaatttttagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTACGTGAGCACCAGCACAGAAGAAACTCCCAAAGACGAGCAGGCCAACAGAAAgtaaaaacatagtgtttgggctaagtgctgacacatgtaacctcttcttc Alignment from Spaln_nt2Genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG--- agataatgtaactccaattcaacatgcagatttttaaaattaatttttagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTACGTGAGCACCAGCACAGAAGAAACTCCCA---AAGACGAGCAGGCCAACAGAAAgtaaaaacatagtgtttgggctaagtgctgacacatgtaacctcttcttc Alignment from Pairagon GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG--- agataatgtaactccaattcaacatgcagatttttaaaattaatttttagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTACGTGAGCACCAGCACAGAAGAAACTCCCA---AAGACGAGCAGGCCAACAGAAAgtaaaaacatagtgtttgggctaagtgctgacacatgtaacctcttcttc Alignment from Exonerate_protein2genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG agataatgtaactccaattcaacatgcagatttttaaaattaatttttagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTACGTGAGCACCAGCACAGAAGAAACTCCCAAAGACGAGCAGGCCAACAGAAAgtaaaaacatagtgtttgggctaagtgctgacacatgtaacctcttcttc Alignment from Exonerate_coding2genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG agataatgtaactccaattcaacatgcagatttttaaaattaatttttagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTACGTGAGCACCAGCACAGAAGAAACTCCCAAAGACGAGCAGGCCAACAGAAAgtaaaaacatagtgtttgggctaagtgctgacacatgtaacctcttcttc Alignment from GeneWise GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAGGAT agataatgtaactccaattcaacatgcagatttttaaaattaatttttagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCATTATACCTCCTACGTGAGCACCAGCACAGAAGAAACTCCCAAAGACGA---GCAGGCCAACAGAAAgtaaaaacatagtgtttgggctaagtgctgacacatgtaacctcttcttc #### Tcirg1_ID173_14 --> 1 - 0 Original Alignment gCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG------ agtcttgcctcatcctgatgggaataattcagtgccctcttgttttgcaggCACTTTGGCCAGGCCCACAGGCTGCTGCTTGGGACGTTGTCAGAGCTCATCTTCCTCCTGGGCCTC------TATCTGGTGCTCCTGATTGTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCC------ATTATCCACTTCATCAAT---TTCCTCTTCTCCCAGAACCCC---AATCATCTGCTGTTCCATGGGCAGCCCCCAgtaagtagtgcgtgaccctgtcatcagggttgttctagtgtcatatagca Alignment from CESAR gCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG------ agtcttgcctcatcctgatgggaataattcagtgccctcttgttttgcaggCACTTTGGCCAGGCCCACAGGCTGCTGCTTGGGACGTTGTCAGAGCTCATCTTCCTCCTGGGCCTC------TATCTGGTGCTCCTGATTGTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCC------ATTATCCACTTCATCAAT---TTCCTCTTCTCCCAGAACCCC---AATCATCTGCTGTTCCATGGGCAGCCCCCAgtaagtagtgcgtgaccctgtcatcagggttgttctagtgtcatatagca Alignment from Spaln_aa2Genome GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG------ agtcttgcctcatcctgatgggaataattcagtgccctcttgttttgcagGCACTTTGGCCAGGCCCACAGGCTGCTGCTTGGGACGTTGTCAGAGCTCATCTTCCTCCTGGGCCTC------TATCTGGTGCTCCTGATTGTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCC------ATTATCCACTTCATCAAT---TTCCTCTTCTCCCAGAACCCC---AATCATCTGCTGTTCCATGGGCAGCCCCCAgtaagtagtgcgtgaccctgtcatcagggttgttctagtgtcatatagca Alignment from Spaln_nt2Genome GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG------ agtcttgcctcatcctgatgggaataattcagtgccctcttgttttgcagGCACTTTGGCCAGGCCCACAGGCTGCTGCTTGGGACGTTGTCAGAGCTCATCTTCCTCCTGGGCCTCTAT------CTGGTGCTCCTGATTGTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCCATTATC------CACTTCATCAAT---TTCCTCTTCTCCCAGAACC---CCAATCATCTGCTGTTCCATGGGCAGCCCCCAgtaagtagtgcgtgaccctgtcatcagggttgttctagtgtcatatagca Alignment from Pairagon GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG------ agtcttgcctcatcctgatgggaataattcagtgccctcttgttttgcagGCACTTTGGCCAGGCCCACAGGCTGCTGCTTGGGACGTTGTCAGAGCTCATCTTCCTCCTGGGCCT------CTATCTGGTGCTCCTGATTGTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCCATTATC------CACTTCATCAAT---TTCCTCTTCTCCCAGAACC---CCAATCATCTGCTGTTCCATGGGCAGCCCCCAgtaagtagtgcgtgaccctgtcatcagggttgttctagtgtcatatagca Alignment from Exonerate_protein2genome GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG------ agtcttgcctcatcctgatgggaataattcagtgccctcttgttttgcagGCACTTTGGCCAGGCCCACAGGCTGCTGCTTGGGACGTTGTCAGAGCTCATCTTCCTCCTGGGCCTC------TATCTGGTGCTCCTGATTGTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCC------ATTATCCACTTCATCAAT---TTCCTCTTCTCCCAGAACCCC---AATCATCTGCTGTTCCATGGGCAGCCCCCAgtaagtagtgcgtgaccctgtcatcagggttgttctagtgtcatatagca Alignment from Exonerate_coding2genome GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG------ agtcttgcctcatcctgatgggaataattcagtgccctcttgttttgcagGCACTTTGGCCAGGCCCACAGGCTGCTGCTTGGGACGTTGTCAGAGCTCATCTTCCTCCTGGGCCTC------TATCTGGTGCTCCTGATTGTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCC------ATTATCCACTTCATCAAT---TTCCTCTTCTCCCAGAACCCC---AATCATCTGCTGTTCCATGGGCAGCCCCCAgtaagtagtgcgtgaccctgtcatcagggttgttctagtgtcatatagca Alignment from GeneWise GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG------ agtcttgcctcatcctgatgggaataattcagtgccctcttgttttgcagGCACTTTGGCCAGGCCCACAGGCTGCTGCTTGGGACGTTGTCAGAGCTCATCTTCCTCCTGGGCCTC------TATCTGGTGCTCCTGATTGTCTACAAATGGGTAAACATCTCAGCAACTAGTTCTGCCTCAGCCCCC------ATTATCCACTTCATCAAT---TTCCTCTTCTCCCAGAACCCC---AATCATCTGCTGTTCCATGGGCAGCCCCCAgtaagtagtgcgtgaccctgtcatcagggttgttctagtgtcatatagca #### Tcirg1_ID175_12 --> 1 - 0 Original Alignment tGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG------ tacaggttctgatatgaagcatagcttagctgtttgcttactgtttttagtGAGGAGTATCTATCTCAGCATTCAATGCTCACCTTGAACCCTAACATAACTGGAGTCTTTCTCGGCCCATACCCGTTTGGCATTGAGCCTGGCTACgtaagagtgcatacaagtgtaaggtaaacagatgcatgggaaggcagtcc Alignment from CESAR tGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG------ tacaggttctgatatgaagcatagcttagctgtttgcttactgtttttagtGAGGAGTATCTATCTCAGCATTCAATGCTCACCTTGAACCCTAACATAACTGGAGTCTTTCTCGGCCCATACCCGTTTGGCATTGAGCCTGGCTACgtaagagtgcatacaagtgtaaggtaaacagatgcatgggaaggcagtcc Alignment from Spaln_aa2Genome TGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG------ tacaggttctgatatgaagcatagcttagctgtttgcttactgtttttagTGAGGAGTATCTATCTCAGCATTCAATGCTCACCTTGAACCCTAACATAACTGGAGTCTTTCTCGGCCCATACCCGTTTGGCATTGAGCCTGGCTACgtaagagtgcatacaagtgtaaggtaaacagatgcatgggaaggcagtcc Alignment from Spaln_nt2Genome TGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCC-G tacaggttctgatatgaagcatagcttagctgtttgcttactgtttttagTGAGGAGTATCTATCTCAGCATTCAATGCTCACCTTGAACCCTAACATAACTGGAGTCTTTCTCGGCCCATACCCGTTTGGCATTGAGCCTGgctacgtaagagtgcatacaagtgtaaggtaaacagatgcatgggaaggcagtcc Alignment from Pairagon ------------------------------------------------AGTGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG------ TACAGGTTCTGATATGAAGCATAGCTTAGCTGTTTGCTTACTGTTTTTAGTGAGGAGTATCTATCTCAGCATTCAATGCTCACCTTGAACCCTAACATAACTGGAGTCTTTCTCGGCCCATACCCGTTTGGCATTGAGCCTGGCTACgtaagagtgcatacaagtgtaaggtaaacagatgcatgggaaggcagtcc Alignment from Exonerate_protein2genome TGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCGATCTGG tacaggttctgatatgaagcatagcttagctgtttgcttactgtttttagTGAGGAGTATCTATCTCAGCATTCAATGCTCACCTTGAACCCTAACATAACTGGAGTCTTTCTCGGCCCATACCCGTTTGGCATTGAGCCTGGCTACgtaagagtgcatacaagtgtaaggtaaacagatgcatgggaaggcagtcc Alignment from Exonerate_coding2genome TGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCGATCTGG tacaggttctgatatgaagcatagcttagctgtttgcttactgtttttagTGAGGAGTATCTATCTCAGCATTCAATGCTCACCTTGAACCCTAACATAACTGGAGTCTTTCTCGGCCCATACCCGTTTGGCATTGAGCCTGGCTACgtaagagtgcatacaagtgtaaggtaaacagatgcatgggaaggcagtcc Alignment from GeneWise TGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCGATCTGG tacaggttctgatatgaagcatagcttagctgtttgcttactgtttttagTGAGGAGTATCTATCTCAGCATTCAATGCTCACCTTGAACCCTAACATAACTGGAGTCTTTCTCGGCCCATACCCGTTTGGCATTGAGCCTGGCTACgtaagagtgcatacaagtgtaaggtaaacagatgcatgggaaggcagtcc #### Tcirg1_ID176_11 --> 0 - 2 Original Alignment ------ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGag gatcaagaccagggagcctatttttttcgaccaggtcatttcactcctagACGGTGATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTTACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGAGTGTTATAGCCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCCGGCTGGctgtcagtctataacggtgggttcatgtacaggttctgatatgaagcatagc Alignment from CESAR ------ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGag gatcaagaccagggagcctatttttttcgaccaggtcatttcactcctagACGGTGATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTTACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGAGTGTTATAGCCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCCGGCTGGctgtcagtctataacggtgggttcatgtacaggttctgatatgaagcatagc Alignment from Spaln_aa2Genome ----ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAG gatcaagaccagggagcctatttttttcgaccaggtcatttcactcctagACGGTGATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTTACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGAGTGTTATAGCCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCCGGCTGGCTgtcagtctataacggtgggttcatgtacaggttctgatatgaagcatagc Alignment from Spaln_nt2Genome A------TCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAG gatcaagaccagggagcctatttttttcgaccaggtcatttcactcctagACGGTGATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTTACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGAGTGTTATAGCCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCCGGCTGGCTgtcagtctataacggtgggttcatgtacaggttctgatatgaagcatagc Alignment from Pairagon ------ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGG---------------------------------------------------- gatcaagaccagggagcctatttttttcgaccaggtcatttcactcctagACGGTGATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTTACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGAGTGTTATAGCCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCCGGCTGGCTGTCAGTCTATAACGGTGGGTTCATGTACAGGTTCTGATATGAAGCATAGC Alignment from Exonerate_protein2genome ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAG gatcaagaccagggagcctatttttttcgaccaggtcatttcactcctagacggtgATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTTACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGAGTGTTATAGCCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCCGGCTGGCTgtcagtctataacggtgggttcatgtacaggttctgatatgaagcatagc Alignment from Exonerate_coding2genome ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAG gatcaagaccagggagcctatttttttcgaccaggtcatttcactcctagacggtgATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTTACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGAGTGTTATAGCCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCCGGCTGGCTgtcagtctataacggtgggttcatgtacaggttctgatatgaagcatagc Alignment from GeneWise ------ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAG gatcaagaccagggagcctatttttttcgaccaggtcatttcactcctagACGGTGATCTGGCAGACATTCTTTGGAGGTCAATACCTACTTCTCCTTACAGGTCTGTTCTCTGTCTACACTGGCTTTATTTCTACTGAGTGTTATAGCCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAACCAATCCGGCTGGCTgtcagtctataacggtgggttcatgtacaggttctgatatgaagcatagc #### Tcirg1_ID182_5 --> 1 - 0 Original Alignment tTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC gagttgaaaggagtctgcatctttggacggtaaaatgttgctgtctttagc---------GGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTAGAGCGCCTGTTGTGGAGAGCGTGCCGTGGCTTTCTCATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAgtaagtgtaaaggcaggactgaacggctacttctacccacagGGTGAACC Alignment from CESAR tTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aggaagggagagttgaaaggagtctgacggtaaaatgttgctgtctttagc---------GGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTAGAGCGCCTGTTGTGGAGAGCGTGCCGTGGCTTTCTCATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAgtaagtgtaaaggcaggactagtgtctccctctcttccctagGGTGAACC Alignment from Spaln_aa2Genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC gagttgaaaggagtctgcatctttggacggtaaaatgttgctgtctttagC---------GGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTAGAGCGCCTGTTGTGGAGAGCGTGCCGTGGCTTTCTCATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAgtaagtgtaaaggcaggactgaacggctacttctacccacagGGTGAACC Alignment from Spaln_nt2Genome TGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC gagttgaaaggagtctgcatctttggacggtaaaatgttgctgtctttag----CGGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTAGAGCGCCTGTTGTGGAGAGCGTGCCGTGGCTTTCTCATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAgtaagtgtaaaggcaggactgaacggctacttctacccacagGGTGAACC Alignment from Pairagon TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC gagttgaaaggagtctgcatctttggacggtaaaatgttgctgtctttag---------CGGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTAGAGCGCCTGTTGTGGAGAGCGTGCCGTGGCTTTCTCATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAgtaagtgtaaaggcaggactgaacggctacttctacccacagGGTGAACC Alignment from Exonerate_protein2genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC gagttgaaaggagtctgcatctttggacggtaaaatgttgcTGTCTTTAGCGGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTAGAGCGCCTGTTGTGGAGAGCGTGCCGTGGCTTTCTCATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAgtaagtgtaaaggcaggactgaacggctacttctacccacagGGTGAACC Alignment from Exonerate_coding2genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC gagttgaaaggagtctgcatctttggacggtaaaatgttgcTGTCTTTAGCGGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTAGAGCGCCTGTTGTGGAGAGCGTGCCGTGGCTTTCTCATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAgtaagtgtaaaggcaggactgaacggctacttctacccacagGGTGAACC Alignment from GeneWise AGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG------------------------------------------GGTGAGCC gagttgaaaggagtctgcatctttggacggtaaaatgttgctgtctttagCGGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTAGAGCGCCTGTTGTGGAGAGCGTGCCGTGGCTTTCTCATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGGCAGTAAGTGTAAAGGCAGGACTGAACGGCTACTTCTACCCACAGGGTGAACC #### Tctn3_ID7990_11 --> 0 - 2 Original Alignment ---------ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAag aacaaccacaccgatctctgactcaccatgcttctttcttcctcttctagGCCACACTGATGACCCTGTTGCAGAGTGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAGTTTGGTGTTAATGCATTCTCTGGGTGCCAATTAaggtgagtaatttgtgtgagacgactctgagatgagaccttataaatcagat Alignment from CESAR ---------ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAag aacaaccacaccgatctctgactcaccatgcttctttcttcctcttctagGCCACACTGATGACCCTGTTGCAGAGTGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAGTTTGGTGTTAATGCATTCTCTGGGTGCCAATTAaggtgagtaatttgtgtgagacgactctgagatgagaccttataaatcagat Alignment from Spaln_aa2Genome ATGACCCTGTTG---------CAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAAG aacaaccacaccgatctctgactcaccatgcttctttcttcctcttctagGCCACACTGATGACCCTGTTGCAGAGTGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAGTTTGGTGTTAATGCATTCTCTGGGTGCCAATTAAGgtgagtaatttgtgtgagacgactctgagatgagaccttataaatcagat Alignment from Spaln_nt2Genome GTCACTC-GATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAAG aacaaccacaccgatctctgactcaccatgcttctttcttcctcttctagGCCACACTGATGACCCTGTTGCAGAGTGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAGTTTGGTGTTAATGCATTCTCTGGGTGCCAATTAAGgtgagtaatttgtgtgagacgactctgagatgagaccttataaatcagat Alignment from Pairagon ---------ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAAG aacaaccacaccgatctctgactcaccatgcttctttcttcctcttctagGCCACACTGATGACCCTGTTGCAGAGTGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAGTTTGGTGTTAATGCATTCTCTGGGTGCCAATTAAGgtgagtaatttgtgtgagacgactctgagatgagaccttataaatcagat Alignment from Exonerate_protein2genome ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAAG aacaaccacaccgatctctgactcaccatgcttctttcttcctcttctaggccacactgATGACCCTGTTGCAGAGTGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAGTTTGGTGTTAATGCATTCTCTGGGTGCCAATTAAGgtgagtaatttgtgtgagacgactctgagatgagaccttataaatcagat Alignment from Exonerate_coding2genome ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAAG aacaaccacaccgatctctgactcaccatgcttctttcttcctcttctaggccacactgATGACCCTGTTGCAGAGTGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAGTTTGGTGTTAATGCATTCTCTGGGTGCCAATTAAGgtgagtaatttgtgtgagacgactctgagatgagaccttataaatcagat Alignment from GeneWise ---------ATGACCCTGTTGCAGAGCGAGGGTAATGGGCTTTGCTCTGCTAAGAGACACGCAGTACAGTTTGGAGTGAACGCAGTATCTGGGTGCCAGTTAAG aacaaccacaccgatctctgactcaccatgcttctttcttcctcttctagGCCACACTGATGACCCTGTTGCAGAGTGAGGCTAATGGAGTTTGCTCTGCTAAGAGACATGCAGTGCAGTTTGGTGTTAATGCATTCTCTGGGTGCCAATTAAGgtgagtaatttgtgtgagacgactctgagatgagaccttataaatcagat #### Tctn3_ID7995_6 --> 2 - 0 Original Alignment gtTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG ttttctcaggtacgggggaggccgttctaaaactcccttctctatcccagga---------ACTAAGAGTATGACCTCTTCCCGTTTCTTTAAGGACCTATCCAGTAGCTGTACCTCTGAGCCAGCTCTGGATGCAGTTTCAGATTACAACTTCAGAGTCTTGAGGgtaagtcacagccaggtttctgcttctgatttctcactgatggtaggtgc Alignment from CESAR gtTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG ctagcgatgttttctcaggtacgggtctaaaactcccttctctatcccagga---------ACTAAGAGTATGACCTCTTCCCGTTTCTTTAAGGACCTATCCAGTAGCTGTACCTCTGAGCCAGCTCTGGATGCAGTTTCAGATTACAACTTCAGAGTCTTGAGGgtaagtcacagccaggtttctgcttctgatttctcactgatggtaggtgc Alignment from Spaln_aa2Genome GTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG ttttctcaggtacgggggaggccgttctaaaactcccttctctatcccagGA---------ACTAAGAGTATGACCTCTTCCCGTTTCTTTAAGGACCTATCCAGTAGCTGTACCTCTGAGCCAGCTCTGGATGCAGTTTCAGATTACAACTTCAGAGTCTTGAGGgtaagtcacagccaggtttctgcttctgatttctcactgatggtaggtgc Alignment from Spaln_nt2Genome GTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG ttttctcaggtacgggggaggccgttctaaaactcccttctctatcccagG---------AACTAAGAGTATGACCTCTTCCCGTTTCTTTAAGGACCTATCCAGTAGCTGTACCTCTGAGCCAGCTCTGGATGCAGTTTCAGATTACAACTTCAGAGTCTTGAGGgtaagtcacagccaggtttctgcttctgatttctcactgatggtaggtgc Alignment from Pairagon ---------------------------------------------------------------------TTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG TTTTCTCAGGTACGGGGGAGGCCGTTCTAAAACTCCCTTCTCTATCCCAGGAACTAAGAGTATGACCTCTTCC--------------------------CGTTTCTTTAAGGACCTATCCAGTAGCTGTACCTCTGAGCCAGCTCTGGATGCAGTTTCAGATTACAACTTCAGAGTCTTGAGGgtaagtcacagccaggtttctgcttctgatttctcactgatggtaggtgc Alignment from Exonerate_protein2genome GTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG ttttctcaggtacgggggaggccgttctaaaactcccttctctatcccagGA---------ACTAAGAGTATGACCTCTTCCCGTTTCTTTAAGGACCTATCCAGTAGCTGTACCTCTGAGCCAGCTCTGGATGCAGTTTCAGATTACAACTTCAGAGTCTTGAGGgtaagtcacagccaggtttctgcttctgatttctcactgatggtaggtgc Alignment from Exonerate_coding2genome GTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG ttttctcaggtacgggggaggccgttctaaaactcccttctctatcccagGA---------ACTAAGAGTATGACCTCTTCCCGTTTCTTTAAGGACCTATCCAGTAGCTGTACCTCTGAGCCAGCTCTGGATGCAGTTTCAGATTACAACTTCAGAGTCTTGAGGgtaagtcacagccaggtttctgcttctgatttctcactgatggtaggtgc Alignment from GeneWise GTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG ttttctcaggtacgggggaggccgttctaaaactcccttctctatcccagGA---------ACTAAGAGTATGACCTCTTCCCGTTTCTTTAAGGACCTATCCAGTAGCTGTACCTCTGAGCCAGCTCTGGATGCAGTTTCAGATTACAACTTCAGAGTCTTGAGGgtaagtcacagccaggtttctgcttctgatttctcactgatggtaggtgc #### Tctn3_ID7996_5 --> 0 - 1 Original Alignment GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCA------g gccgcttaaagataccattttttctgttcagcctgttgtttattctgtagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTGAGCTTACTAAGACAACCTGCAGCTGTAGGAGCTGGCGGACTTTGTGCAGAGAGCAACCCAGCAATTTTAggtcagatatgtgtatgctggctcttgtatcctctagcgatgttttctcag Alignment from CESAR GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCA------g gccgcttaaagataccattttttctgttcagcctgttgtttattctgtagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTGAGCTTACTAAGACAACCTGCAGCTGTAGGAGCTGGCGGACTTTGTGCAGAGAGCAACCCAGCAATTTTAggtcagatatgtgtatgctggctcttgtatcctctagcgatgttttctcag Alignment from Spaln_aa2Genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCA------G gccgcttaaagataccattttttctgttcagcctgttgtttattctgtagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTGAGCTTACTAAGACAACCTGCAGCTGTAGGAGCTGGCGGACTTTGTGCAGAGAGCAACCCAGCAATTTTAGgtcagatatgtgtatgctggctcttgtatcctctagcgatgttttctcag Alignment from Spaln_nt2Genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCA------G gccgcttaaagataccattttttctgttcagcctgttgtttattctgtagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTGAGCTTACTAAGACAACCTGCAGCTGTAGGAGCTGGCGGACTTTGTGCAGAGAGCAACCCAGCAATTTTAGgtcagatatgtgtatgctggctcttgtatcctctagcgatgttttctcag Alignment from Pairagon GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCC------------------------------------------------------------- gccgcttaaagataccattttttctgttcagcctgttgtttattctgtagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTGAGCTTACTAAGACAACCTGCAGCTGTAGGAGCTGGCGGACTTTGTGCAGAGAGCAACCCAGCAATTTTAGGTCAGATATGTGTATGCTGGCTCTTGTATCCTCTAGCGATGTTTTCTCAG Alignment from Exonerate_protein2genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAG gccgcttaaagataccattttttctgttcagcctgttgtttattctgtagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTGAGCTTACTAAGACAACCTGCAGCTGTAGGAGCTGGCGGACTTTGTGCAGAGAGCAACCCAGCAAttttaggtcagatatgtgtatgctggctcttgtatcctctagcgatgttttctcag Alignment from Exonerate_coding2genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAG gccgcttaaagataccattttttctgttcagcctgttgtttattctgtagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTGAGCTTACTAAGACAACCTGCAGCTGTAGGAGCTGGCGGACTTTGTGCAGAGAGCAACCCAGCAAttttaggtcagatatgtgtatgctggctcttgtatcctctagcgatgttttctcag Alignment from GeneWise GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCA------G gccgcttaaagataccattttttctgttcagcctgttgtttattctgtagGCTGGGGATCCCATCCTGACCTACTACCCAAGCTGGTCCGTGGTGAGCTTACTAAGACAACCTGCAGCTGTAGGAGCTGGCGGACTTTGTGCAGAGAGCAACCCAGCAATTTTAGgtcagatatgtgtatgctggctcttgtatcctctagcgatgttttctcag #### Tdrd1_ID12205_6 --> 0 - 0 Original Alignment GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG--------- aatacaggcagggtgggcagcctcagccatgttcaatgatgttttcttagGTTGACTGCCCCCCAGAAGTT---AGACAAATTACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTAAGAAGTCTTCAGCTAAAGAAAACAATGGAGATAAAAAGACGGTCCgtttgcggatttgtctcctcctttcctcccacatgtgatccccttggctc Alignment from CESAR GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG--------- aatacaggcagggtgggcagcctcagccatgttcaatgatgttttcttagGTTGACTGCCCCCCAGAAGTT---AGACAAATTACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTAAGAAGTCTTCAGCTAAAGAAAACAATGGAGATAAAAAGACGGTCCgtttgcggatttgtctcctcctttcctcccacatgtgatccccttggctc Alignment from Spaln_aa2Genome GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG--------- aatacaggcagggtgggcagcctcagccatgttcaatgatgttttcttagGTTGACTGCCCCCCAGAAGTT---AGACAAATTACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTAAGAAGTCTTCAGCTAAAGAAAACAATGGAGATAAAAAGACGGTCCgtttgcggatttgtctcctcctttcctcccacatgtgatccccttggctc Alignment from Spaln_nt2Genome GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAA-----G aatacaggcagggtgggcagcctcagccatgttcaatgatgttttcttagGTTGACTGCCCCCCAGAAGT---TAGACAAATTACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTAAGAAGTCTTCAGCTAAAGAAAACAATGGAGATAAAAAGACGgtccgtttgcggatttgtctcctcctttcctcccacatgtgatccccttggctc Alignment from Pairagon GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAA-----G aatacaggcagggtgggcagcctcagccatgttcaatgatgttttcttagGTTGACTGCCCCCCAGAAGT---TAGACAAATTACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTAAGAAGTCTTCAGCTAAAGAAAACAATGGAGATAAAAAGACGgtccgtttgcggatttgtctcctcctttcctcccacatgtgatccccttggctc Alignment from Exonerate_protein2genome GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG aatacaggcagggtgggcagcctcagccatgttcaatgatgttttcttagGTTGACTGCCCCCCAGAAGTT---AGACAAATTACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTAAGAAGTCTTCAGCTAAAGAAAACAATGGAGATAAAAagacggtccgtttgcggatttgtctcctcctttcctcccacatgtgatccccttggctc Alignment from Exonerate_coding2genome GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG aatacaggcagggtgggcagcctcagccatgttcaatgatgttttcttagGTTGACTGCCCCCCAGAAGTT---AGACAAATTACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTAAGAAGTCTTCAGCTAAAGAAAACAATGGAGATAAAAagacggtccgtttgcggatttgtctcctcctttcctcccacatgtgatccccttggctc Alignment from GeneWise GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG--------- aatacaggcagggtgggcagcctcagccatgttcaatgatgttttcttagGTTGACTGCCCCCCAGAAGTT---AGACAAATTACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTAAGAAGTCTTCAGCTAAAGAAAACAATGGAGATAAAAAGACGGTCCgtttgcggatttgtctcctcctttcctcccacatgtgatccccttggctc #### Tex40_ID1868_4 --> 0 - 1 Original Alignment ---------------------------CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAGTTCTGGATATTCTCAAAAAAGCCCTCATCa ctgactacacaggccatggtcaggttgacactatttgtttttttttttagAAAGGGTCAATCATAGATTTCTTCAGTCTGCCCCTCCCCCTCATGGAGTTCATGGAAAGTGAAGTGCTGTATATTCTCAAAAAAGCCCTTATTagtaagcctacatctcacccgttgcttccacaagtgacttctgtgtgctct Alignment from CESAR ---------------------------CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAGTTCTGGATATTCTCAAAAAAGCCCTCATCa ctgactacacaggccatggtcaggttgacactatttgtttttttttttagAAAGGGTCAATCATAGATTTCTTCAGTCTGCCCCTCCCCCTCATGGAGTTCATGGAAAGTGAAGTGCTGTATATTCTCAAAAAAGCCCTTATTagtaagcctacatctcacccgttgcttccacaagtgacttctgtgtgctct Alignment from Spaln_aa2Genome -CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAGTTCTGGATATTCTCAAAAAAGCCCTCATCA ctgactacacaggccatggtcaggttgacactatttgtttttttttttagaaagggtcaatcatagatttcttcagTCTGCCCCTCCCCCTCATGGAGTTCATGGAAAGTGAAGTGCTGTATATTCTCAAAAAAGCCCTTATTAgtaagcctacatctcacccgttgcttccacaagtgacttctgtgtgctct Alignment from Spaln_nt2Genome -CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAGTTCTGGATATTCTCAAAAAAGCCCTCATCA ctgactacacaggccatggtcaggttgacactatttgtttttttttttagaaagggtcaatcatagatttcttcagTCTGCCCCTCCCCCTCATGGAGTTCATGGAAAGTGAAGTGCTGTATATTCTCAAAAAAGCCCTTATTAgtaagcctacatctcacccgttgcttccacaagtgacttctgtgtgctct Alignment from Pairagon -CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAGTTCTGGATATTCTCAAAAAAGCCCTCATCA ctgactacacaggccatggtcaggttgacactatttgtttttttttttagaaagggtcaatcatagatttcttcagTCTGCCCCTCCCCCTCATGGAGTTCATGGAAAGTGAAGTGCTGTATATTCTCAAAAAAGCCCTTATTAgtaagcctacatctcacccgttgcttccacaagtgacttctgtgtgctct Alignment from Exonerate_protein2genome CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAGTTCTGGATATTCTCAAAAAAGCCCTCATCA ctgactacacaggccatggtcaggttgacactatttgtttttttttttagaaagggtcaatcatagatttcttcagtCTGCCCCTCCCCCTCATGGAGTTCATGGAAAGTGAAGTGCTGTATATTCTCAAAAAAGCCCTTATTAgtaagcctacatctcacccgttgcttccacaagtgacttctgtgtgctct Alignment from Exonerate_coding2genome CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAGTTCTGGATATTCTCAAAAAAGCCCTCATCA ctgactacacaggccatggtcaggttgacactatttgtttttttttttagaaagggtcaatcatagatttcttcagtCTGCCCCTCCCCCTCATGGAGTTCATGGAAAGTGAAGTGCTGTATATTCTCAAAAAAGCCCTTATTAgtaagcctacatctcacccgttgcttccacaagtgacttctgtgtgctct Alignment from GeneWise ---------------------------CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAGTTCTGGATATTCTCAAAAAAGCCCTCATCA ctgactacacaggccatggtcaggttgacactatttgtttttttttttagAAAGGGTCAATCATAGATTTCTTCAGTCTGCCCCTCCCCCTCATGGAGTTCATGGAAAGTGAAGTGCTGTATATTCTCAAAAAAGCCCTTATTAgtaagcctacatctcacccgttgcttccacaagtgacttctgtgtgctct #### Tjp2_ID5277_10 --> 2 - 2 Original Alignment ttCCTCAACCCAGAACAGCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATATgg gcatacacataggttgaacatggttgccatgcttcctttcttcttttcagttCCTCAACCCAGGACAGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCATT---gggtaggtagcagcctacctttgaaactttgtattatgcctctccagccatt Alignment from CESAR ttCCTCAACCCAGAACAGCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATATgg gcatacacataggttgaacatggttgccatgcttcctttcttcttttcagttCCTCAACCCAGGACAGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCATT---gggtaggtagcagcctacctttgaaactttgtattatgcctctccagccatt Alignment from Spaln_aa2Genome TTCCTCAACCCAGAACAGCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATA gcatacacataggttgaacatggttgccatgcttcctttcttcttttcagTTCCTCAACCCAGGACAGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCATTGGgtaggtagcagcctacctttgaaactttgtattatgcctctccagccatt Alignment from Spaln_nt2Genome TTCCTCAACCCAGAACAGCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATATGG gcatacacataggttgaacatggttgccatgcttcctttcttcttttcagTTCCTCAACCCAGGACAGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCAT---TGGgtaggtagcagcctacctttgaaactttgtattatgcctctccagccatt Alignment from Pairagon TTCCTCAACCCAGAACAGCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATATGG gcatacacataggttgaacatggttgccatgcttcctttcttcttttcagTTCCTCAACCCAGGACAGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCAT---TGGgtaggtagcagcctacctttgaaactttgtattatgcctctccagccatt Alignment from Exonerate_protein2genome TTCCTCAACCCAGAACAGCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATATGG gcatacacataggttgaacatggttgccatgcttcctttcttcttttcagTTCCTCAACCCAGGACAGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCATT---GGgtaggtagcagcctacctttgaaactttgtattatgcctctccagccatt Alignment from Exonerate_coding2genome TTCCTCAACCCAGAACAGCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATATGG gcatacacataggttgaacatggttgccatgcttcctttcttcttttcagTTCCTCAACCCAGGACAGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCATT---GGgtaggtagcagcctacctttgaaactttgtattatgcctctccagccatt Alignment from GeneWise TTCCTCAACCCAGAACAGCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATA gcatacacataggttgaacatggttgccatgcttcctttcttcttttcagTTCCTCAACCCAGGACAGCACCTAGAGTTTTTCTTCGTCCTAGTCCTGAGGATGAAGCCATTGGgtaggtagcagcctacctttgaaactttgtattatgcctctccagccatt #### Tle4_ID3619_18 --> 0 - 1 Original Alignment ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGT---g tttgcttcaaggggaagtgttgtcaaccttgtactgtgtcccatctccagATTTTTTCATTGGGATACTGCCCAACTGGAAAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCCACagtgagggtactcccagtgtctagcttcaaatactgtgaagttgcttggtt Alignment from CESAR ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGT---g tttgcttcaaggggaagtgttgtcaaccttgtactgtgtcccatctccagATTTTTTCATTGGGATACTGCCCAACTGGAAAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCCACagtgagggtactcccagtgtctagcttcaaatactgtgaagttgcttggtt Alignment from Spaln_aa2Genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGT---G tttgcttcaaggggaagtgttgtcaaccttgtactgtgtcccatctccagATTTTTTCATTGGGATACTGCCCAACTGGAAAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCCACAgtgagggtactcccagtgtctagcttcaaatactgtgaagttgcttggtt Alignment from Spaln_nt2Genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTGGCA tttgcttcaaggggaagtgttgtcaaccttgtactgtgtcccatctccagATTTTTTCATTGGGATACTGCCCAACTGGAAAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCCACAgtgagggtactcccagtgtctagcttcaaatactgtgaagttgcttggtt Alignment from Pairagon ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG--- tttgcttcaaggggaagtgttgtcaaccttgtactgtgtcccatctccagATTTTTTCATTGGGATACTGCCCAACTGGAAAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCCACAgtgagggtactcccagtgtctagcttcaaatactgtgaagttgcttggtt Alignment from Exonerate_protein2genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGT---G tttgcttcaaggggaagtgttgtcaaccttgtactgtgtcccatctccagATTTTTTCATTGGGATACTGCCCAACTGGAAAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCCACAgtgagggtactcccagtgtctagcttcaaatactgtgaagttgcttggtt Alignment from Exonerate_coding2genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGT---G tttgcttcaaggggaagtgttgtcaaccttgtactgtgtcccatctccagATTTTTTCATTGGGATACTGCCCAACTGGAAAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCCACAgtgagggtactcccagtgtctagcttcaaatactgtgaagttgcttggtt Alignment from GeneWise ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTGGC- tttgcttcaaggggaagtgttgtcaaccttgtactgtgtcccatctccagATTTTTTCATTGGGATACTGCCCAACTGGAAAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTCCTGTCCCTCAAGTTTGCCCAATGCCACAgtgagggtactcccagtgtctagcttcaaatactgtgaagttgcttggtt #### Tle4_ID3629_10 --> 0 - 0 Original Alignment ---------------------GACAGTGATGGTGAGAAGAGTGATGACAACTTGGTAGTTGATGTGTCCAATGAG acagggatgcttttgcaccctcctgctatcttctctgtcttggaccatagATTACCTTCATCTACCTTGGTGACAGTGATGGTGAGAAGACTGATGATAACCTGGTAGTTGAGGTCTCTAATGAGgtaagttgtttacaagttgttacacagttgggtgtctgctgaattgatga Alignment from CESAR ---------------------GACAGTGATGGTGAGAAGAGTGATGACAACTTGGTAGTTGATGTGTCCAATGAG acagggatgcttttgcaccctcctgctatcttctctgtcttggaccatagATTACCTTCATCTACCTTGGTGACAGTGATGGTGAGAAGACTGATGATAACCTGGTAGTTGAGGTCTCTAATGAGgtaagttgtttacaagttgttacacagttgggtgtctgctgaattgatga Alignment from Spaln_aa2Genome TGATGGTGAGAAGAGTGATGACAACTTGGTAGTTGATGTGTCCAATGAG acagggatgcttttgcaccctcctgctatcttctctgtcttggaccatagattaccttcatctaccttggtgacagTGATGGTGAGAAGACTGATGATAACCTGGTAGTTGAGGTCTCTAATGAGgtaagttgtttacaagttgttacacagttgggtgtctgctgaattgatga Alignment from Spaln_nt2Genome TGATGGTGAGAAGAGTGATGACAACTTGGTAGTTGATGTGTCCAATGAG acagggatgcttttgcaccctcctgctatcttctctgtcttggaccatagattaccttcatctaccttggtgacagTGATGGTGAGAAGACTGATGATAACCTGGTAGTTGAGGTCTCTAATGAGgtaagttgtttacaagttgttacacagttgggtgtctgctgaattgatga Alignment from Pairagon ---------------------GACAGTGATGGTGAGAAGAGTGATGACAACTTGGTAGTTGATGTGTCCAATGAG acagggatgcttttgcaccctcctgctatcttctctgtcttggaccatagATTACCTTCATCTACCTTGGTGACAGTGATGGTGAGAAGACTGATGATAACCTGGTAGTTGAGGTCTCTAATGAGgtaagttgtttacaagttgttacacagttgggtgtctgctgaattgatga Alignment from Exonerate_protein2genome GACAGTGATGGTGAGAAGAGTGATGACAACTTGGTAGTTGATGTGTCCAATGAG acagggatgcttttgcaccctcctgctatcttctctgtcttggaccatagattaccttcatctaccttggtGACAGTGATGGTGAGAAGACTGATGATAACCTGGTAGTTGAGGTCTCTAATGAGgtaagttgtttacaagttgttacacagttgggtgtctgctgaattgatga Alignment from Exonerate_coding2genome GACAGTGATGGTGAGAAGAGTGATGACAACTTGGTAGTTGATGTGTCCAATGAG acagggatgcttttgcaccctcctgctatcttctctgtcttggaccatagattaccttcatctaccttggtGACAGTGATGGTGAGAAGACTGATGATAACCTGGTAGTTGAGGTCTCTAATGAGgtaagttgtttacaagttgttacacagttgggtgtctgctgaattgatga Alignment from GeneWise TGATGGTGAGAAGAGTGATGACAACTTGGTAGTTGATGTGTCCAATGAG acagggatgcttttgcaccctcctgctatcttctctgtcttggaccatagattaccttcatctaccttggtgacagTGATGGTGAGAAGACTGATGATAACCTGGTAGTTGAGGTCTCTAATGAGgtaagttgtttacaagttgttacacagttgggtgtctgctgaattgatga #### Tm7sf2_ID1411_9 --> 2 - 1 Original Alignment gtCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGT---g tgcctagttgaacctgagggcttcaatctccctcttgtttctcccatcaggtCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTAGTGTCCGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGTGCAggtaagttgatggggagagcaaggaccatatacctgctacaatgtatccca Alignment from CESAR gtCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGT---g tgcctagttgaacctgagggcttcaatctccctcttgtttctcccatcaggtCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTAGTGTCCGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGTGCAggtaagttgatggggagagcaaggaccatatacctgctacaatgtatccca Alignment from Spaln_aa2Genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGT---G tgcctagttgaacctgagggcttcaatctccctcttgtttctcccatcagGTCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTAGTGTCCGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGTGCAGgtaagttgatggggagagcaaggaccatatacctgctacaatgtatccca Alignment from Spaln_nt2Genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG--- tgcctagttgaacctgagggcttcaatctccctcttgtttctcccatcagGTCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTAGTGTCCGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGTGCAGgtaagttgatggggagagcaaggaccatatacctgctacaatgtatccca Alignment from Pairagon GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG--- tgcctagttgaacctgagggcttcaatctccctcttgtttctcccatcagGTCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTAGTGTCCGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGTGCAGgtaagttgatggggagagcaaggaccatatacctgctacaatgtatccca Alignment from Exonerate_protein2genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGT---G tgcctagttgaacctgagggcttcaatctccctcttgtttctcccatcagGTCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTAGTGTCCGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGTGCAGgtaagttgatggggagagcaaggaccatatacctgctacaatgtatccca Alignment from Exonerate_coding2genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGT---G tgcctagttgaacctgagggcttcaatctccctcttgtttctcccatcagGTCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTAGTGTCCGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGTGCAGgtaagttgatggggagagcaaggaccatatacctgctacaatgtatccca Alignment from GeneWise GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTGGG- tgcctagttgaacctgagggcttcaatctccctcttgtttctcccatcagGTCTAGACACCATCCCCACTGCCACGGGTAGACATCTGCTAGTGTCCGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCATGGTCCTTGCCCTGTGCAGgtaagttgatggggagagcaaggaccatatacctgctacaatgtatccca #### Tmem179b_ID2369_4 --> 1 - 0 Original Alignment cTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA acccacccctgccattcttattacgctttctttttgtttcttatccttagcTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACACACT------gtcagtgatccgtgcaggtatccataaagagaaatcaataagcttgactc Alignment from CESAR cTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA acccacccctgccattcttattacgctttctttttgtttcttatccttagcTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACACACT------gtcagtgatccgtgcaggtatccataaagagaaatcaataagct Alignment from Spaln_aa2Genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACT acccacccctgccattcttattacgctttctttttgtttcttatccttagCTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACACACTgtcagtgatccgtgcaggtatccataaagagaaatcaataagcttgactc Alignment from Spaln_nt2Genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA acccacccctgccattcttattacgctttctttttgtttcttatccttagCTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACACACTG--TCAgtgatccgtgcaggtatccataaagagaaatcaataagcttgac Alignment from Pairagon CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACT acccacccctgccattcttattacgctttctttttgtttcttatccttagCTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACACACTgtcagtgatccgtgcaggtatccataaagagaaatcaataagcttgactc Alignment from Exonerate_protein2genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTG acccacccctgccattcttattacgctttctttttgtttcttatccttagCTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACACACTGTCAgtgatccgtgcaggtatccataaagagaaatcaataagcttgactc Alignment from Exonerate_coding2genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTG acccacccctgccattcttattacgctttctttttgtttcttatccttagCTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACACACTGTCAgtgatccgtgcaggtatccataaagagaaatcaataagcttgactc Alignment from GeneWise CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACT acccacccctgccattcttattacgctttctttttgtttcttatccttagCTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACACACTgtcagtgatccgtgcaggtatccataaagagaaatcaataagcttgactc #### Trim8_ID9936_5 --> 1 - 1 Original Alignment gACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAg taagttcatcttctagaaccggtcttctttacttcctgcctctctcacagg---------TGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACGGTTACGGAAAATGCTTGATggtgagttgttaatgggccaatgtacaggtgaagtgcagtctgcaccccat Alignment from CESAR gACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAg ttggttagagcacctcatcttctagtctttacttcctgcctctctcacagg---------TGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACGGTTACGGAAAATGCTTGATggtgagttgttaatgggccaatgtacaggtgaagtgcagtctgcaccccat Alignment from Spaln_aa2Genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG taagttcatcttctagaaccggtcttctttacttcctgcctctctcacagG---------TGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACGGTTACGGAAAATGCTTGATGgtgagttgttaatgggccaatgtacaggtgaagtgcagtctgcaccccat Alignment from Spaln_nt2Genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG taagttcatcttctagaaccggtcttctttacttcctgcctctctcacagG---------TGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACGGTTACGGAAAATGCTTGATGgtgagttgttaatgggccaatgtacaggtgaagtgcagtctgcaccccat Alignment from Pairagon GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG taagttcatcttctagaaccggtcttctttacttcctgcctctctcacagG---------TGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACGGTTACGGAAAATGCTTGATGgtgagttgttaatgggccaatgtacaggtgaagtgcagtctgcaccccat Alignment from Exonerate_protein2genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG taagttcatcttctagaaccggtcttctttacttcctgcctCTCTCACAGGTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACGGTTACGGAAAATGCTTGATGgtgagttgttaatgggccaatgtacaggtgaagtgcagtctgcaccccat Alignment from Exonerate_coding2genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG taagttcatcttctagaaccggtcttctttacttcctgcctCTCTCACAGGTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACGGTTACGGAAAATGCTTGATGgtgagttgttaatgggccaatgtacaggtgaagtgcagtctgcaccccat Alignment from GeneWise --------ACCAAGTCTGTGAAAATCCTAATGGACAGGACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG taagTTCATCTTCTAGAACCGGTCTTCTTTACTTCCTGCCTCTCTCACAGGTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACGGTTACGGAAAATGCTTGATGgtgagttgttaatgggccaatgtacaggtgaagtgcagtctgcaccccat #### Trpt1_ID1982_5 --> 2 - 1 Original Alignment gcATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACA---------g gagagacagagcctcattccaggtgttcacactttgtctttcctctgcaggcATTTGCCCAAAT------GTAACAGTGTTTATTGATGGACCACTAGCTCTCACAAATGCCTGGggtatcaatcaccccccagggctggctgcatcacactcacagaagaaagtg Alignment from CESAR gcATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACA---------g gagagacagagcctcattccaggtgttcacactttgtctttcctctgcaggcATTTGCCCAAAT------GTAACAGTGTTTATTGATGGACCACTAGCTCTCACAAATGCCTGGggtatcaatcaccccccagggctggctgcatcacactcacagaagaaagtg Alignment from Spaln_aa2Genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACA---------G gagagacagagcctcattccaggtgttcacactttgtctttcctctgcagGCATTTGCCCAAAT------GTAACAGTGTTTATTGATGGACCACTAGCTCTCACAAATGCCTGGGgtatcaatcaccccccagggctggctgcatcacactcacagaagaaagtg Alignment from Spaln_nt2Genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAGATG----GA gagagacagagcctcattccaggtgttcacactttgtctttcctctgcagGCATTTGCCCAAAT------GTAACAGTGTTTATTGATGGACCACTAGCTCTCACAAATGCCTGGGgtatcaatcaccccccagggctggctgcatcacactcacagaagaaagtg Alignment from Pairagon GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCA-------------------------------------------------------------- gagagacagagcctcattccaggtgttcacactttgtctttcctctgcagGCATTTGCCCAAAT------GTAACAGTGTTTATTGATGGACCACTAGCTCTCACAAATGCCTGGGGTATCAATCACCCCCCAGGGCTGGCTGCATCACACTCACAGAAGAAAGTG Alignment from Exonerate_protein2genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAG gagagacagagcctcattccaggtgttcacactttgtctttcctctgcagGCATTTGCCCAAAT------GTAACAGTGTTTATTGATGGACCACTAGCTCTCACAAatgcctggggtatcaatcaccccccagggctggctgcatcacactcacagaagaaagtg Alignment from Exonerate_coding2genome GCATTCGTCCAAATTGT gagagacagagcctcattccaggtgttcacactttgtctttcctctgcaggcatttgcccaaatgtaacagtgtttattgatggaccactagctctcacaaatgcctggggtatcaatcaccccccagggctggctgcatcacACTCACAGAAGAAAGTG Alignment from GeneWise TCGTCCAAA gagagacagagcctcattccaggtgttcacactttgtctttcctctgcaggcatttgcccaaatgtaacagtgtttattgatggaccactagctctcacaaatgcctggggtatcaatcaccccccagggctggctgcatcacactcacagAAGA---AA #### Trpt1_ID1983_6 --> 2 - 1 Original Alignment at------------------------------------------GGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAc gaagaaagtgtgactatcacatgatcacccatctttccacatgatgccagatCTCGGCGCTCTGGTTCGGACTGCTGTGGAGTTAGAAATCAACGGAATTCCG---TTCTGCTTTGGCAACGGGGTGATTTTGACACCAGGGAATGTTGAAGGTTTCCTCCTTCCCAAGTACTCTAAAGAGGCTCTCCAGCTACGGCCTATGcgtggttttataacctggcctgagatgacactctctataagtctgtgtgaa Alignment from CESAR acagagtgcaaatactcctctacacattcctatcctcaatggctacctatt Alignment from Spaln_aa2Genome AT------GGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAC gaagaaagtgtgactatcacatgatcacccatctttccacatgatgccagatctcggcgctctggttcggactgctgtggagttagAAATCAACGGAATTCCG---TTCTGCTTTGGCAACGGGGTGATTTTGACACCAGGGAATGTTGAAGGTTTCCTCCTTCCCAAGTACTCTAAAGAGGCTCTCCAGCTACGGCCTATGCgtggttttataacctggcctgagatgacactctctataagtctgtgtgaa Alignment from Spaln_nt2Genome AT------GGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAC gaagaaagtgtgactatcacatgatcacccatctttccacatgatgccagatctcggcgctctggttcggactgctgtggagttagAAATCAACGGAATTCC---GTTCTGCTTTGGCAACGGGGTGATTTTGACACCAGGGAATGTTGAAGGTTTCCTCCTTCCCAAGTACTCTAAAGAGGCTCTCCAGCTACGGCCTATGCgtggttttataacctggcctgagatgacactctctataagtctgtgtgaa Alignment from Pairagon --------------------------------------------------------------------------------------------ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAC GAAGAAAGTGTGACTATCACATGATCACCCATCTTTCCACATGATGCCAGATCTCGGCGCTCTGGTTCGGACTGCTGTGGAGTTAGAAATCAACGGAATTCC---GTTCTGCTTTGGCAACGGGGTGATTTTGACACCAGGGAATGTTGAAGGTTTCCTCCTTCCCAAGTACTCTAAAGAGGCTCTCCAGCTACGGCCTATGCgtggttttataacctggcctgagatgacactctctataagtctgtgtgaa Alignment from Exonerate_protein2genome ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAC gaagaaagtgtgactatcacatgatcacccatctttccacatgatgccagatctcggcgctctggttcggactgctgtggagttagaaatcaACGGAATTCCG---TTCTGCTTTGGCAACGGGGTGATTTTGACACCAGGGAATGTTGAAGGTTTCCTCCTTCCCAAGTACTCTAAAGAGGCTCTCCAGCTACGGCCTATGCgtggttttataacctggcctgagatgacactctctataagtctgtgtgaa Alignment from Exonerate_coding2genome TCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAGATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAC gaagaaagtgtgactatcacatgatcacccatctttccacatGATGCCAGATCTCGGCGCTCTGGTTCGGACTGCTGTGGAGTTAGAAATC---AACGGAATTCCG---TTCTGCTTTGGCAACGGGGTGATTTTGACACCAGGGAATGTTGAAGGTTTCCTCCTTCCCAAGTACTCTAAAGAGGCTCTCCAGCTACGGCCTATGCgtggttttataacctggcctgagatgacactctctataagtctgtgtgaa Alignment from GeneWise -----GATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACACGA- gaagaaagtgtgactatcacatgatcacccatctttccacatgatgccagatctcggcgctctggttcggactgctgtggagttagAAATCAACGGAATTCCGTTC---TGCTTTGGCAACGGGGTGATTTTGACACCAGGGAATGTTGAAGGTTTCCTCCTTCCCAAGTACTCTAAAGAGGCTCTCCAGCTACGGCCTATGCGTGgttttataacctggcctgagatgacactctctataagtctgtgtgaa #### Tut1_ID2554_7 --> 2 - 1 Original Alignment gaGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAg acacaaagacttggtcttgtaattagctttcctcctctgtttcctcccaggaGGTGGCCCACTACTCAACAATTAT---GTAACCTTGTTGGTGATCTACCTGCTTCAGACTAGAGACCCTCCAGTACTACCTAGTGTAGCCCAGCTAACC---------ggtaatggatgtgagcagaggcctctacactctgtaacccagacactctgg Alignment from CESAR gaGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAg acacaaagacttggtcttgtaattagctttcctcctctgtttcctcccaggaGGTGGCCCACTACTCAACAATTAT---GTAACCTTGTTGGTGATCTACCTGCTTCAGACTAGAGACCCTCCAGTACTACCTAGTGTAGCCCAGCTAACCGGTAATGGAtgtgagcagaggcctctacactctgtaacccagacactctgg Alignment from Spaln_aa2Genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG acacaaagacttggtcttgtaattagctttcctcctctgtttcctcccagGAGGTGGCCCACTACTCAACAATTAT---GTAACCTTGTTGGTGATCTACCTGCTTCAGACTAGAGACCCTCCAGTACTACCTAGTGTAGCCCAGCTAACCGGTAATGGATgtgagcagaggcctctacactctgtaacccagacactctgg Alignment from Spaln_nt2Genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAG acacaaagacttggtcttgtaattagctttcctcctctgtttcctcccagGAGGTGGCCCACTACTCAACAATTATG---TAACCTTGTTGGTGATCTACCTGCTTCAGACTAGAGACCCTCCAGTACTACCTAGTGTAGCCCAGCTAACC--Ggtaatggatgtgagcagaggcctctacactctgtaacccagacactctgg Alignment from Pairagon GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG acacaaagacttggtcttgtaattagctttcctcctctgtttcctcccagGAGGTGGCCCACTACTCAACAATTATG---TAACCTTGTTGGTGATCTACCTGCTTCAGACTAGAGACCCTCCAGTACTACCTAGTGTAGCCCAGCTAACC---------Ggtaatggatgtgagcagaggcctctacactctgtaacccagacactctgg Alignment from Exonerate_protein2genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG acacaaagacttggtcttgtaattagctttcctcctctgtttcctcccagGAGGTGGCCCACTACTCAACAATTAT---GTAACCTTGTTGGTGATCTACCTGCTTCAGACTAGAGACCCTCCAGTACTACCTAGTGTAGCCCAGCTAACCGGTAATGGATgtgagcagaggcctctacactctgtaacccagacactctgg Alignment from Exonerate_coding2genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG acacaaagacttggtcttgtaattagctttcctcctctgtttcctcccagGAGGTGGCCCACTACTCAACAATTAT---GTAACCTTGTTGGTGATCTACCTGCTTCAGACTAGAGACCCTCCAGTACTACCTAGTGTAGCCCAGCTAACCGGTAATGGATgtgagcagaggcctctacactctgtaacccagacactctgg Alignment from GeneWise GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG acacaaagacttggtcttgtaattagctttcctcctctgtttcctcccagGAGGTGGCCCACTACTCAACAATTAT---GTAACCTTGTTGGTGATCTACCTGCTTCAGACTAGAGACCCTCCAGTACTACCTAGTGTAGCCCAGCTAACCGGTAATGGATgtgagcagaggcctctacactctgtaacccagacactctgg #### Vegfb_ID1955_5 --> 1 - 2 Original Alignment a------CCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGACag agctatgacctaacagctggagtttgacctctgccttcctcttgatgcagaGTCACGCCTAAAAAGAAGGAGTCTACTGTTCGGCCTGACcagtgagtctattccatccctcactttttagtgcatcttggggggtataaaa Alignment from CESAR a------CCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGACag agctatgacctaacagctggagtttgacctctgccttcctcttgatgcagaGTCACGCCTAAAAAGAAGGAGTCTACTGTTCGGCCTGACcagtgagtctattccatccctcactttttagtgcatcttggggggtataaaa Alignment from Spaln_aa2Genome ACCAAAAAAA------AAGGAGAGTGCTGTGAAGCCAGACAG agctatgacctaacagctggagtttgacctctgccttcctcttgatgcagAGTCACGCCTAAAAAGAAGGAGTCTACTGTTCGGCCTGACCAgtgagtctattccatccctcactttttagtgcatcttggggggtataaaa Alignment from Spaln_nt2Genome A------CCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGACAG agctatgacctaacagctggagtttgacctctgccttcctcttgatgcagAGTCACGCCTAAAAAGAAGGAGTCTACTGTTCGGCCTGACCAgtgagtctattccatccctcactttttagtgcatcttggggggtataaaa Alignment from Pairagon agctatgacctaacagctggagtttgacctctgccttcctcttgatgcagagtcacgcctaaaaagaaggagtctactgttcggcctgaccagtgagtctattccatccctcactttttagtgcatcttggggggtataaaa Alignment from Exonerate_protein2genome ACCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGACAG agctatgacctaacagctggagtttgacctctgccttcctcttgatgcagagtcacGCCTAAAAAGAAGGAGTCTACTGTTCGGCCTGACCAgtgagtctattccatccctcactttttagtgcatcttggggggtataaaa Alignment from Exonerate_coding2genome ACCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGACAG agctatgacctaacagctggagtttgacctctgccttcctcttgatgcagagtcacGCCTAAAAAGAAGGAGTCTACTGTTCGGCCTGACCAgtgagtctattccatccctcactttttagtgcatcttggggggtataaaa Alignment from GeneWise ----AGACCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGACAG agctatgacctaacagctggagtttgacctctgccttcctcttgatgcagAGTCACGCCTAAAAAGAAGGAGTCTACTGTTCGGCCTGACCAgtgagtctattccatccctcactttttagtgcatcttggggggtataaaa #### Vegfb_ID1956_4 --> 0 - 2 Original Alignment ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCag cgctaaataccgccgcgccgtgtaaacagaaatatctttttctactctag---------------------------CAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCaggtacccgacagtctcagtatccaaggtctagcatgtgttggggctgtttg Alignment from CESAR ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCag aagtttatctcttagcctcttagaaacagaaatatctttttctactctag---------------------------CAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCaggtacccgacagtctcagtatccaaggtctagcatgtgttggggctgtttg Alignment from Spaln_aa2Genome CAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG cgctaaataccgccgcgccgtgtaaacagaaatatctttttctactctagCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAGgtacccgacagtctcagtatccaaggtctagcatgtgttggggctgtttg Alignment from Spaln_nt2Genome TCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG cgctaaataccgccgcgccgtgtaaacagaaatatctttttctactctag-CAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAGgtacccgacagtctcagtatccaaggtctagcatgtgttggggctgtttg Alignment from Pairagon ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG cgctaaataccgccgcgccgtgtaaacagaaatatctttttctactctag---------------------------CAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAGgtacccgacagtctcagtatccaaggtctagcatgtgttggggctgtttg Alignment from Exonerate_protein2genome CTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG cgctaaataccgccgcgccgtgtaaacagaaatatctttttctactctagcagCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAGgtacccgacagtctcagtatccaaggtctagcatgtgttggggctgtttg Alignment from Exonerate_coding2genome CTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG cgctaaataccgccgcgccgtgtaaacagaaatatctttttctactctagcagCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAGgtacccgacagtctcagtatccaaggtctagcatgtgttggggctgtttg Alignment from GeneWise CAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAGACCAAAAAAA cgctaaataccgccgcgccgtgtaaacagaaatatctttttctactctagCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAGGTACCCGACAgtctcagtatccaaggtctagcatgtgttggggctgtttg #### Vegfb_ID1957_3 --> 2 - 0 Original Alignment tgGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG aatgaaaaagtggaaaggtttctggtttattcattttcttttcttaatagtg---CCATGGATAGATGTCTATGCACGTGCTGCATGCCAGCCAAGGGAGGTGGTGGCTCCACTGAGTATGAAACTTATGGGTAATATAGTCAAACAGCTGGTGCCAAGTTGTGTTGTAACTGTGCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgacaaatttgaatgcaagtacttggaagtatcagtctggtactt Alignment from CESAR tgGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG agaaatgaaaaagtggaaaggtttctttattcattttcttttcttaatagtg---CCATGGATAGATGTCTATGCACGTGCTGCATGCCAGCCAAGGGAGGTGGTGGCTCCACTGAGTATGAAACTTATGGGTAATATAGTCAAACAGCTGGTGCCAAGTTGTGTTGTAACTGTGCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgacaaatttgaatgcaagtacttggaagtatcagtctggtactt Alignment from Spaln_aa2Genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG aatgaaaaagtggaaaggtttctggtttattcattttcttttcttaatagTGCCATGG---ATAGATGTCTATGCACGTGCTGCATGCCAGCCAAGGGAGGTGGTGGCTCCACTGAGTATGAAACTTATGGGTAATATAGTCAAACAGCTGGTGCCAAGTTGTGTTGTAACTGTGCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgacaaatttgaatgcaagtacttggaagtatcagtctggtactt Alignment from Spaln_nt2Genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTG---ACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG aatgaaaaagtggaaaggtttctggtttattcattttcttttcttaatag---TGCCATGGATAGATGTCTATGCACGTGCTGCATGCCAGCCAAGGGAGGTGGTGGCTCCACTGAGTATGAAACTTATGGGTAATATAGTCAAACAGCTGGTGCCAAGTTGTGTTGTAACTGTGCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgacaaatttgaatgcaagtacttggaagtatcagtctggtactt Alignment from Pairagon TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTG---TGTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG aatgaaaaagtggaaaggtttctggtttattcattttcttttcttaatag---TGCCATGGATAGATGTCTATGCACGTGCTGCATGCCAGCCAAGGGAGGTGGTGGCTCCACTGAGTATGAAACTTATGGGTAATATAGTCAAACAGCTGGTGCCAAGTTGTGTTGTAACTGTGCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgacaaatttgaatgcaagtacttggaagtatcagtctggtactt Alignment from Exonerate_protein2genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG aatgaaaaagtggaaaggtttctggtttattcattttcttttcttaaTAGTGCCATGGATAGATGTCTATGCACGTGCTGCATGCCAGCCAAGGGAGGTGGTGGCTCCACTGAGTATGAAACTTATGGGTAATATAGTCAAACAGCTGGTGCCAAGTTGTGTTGTAACTGTGCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgacaaatttgaatgcaagtacttggaagtatcagtctggtactt Alignment from Exonerate_coding2genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG aatgaaaaagtggaaaggtttctggtttattcattttcttttcttaaTAGTGCCATGGATAGATGTCTATGCACGTGCTGCATGCCAGCCAAGGGAGGTGGTGGCTCCACTGAGTATGAAACTTATGGGTAATATAGTCAAACAGCTGGTGCCAAGTTGTGTTGTAACTGTGCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgacaaatttgaatgcaagtacttggaagtatcagtctggtactt Alignment from GeneWise TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTG---ACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG aatgaaaaagtggaaaggtttctggtttattcattttcttttcttaatagTG---CCATGGATAGATGTCTATGCACGTGCTGCATGCCAGCCAAGGGAGGTGGTGGCTCCACTGAGTATGAAACTTATGGGTAATATAGTCAAACAGCTGGTGCCAAGTTGTGTTGTAACTGTGCAGCGCTGTAGTGGGTGCTGCCCTGATGATGGCTTGGAATGTGTGGCTGCAGAGCAACATCAAGTTCGAATGCAAgtaagtgacaaatttgaatgcaagtacttggaagtatcagtctggtactt #### Vldlr_ID5814_13 --> 2 - 0 Original Alignment acCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG--- ccgttatgaaatcaatatactggttcttcctggggttgtcccggatctagacCTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGCAGGATTGTGCTCAAGTCCCTAAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGTTCgtaggttatatgcaatatgtgcttatatcactaagtatagtaaaaagagc Alignment from CESAR acCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG--- ccgttatgaaatcaatatactggttcttcctggggttgtcccggatctagacCTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGCAGGATTGTGCTCAAGTCCCTAAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGTTCgtaggttatatgcaatatgtgcttatatcactaagtatagtaaaaagagc Alignment from Spaln_aa2Genome CTCGACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG--- ttatgaaatcaatatactggttcttcctggggttgtcccggatcta gACCTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGCAGGATTGTGCTCAAGTCCCTAAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGTTCgtaggttatatgcaatatgtgcttatatcactaagtatagtaaaaagagc Alignment from Spaln_nt2Genome ACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG--- ccgttatgaaatcaatatactggttcttcctggggttgtcccggatctagACCTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGCAGGATTGTGCTCAAGTCCCTAAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGTTCgtaggttatatgcaatatgtgcttatatcactaagtatagtaaaaagagc Alignment from Pairagon ACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG--- ccgttatgaaatcaatatactggttcttcctggggttgtcccggatctagACCTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGCAGGATTGTGCTCAAGTCCCTAAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGTTCgtaggttatatgcaatatgtgcttatatcactaagtatagtaaaaagagc Alignment from Exonerate_protein2genome ACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ccgttatgaaatcaatatactggttcttcctggggttgtcccggatctagACCTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGCAGGATTGTGCTCAAGTCCCTAAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGttcgtaggttatatgcaatatgtgcttatatcactaagtatagtaaaaagagc Alignment from Exonerate_coding2genome ACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG ccgttatgaaatcaatatactggttcttcctggggttgtcccggatctagACCTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGCAGGATTGTGCTCAAGTCCCTAAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGttcgtaggttatatgcaatatgtgcttatatcactaagtatagtaaaaagagc Alignment from GeneWise TCGACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAGGAT ccgttatgaaatcaatatactggttcttcctggggttgtcccggatctagAC---CTGGTCAAAAGCCGTCTCTATTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAAGATCGCAGGATTGTGCTCAAGTCCCTAAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGTTCgtaggttatatgcaatatgtgcttatatcactaagtatagtaaaaagagc #### Vps13a_ID4068_55 --> 1 - 0 Original Alignment t------TCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG aagtagcagtgaaagtctattgagcttctgactcgtctgttttgtcatagtATTGACACTGATGTGGTTTGGGAGGCAAAACCAAAGGAGAAGACCAGGTGGAAACCCATG---ATTAAGCACACAGTCAAGCTAGAGAAGGGGTTTAGGGCATACACGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtactctctatcttgtgctgcctgtgtgcaatacttgagaaatgattttc Alignment from CESAR t------TCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG aagtagcagtgaaagtctattgagcttctgactcgtctgttttgtcatagtATTGACACTGATGTGGTTTGGGAGGCAAAACCAAAGGAGAAGACCAGGTGGAAACCCATG---ATTAAGCACACAGTCAAGCTAGAGAAGGGGTTTAGGGCATACACGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtactctctatcttgtgctgcctgtgtgcaatacttgagaaatgattttc Alignment from Spaln_aa2Genome T------TCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCC aagtagcagtgaaagtctattgagcttctgactcgtctgttttgtcatagTATTGACACTGATGTGGTTTGGGAGGCAAAACCAAAGGAGAAGACCAGGTGGAAACCCATG---ATTAAGCACACAGTCAAGCTAGAGAAGGGGTTTAGGGCATACACGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtactctctatcttgtgctgcctgtgtgcaatacttgagaaatgattttc Alignment from Spaln_nt2Genome TT------CTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG aagtagcagtgaaagtctattgagcttctgactcgtctgttttgtcatagTATTGACACTGATGTGGTTTGGGAGGCAAAACCAAAGGAGAAGACCAGGTGGAAACCCATGA---TTAAGCACACAGTCAAGCTAGAGAAGGGGTTTAGGGCATACACGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtactctctatcttgtgctgcctgtgtgcaatacttgagaaatgattttc Alignment from Pairagon T------TCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG aagtagcagtgaaagtctattgagcttctgactcgtctgttttgtcatagTATTGACACTGATGTGGTTTGGGAGGCAAAACCAAAGGAGAAGACCAGGTGGAAACCCATGA---TTAAGCACACAGTCAAGCTAGAGAAGGGGTTTAGGGCATACACGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtactctctatcttgtgctgcctgtgtgcaatacttgagaaatgattttc Alignment from Exonerate_protein2genome T------TCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG aagtagcagtgaaagtctattgagcttctgactcgtctgttttgtcatagTATTGACACTGATGTGGTTTGGGAGGCAAAACCAAAGGAGAAGACCAGGTGGAAACCCATG---ATTAAGCACACAGTCAAGCTAGAGAAGGGGTTTAGGGCATACACGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtactctctatcttgtgctgcctgtgtgcaatacttgagaaatgattttc Alignment from Exonerate_coding2genome T------TCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG aagtagcagtgaaagtctattgagcttctgactcgtctgttttgtcatagTATTGACACTGATGTGGTTTGGGAGGCAAAACCAAAGGAGAAGACCAGGTGGAAACCCATG---ATTAAGCACACAGTCAAGCTAGAGAAGGGGTTTAGGGCATACACGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtactctctatcttgtgctgcctgtgtgcaatacttgagaaatgattttc Alignment from GeneWise ----AGTTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG aagtagcagtgaaagtctattgagcttctgactcgtctgttttgtcatagTATTGACACTGATGTGGTTTGGGAGGCAAAACCAAAGGAGAAGACCAGGTGGAAACCCATG---ATTAAGCACACAGTCAAGCTAGAGAAGGGGTTTAGGGCATACACGGAGGCCTCACCATTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtactctctatcttgtgctgcctgtgtgcaatacttgagaaatgattttc #### Wdr74_ID2312_2 --> 2 - 0 Original Alignment ggGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA ttggtgtatttagccacctcagtattcctcaccccaacccaccctaccaggg---AACCTTCAGCGTAAACATACAGCCAATTTTGCTCCATTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtgagtaggctacagcttggtcaaagtcacaagagctgtagaattcctga Alignment from CESAR ggGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aagttggtgtatttagccacctcagtcctcaccccaacccaccctaccaggg---AACCTTCAGCGTAAACATACAGCCAATTTTGCTCCATTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtgagtaggctacagcttggtcaaagtcacaagagctgtagaattcctga Alignment from Spaln_aa2Genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA ttggtgtatttagccacctcagtattcctcaccccaacccaccctaccagGG---AACCTTCAGCGTAAACATACAGCCAATTTTGCTCCATTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtgagtaggctacagcttggtcaaagtcacaagagctgtagaattcctga Alignment from Spaln_nt2Genome TGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA ttggtgtatttagccacctcagtattcctcaccccaacccaccctaccagGGAACCTTCAGCGTAAACATACAGCCAATTTTGCTCCATTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtgagtaggctacagcttggtcaaagtcacaagagctgtagaattcctga Alignment from Pairagon GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA ttggtgtatttagccacctcagtattcctcaccccaacccaccctaccagG---GAACCTTCAGCGTAAACATACAGCCAATTTTGCTCCATTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtgagtaggctacagcttggtcaaagtcacaagagctgtagaattcctga Alignment from Exonerate_protein2genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA ttggtgtatttagccacctcagtattcctcaccccaacccaccctaccagGG---AACCTTCAGCGTAAACATACAGCCAATTTTGCTCCATTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtgagtaggctacagcttggtcaaagtcacaagagctgtagaattcctga Alignment from Exonerate_coding2genome AACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA ttggtgtatttagccacctcagtattcctcaccccaacccaccctaccagggAACCTTCAGCGTAAACATACAGCCAATTTTGCTCCATTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtgagtaggctacagcttggtcaaagtcacaagagctgtagaattcctga Alignment from GeneWise --AACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA ttggtgtatttagccacctcagtattcctcaccccaacccaccctaccagGGAACCTTCAGCGTAAACATACAGCCAATTTTGCTCCATTGGGACAACCACGGAGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtgagtaggctacagcttggtcaaagtcacaagagctgtagaattcctga #### Wdr74_ID2313_3 --> 0 - 2 Original Alignment ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATgg tctacattcttccctcaccctactcagcatctctgctcttgccttcacagGTACTGGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTAATGCAAAGGAAGGCACATTCCTAAGCCAGAGATACTGCCCAGGTGGGGAGGGGACATTCCGAGGTCTCACCCAAGTG---gggtgagctgtgttactgatagtgtcgcctgagatatctaaagtgtggtgta Alignment from CESAR ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATgg tctacattcttccctcaccctactcagcatctctgctcttgccttcacagGTACTGGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTAATGCAAAGGAAGGCACATTCCTAAGCCAGAGATACTGCCCAGGTGGGGAGGGGACATTCCGAGGTCTCACCCAAGTG---gggtgagctgtgttactgatagtgtcgcctgagatatctaaagtgtggtgta Alignment from Spaln_aa2Genome ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGA tctacattcttccctcaccctactcagcatctctgctcttgccttcacagGTACTGGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTAATGCAAAGGAAGGCACATTCCTAAGCCAGAGATACTGCCCAGGTGGGGAGGGGACATTCCGAGGTCTCACCCAAGTGGGgtgagctgtgttactgatagtgtcgcctgagatatctaaagtgtggtgta Alignment from Spaln_nt2Genome ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATGG tctacattcttccctcaccctactcagcatctctgctcttgccttcacagGTACTGGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTAATGCAAAGGAAGGCACATTCCTAAGCCAGAGATACTGCCCAGGTGGGGAGGGGACATTCCGAGGTCTCACCCAAGTG---GGgtgagctgtgttactgatagtgtcgcctgagatatctaaagtgtggtgta Alignment from Pairagon ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATGG tctacattcttccctcaccctactcagcatctctgctcttgccttcacagGTACTGGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTAATGCAAAGGAAGGCACATTCCTAAGCCAGAGATACTGCCCAGGTGGGGAGGGGACATTCCGAGGTCTCACCCAAGTG---GGgtgagctgtgttactgatagtgtcgcctgagatatctaaagtgtggtgta Alignment from Exonerate_protein2genome ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATGG tctacattcttccctcaccctactcagcatctctgctcttgccttcacagGTACTGGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTAATGCAAAGGAAGGCACATTCCTAAGCCAGAGATACTGCCCAGGTGGGGAGGGGACATTCCGAGGTCTCACCCAAGTG---GGgtgagctgtgttactgatagtgtcgcctgagatatctaaagtgtggtgta Alignment from Exonerate_coding2genome ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGATGG tctacattcttccctcaccctactcagcatctctgctcttgccttcacagGTACTGGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTAATGCAAAGGAAGGCACATTCCTAAGCCAGAGATACTGCCCAGGTGGGGAGGGGACATTCCGAGGTCTCACCCAAGTG---GGgtgagctgtgttactgatagtgtcgcctgagatatctaaagtgtggtgta Alignment from GeneWise ATCTTGGTGGGCTGTGCGGACAGAACCGTGAGGTACTTTAATGCTGAGGAGGGTACATTCCTGAGCCAGAGATACTGCCCAGGCGGGGAAGGCACGTTCCGAGGTCTCGCCCAGGCGGA tctacattcttccctcaccctactcagcatctctgctcttgccttcacagGTACTGGTGGGCTGTGCAGACAGAACTGTAAGGTATTTTAATGCAAAGGAAGGCACATTCCTAAGCCAGAGATACTGCCCAGGTGGGGAGGGGACATTCCGAGGTCTCACCCAAGTGGGgtgagctgtgttactgatagtgtcgcctgagatatctaaagtgtggtgta #### Wdr74_ID2318_8 --> 1 - 1 Original Alignment t------TCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAg aaatgcaattcaggagtcacacaaatcctatgtttgctatttctttccagtGAAGAATCTGTCATTGTGGGGAATACTCATGGGCAGCTGGCAGAAATTGACTTTCGGCAAggtgagtgcaccattgagttcttgagaacgaaagtaatctgccaaaaacat Alignment from CESAR t------TCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAg aaatgcaattcaggagtcacacaaatcctatgtttgctatttctttccagtGAAGAATCTGTCATTGTGGGGAATACTCATGGGCAGCTGGCAGAAATTGACTTTCGGCAAggtgagtgcaccattgagttcttgagaacgaaagtaatctgccaaattctc Alignment from Spaln_aa2Genome T------TCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAG aaatgcaattcaggagtcacacaaatcctatgtttgctatttctttccagTGAAGAATCTGTCATTGTGGGGAATACTCATGGGCAGCTGGCAGAAATTGACTTTCGGCAAGgtgagtgcaccattgagttcttgagaacgaaagtaatctgccaaaaacat Alignment from Spaln_nt2Genome T------TCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAG aaatgcaattcaggagtcacacaaatcctatgtttgctatttctttccagTGAAGAATCTGTCATTGTGGGGAATACTCATGGGCAGCTGGCAGAAATTGACTTTCGGCAAGgtgagtgcaccattgagttcttgagaacgaaagtaatctgccaaaaacat Alignment from Pairagon T------TCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAG aaatgcaattcaggagtcacacaaatcctatgtttgctatttctttccagTGAAGAATCTGTCATTGTGGGGAATACTCATGGGCAGCTGGCAGAAATTGACTTTCGGCAAGgtgagtgcaccattgagttcttgagaacgaaagtaatctgccaaaaacat Alignment from Exonerate_protein2genome T------TCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAG aaatgcaattcaggagtcacacaaatcctatgtttgctatttctttccagTGAAGAATCTGTCATTGTGGGGAATACTCATGGGCAGCTGGCAGAAATTGACTTTCGGCAAGgtgagtgcaccattgagttcttgagaacgaaagtaatctgccaaaaacat Alignment from Exonerate_coding2genome T------TCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAG aaatgcaattcaggagtcacacaaatcctatgtttgctatttctttccagTGAAGAATCTGTCATTGTGGGGAATACTCATGGGCAGCTGGCAGAAATTGACTTTCGGCAAGgtgagtgcaccattgagttcttgagaacgaaagtaatctgccaaaaacat Alignment from GeneWise ----AATTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAGGGCG aaatgcaattcaggagtcacacaaatcctatgtttgctatttctttccagTGAAGAATCTGTCATTGTGGGGAATACTCATGGGCAGCTGGCAGAAATTGACTTTCGGCAAGGTGAgtgcaccattgagttcttgagaacgaaagtaatctgccaaaaacat #### Wdr74_ID2319_9 --> 2 - 0 Original Alignment ggCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttgagaacgaaagtaatctgccaaattcaaatgcatgacctgtttttcaggc---CTAGTTGGCTGTCTGAAGGGCCTTGCAGGTGGCGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCTTCATGTGGCCTGGACAGAATACTGAGGATGCACAGGATACGCAACCCTTGTGGTCTGGAGCATAAGgtaagttccagcaaatgtaacttagtagtcttagtagtagggctatgaca Alignment from CESAR ggCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaacgaaagtaatctgccttcaaatgcatgacctgtttttcaggc---CTAGTTGGCTGTCTGAAGGGCCTTGCAGGTGGCGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCTTCATGTGGCCTGGACAGAATACTGAGGATGCACAGGATACGCAACCCTTGTGGTCTGGAGCATAAGgtaagttccagcaaatgtaacttagtagtcttagtagtagggctatgaca Alignment from Spaln_aa2Genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttgagaacgaaagtaatctgccaaattcaaatgcatgacctgtttttcagGC---CTAGTTGGCTGTCTGAAGGGCCTTGCAGGTGGCGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCTTCATGTGGCCTGGACAGAATACTGAGGATGCACAGGATACGCAACCCTTGTGGTCTGGAGCATAAGgtaagttccagcaaatgtaacttagtagtcttagtagtagggctatgaca Alignment from Spaln_nt2Genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttgagaacgaaagtaatctgccaaattcaaatgcatgacctgtttttcag---GCCTAGTTGGCTGTCTGAAGGGCCTTGCAGGTGGCGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCTTCATGTGGCCTGGACAGAATACTGAGGATGCACAGGATACGCAACCCTTGTGGTCTGGAGCATAAGgtaagttccagcaaatgtaacttagtagtcttagtagtagggctatgaca Alignment from Pairagon GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttgagaacgaaagtaatctgccaaattcaaatgcatgacctgtttttcag---GCCTAGTTGGCTGTCTGAAGGGCCTTGCAGGTGGCGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCTTCATGTGGCCTGGACAGAATACTGAGGATGCACAGGATACGCAACCCTTGTGGTCTGGAGCATAAGgtaagttccagcaaatgtaacttagtagtcttagtagtagggctatgaca Alignment from Exonerate_protein2genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttgagaacgaaagtaatctgccaaattcaaatgcatgacctgtttttcagGC---CTAGTTGGCTGTCTGAAGGGCCTTGCAGGTGGCGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCTTCATGTGGCCTGGACAGAATACTGAGGATGCACAGGATACGCAACCCTTGTGGTCTGGAGCATAAGgtaagttccagcaaatgtaacttagtagtcttagtagtagggctatgaca Alignment from Exonerate_coding2genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttgagaacgaaagtaatctgccaaattcaaatgcatgacctgtttttcagGC---CTAGTTGGCTGTCTGAAGGGCCTTGCAGGTGGCGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCTTCATGTGGCCTGGACAGAATACTGAGGATGCACAGGATACGCAACCCTTGTGGTCTGGAGCATAAGgtaagttccagcaaatgtaacttagtagtcttagtagtagggctatgaca Alignment from GeneWise GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttgagaacgaaagtaatctgccaaattcaaatgcatgacctgtttttcagGC---CTAGTTGGCTGTCTGAAGGGCCTTGCAGGTGGCGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCTTCATGTGGCCTGGACAGAATACTGAGGATGCACAGGATACGCAACCCTTGTGGTCTGGAGCATAAGgtaagttccagcaaatgtaacttagtagtcttagtagtagggctatgaca #### Wdr96_ID10334_37 --> 0 - 1 Original Alignment ACTCATAAGAAGAATGTAGAA---AACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAg gaattatttcttttaacatcgttaatgttaactgtctgtccttcttgcagAATCATAAGAAGAATATTGAAAACAACTGCAAAAAGCTCCTTAGGAAGTTGGGCAAGTACAGCAATCAGAAAGCTGTTGCTAACTACACCCTGAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGT---------ggtaagtctgctgaaaaaatctttccactacagtgtcttcattctaagagt Alignment from CESAR ACTCATAAGAAGAATGTAGAA---AACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAg gaattatttcttttaacatcgttaatgttaactgtctgtccttcttgcagAATCATAAGAAGAATATTGAAAACAACTGCAAAAAGCTCCTTAGGAAGTTGGGCAAGTACAGCAATCAGAAAGCTGTTGCTAACTACACCCTGAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGT---------ggtaagtctgctgaaaaaatctttccactacagtgtcttcattctaagagt Alignment from Spaln_aa2Genome ACTCATAAGAAGAATGTAGAA---AACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGC- gaattatttcttttaacatcgttaatgttaactgtctgtccttcttgcagAATCATAAGAAGAATATTGAAAACAACTGCAAAAAGCTCCTTAGGAAGTTGGGCAAGTACAGCAATCAGAAAGCTGTTGCTAACTACACCCTGAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGTGgtaagtctgctgaaaaaatctttccactacagtgtcttcattctaagagt Alignment from Spaln_nt2Genome ACTCATAAGAAGAATGTAGAAAAC---TGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATG AGA gaattatttcttttaacatcgttaatgttaactgtctgtccttcttgcagAATCATAAGAAGAATATTGAAAACAACTGCAAAAAGCTCCTTAGGAAGTTGGGCAAGTACAGCAATCAGAAAGCTGTTGCTAACTACACCCTGAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTG---TGgtaagtctgctgaaaaaatctttccactacagtgtcttcattctaagAGT Alignment from Pairagon ACTCATAAGAAGAATGTAGAA---AACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAG gaattatttcttttaacatcgttaatgttaactgtctgtccttcttgcagAATCATAAGAAGAATATTGAAAACAACTGCAAAAAGCTCCTTAGGAAGTTGGGCAAGTACAGCAATCAGAAAGCTGTTGCTAACTACACCCTGAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGT---------Ggtaagtctgctgaaaaaatctttccactacagtgtcttcattctaagagt Alignment from Exonerate_protein2genome ACTCATAAGAAGAATGTAGAA---AACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAG gaattatttcttttaacatcgttaatgttaactgtctgtccttcttgcagAATCATAAGAAGAATATTGAAAACAACTGCAAAAAGCTCCTTAGGAAGTTGGGCAAGTACAGCAATCAGAAAGCTGTTGCTAACTACACCCTGAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGTGGTAAGTCTGctgaaaaaatctttccactacagtgtcttcattctaagagt Alignment from Exonerate_coding2genome ACTCATAAGAAGAATGTAGAA---AACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAG gaattatttcttttaacatcgttaatgttaactgtctgtccttcttgcagAATCATAAGAAGAATATTGAAAACAACTGCAAAAAGCTCCTTAGGAAGTTGGGCAAGTACAGCAATCAGAAAGCTGTTGCTAACTACACCCTGAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGTGGTAAGTCTGctgaaaaaatctttccactacagtgtcttcattctaagagt Alignment from GeneWise ACTCATAAGAAGAATGTAGAA---AACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGC- gaattatttcttttaacatcgttaatgttaactgtctgtccttcttgcagAATCATAAGAAGAATATTGAAAACAACTGCAAAAAGCTCCTTAGGAAGTTGGGCAAGTACAGCAATCAGAAAGCTGTTGCTAACTACACCCTGAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGTGgtaagtctgctgaaaaaatctttccactacagtgtcttcattctaagagt #### Wdr96_ID10345_26 --> 0 - 0 Original Alignment ATCTCTGATGAACGGCAGAGAGGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG ccatgcctgtatctatgttgcaactacattttttgtttgtttgcctctagATCCCTGATGAACGGCATAGAGGGTTGATGGATATGATGGGTGGTGTACTTGAAGTAAAGAAAGAGGACATCTTGAGA---gtagagagtgtctttgaaagtcttcactgttgggggagtagtaggttctc Alignment from CESAR ATCTCTGATGAACGGCAGAGAGGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG ccatgcctgtatctatgttgcaactacattttttgtttgtttgcctctagATCCCTGATGAACGGCATAGAGGGTTGATGGATATGATGGGTGGTGTACTTGAAGTAAAGAAAGAGGACATCTTGAGA---gtagagagtgtctttgaaagtcttcactgttgggggagtagtaggtt Alignment from Spaln_aa2Genome ATCTCTGATGAACGGCAGAGAGGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGG ccatgcctgtatctatgttgcaactacattttttgtttgtttgcctctagATCCCTGATGAACGGCATAGAGGGTTGATGGATATGATGGGTGGTGTACTTGAAGTAAAGAAAGAGGACATCTTGAGAgtagagagtgtctttgaaagtcttcactgttgggggagtagtaggttctc Alignment from Spaln_nt2Genome ATCTCTGATGAACGGCAGAGAGGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGG ccatgcctgtatctatgttgcaactacattttttgtttgtttgcctctagATCCCTGATGAACGGCATAGAGGGTTGATGGATATGATGGGTGGTGTACTTGAAGTAAAGAAAGAGGACATCTTGAGAgtagagagtgtctttgaaagtcttcactgttgggggagtagtaggttctc Alignment from Pairagon ATCTCTGATGAACGGCAGAGAGGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGG ccatgcctgtatctatgttgcaactacattttttgtttgtttgcctctagATCCCTGATGAACGGCATAGAGGGTTGATGGATATGATGGGTGGTGTACTTGAAGTAAAGAAAGAGGACATCTTGAGAgtagagagtgtctttgaaagtcttcactgttgggggagtagtaggttctc Alignment from Exonerate_protein2genome ATCTCTGATGAACGGCAGAGAGGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG ccatgcctgtatctatgttgcaactacattttttgtttgtttgcctctagATCCCTGATGAACGGCATAGAGGGTTGATGGATATGATGGGTGGTGTACTTGAAGTAAAGAAAGAGGACATCTTGAGAGTAgagagtgtctttgaaagtcttcactgttgggggagtagtaggttctc Alignment from Exonerate_coding2genome ATCTCTGATGAACGGCAGAGAGGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATG ccatgcctgtatctatgttgcaactacattttttgtttgtttgcctctagATCCCTGATGAACGGCATAGAGGGTTGATGGATATGATGGGTGGTGTACTTGAAGTAAAGAAAGAGGACATCTTGAGAGTAgagagtgtctttgaaagtcttcactgttgggggagtagtaggttctc Alignment from GeneWise ATCTCTGATGAACGGCAGAGAGGCCTGATGGATATGATGGGAGGTGTTCTGGAAGTCAAGAAGGAAGACATCTTAAGGATGGTGATC ccatgcctgtatctatgttgcaactacattttttgtttgtttgcctctagATCCCTGATGAACGGCATAGAGGGTTGATGGATATGATGGGTGGTGTACTTGAAGTAAAGAAAGAGGACATCTTGAGAGTAGAGAGTgtctttgaaagtcttcactgttgggggagtagtaggttctc #### Wnt8b_ID9022_5 --> 2 - 0 Original Alignment ggGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG--------------------- gaacacaggatttccatggcttttatacctctctcctttctttccctcagggGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGACAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCGCAAGGGGGAGATGATCGATAACATAgtgagacccatagtggttgatgcatgcatcatgagtcttgttaatgtagt Alignment from CESAR ggGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG--------------------- gaacacaggatttccatggcttttatacctctctcctttctttccctcagggGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGACAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCGCAAGGGGGAGATGATCGATAACATAgtgagacccatagtggttgatgcatgcatcatgagtcttgttaatgtagt Alignment from Spaln_aa2Genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG--------------------- gaacacaggatttccatggcttttatacctctctcctttctttccctcagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGACAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCGCAAGGGGGAGATGATCGATAACATAgtgagacccatagtggttgatgcatgcatcatgagtcttgttaatgtagt Alignment from Spaln_nt2Genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAGGCGGTCA-------------- gaacacaggatttccatggcttttatacctctctcctttctttccctcagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGACAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCGCAAGGGGGAGATGATCGATAACATAgtgagacccatagtggttgatgcatgcatcatgagtcttgttaatgtagt Alignment from Pairagon GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG--------------------- gaacacaggatttccatggcttttatacctctctcctttctttccctcagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGACAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCGCAAGGGGGAGATGATCGATAACATAgtgagacccatagtggttgatgcatgcatcatgagtcttgttaatgtagt Alignment from Exonerate_protein2genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggatttccatggcttttatacctctctcctttctttccctcagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGACAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCGCAAGggggagatgatcgataacatagtgagacccatagtggttgatgcatgcatcatgagtcttgttaatgtagt Alignment from Exonerate_coding2genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gaacacaggatttccatggcttttatacctctctcctttctttccctcagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGACAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCGCAAGggggagatgatcgataacatagtgagacccatagtggttgatgcatgcatcatgagtcttgttaatgtagt Alignment from GeneWise GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG--------------------- gaacacaggatttccatggcttttatacctctctcctttctttccctcagGGGGGCAAGGCTGGCTGTGGGGTGGATGCAGTGACAATGCAGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTTCTCAAGACAGGGCAGGATGCCCGAGCAGCAATAAACTTGCACAACAATGAAGCTGGCCGCAAGGGGGAGATGATCGATAACATAgtgagacccatagtggttgatgcatgcatcatgagtcttgttaatgtagt #### Yif1a_ID832_4 --> 0 - 1 Original Alignment AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCa gaggcaagttattttattgctcatattgacctcctcttgtcttcctccagAACTGGAAAATGCAGTATAGCCATGATGTGCCTCTACCCCCTCGGAAAGATCTGAATACCCCTGACCTTTATATC---agtaaaaagttggtgacgcacagttaagctccacctctgtgcttagcaaca Alignment from CESAR AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCa gaggcaagttattttattgctcatattgacctcctcttgtcttcctccagAACTGGAAAATGCAGTATAGCCATGATGTGCCTCTACCCCCTCGGAAAGATCTGAATACCCCTGACCTTTATATC---agtaaaaagttggtgacgcacagttaagctccacctctgtgcttagcaaca Alignment from Spaln_aa2Genome AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATC- gaggcaagttattttattgctcatattgacctcctcttgtcttcctccagAACTGGAAAATGCAGTATAGCCATGATGTGCCTCTACCCCCTCGGAAAGATCTGAATACCCCTGACCTTTATATCAgtaaaaagttggtgacgcacagttaagctccacctctgtgcttagcaaca Alignment from Spaln_nt2Genome AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA gaggcaagttattttattgctcatattgacctcctcttgtcttcctccagAACTGGAAAATGCAGTATAGCCATGATGTGCCTCTACCCCCTCGGAAAGATCTGAATACCCCTGACCTTTATAT---CAgtaaaaagttggtgacgcacagttaagctccacctctgtgcttagcaaca Alignment from Pairagon AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA gaggcaagttattttattgctcatattgacctcctcttgtcttcctccagAACTGGAAAATGCAGTATAGCCATGATGTGCCTCTACCCCCTCGGAAAGATCTGAATACCCCTGACCTTTATAT---CAgtaaaaagttggtgacgcacagttaagctccacctctgtgcttagcaaca Alignment from Exonerate_protein2genome AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA gaggcaagttattttattgctcatattgacctcctcttgtcttcctccagAACTGGAAAATGCAGTATAGCCATGATGTGCCTCTACCCCCTCGGAAAGATCTGAATACCCCTGACCTTTATATCAGTAaaaagttggtgacgcacagttaagctccacctctgtgcttagcaaca Alignment from Exonerate_coding2genome AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA gaggcaagttattttattgctcatattgacctcctcttgtcttcctccagAACTGGAAAATGCAGTATAGCCATGATGTGCCTCTACCCCCTCGGAAAGATCTGAATACCCCTGACCTTTATATCAGTAaaaagttggtgacgcacagttaagctccacctctgtgcttagcaaca Alignment from GeneWise AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCC gaggcaagttattttattgctcatattgacctcctcttgtcttcctccagAACTGGAAAATGCAGTATAGCCATGATGTGCCTCTACCCCCTCGGAAAGATCTGAATACCCCTGACCTTTATATCAgtaaaaagttggtgacgcacagttaagctccacctctgtgcttagcaaca #### Yif1a_ID833_5 --> 2 - 2 Original Alignment cc---ATGGCCTTCATCACATACGTGCTGCTGGCTGGAATGGCGCTAGGCATTCAGCAAag gtggggggatacactgggtagttgcattatttgatttttttcctttgcagccATTATGGCTTTTGTCACAGATGTGCTAAGGGCTGGGATGGCATTTGGCATTCAGCAGaggtgagtatccagcagatcttacttgttattcttgccaagcctggttttct Alignment from CESAR cc---ATGGCCTTCATCACATACGTGCTGCTGGCTGGAATGGCGCTAGGCATTCAGCAAag gtggggggatacactgggtagttgcattatttgatttttttcctttgcagccATTATGGCTTTTGTCACAGATGTGCTAAGGGCTGGGATGGCATTTGGCATTCAGCAGaggtgagtatccagcagatcttacttgttattcttgccaagcctggttttct Alignment from Spaln_aa2Genome CCATGGCCTTCATC---ACATACGTGCTGCTGGCTGGAATGGCGCTAGGCATTCAGCAAAG gtggggggatacactgggtagttgcattatttgatttttttcctttgcagCCATTATGGCTTTTGTCACAGATGTGCTAAGGGCTGGGATGGCATTTGGCATTCAGCAGAGgtgagtatccagcagatcttacttgttattcttgccaagcctggttttct Alignment from Spaln_nt2Genome CCAT---GGCCTTCATCACATACGTGCTGCTGGCTGGAATGGCGCTAGGCATTCAGCAAAG gtggggggatacactgggtagttgcattatttgatttttttcctttgcagCCATTATGGCTTTTGTCACAGATGTGCTAAGGGCTGGGATGGCATTTGGCATTCAGCAGAGgtgagtatccagcagatcttacttgttattcttgccaagcctggttttct Alignment from Pairagon CC---ATGGCCTTCATCACATACGTGCTGCTGGCTGGAATGGCGCTAGGCATTCAGCAAAG gtggggggatacactgggtagttgcattatttgatttttttcctttgcagCCATTATGGCTTTTGTCACAGATGTGCTAAGGGCTGGGATGGCATTTGGCATTCAGCAGAGgtgagtatccagcagatcttacttgttattcttgccaagcctggttttct Alignment from Exonerate_protein2genome CC---ATGGCCTTCATCACATACGTGCTGCTGGCTGGAATGGCGCTAGGCATTCAGCAAAG gtggggggatacactgggtagttgcattatttgatttttttcctttgcagCCATTATGGCTTTTGTCACAGATGTGCTAAGGGCTGGGATGGCATTTGGCATTCAGCAGAGgtgagtatccagcagatcttacttgttattcttgccaagcctggttttct Alignment from Exonerate_coding2genome CC---ATGGCCTTCATCACATACGTGCTGCTGGCTGGAATGGCGCTAGGCATTCAGCAAAG gtggggggatacactgggtagttgcattatttgatttttttcctttgcagCCATTATGGCTTTTGTCACAGATGTGCTAAGGGCTGGGATGGCATTTGGCATTCAGCAGAGgtgagtatccagcagatcttacttgttattcttgccaagcctggttttct Alignment from GeneWise --ACCATGGCCTTCATCACATACGTGCTGCTGGCTGGAATGGCGCTAGGCATTCAGCAAAG gtggggggatacactgggtagttgcattatttgatttttttcctttgcagCCATTATGGCTTTTGTCACAGATGTGCTAAGGGCTGGGATGGCATTTGGCATTCAGCAGAGgtgagtatccagcagatcttacttgttattcttgccaagcctggttttct #### Yif1a_ID835_7 --> 1 - 0 Original Alignment gATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT gaccacattctttgattcattcgctcaggagcttcctttttgctttgcaggATGAATTTGAGCGTACTTACAGCGCTACTTTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTAC------gtaaggatttgagtgggatggttccagcctcccttccattcacttttgtg Alignment from CESAR gATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT gaccacattctttgattcattcgctcaggagcttcctttttgctttgcaggATGAATTTGAGCGTACTTACAGCGCTACTTTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTAC------gtaaggatttgagtgggatggttccagcctcccttctcacctgt Alignment from Spaln_aa2Genome GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTAC gaccacattctttgattcattcgctcaggagcttcctttttgctttgcagGATGAATTTGAGCGTACTTACAGCGCTACTTTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTACgtaaggatttgagtgggatggttccagcctcccttccattcacttttgtg Alignment from Spaln_nt2Genome GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTAC gaccacattctttgattcattcgctcaggagcttcctttttgctttgcagGATGAATTTGAGCGTACTTACAGCGCTACTTTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTACgtaaggatttgagtgggatggttccagcctcccttccattcacttttgtg Alignment from Pairagon GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTAC gaccacattctttgattcattcgctcaggagcttcctttttgctttgcagGATGAATTTGAGCGTACTTACAGCGCTACTTTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTACgtaaggatttgagtgggatggttccagcctcccttccattcacttttgtg Alignment from Exonerate_protein2genome GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT gaccacattctttgattcattcgctcaggagcttcctttttgctttgcagGATGAATTTGAGCGTACTTACAGCGCTACTTTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTACGTAAGGatttgagtgggatggttccagcctcccttccattcacttttgtg Alignment from Exonerate_coding2genome gaccacattctttgattcattcgctcaggagcttcctttttgctttgcaggatgaatttgagcgtacttacagcgctactttttggcagtgacaggtattatgtggtcttggcctgggcttcatctcctcttatgtacgtaaggatttgagtgggatggttccagcctcccttccattcacttttgtg Alignment from GeneWise GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTAC gaccacattctttgattcattcgctcaggagcttcctttttgctttgcagGATGAATTTGAGCGTACTTACAGCGCTACTTTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCTTCATCTCCTCTTATGTACgtaaggatttgagtgggatggttccagcctcccttccattcacttttgtg #### Zdhhc16_ID8345_2 --> 0 - 0 Original Alignment GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG tgtacctactctgacggctgtcctatctcttccttcttttccatcctcag------GTAGTGCTAGTGATTGTGCTGCCTGGTTCGATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTTCGAACTTACTCAGTACCTCAACTCTGCTGGCATTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCACTATTATCAAGCCATTGCTACTCCCCACGAATATCCACCTCAGgtaagcactccacagtgcaagtttcactagagacaatgctttcttgctgt Alignment from CESAR GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG atgggatgtacctactctgacggcttctcttccttcttttccatcctcag------GTAGTGCTAGTGATTGTGCTGCCTGGTTCGATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTTCGAACTTACTCAGTACCTCAACTCTGCTGGCATTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCACTATTATCAAGCCATTGCTACTCCCCACGAATATCCACCTCAGgtaagcactccacagtgcaagtttcactagagacaatgctttcttgctgt Alignment from Spaln_aa2Genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG tgtacctactctgacggctgtcctatctcttccttcttttccatcctcag------GTAGTGCTAGTGATTGTGCTGCCTGGTTCGATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTTCGAACTTACTCAGTACCTCAACTCTGCTGGCATTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCACTATTATCAAGCCATTGCTACTCCCCACGAATATCCACCTCAGgtaagcactccacagtgcaagtttcactagagacaatgctttcttgctgt Alignment from Spaln_nt2Genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG tgtacctactctgacggctgtcctatctcttccttcttttccatcctcag------GTAGTGCTAGTGATTGTGCTGCCTGGTTCGATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTTCGAACTTACTCAGTACCTCAACTCTGCTGGCATTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCACTATTATCAAGCCATTGCTACTCCCCACGAATATCCACCTCAGgtaagcactccacagtgcaagtttcactagagacaatgctttcttgctgt Alignment from Pairagon GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG tgtacctactctgacggctgtcctatctcttccttcttttccatcctcag------GTAGTGCTAGTGATTGTGCTGCCTGGTTCGATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTTCGAACTTACTCAGTACCTCAACTCTGCTGGCATTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCACTATTATCAAGCCATTGCTACTCCCCACGAATATCCACCTCAGgtaagcactccacagtgcaagtttcactagagacaatgctttcttgctgt Alignment from Exonerate_protein2genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG tgtacctactctgacggctgtcctatctcttccttcttttccatCCTCAGGTAGTGCTAGTGATTGTGCTGCCTGGTTCGATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTTCGAACTTACTCAGTACCTCAACTCTGCTGGCATTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCACTATTATCAAGCCATTGCTACTCCCCACGAATATCCACCTCAGgtaagcactccacagtgcaagtttcactagagacaatgctttcttgctgt Alignment from Exonerate_coding2genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG tgtacctactctgacggctgtcctatctcttccttcttttccatCCTCAGGTAGTGCTAGTGATTGTGCTGCCTGGTTCGATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTTCGAACTTACTCAGTACCTCAACTCTGCTGGCATTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCACTATTATCAAGCCATTGCTACTCCCCACGAATATCCACCTCAGgtaagcactccacagtgcaagtttcactagagacaatgctttcttgctgt Alignment from GeneWise GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG tgtacctactctgacggctgtcctatctcttccttcttttccatcctcagGTA------GTGCTAGTGATTGTGCTGCCTGGTTCGATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTTCGAACTTACTCAGTACCTCAACTCTGCTGGCATTTTCTCTATAGTCACTGGAATCTCATTCTCATTGTCTTCCACTATTATCAAGCCATTGCTACTCCCCACGAATATCCACCTCAGgtaagcactccacagtgcaagtttcactagagacaatgctttcttgctgt #### Zdhhc16_ID8346_3 --> 0 - 2 Original Alignment GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATag ctcggatgggacaataacacatcttccagatgactttcattttctcctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCAAGAAATGCATTTATCCCAAGCCAGCTTGCACACACCACTGTAGC---------aggtatgtctgcttcgttgcgttctgtccttcactttacttaaggcacattg Alignment from CESAR GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATag ctcggatgggacaataacacatcttccagatgactttcattttctcctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCAAGAAATGCATTTATCCCAAGCCAGCTTGCACACACCACTGTAGC---------aggtatgtctgcttcgttgcgttctgtccttcactttacttaaggcacattg Alignment from Spaln_aa2Genome GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCAT ctcggatgggacaataacacatcttccagatgactttcattttctcctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCAAGAAATGCATTTATCCCAAGCCAGCTTGCACACACCACTGTAGCAGgtatgtctgcttcgttgcgttctgtccttcactttacttaaggcacattg Alignment from Spaln_nt2Genome GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATAG ctcggatgggacaataacacatcttccagatgactttcattttctcctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCAAGAAATGCATTTATCCCAAGCCAGCTTGCACACACCACTGTAGC---------AGgtatgtctgcttcgttgcgttctgtccttcactttacttaaggcacattg Alignment from Pairagon GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATAG ctcggatgggacaataacacatcttccagatgactttcattttctcctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCAAGAAATGCATTTATCCCAAGCCAGCTTGCACACACCACTGTAGC---------AGgtatgtctgcttcgttgcgttctgtccttcactttacttaaggcacattg Alignment from Exonerate_protein2genome GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCAT ctcggatgggacaataacacatcttccagatgactttcattttctcctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCAAGAAATGCATTTATCCCAAGCCAGCTTGCACACACCACTGTAGCAGgtatgtctgcttcgttgcgttctgtccttcactttacttaaggcacattg Alignment from Exonerate_coding2genome GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCAT ctcggatgggacaataacacatcttccagatgactttcattttctcctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCAAGAAATGCATTTATCCCAAGCCAGCTTGCACACACCACTGTAGCAGgtatgtctgcttcgttgcgttctgtccttcactttacttaaggcacattg Alignment from GeneWise GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGC-- ctcggatgggacaataacacatcttccagatgactttcattttctcctagGGCAGGAATGAAATTAGCACAGTATCAATCTGCAAGAAATGCATTTATCCCAAGCCAGCTTGCACACACCACTGTAGCAGgtatgtctgcttcgttgcgttctgtccttcactttacttaaggcacattg #### Zp1_ID3063_9 --> 1 - 0 Original Alignment g---TGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCCTTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG actgcagtggttggtccttgaaggggcttgttcattcttcttgtttccagaAACTGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGACCGGGAAGCAATTCCCTTCTGGTCCCATTCTCAGCATTTCACTATTACCACCTTCATGCTTTTTGATGCTAGCTCCCAGAATGCTCTCAGGGGCCAAgtgggaaactacctacctatgtcccatttaagatcaccattgatagatct Alignment from CESAR g---TGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCCTTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG actgcagtggttggtccttgaaggggcttgttcattcttcttgtttccagaAACTGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGACCGGGAAGCAATTCCCTTCTGGTCCCATTCTCAGCATTTCACTATTACCACCTTCATGCTTTTTGATGCTAGCTCCCAGAATGCTCTCAGGGGCCAAgtgggaaactacctacctatgtcccatttaagatcaccattgatagatct Alignment from Spaln_aa2Genome G---TGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCCTTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG actgcagtggttggtccttgaaggggcttgttcattcttcttgtttccagAAACTGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGACCGGGAAGCAATTCCCTTCTGGTCCCATTCTCAGCATTTCACTATTACCACCTTCATGCTTTTTGATGCTAGCTCCCAGAATGCTCTCAGGGGCCAAgtgggaaactacctacctatgtcccatttaagatcaccattgatagatct Alignment from Spaln_nt2Genome G---TGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCCTTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG actgcagtggttggtccttgaaggggcttgttcattcttcttgtttccagAAACTGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGACCGGGAAGCAATTCCCTTCTGGTCCCATTCTCAGCATTTCACTATTACCACCTTCATGCTTTTTGATGCTAGCTCCCAGAATGCTCTCAGGGGCCAAgtgggaaactacctacctatgtcccatttaagatcaccattgatagatct Alignment from Pairagon ---GTGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCCTTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG actgcagtggttggtccttgaaggggcttgttcattcttcttgtttccagAAACTGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGACCGGGAAGCAATTCCCTTCTGGTCCCATTCTCAGCATTTCACTATTACCACCTTCATGCTTTTTGATGCTAGCTCCCAGAATGCTCTCAGGGGCCAAgtgggaaactacctacctatgtcccatttaagatcaccattgatagatct Alignment from Exonerate_protein2genome G---TGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCCTTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG actgcagtggttggtccttgaaggggcttgttcattcttcttgtttccagAAACTGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGACCGGGAAGCAATTCCCTTCTGGTCCCATTCTCAGCATTTCACTATTACCACCTTCATGCTTTTTGATGCTAGCTCCCAGAATGCTCTCAGGGGCCAAgtgggaaactacctacctatgtcccatttaagatcaccattgatagatct Alignment from Exonerate_coding2genome G---TGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCCTTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG actgcagtggttggtccttgaaggggcttgttcattcttcttgtttccagAAACTGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGACCGGGAAGCAATTCCCTTCTGGTCCCATTCTCAGCATTTCACTATTACCACCTTCATGCTTTTTGATGCTAGCTCCCAGAATGCTCTCAGGGGCCAAgtgggaaactacctacctatgtcccatttaagatcaccattgatagatct Alignment from GeneWise -GGGTGTCCTTTCAAGGGTGACAACTACAGAACACAAGTAGTGGCCGCAGACAGGGAGGCGCTTCCCTTCTGGTCCCACTATCAGCGCTTCACCATCACCACCTTCATGCTCCTTGACTCCAGCTCCCAGAATGCCCTTAGGGGACAG actgcagtggttggtccttgaaggggcttgttcattcttcttgtttccagAAACTGTCCTTTCAAGGGTGTTAATTATAGAACACAAGTAGTGGCTGCTGACCGGGAAGCAATTCCCTTCTGGTCCCATTCTCAGCATTTCACTATTACCACCTTCATGCTTTTTGATGCTAGCTCCCAGAATGCTCTCAGGGGCCAAgtgggaaactacctacctatgtcccatttaagatcaccattgatagatct #### Zp1_ID3064_8 --> 2 - 2 Original Alignment atAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATgg gcttgaaatacagcctggcatcagtccccacgcgtgtctcctgtctgcagat---ACTTTCAGCTCCTTCTATCAAGGAGGTGAATACCCCCTTTTAAGACTGCTGCAGAAACCAGCCTATGTTCAGGTGCGGCTCCTGCAGAAAACT---GCTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTTGATCAGCCCCAGTGGCCAATTCTGTCAGATgcgtgaggcataaaaggagaatgtcccacatacagggtatgcatgctttcta Alignment from CESAR atAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATgg gcagcttgaaatacagcctggcatcccccacgcgtgtctcctgtctgcagat---ACTTTCAGCTCCTTCTATCAAGGAGGTGAATACCCCCTTTTAAGACTGCTGCAGAAACCAGCCTATGTTCAGGTGCGGCTCCTGCAGAAAACT---GCTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTTGATCAGCCCCAGTGGCCAATTCTGTCAGATgcgtgaggcataaaaggagaatgtcccacatacagggtatgcatgctttcta Alignment from Spaln_aa2Genome ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG gcttgaaatacagcctggcatcagtccccacgcgtgtctcctgtctgcagAT---ACTTTCAGCTCCTTCTATCAAGGAGGTGAATACCCCCTTTTAAGACTGCTGCAGAAACCAGCCTATGTTCAGGTGCGGCTCCTGCAGAAAACT---GCTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTTGATCAGCCCCAGTGGCCAATTCTGTCAGATGCgtgaggcataaaaggagaatgtcccacatacagggtatgcatgctttcta Alignment from Spaln_nt2Genome ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG gcttgaaatacagcctggcatcagtccccacgcgtgtctcctgtctgcagAT---ACTTTCAGCTCCTTCTATCAAGGAGGTGAATACCCCCTTTTAAGACTGCTGCAGAAACCAGCCTATGTTCAGGTGCGGCTCCTGCAGAAAACTG---CTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAG---CTTTGATCAGCCCCAGTGGCCAATTCTGTCAGATGCgtgaggcataaaaggagaatgtcccacatacagggtatgcatgctttcta Alignment from Pairagon ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG gcttgaaatacagcctggcatcagtccccacgcgtgtctcctgtctgcagAT---ACTTTCAGCTCCTTCTATCAAGGAGGTGAATACCCCCTTTTAAGACTGCTGCAGAAACCAGCCTATGTTCAGGTGCGGCTCCTGCAGAAAACTG---CTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAG---CTTTGATCAGCCCCAGTGGCCAATTCTGTCAGATGCgtgaggcataaaaggagaatgtcccacatacagggtatgcatgctttcta Alignment from Exonerate_protein2genome ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG gcttgaaatacagcctggcatcagtccccacgcgtgtctcctgtctgcagAT---ACTTTCAGCTCCTTCTATCAAGGAGGTGAATACCCCCTTTTAAGACTGCTGCAGAAACCAGCCTATGTTCAGGTGCGGCTCCTGCAGAAAACT---GCTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTTGATCAGCCCCAGTGGCCAATTCTGTCAGATGCgtgaggcataaaaggagaatgtcccacatacagggtatgcatgctttcta Alignment from Exonerate_coding2genome ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG gcttgaaatacagcctggcatcagtccccacgcgtgtctcctgtctgcagAT---ACTTTCAGCTCCTTCTATCAAGGAGGTGAATACCCCCTTTTAAGACTGCTGCAGAAACCAGCCTATGTTCAGGTGCGGCTCCTGCAGAAAACT---GCTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTTGATCAGCCCCAGTGGCCAATTCTGTCAGATGCgtgaggcataaaaggagaatgtcccacatacagggtatgcatgctttcta Alignment from GeneWise -------------------------------------------ACGGATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG GCTTGAAATACAGCCTGGCATCAGTCCCCACGCGTGTCTCCTGTCTGCAGATACTTTCAGCTCCTTCTATCAAGGAGGTGAATACCCCCTTTTAAGACTGCTGCAGAAACCAGCCTATGTTCAGGTGCGGCTCCTGCAGAAAACT---GCTGGCCTGGTTCTGGTATTACACCAGTGCTGGGCCACTCCAACTACTAGC---TTTGATCAGCCCCAGTGGCCAATTCTGTCAGATGCgtgaggcataaaaggagaatgtcccacatacagggtatgcatgctttcta #### Zp1_ID3065_7 --> 1 - 1 Original Alignment gCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGg tgcaaaacagaataactgaaaattcttgccttgtgtttcttcatccccagg------GTTCGCTGCATCTTCAATTCTAGTGATTTCCTCCCCCTACAGGCATCTATCTCT---CCCCACCCACCTGCCCCTGTAACACAATCTGGAGCACTTAGGCTGCAATTGAAGATTGCCATGggtaagtggctccagtttgggcggtactttccaacctcgcagcttgaaata Alignment from CESAR gCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGg ggtgcatgcaaaacagaataactgattgccttgtgtttcttcatccccagg------GTTCGCTGCATCTTCAATTCTAGTGATTTCCTCCCCCTACAGGCATCTATC---TCTCCCCACCCACCTGCCCCTGTAACACAATCTGGAGCACTTAGGCTGCAATTGAAGATTGCCATGggtaagtggctccagtttgggcggtactttccaacctcgcagcttgaaata Alignment from Spaln_aa2Genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG tgcaaaacagaataactgaaaattcttgccttgtgtttcttcatccccagG------GTTCGCTGCATCTTCAATTCTAGTGATTTCCTCCCCCTACAGGCATCTATC---TCTCCCCACCCACCTGCCCCTGTAACACAATCTGGAGCACTTAGGCTGCAATTGAAGATTGCCATGGgtaagtggctccagtttgggcggtactttccaacctcgcagcttgaaata Alignment from Spaln_nt2Genome TGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG tgcaaaacagaataactgaaaattcttgccttgtgtttcttcatccccagGGTTCGCTGCATCTTCAATTCTAGTGATTTCCTCCCCCTACAGGCATCTA---TCTCTCCCCACCCACCTGCCCCTGTAACACAATCTGGAGCACTTAGGCTGCAATTGAAGATTGCCATGGgtaagtggctccagtttgggcggtactttccaacctcgcagcttgaaata Alignment from Pairagon GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG tgcaaaacagaataactgaaaattcttgccttgtgtttcttcatccccagG------GTTCGCTGCATCTTCAATTCTAGTGATTTCCTCCCCCTACAGGCATCTA---TCTCTCCCCACCCACCTGCCCCTGTAACACAATCTGGAGCACTTAGGCTGCAATTGAAGATTGCCATGGgtaagtggctccagtttgggcggtactttccaacctcgcagcttgaaata Alignment from Exonerate_protein2genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG tgcaaaacagaataactgaaaattcttgccttgtgtttcttcatCCCCAGGGTTCGCTGCATCTTCAATTCTAGTGATTTCCTCCCCCTACAGGCATCTATC---TCTCCCCACCCACCTGCCCCTGTAACACAATCTGGAGCACTTAGGCTGCAATTGAAGATTGCCATGGgtaagtggctccagtttgggcggtactttccaacctcgcagcttgaaata Alignment from Exonerate_coding2genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG tgcaaaacagaataactgaaaattcttgccttgtgtttcttcatCCCCAGGGTTCGCTGCATCTTCAATTCTAGTGATTTCCTCCCCCTACAGGCATCTATC---TCTCCCCACCCACCTGCCCCTGTAACACAATCTGGAGCACTTAGGCTGCAATTGAAGATTGCCATGGgtaagtggctccagtttgggcggtactttccaacctcgcagcttgaaata Alignment from GeneWise GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACG--------------------------------------------------- tgcaaaacagaataactgaaaattcttgccttgtgtttcttcatccccagG------GTTCGCTGCATCTTCAATTCTAGTGATTTCCTCCCCCTACAGGCATCTATC---TCTCCCCACCCACCTGCCCCTGTAACACAATCTGGAGCACTTAGGCTGCAATTGAAGATTGCCATGGGTAAGTGGCTCCAGTTTGGGCGGTACTTTCCAACCTCGCAGCTTGAAATA #### Zp1_ID3067_5 --> 2 - 0 Original Alignment tcACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG--------------------- cagggagactttgatgacataacgtcaactacaaatgttaactttaccagtcACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACACAAGGTGTCCTGTTAGACAAT------GTGGCCTATGTACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTGGCTTTCCATGTCCCTCTTACCCTTTGTGGAACAGCAATCCAACCTGAGGAGCAGGGTCCATTGgtatgtatatcctcttgttagtgtccagcattagcaaggtcctaagactt Alignment from CESAR tcACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG--------------------- cagggagactttgatgacataacgtcaactacaaatgttaactttaccagtcACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACACAAGGTGTCCTGTTAGACAATGTG------GCCTATGTACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTGGCTTTCCATGTCCCTCTTACCCTTTGTGGAACAGCAATCCAACCTGAGGAGCAGGGTCCATTGgtatgtatatcctcttgttagtgtccagcattagcaaggtcctaagactt Alignment from Spaln_aa2Genome TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG--------------------- cagggagactttgatgacataacgtcaactacaaatgttaactttaccagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACACAAGGTGTCCTGTTAGACAATGTG------GCCTATGTACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTGGCTTTCCATGTCCCTCTTACCCTTTGTGGAACAGCAATCCAACCTGAGGAGCAGGGTCCATTGgtatgtatatcctcttgttagtgtccagcattagcaaggtcctaagactt Alignment from Spaln_nt2Genome TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG-------- cagggagactttgatgacataacgtcaactacaaatgttaactttaccagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACACAAGGTGTCCTGTTAGACAATG------TGGCCTATGTACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTGGCTTTCCATGTCCCTCTTACCCTTTGTGGAACAGCAATCCAACCTGAGGAgcagggtccattggtatgtatatcctcttgttagtgtccagcattagcaaggtcctaagactt Alignment from Pairagon TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCA---------------------G cagggagactttgatgacataacgtcaactacaaatgttaactttaccagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACACAAGGTGTCCTGTTAGACAATG------TGGCCTATGTACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTGGCTTTCCATGTCCCTCTTACCCTTTGTGGAACAGCAATCCAACCTGAGGAGCAGGGTCCATTGgtatgtatatcctcttgttagtgtccagcattagcaaggtcctaagactt Alignment from Exonerate_protein2genome TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAGG cagggagactttgatgacataacgtcaactacaaatgttaactttaccagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACACAAGGTGTCCTGTTAGACAATGTG------GCCTATGTACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTGGCTTTCCATGTCCCTCTTACCCTTTGTGGAACAGCAATCCAACctgaggagcagggtccattggtatgtatatcctcttgttagtgtccagcattagcaaggtcctaagactt Alignment from Exonerate_coding2genome TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAGG cagggagactttgatgacataacgtcaactacaaatgttaactttaccagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACACAAGGTGTCCTGTTAGACAATGTG------GCCTATGTACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTGGCTTTCCATGTCCCTCTTACCCTTTGTGGAACAGCAATCCAACctgaggagcagggtccattggtatgtatatcctcttgttagtgtccagcattagcaaggtcctaagactt Alignment from GeneWise TCACTCTCCAGTGTTTCAAAAGTGGCTACTTTACCTTGGTCATGTCACAAGAAACAGCCTTGACACATGGAGTCCTGCTAGACAATGTCCACCTGGCCTATGCCCCCAACGGATGCCCCCCTACCCAGAAGACAAGTGCTTTTGTGGTCTTCCATGTCCCTCTCACCCTCTGTGGAACAGCAATCCAG--------------------- cagggagactttgatgacataacgtcaactacaaatgttaactttaccagTCACACTCCAGTGTTATGAAAGTGGTTACTTTACC---------TCACAAGAGACTGTCTTGACACAAGGTGTCCTGTTAGACAATGTG------GCCTATGTACCCAACACCTGCCCACCTACCCAAGAGACAAGTGCTTTTGTGGCTTTCCATGTCCCTCTTACCCTTTGTGGAACAGCAATCCAACCTGAGGAGCAGGGTCCATTGgtatgtatatcctcttgttagtgtccagcattagcaaggtcctaagactt #### Zp1_ID3068_4 --> 2 - 1 Original Alignment gtACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATGGTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCAACACAg ctgagttttatggccctgtgatcatctcagcgtcttttaattttctacagggACTCATCTGACCCACGAGTGGTGCCAAGCAGCTTCTGGACACGTACCATGCATGGTGAATGGAAGTCCAAGAGAT------CAGCAGGCTGGTTGTTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGC------agtaagctgacggctatctatgccaggcctgaagtgtggctggctagacac Alignment from CESAR gtACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATGGTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCAACACAg ctgagttttatggccctgtgatcatctcagcgtcttttaattttctacagggACTCATCTGACCCACGAGTGGTGCCAAGCAGCTTCTGGACACGTACCATGCATGGTGAATGGAAGTCCAAGAGAT------CAGCAGGCTGGTTGTTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGC------agtaagctgacggctatctatgccaggcctgaagtgtggctggctagacac Alignment from Spaln_aa2Genome GTACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATGGTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGC- ctgagttttatggccctgtgatcatctcagcgtcttttaattttctacagGGACTCATCTGACCCACGAGTGGTGCCAAGCAGCTTCTGGACACGTACCATGCATGGTGAATGGAAGTCCAAGAGAT------CAGCAGGCTGGTTGTTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGCAgtaagctgacggctatctatgccaggcctgaagtgtggctggctagacac Alignment from Spaln_nt2Genome GTACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATGGTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCA ctgagttttatggccctgtgatcatctcagcgtcttttaattttctacagGGACTCATCTGACCCACGAGTGGTGCCAAGCAGCTTCTGGACACGTACCATGCATGGTGAATGGAAG-TCCAAGAGA-----TCAGCAGGCTGGTTGTTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGCAgtaagctgacggctatctatgccaggcctgaagtgtggctggctagacac Alignment from Pairagon GTACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATGGTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCA ctgagttttatggccctgtgatcatctcagcgtcttttaattttctacagGGACTCATCTGACCCACGAGTGGTGCCAAGCAGCTTCTGGACACGTACCATGCATGGTGAATGGAAGTCCAAGAGA------TCAGCAGGCTGGTTGTTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGCAgtaagctgacggctatctatgccaggcctgaagtgtggctggctagacac Alignment from Exonerate_protein2genome GTACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATGGTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCA ctgagttttatggccctgtgatcatctcagcgtcttttaattttctacagGGACTCATCTGACCCACGAGTGGTGCCAAGCAGCTTCTGGACACGTACCATGCATGGTGAATGGAAGTCCAAGAGAT------CAGCAGGCTGGTTGTTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGCAgtaagctgacggctatctatgccaggcctgaagtgtggctggctagacac Alignment from Exonerate_coding2genome GTACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATGGTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCA ctgagttttatggccctgtgatcatctcagcgtcttttaattttctacagGGACTCATCTGACCCACGAGTGGTGCCAAGCAGCTTCTGGACACGTACCATGCATGGTGAATGGAAGTCCAAGAGAT------CAGCAGGCTGGTTGTTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGCAgtaagctgacggctatctatgccaggcctgaagtgtggctggctagacac Alignment from GeneWise GTACCCATCTGCCCCAGGAGCGGTGCCAGGTAGCCTCCGGGCACATCCCATGCATGGTAAATGGAAGTTCCAAGGAAACCTGTCAGCAGGCTGGCTGCTGCTATGACAGTACCAAAGAAGAGCCCTGTTACTATGGCA ctgagttttatggccctgtgatcatctcagcgtcttttaattttctacagGGACTCATCTGACCCACGAGTGGTGCCAAGCAGCTTCTGGACACGTACCATGCATGGTGAATGGAAGTCCAAGAGAT------CAGCAGGCTGGTTGTTGTTATGACAGCACCAAAGAAGAGCCCTGCTACTATGGCAgtaagctgacggctatctatgccaggcctgaagtgtggctggctagacac ####